filipino dna variation at 36 y-chromosomal short tandem repeat (str… · 2019. 10. 9. ·...

27
Keywords: Filipino, population genetics, rapidly mutating (RM) Y-STRs, short tandem repeats (STRs), chromosome, Y-STR marker units Filipino DNA Variation at 36 Y-chromosomal Short Tandem Repeat (STR) Marker Units 1 DNA Analysis Laboratory, Natural Sciences Research Institute, University of the Philippines Diliman, Quezon City 1101 Philippines 2 Philippine Genome Center, University of the Philippines, Quezon City 1101 Philippines 3 Genetics and Molecular Biology Division, Institute of Biological Sciences, College of Arts and Sciences, University of the Philippines Los Baños, Laguna 4031 Philippines Jazelyn M. Salvador 1,2 *, Jae Joseph Russell B. Rodriguez 1,3 , Lindsay Clare D.L. Carandang 1,2 , Altair B. Agmata 1,2 , Maria Lourdes D. Honrado 1 , Frederick C. Delfin 1,2 , and Maria Corazon A. De Ungria 1,2 Y-chromosomal short tandem repeat (Y-STR) markers are used in deficient paternity testing cases, in the detection of male DNA in vaginal smears/swabs collected during investigations of sexual assault cases, and in the identification of missing persons and disaster victims. The increasing relevance of Y-STR DNA typing to forensic practice necessitates evaluation of new markers with high gene diversity and mutation rates in the population. This study presents the work done for the Philippine population. Y-STR haplotypes composed of 36 Y-STR marker units were analyzed in a Filipino population sample of 299 individuals using the PowerPlex ® Y23 (PPY23) system and protocols of the International RM Y-STR Study Group that target a set of 13 Rapidly Mutating Y-STR (RM Y-STR) comprising 15 Y-STR marker units. Concordant results were observed at two RM Y-STR marker units, namely DYS570 and DYS576, that are included in both assays. Allele frequency and gene diversity were estimated for each Y-STR marker unit, while haplotype frequency and haplotype diversity were estimated for several combinations of Y-STR marker units. The inclusion of 15 RM Y-STR marker units increased the power of the Filipino Y-STR database to differentiate paternally related males. Comparison of the Filipino Y-STR haplotype data at 36 Y-STR marker units with other populations showed the same level of substructuring for the 21 slow and moderately mutating Y-STR marker units based on geographic locations. This highlights the importance of using an appropriate population database in forensic casework. In addition, the observed high diversity of RM Y-STR haplotypes supports the need for studying diverse group of populations to characterize the extent of RM Y-STR haplotype variation. The Filipino Y-STR haplotype database reported in this study would be of great use for reliable estimation of haplotype frequency for statistical evaluation of forensic caseworks in the Philippines. Philippine Journal of Science 148 (S1): 43-52, Special Issue on Genomics ISSN 0031 - 7683 Date Received: 21 Mar 2019 *Corresponding Author: [email protected] 43

Upload: others

Post on 26-Mar-2021

1 views

Category:

Documents


0 download

TRANSCRIPT

Page 1: Filipino DNA Variation at 36 Y-chromosomal Short Tandem Repeat (STR… · 2019. 10. 9. · INTRODUCTION Male-specific polymorphisms on the non-recombining region (NRY) of the Y-chromosome,

Keywords: Filipino, population genetics, rapidly mutating (RM) Y-STRs, short tandem repeats (STRs), chromosome, Y-STR marker units

Filipino DNA Variation at 36 Y-chromosomal Short Tandem Repeat (STR) Marker Units

1DNA Analysis Laboratory, Natural Sciences Research Institute, University of the Philippines Diliman, Quezon City 1101 Philippines

2Philippine Genome Center, University of the Philippines, Quezon City 1101 Philippines3Genetics and Molecular Biology Division, Institute of Biological Sciences,

College of Arts and Sciences, University of the Philippines Los Baños, Laguna 4031 Philippines

Jazelyn M. Salvador1,2*, Jae Joseph Russell B. Rodriguez1,3, Lindsay Clare D.L. Carandang1,2, Altair B. Agmata1,2, Maria Lourdes D. Honrado1,

Frederick C. Delfin1,2, and Maria Corazon A. De Ungria1,2

Y-chromosomal short tandem repeat (Y-STR) markers are used in deficient paternity testing cases, in the detection of male DNA in vaginal smears/swabs collected during investigations of sexual assault cases, and in the identification of missing persons and disaster victims. The increasing relevance of Y-STR DNA typing to forensic practice necessitates evaluation of new markers with high gene diversity and mutation rates in the population. This study presents the work done for the Philippine population. Y-STR haplotypes composed of 36 Y-STR marker units were analyzed in a Filipino population sample of 299 individuals using the PowerPlex® Y23 (PPY23) system and protocols of the International RM Y-STR Study Group that target a set of 13 Rapidly Mutating Y-STR (RM Y-STR) comprising 15 Y-STR marker units. Concordant results were observed at two RM Y-STR marker units, namely DYS570 and DYS576, that are included in both assays. Allele frequency and gene diversity were estimated for each Y-STR marker unit, while haplotype frequency and haplotype diversity were estimated for several combinations of Y-STR marker units. The inclusion of 15 RM Y-STR marker units increased the power of the Filipino Y-STR database to differentiate paternally related males. Comparison of the Filipino Y-STR haplotype data at 36 Y-STR marker units with other populations showed the same level of substructuring for the 21 slow and moderately mutating Y-STR marker units based on geographic locations. This highlights the importance of using an appropriate population database in forensic casework. In addition, the observed high diversity of RM Y-STR haplotypes supports the need for studying diverse group of populations to characterize the extent of RM Y-STR haplotype variation. The Filipino Y-STR haplotype database reported in this study would be of great use for reliable estimation of haplotype frequency for statistical evaluation of forensic caseworks in the Philippines.

Philippine Journal of Science148 (S1): 43-52, Special Issue on GenomicsISSN 0031 - 7683Date Received: 21 Mar 2019

*Corresponding Author: [email protected]

43

Page 2: Filipino DNA Variation at 36 Y-chromosomal Short Tandem Repeat (STR… · 2019. 10. 9. · INTRODUCTION Male-specific polymorphisms on the non-recombining region (NRY) of the Y-chromosome,

INTRODUCTION Male-specific polymorphisms on the non-recombining region (NRY) of the Y-chromosome, specifically short tandem repeat (STR) markers, are an important tool for forensic investigations (Roewer 2009). Y-STR DNA analysis is used in sexual assault investigations because it enables targeted analysis of the DNA of male contributor/s despite the presence of abundant female DNA in intimate samples. In addition, Y-STR DNA analysis is used for missing person investigation in cases when reference DNA samples from paternal male relatives (PMR) are available for comparison. In motherless paternity testing or when father is not available (deficient paternity cases), DNA profiles of male offspring can be compared to their PMR.

The number of Y-STRs used for forensic purposes has increased dramatically in the past years since the completion of the human Y-chromosome DNA sequence in June 2003 (Skaletsky et al. 2003). Previously generated Y-STR haplotype DNA data for the Philippine population mostly characterized the core set of nine Y-STRs or “minimal haplotype” and 12 Y-STRs included in the PowerPlex® Y (PPY) system (Table 1) (Tan et al. 2003, Salvador et al. 2008, Delfin et al. 2011). However, Y-STRs with low mutation rates (< 0.01) are limited by their inability to differentiate between paternally related males (Roewer 2009). While non-matching Y-STR profiles can reliably exclude persons-of-interest in forensic investigations, a match between a suspect and evidence does not rule out possible contribution of the suspect’s brother, father, son, paternal uncle, paternal cousin, or even a distant cousin from the same paternal lineage as contributor of male DNA in the evidence.

To increase the power of discrimination of Y-DNA testing, additional Y-STRs with high gene diversity and mutation rates were evaluated (Kayser et al. 2004, Ballantyne et al. 2010). In 2010, a set of 13 Y-STRs with 6.5-fold higher mutation rates compared with 17 Y-STRs included in the AmpFlSTR® Yfiler® (Yfiler) kit (Life Technologies, Forster City, CA, USA) (Table 1) were shown to be capable of differentiating paternally-related males such as fathers and sons or brothers, and were aptly named "rapidly mutating" (RM) Y-STRs (Ballantyne et al. 2010, 2012). In 2012, the PPY23 – a new Y-STR multiplex system from Promega combining the 17 standard Yfiler Y-STRs; two RM Y-STRs (DYS570 and DYS576); and four other Y-STRs (DYS481, DYS533, DYS549, and DYS643) with high gene diversity – was released (Table 1) (Thompson et al. 2013). To understand the genetic diversity of these new Y-STRs, worldwide population studies were conducted (Ballantyne et al. 2014, Purps et al. 2014). Our participation in these studies yielded Y-STR data for the 23 Y-STR panel

(Purps et al. 2014) and the 13 RM Y-STRs comprising 15 Y-STR marker units (Ballantyne et al. 2014). Because of the limitation in the number of Philippine samples available at that time, these earlier reports did not fully characterize the Y-STR genetic variation of the Filipino male population. The inclusion of a significant number of Y-STR haplotypes in reference populations is required when assessing the statistical weight of Y-STR haplotype matches based on a likelihood ratio principle (Gjertson et al. 2007, Buckleton et al. 2011). This is the impetus behind the need to continuously increase the number of samples and the type of DNA markers that are included in forensic databases.

This paper reports the expansion of the Philippine Y-STR reference database to include a total of 299 samples genotyped at 36 Y-STR marker units using PPY23 and the RM Y-STR set reported by Ballantyne and co-workers (2014). Because of the increasing number of multi-copy Y-STR markers wherein the additional copy is treated separately, the term “Y-STR marker units” was adopted and applied to two standard Y-STR markers – namely DYS389 and DYS385, as well as the RM Y-STR markers DYF4031S1 and DYS526 (Purps et al. 2014, Westen et al. 2015). DYS389 generates two amplicons (DYS389 I and DYS389 II) because the forward PCR primer binds to the flanking region of two different repeat regions that are approximately 120 bp apart (Butler 2012), whereas DYS385 primers bind to two different regions that are facing opposite directions and are 40,775 bp apart (Butler 2012). DYS385 alleles cannot be assigned specifically to DYS385a or DYS385b; hence, DYS385 genotypes are analyzed as haplotypes. Likewise, RM Y-STR marker units include DYS526a and DYS526b, and DYF4031S1a and DYF4031S1b for DYS526 and DYF4031S1 RM Y-STRs, respectively (Westen et al. 2015). DYS526 is similar with DYS389 wherein the forward PCR primer binds to two distinct regions generating DYS526a and DYS526b. DYF403S1 is a duplicated STR system with four positions in the NRY – three of these copies belong to DYF403S1a and one copy belong to DYF403S1b (Ballantyne et al. 2014). DYF399S1 and DYF404S1, which often show multiple alleles per marker (between one to five alleles), were each considered as a marker unit (Westen et al. 2015).

On the basis of mutation rates, the 36 Y-STR marker units may be arbitrarily classified into slow (μ < 0.002), moderate (0.002 ≤ μ < 0.010), and rapid (0.010 ≤ μ) mutation rates (Table 1) (Ballantyne et al. 2010). In this study, counts and frequencies of alleles and haplotypes observed at 36 Y-STR marker units are reported. We also report the estimated genetic distances between populations.

Salvador et al.: Filipino Y-STR DNA VariationSpecial Issue on Genomics

44

Page 3: Filipino DNA Variation at 36 Y-chromosomal Short Tandem Repeat (STR… · 2019. 10. 9. · INTRODUCTION Male-specific polymorphisms on the non-recombining region (NRY) of the Y-chromosome,

Table 1. 36 Y-STR marker units analyzed in this study.

Y-STR marker

Y-STR panel/Multiplex kit

Mutation ratea Mutation groupb

Min

imal

Ht

(199

7)

SWG

DA

M(2

003)

Pow

erPl

ex®

Y

(Pro

meg

a)(2

003)

Am

pFlS

TR®

Y

filer

TM (L

ife

Tech

nolo

gies

) (2

004)

Pow

erPl

ex®

Y

23

(Pro

meg

a)(2

012)

RM

Y-S

TR(2

010)

DYS19 2.3 x 10–3 moderate

DYS385a/b 2.1 x 10–3 moderate

DYS389I 2.5 x 10–3 moderate

DYS389II 3.6 x 10–3 moderate

DYS390 2.1 x 10–3 moderate

DYS391 2.6 x 10–3 moderate

DYS392 4.0 x 10–4 slow

DYS393 1.0 x 10–3 slow

DYS438 3.0 x 10–4 slow

DYS439 5.2 x 10–3 moderate

DYS437 1.2 x 10–3 slow

DYS448 1.6 x 10–3 slow

DYS456 4.2 x 10–3 moderate

DYS458 6.4 x 10–3 moderate

DYS635 3.5 x 10–3 moderate

Y GATA H4 2.4 x 10–3 moderate

DYS481 4.97 x 10–3 moderate

DYS533 5.01 x 10–3 moderate

DYS549 4.55 x 10–3 moderate

DYS643 1.5 x 10–3 slow

DYS570 1.24 x 10–2 rapid

DYS576 1.43 x 10–2 rapid

DYF387S1 1.59 x 10–2 rapid

DYF399S1 7.73 x 10–2 rapid

DYS518 1.84 x 10–2 rapid

DYS526a 2.72 x 10–2 rapid

DYS526b 1.25 x 10–2 rapid

DYS626 1.22 x 10–2 rapid

DYS627 1.23 x 10–2 rapid

DYS449 1.22 x 10–2 rapid

DYS547 2.36 x 10–2 rapid

DYS612 1.45 x 10–2 rapid

DYF403S1a 3.10 x 10–2 rapidDYF403S1b 1.19 x 10–2 rapid

DYF404S1 1.25 x 10–2 rapidHt – haplotypeSWGDAM – Scientific Working Group on DNA Analysis MethodsaKayser et al. 2002, 2004; Willuweit and Roewer 2007; Ballantyne et al. 2010, 2014; Butler 2012bBallantyne et al. 2010

Salvador et al.: Filipino Y-STR DNA VariationSpecial Issue on Genomics

45

Page 4: Filipino DNA Variation at 36 Y-chromosomal Short Tandem Repeat (STR… · 2019. 10. 9. · INTRODUCTION Male-specific polymorphisms on the non-recombining region (NRY) of the Y-chromosome,

MATERIALS AND METHODS

Population Samples and DNA ExtractionBlood samples, collected from 299 unrelated Filipino male individuals residing in the National Capital Region and its surrounding urban area, were transferred onto a Whatman™ FTA™ card and processed according to manufacturer's recommendations (GE Healthcare Life Sciences, Uppsala, Sweden). All the volunteers signed an informed consent form before participating in this study. Data generated from three research projects previously approved by the University of the Philippines Manila – Research Ethics Board (UPMREB-2012-247-01, UPMREB-2012-0321, and UPMREB-2012-0276) were combined to allow for more in-depth analysis of Y-STR variations in the Philippine population.

Y-STR DNA TypingAll 299 Philippine DNA samples were processed using two Y-STR typing systems – a commercially available PPY23 System (Promega Corp., Madison, WI, USA) and a RM Y-STR typing system with three multiplex assays (Ballantyne et al. 2014).

For PPY23 typing, a 1.2 mm FTATM disc of each sample was amplified using a final reaction volume of 10 μL. Thermal cycling was performed following manufacturer's recommendations. To verify the presence of microvariant, null, "off-ladder," and tri- alleles, relevant samples were also amplified using the AmpFlSTR® YfilerTM PCR Amplification Kit (Life Technologies, Forster City, CA, USA). PCR products were analyzed using the Applied Biosystems (AB) 3500 HID Genetic Analyzer and GeneMapper® ID-X (GMID-X) software v1.2 following manufacturer's protocols. Alleles were assigned according to the guidelines of the International Society of Forensic Genetics (ISFG) for forensic Y-STR analysis (Gusmão et al. 2006).

RM Y-STR multiplex amplifications were performed using one 1.2 mm FTATM disc of each sample for each of the three multiplex reactions following published protocols (Ballantyne et al. 2014). Amplified DNA samples were detected using the AB 3500 HID Genetic Analyzer with Hi-DiTM formamide (Life Technologies, Forster City, CA, USA); Internal Lane Standard (ILS) 600 (Promega Corp., Madison, WI, USA); and allelic ladders from the International RM Y-STR Study Group. Data were analyzed using the GMID-X software v1.2 (Life Technologies, Forster City, CA, USA). RM Y-STR alleles were labeled based on the International RM Y-STR Study Group nomenclature (Ballantyne et al. 2014).

Quality ControlFor PPY23 quality control, the Y-STR typing procedure was validated using five blind samples as part of the Y-STR Haplotyping Quality Assurance Exercise organized by the Y-chromosome Haplotype Reference Database (YHRD) (http://www.yhrd.org/). Subsequently, PPY23 data of 169 Filipino samples out of 299 Filipino samples in this study were generated as part of a global study to evaluate PPY23 (Purps et al. 2014). The presence of microvariant and/or unreported alleles was verified using YfilerTM kit, when possible. All 299 PPY23 haplotype data presented in this study were submitted to YHRD and given the accession number YA003206.

For RM Y-STR quality control, the Y-STR typing procedure was validated using nine blind samples as part of a global multicenter study (Ballantyne et al. 2014). RM Y-STR data from seven Filipino samples out of 299 Filipino samples in this study were included in the multicenter study (Ballantyne et al. 2014).

Analysis of DataAllele and haplotype frequencies were calculated using the counting method. The number of occurrences of each allele in each marker unit and each haplotype was counted using Excel (Microsoft, Redmond, WA, USA). Allele frequencies were calculated following Westen and co-workers (2015). Gene diversities (GD = 𝑛

(𝑛−1) (1−𝛴𝑝𝑖²)where n is the total number of samples and pi is the frequency of the i-th allele per Y-STR marker unit), and haplotype diversities (HD= 𝑛

(𝑛−1)(1−𝛴�𝑖²) where hi is the haplotype frequency) were calculated (Nei 1987). For the calculation of GD, DYS385a/b, DYF387S1, DYF399S1, DYF403S1a, and DYF404S1 genotypes were treated as haplotypes. For the calculation of HD and to match Arlequin software version 3.5.1.3 (Excoffier and Lischer 2010) STR data format, the ‘‘empty cells’’ in multi-copy marker units were filled with an arbitrary value such as “100” for samples that showed less than the maximum number of alleles (Westen et al. 2015). The discrimination capacity (DC) of each marker panel set was determined by dividing the number of unique haplotypes observed by the number of samples.

To show the capability of different marker panels to distinguish individual haplotypes, haplotype analysis of different Y-STR marker unit combinations was performed based on 1) core set of Y-STR markers recommended by the European forensic community (Minimal) and the United States Scientific Working Group on DNA Analysis Methods (SWGDAM); 2) commercially available Y-STR kits – PPY, YfilerTM kit (Yfiler), and PPY23; 3) mutation rate group – slow (SMY), moderately (MMY), rapidly (RMY), and slow to moderately (SMMY) mutating Y-STR; and 4) the entire panel of 36 Y-STR chromosomal

Salvador et al.: Filipino Y-STR DNA VariationSpecial Issue on Genomics

46

Page 5: Filipino DNA Variation at 36 Y-chromosomal Short Tandem Repeat (STR… · 2019. 10. 9. · INTRODUCTION Male-specific polymorphisms on the non-recombining region (NRY) of the Y-chromosome,

Table 2. Forensic statistical parameters for different sets of Y-STR markers in the Filipino male population (n = 299).

Y-STR panel set No. of Y-STR marker unitsParameter

No. of unique haplotypes Haplotype diversity Discrimination capacity (%)

Minimal 9 241 0.9965 80.6

SWGDAM 11 259 0.9983 86.6

PPY 12 265 0.9986 88.6

Yfiler 17 292 0.9998 97.7

PPY23 23 299 0.99999999991 100.0

SMY 6 120 0.9749 40.13

MMY 15 293 0.9997 97.99

RMY 15 299 0.99999999991 100.0

SMMY 21 295 0.99991 98.7

Maximal 36 299 0.99999999991 100.0

SWGDAM – Scientific Working Group on DNA Analysis MethodsSMY – slow mutating Y-STRsMMY – moderately mutating Y-STRsRMY – rapidly mutating Y-STRsSMMY – slow to moderately mutating Y-STRs

marker units reported here (Maximal). The results of these analyses are shown in Table 2.

For population comparison using these 36 Y-STR marker units, published Y-STR data were collated for 12 populations – namely Spanish [Spain] (n = 38), Italian [Italy] (n = 20), Hungarian [Hungary] (n = 101), Lithuanian [Lithuania] (n = 75), Latvian [Latvia] (n = 119), Estonian [Estonia] (n = 105), Dutch [Netherlands] (n = 2,160), Japanese [Japan] (n = 33), Chinese [Singapore] (n = 102), Indian [Singapore] (n = 102), Malay [Singapore] (n = 102), and Xhosa [South Africa] (n = 25) (Ballantyne et al. 2014, Purps et al. 2014, Westen et al. 2015). Calculation of pairwise FST genetic distances and Analysis of Molecular Variance (AMOVA) were performed using the Arlequin software version 3.5.1.3 (Excoffier and Lischer 2010) and significance level was ascertained at 0.05. P-values were adjusted by applying the sequential Bonferroni correction (p = 0.05/91 = 0.00055) (Zeng et al. 2014). FST values were calculated because of the limitation in allele assignment of multi-copy markers and microvariant alleles to specific loci when FST is used (Ballantyne et al. 2014). In addition, FST is preferred over RST in measuring population substructure for forensic purposes (Budowle et al. 2009). Multidimensional scaling (MDS) analyses of pairwise FST matrices were performed using IBM SPSS Statistics 20 software (SPSS, Chicago, USA).

RESULTS AND DISCUSSION

Single Marker Unit AnalysisA final dataset of 299 Y-STR haplotypes was generated using the PPY23 and RM Y-STR protocols (Appendix Table I), targeting 36 Y-STR DNA marker units. The PPY23 and the RM Y-STR systems both contain DYS570 and DYS576, which were used to check the concordance for these two RM Y-STRs using two different systems, as well as to function as internal controls for sample verification.

Microvariant, "off-ladder," null, and tri- alleles were observed at several Y-STR marker units in the Filipino population (Appendix Tables I and II). The detection of microvariant alleles at DYS392 (allele 14.1), DYS643 (allele 11.1), and DYS392 (allele 14.1) were confirmed using the YfilerTM kit. The microvariant allele 14.1 at DYS392 has not been reported in other populations (YHRD Release 60, http://yhrd.org/search). An "off-ladder" allele observed at DYS481, which is one repeat unit larger than allele 33, was manually labeled as allele 34. This allele has not been reported in other populations (http://yhrd.org/search). A null allele at DYS439 that was reported previously (Purps et al. 2014) was also observed in the Philippine dataset. In one sample, three alleles were observed at DYS385a/b, which may be the result of a duplication event at the DYS385 region (Butler et al. 2005). Similar observations were reported in previous studies (Purps et al. 2014, Coble et al. 2013).

Salvador et al.: Filipino Y-STR DNA VariationSpecial Issue on Genomics

47

Page 6: Filipino DNA Variation at 36 Y-chromosomal Short Tandem Repeat (STR… · 2019. 10. 9. · INTRODUCTION Male-specific polymorphisms on the non-recombining region (NRY) of the Y-chromosome,

Figure 1. Genetic diversity indices for 36 Y-STR marker units in the Filipino population (n = 299). Broken lines mark gene diversity at 0.50. Multi-copy Y-STR marker units (DYS385a/b, DYF387S1, DYF399S1, DYF403S1a, DYF403S1b, and DYF404S1) are tagged with *.

The Y-STR alleles present in the 299 unrelated Filipino DNA samples were counted. For this dataset, DYS389I, DYS391, and DYS437 have only four alleles – which is the smallest number of alleles per STR marker unit in the dataset. Notably, the small number of alleles at DYS389I and DYS391 is consistent with other Asian population data (Budowle et al. 2009). In contrast, DYF399S1 showed the largest number of alleles composed of 26 different alleles and 177 allele combinations (Appendix Table II).

The GD values for each of the 36 Y-STR marker units in the Filipino population are shown in Figure 1. GD values ranged from 0.27488 (DYS438) to 0.99535 (DYF399S1). The high GD value of DYF399S1 is attributed to the multi-copy nature of this RM Y-STR marker wherein up to five alleles can be observed in an individual (Ballantyne et al. 2014). Figure 1 shows that the GD value is below 0.50 at four standard Y-STR marker units (DYS389I, DYS391, DYS438, and DYS437). In comparison, all RM Y-STR markers units showed high GD values (> 0.70), which is consistent with previous studies (Ballantyne et al. 2014). This observation illustrates the disadvantage of using commercial kits that had been tested and developed primarily based on the genetic diversity of European, African, and South Asian population data, or the so-called “diversity-driven approach,” The selected Y-STRs are likely to be suitable only to these populations and may not be as useful to other populations. The disadvantage of using solely a

diversity-driven approach for selecting suitable Y-STRs for paternal lineage differentiation can be addressed by including the mutation rate estimates of Y-STRs in the selection process (Kayser 2017) and data from populations located in a wider geographical area.

Haplotype DiversityBecause Y-STR markers are located on the NRY, combined Y-STR data comprises a single haplotype. The power of using 36 Y-STR marker units in the Filipino population was evaluated using HD and DC values (Table 2). A total of 299 distinct haplotypes (HD > 99.99%) was observed. The DC value of 100% demonstrates the superior power of the 36 Y-STR marker unit system in the Filipino population. Similar HD and DC values were obtained for both PPY23 with two RM Y-STR marker units and the solely RMY haplotypes, while a lower HD and DC values were calculated for SMMY haplotypes (Table 2). The inclusion of DYS570 and DYS576 in PPY23 haplotypes increased the DC value from 98.7% (SMMY) to 100% (Table 2). This indicates that the high HD and DC values calculated from PPY23, RMY, and maximal Filipino haplotype database are due to the high gene diversity values and high mutation rates characteristic of RM Y-STR marker units (Thompson et al. 2013, Ballantyne et al. 2014).

RM Y-STR markers are more useful when there is a need to differentiate closely related males as persons-of-interest in specific forensic investigations. In contrast, RM Y-STR markers are not as useful for deficient paternity testing, familial searching, missing person, and disaster victim identification (Ballantyne et al. 2012, Henry et al. 2015), which require the sharing of similar haplotypes in order to identify PMRs. Y-STRs with slow to moderate mutation rates are ideal for these types of forensic Y-STR haplotyping applications (Kayser 2017). Hence, a good workflow would be to initially use Y-STRs with slow-moderate mutation rates (SMMY) to exclude non-PMR. This should be followed by RM Y-STR analysis of evidence against person-of-interest that would identify the human origin of the male DNA isolated from an evidentiary sample.

Genetic Structure and Population ComparisonData from 129 populations in 51 countries using 23 Y-STR marker units (Purps et al. 2014) showed that the PPY23 haplotype data provided higher discriminatory capacity than the YfilerTM kit. Comparison of PPY23 data across 129 populations showed patterns consistent with clustering according to geographic location and ethnic origin. In contrast, similar population comparisons using the RM Y-STRs showed little population

Salvador et al.: Filipino Y-STR DNA VariationSpecial Issue on Genomics

48

Page 7: Filipino DNA Variation at 36 Y-chromosomal Short Tandem Repeat (STR… · 2019. 10. 9. · INTRODUCTION Male-specific polymorphisms on the non-recombining region (NRY) of the Y-chromosome,

substructure, thus highlighting the significance of the within-population genetic diversity of RMY STR markers compared to diversity between populations, and the individuating characteristic of this set of markers.

A closer look at the populations included in both multicenter studies and other studies (Ballantyne et al. 2014, Purps et al. 2014, Westen et al. 2015) showed that populations from Eastern Europe (Estonia, Hungary, Lithuania, Latvia); Western Europe (Spain, Italy, Netherlands); Southeast Asia [Singapore (Chinese), Singapore (Malay), Singapore (Indian)]; East Asia (Japan); and South Africa provided complete maximal haplotype data for the same individuals. This dataset was compared with the Philippine Y-STR haplotype data. The results obtained with the computations of pairwise FST differences between 13 populations are shown in Appendix Table III and graphically represented in Figure 2. The Filipino population data is significantly different from these 12 populations (p < 0.00055), with the smallest FST value observed between Filipinos and the Singaporean Malay population (FST = 0.01019). The Malay population from Singapore was the only group from Southeast Asia with publicly available PPY23 and RMY haplotype data for comparison. It would have been interesting to do similar comparisons with other populations in Southeast Asia such as those from Malaysia, Thailand, and Indonesia. Not surprisingly, the farthest genetic distance value was observed with the Xhosa population of South Africa (FST = 0.11844) (Appendix Table III).

Further MDS analyses of genetic relationships between Filipinos and these 12 populations using different combinations of Y-STR marker units reveal that non-RM Y-STR marker sets e.g., PPY, Yfiler and SMMY, showed a distinct grouping based on geography and ethnic background i.e., South Africa, Western Europe, Eastern Europe, Southern Asia (Singapore-Indian), Southeastern Asia, and Eastern Asia (Figures 2a–c). This is consistent with the MDS analysis of global populations using different forensic marker sets as reported by Purps and co-workers (2014). In contrast, a different pattern which cannot be explained by the geographic locations of the population samples was observed when populations were analyzed using only RMY haplotype data (Figure 2d). It has been shown that RMY haplotypes lack strong signals of population history (Ballantyne et al. 2014). Interestingly, MDS analysis of maximal haplotype data (Figure 2e) shows similar patterns of population structure as non-RM Y-STR marker sets (Figures 2a–c). When maximal haplotype data was analyzed, our study showed that the effect of slow to moderately mutating Y-STR marker units on population substructuring is greater than those of the RM Y-STR marker units (Figures 2d and 2e). This is supported by AMOVA results wherein the variation between population groups is higher for maximal haplotype data (1.28%) than that of RMY haplotype data (0.82%) (Appendix Table IV).

Figure 2. Two-dimensional MDS plots of pairwise FST

values for (a) PPY haplotypes, (b) Yfiler haplotypes, (c) slow to moderately mutating Y-STR (SMMY) haplotypes, (d) RMY haplotypes, and (e) maximal haplotype. Est – Estonia, Hu – Hungary, It – Italy, Jp – Japan, Lit – Lithuania, Lv – Latvia, Nl – Netherlands, Ph – Philippines, Sg_Chi – Singapore-Chinese, Sg_Mal – Singapore-Malay, Sg_In – Singapore-Indian, Sp – Spain, SAf – South Africa.

Salvador et al.: Filipino Y-STR DNA VariationSpecial Issue on Genomics

49

Page 8: Filipino DNA Variation at 36 Y-chromosomal Short Tandem Repeat (STR… · 2019. 10. 9. · INTRODUCTION Male-specific polymorphisms on the non-recombining region (NRY) of the Y-chromosome,

The presence of population substructure in the 13 populations highlights the importance of using the appropriate population database when estimating the frequency of a Y-STR haplotype. If a national Y-STR haplotype database is not available or it lacks on sample size, a larger Y-STR haplotype reference database composed of populations showing small genetic distances may be used (Willuweit and Roewer 2007, Budowle et al. 2009). Our data also supports the recommendation of the National Research Council (NRC 1996) to use a co-ancestry coefficient (θ) to correct profile frequency estimates for possible population substructure effects, especially when using slow to moderately mutating Y-STR marker units. On the other hand, due to low between-population differentiation and lack of substructure with RMY haplotypes, a worldwide haplotype frequency database without θ correction can be used in statistical evaluation of RMY haplotype data for the identification of the source of a particular human sample such as in criminal investigations and victim identification (Alghafri et al. 2018).

CONCLUSIONWe report here the characterization of the genetic variation of male Filipino samples at 36 Y-STR marker units. Y-STR DNA typing of 299 unrelated Filipino males expanded the previously reported Philippine Y-STR databases. The additional Y-STRs increased the haplotype diversity of the Filipino database, which makes it more suitable for use in male relationship testing and male identification in forensic practice. Population analysis performed using FST values of 13 populations indicated the presence of genetic differences with other populations, thus supporting the need for an appropriate population reference database in statistical evaluation of Y-STR DNA typing results in forensic casework.

The Filipino haplotype data presented in this study is expected to resolve a broader spectrum of forensic cases. While the Filipino haplotype database of slow to moderately mutating Y-STRs can be used to evaluate matches in paternal/kinship determination and familial searching, the RM Y-STR haplotype database can be used for paternal lineage identification and male identification analysis.

ACKNOWLEDGMENTSThis study was financially supported by the Philippine Council for Industry, Energy, and Emerging Technology Research and Development under the Re-entry Research Program Grant and the Philippine Council for Health

Research and Development (Study Number FP 1020045) of the Department of Science and Technology, and the University of the Philippines Los Baños Office of the Vice Chancellor for Research and Extension under the Basic Research Program (Accession Code 88-E27-23). We acknowledge the technical support provided by Angelica Rose P. Sagum, Paul Ryan L. Sales, and Gayvelline C. Calacal; and the administrative support given by Miriam Ruth M. Dalet, Minerva S. Sagum, Aimee G. Cagalawan, and Rosalina N. Tandang. The guidance of Dr. Rita P. Laude in some aspects of JJRBR’s work is also acknowledged.

NOTE ON APPENDICESThe complete appendices section of the study is accessible at http://philjournsci.dost.gov.ph.

REFERENCESALGHAFRI R, PAJNIČ IZ, ZUPANC T, BALAŽIC J,

SHRIVASTAVA P. 2018. Rapidly mutating Y-STR analyses of compromised forensic samples. Int J Legal Med 132 (2): 397–403.

BALLANTYNE KN, GOEDBLOED M, FANG R, SCHAAP O, LAO O, WOLLSTEIN A, CHOI Y, VAN DUIJN K, VERMEULEN M, BRAUER S. 2010. Mutability of Y-chromosomal microsatellites: rates, characteristics, molecular bases, and forensic implications. Am J Hum Genet 87(3): 341–353.

BALLANTYNE KN, KEERL V, WOLLSTEIN A, CHOI Y, ZUNIGA SB, RALF A, VERMEULEN M, DE KNIJFF P, KAYSER M. 2012. A new future of forensic Y-chromosome analysis: rapidly mutating Y-STRs for differentiating male relatives and paternal lineages. Forensic Sci Int Genet 6(2): 208–218.

BALLANTYNE KN, RALF A, ABOUKHALID R, ACHAKZAI NM, ANJOS MJ, AYUB Q, BALAŽIC J, BALLANTYNE J, BALLARD DJ, BERGER B, BOBILLO C, BOUABDELLAH M, BURRI H, CAPAL T, CARATTI S, CÁRDENAS J, CARTAULT F, CARVALHO EF, CARVALHO M, CHENG B, COBLE MD, COMAS D, CORACH D, D'AMATO ME, DAVISON S, DE KNIJFF P, DE UNGRIA MC, DECORTE R, DOBOSZ T, DUPUY BM, ELMRGHNI S, GLIWIŃSKI M, GOMES SC, GROL L, HAAS C, HANSON E, HENKE J, HENKE L, HERRERA-RODRÍGUEZ F, HILL CR, HOLMLUND G, HONDA K, IMMEL UD, INOKUCHI S, JOBLING MA, KADDURA M, KIM JS, KIM SH, KIM W, KING

Salvador et al.: Filipino Y-STR DNA VariationSpecial Issue on Genomics

50

Page 9: Filipino DNA Variation at 36 Y-chromosomal Short Tandem Repeat (STR… · 2019. 10. 9. · INTRODUCTION Male-specific polymorphisms on the non-recombining region (NRY) of the Y-chromosome,

TE, KLAUSRIEGLER E, KLING D, KOVAČEVIĆ L, KOVATSI L, KRAJEWSKI P, KRAVCHENKO S, LARMUSEAU MH, LEE EY, LESSIG R, LIVSHITS LA, MARJANOVIĆ D, MINARIK M, MIZUNO N, MOREIRA H, MORLING N, MUKHERJEE M, MUNIER P, NAGARAJU J, NEUHUBER F, NIE S, NILASITSATAPORN P, NISHI T, OH HH, OLOFSSON J, ONOFRI V, PALO JU, PAMJAV H, PARSON W, PETLACH M, PHILLIPS C, PLOSKI R, PRASAD SP, PRIMORAC D, PURNOMO GA, PURPS J, RANGEL-VILLALOBOS H, RĘBAŁA K, RERKAMNUAYCHOKE B, GONZALEZ DR, ROBINO C, ROEWER L, ROSA A, SAJANTILA A, SALA A, SALVADOR JM, SANZ P, SCHMITT C, SHARMA AK, SILVA DA, SHIN KJ, SIJEN T, SIRKER M, SIVÁKOVÁ D, SKARO V, SOLANO-MATAMOROS C, SOUTO L, STENZL V, SUDOYO H, SYNDERCOMBE-COURT D, TAGLIABRACCI A, TAYLOR D, TILLMAR A, TSYBOVSKY IS, TYLER-SMITH C, VAN DER GAAG KJ, VANEK D, VÖLGYI A, WARD D, WILLEMSE P, YAP EP, YONG RY, PAJNIČ IZ, KAYSER M. 2014. Toward male individualization with rapidly mutating y-chromosomal short tandem repeats. Hum Mutat 35(8): 1021–1032.

BUCKLETON JS, KRAWCZAK M, WEIR BS. 2011. The interpretation of lineage markers in forensic DNA testing. Forensic Sci Int Genet 5(2): 78–83.

BUDOWLE B, GE J, LOW J, LAI C, YEE WH, LAW G, TAN WF, CHANG YM, PERUMAL R, KEAT PY, MIZUNO N, KASAI K, SEKIGUCHI K, CHAKRABORTY R. 2009. The effects of Asian population substructure on Y STR forensic analyses. Legal Med 11(2): 64–69.

BUTLER JM, DECKER AE, KLINE MC, VALLONE PM. 2005. Chromosomal duplications along the Y-chromosome and their potential impact on Y-STR interpretation. J Forensic Sci 50(4): 853–859.

BUTLER JM. 2012. Y-Chromosome DNA Testing. In: Advanced Topics in Forensic DNA Typing: Methodology. San Diego, CA: Academic Press. p. 371–403.

COBLE MD, HILL CR, BUTLER JM. 2013. Haplotype data for 23 Y-chromosome markers in four U.S. population groups. Forensic Sci Int Genet 7(3): e66–e68.

DELFIN FC, SALVADOR JM, CALACAL GC, PERDIGON HB, TABBADA KA, VILLAMOR LP, HALOS SC, GUNNARSDÓTTIR E, MYLES S, HUGHES DA, XU S, JIN L, LAO O, KAYSER M, HURLES ME, STONEKING M, DE UNGRIA MC. 2011. The Y-chromosome landscape of the Philippines: extensive heterogeneity and varying genetic affinities

of Negrito and non-Negrito groups. Eur J Hum Genet 19(2): 224–230.

EXCOFFIER L, LISCHER HEL. 2010. Arlequin Suite Ver 3.5: A new series of programs to perform population genetic analyses under Linux and Windows. Mol Ecol Resour 10: 564–567.

GJERTSON DW, BRENNER CH, BAUR MP, CARRACEDO A, GUIDET F, LUQUE JA, LESSIG R, MAYR WR, PASCALI VL, PRINZ M, SCHNEIDER PM, MORLING N. 2007. ISFG: Recommendations on biostatistics in paternity testing. Forensic Sci Int Genet 1(3–4): 223–231.

GUSMÃO L, BUTLER JM, CARRACEDO A, GILL P, KAYSER M, MAYR WR, MORLING N, PRINZ M, ROEWER L, TYLER-SMITH C, SCHNEIDER PM. 2006. DNA Commission of the International Society of Forensic Genetics (ISFG): An update of the recommendations on the use of Y-STRs in forensic analysis. Forensic Sci Int 157(2–3): 187–197.

HENRY J, SIMON C, LINACRE A. 2015. The benefits and limitations of expanded Y-chromosome short tandem repeat (Y-STR) loci. Forensic Sci Int Genet Suppl Ser 5: e28–e30.

KAYSER M, BRAUER S, WILLUWEIT S, SCHADLICH H, BATZER MA, ZAWACKI J, PRINZ M, ROEWER L, STONEKING M. 2002. Online Y-chromosomal short tandem repeat haplotype reference database (YHRD) for U.S. populations. J Forensic Sci 47(3): 513–519.

KAYSER M, KITTLER R, ERLER A, HEDMAN M, LEE AC, MOHYUDDIN A, MEHDI SQ, ROSSER Z, STONEKING M, JOBLING MA, SAJANTILA A, TYLER-SMITH C. 2004. A comprehensive survey of human Y-chromosomal microsatellites. Am J Hum Genet 74(6): 1183–1197.

KAYSER M. 2017. Forensic use of Y-chromosome DNA: A general overview. Hum Genet 136(5): 621–635.

NEI M. 1987. Molecular Evolutionary Genetics. New York: Columbia University Press.

[NRC] National Research Council. 1996. The Evaluation of Forensic DNA Evidence. Washington, DC: National Academy Press.

PURPS J, SIEGERT S, WILLUWEIT S, NAGY M, ALVES C, SALAZAR R, ANGUSTIA SMT, SANTOS LH, ANSLINGER K, BAYER B, AYUB Q, WEI W, XUE Y, TYLER-SMITH C, BAFALLUY MB, MARTÍNEZ-JARRETA B, EGYED B, BALITZKI B, TSCHUMI S, BALLARD D, COURT DS, BARRANTES X, BÄSSLER G, WIEST T, BERGER B, NIEDERSTÄTTER H, PARSON W, DAVIS C,

Salvador et al.: Filipino Y-STR DNA VariationSpecial Issue on Genomics

51

Page 10: Filipino DNA Variation at 36 Y-chromosomal Short Tandem Repeat (STR… · 2019. 10. 9. · INTRODUCTION Male-specific polymorphisms on the non-recombining region (NRY) of the Y-chromosome,

BUDOWLE B, BURRI H, BORER U, KOLLER C, CARVALHO EF, DOMINGUES PM, CHAMOUN WT, COBLE MD, HILL CR, CORACH D, CAPUTO M, D'AMATO ME, DAVISON S, DECORTE R, LARMUSEAU MH, OTTONI C, RICKARDS O, LU D, JIANG C, DOBOSZ T, JONKISZ A, FRANK WE, FURAC I, GEHRIG C, CASTELLA V, GRSKOVIC B, HAAS C, WOBST J, HADZIC G, DROBNIC K, HONDA K, HOU Y, ZHOU D, LI Y, HU S, CHEN S, IMMEL UD, LESSIG R, JAKOVSKI Z, ILIEVSKA T, KLANN AE, GARCÍA CC, DE KNIJFF P, KRAAIJENBRINK T, KONDILI A, MINIATI P, VOUROPOULOU M, KOVACEVIC L, MARJANOVIC D, LINDNER I, MANSOUR I, AL-AZEM M, ANDARI AE, MARINO M, FURFURO S, LOCARNO L, MARTÍN P, LUQUE GM, ALONSO A, MIRANDA LS, MOREIRA H, MIZUNO N, IWASHIMA Y, NETO RS, NOGUEIRA TL, SILVA R, NASTAINCZYK-WULF M, EDELMANN J, KOHL M, NIE S, WANG X, CHENG B, NÚÑEZ C, PANCORBO MM, OLOFSSON JK, MORLING N, ONOFRI V, TAGLIABRACCI A, PAMJAV H, VOLGYI A, BARANY G, PAWLOWSKI R, MACIEJEWSKA A, PELOTTI S, PEPINSKI W, ABREU-GLOWACKA M, PHILLIPS C, CÁRDENAS J, REY-GONZALEZ D, SALAS A, BRISIGHELLI F, CAPELLI C, TOSCANINI U, PICCININI A, PIGLIONICA M, BALDASSARRA SL, PLOSKI R, KONARZEWSKA M, JASTRZEBSKA E, ROBINO C, SAJANTILA A, PALO JU, GUEVARA E, SALVADOR J, UNGRIA MC, RODRIGUEZ JJ, SCHMIDT U, SCHLAUDERER N, SAUKKO P, SCHNEIDER PM, SIRKER M, SHIN KJ, OH YN, SKITSA I, AMPATI A, SMITH TG, CALVIT LS, STENZL V, CAPAL T, TILLMAR A, NILSSON H, TURRINA S, DE LEO D, VERZELETTI A, CORTELLINI V, WETTON JH, GWYNNE GM, JOBLING MA, WHITTLE MR, SUMITA DR, WOLAŃSKA-NOWAK P, YONG RY, KRAWCZAK M, NOTHNAGEL M, ROEWER L. 2014. A global analysis of Y-chromosomal haplotype diversity for 23 STR loci. Forensic Sci Int Genet 12: 12–23.

ROEWER L. 2009. Y chromosome STR typing in crime casework. Forensic Sci Med Pathol 5(2): 77–84.

SALVADOR JM, TABBADA KA, DE UNGRIA MCA. 2008. Population data of 10 Y-chromosomal STR loci in Cebu Province, Central Visayas (Philippines). J Forensic Sci 53(1): 256–258.

SKALETSKY H, KURODA-KAWAGUCHI T, MINX PJ, CORDUM HS, HILLIER L, BROWN LG, REPPING S, PYNTIKOVA T, ALI J, BIERI T, CHINWALLA A, DELEHAUNTY A, DELEHAUNTY K, DU H, FEWELL G, FULTON L, FULTON R, GRAVES T,

HOU SF, LATRIELLE P, LEONARD S, MARDIS E, MAUPIN R, MCPHERSON J, MINER T, NASH W, NGUYEN C, OZERSKY P, PEPIN K, ROCK S, ROHLFING T, SCOTT K, SCHULTZ B, STRONG C, TIN-WOLLAM A, YANG SP, WATERSTON RH, WILSON RK, ROZEN S, PAGE DC. 2003. The male-specific region of the human Y chromosome is a mosaic of discrete sequence classes.” Nature 423(6942): 825–837.

TAN MM, CALACAL GC, DELFIN FC, ROEWER L, DE UNGRIA MCA. 2003. Y chromosome STR allele frequency distribution among Filipino males in the NCR for forensic applications. Philipp J Sci 132(2): 95–101.

THOMPSON JM, EWING MM, FRANK WE, POGEMILLER JJ, NOLDE CA, KOEHLER DJ, SHAFFER AM, RABBACH DR, FULMER PM, SPRECHER CJ, STORTS DR. 2013. Developmental validation of the PowerPlex® Y23 System: A single multiplex Y-STR analysis system for casework and database samples. Forensic Sci Int Genet 7(2): 240–250.

WESTEN AA, KRAAIJENBRINK T, CLARISSE L, GROL LJW, WILLEMSE P, ZUNIGA SB, ROBLES DE MEDINA EA, SCHOUTEN R, VAN DER GAAG K, WEILER JM, KAL AJ, KAYSER MH, SIJEN T, DE KNIJFF P. 2015. Analysis of 36 Y-STR marker units including a concordance study among 2085 Dutch males. Forensic Sci Int Genet 14: 174–181.

WILLUWEIT S, ROEWER L. 2007. Y chromosome haplotype reference database (YHRD): Update. Forensic Sci Int Genet 1(2): 83–87.

ZENG Z, GARCIA-BERTRAND R, CALDERON S, LI L, ZHONG M, HERRERA RJ. 2014. Extreme genetic heterogeneity among the nine major tribal Taiwanese island populations detected with a new generation Y23 STR system. Forensic Sci Int Genet 12: 100–106.

Salvador et al.: Filipino Y-STR DNA VariationSpecial Issue on Genomics

52

Page 11: Filipino DNA Variation at 36 Y-chromosomal Short Tandem Repeat (STR… · 2019. 10. 9. · INTRODUCTION Male-specific polymorphisms on the non-recombining region (NRY) of the Y-chromosome,

Salvador et al.: Filipino Y-STR DNA VariationSpecial Issue on Genomics

53

Page 12: Filipino DNA Variation at 36 Y-chromosomal Short Tandem Repeat (STR… · 2019. 10. 9. · INTRODUCTION Male-specific polymorphisms on the non-recombining region (NRY) of the Y-chromosome,

Table I. Y-STI haplotype data of 299 Filipino samples.

DY

S19

DY

S385

a/b

DY

S389

I

DY

S389

II

DY

S390

DY

S391

DY

S392

DY

S393

DY

S438

DY

S439

DY

S437

DY

S448

DY

S456

DY

S458

DY

S635

YG

ATA

H4

DY

S481

DY

S533

DY

S549

DY

S643

DY

S570

DY

S576

DY

F387

S1

DY

F399

S1

DY

S518

DY

S526

a

DY

S526

b

DY

S626

DY

S627

DY

S449

DY

S547

DY

S612

DY

F403

S1a

DY

F403

S1b

DY

F404

S1

Ht-001 16 13,20 13 28 25 10 13 12 10 12 14 19 14 18 24 12 24 12 12 10 18 17 35,38 20,24,26.1 38 14 36 30 22 31 49 36 11,14 53 15,16Ht-002 15 11,15 12 27 21 10 11 12 10 11 14 21 15 19 24 11 25 12 14 9 19 18 33,38 21,22.1 39 14 37 35 21 29 44 39 10.2,12,18 51 12,14Ht-003 15 12,15 12 28 25 11 13 13 10 14 14 19 15 17 22 12 25 12 11 12 15 18 39,40 20,23,25.1 35 15 38 30 22 32 51 36 12,17 56 13,16Ht-004 15 13,19 13 31 25 11 13 15 10 11 14 17 15 18 21 10 22 10 14 13 16 20 36,38 22,27.1,28 41 13 38 27 22 29 49 37 11,12,13 51 13,14Ht-005 16 11,16 13 29 23 11 11 15 10 11 14 21 16 19 21 11 23 14 12 9 16 18 37,39 22,23.1,24 38 12 34 32 17 30 44 34 11,15,16 46 15,16Ht-006 15 13,16 13 29 25 11 13 12 10 12 14 19 15 15 21 11 25 12 11 11 16 17 39,40 20,25.1,26 38 15 37 29 23 32 50 36 15,16 59 13,15Ht-007 15 15,19 13 29 25 10 13 13 10 14 14 18 16 17 21 11 23 10 12 12 17 19 36,37 20,22,24.1 40 13 37 29 21 28 46 36 11,12,14 53 12,13Ht-008 15 11,13 12 29 21 9 12 14 10 10 14 17 15 14 21 13 24 11 12 11 17 15 37 19,24.1 39 13 35 30 18 31 49 31.2 13,14 47 14Ht-009 15 15,20 13 31 25 12 13 13 10 12 14 18 16 15 21 11 23 10 12 12 17 22 36,37 21,23,27.1 41 13 38 30 22 28 48 38 12,13,14 51 13Ht-010 14 12,14 13 28 24 10 14 13 11 12 15 18 16 17 27 13 17 11 12 11 19 18 36,40 20,21,25 38 13 42 28 23 30 47 37 11,15,16 50 17Ht-011 15 13,13 12 28 23 10 14 13 10 11 14 18 18 16 19 11 23 11 12 11 20 19 37,40 23,24,25.1 38 13 37 29 19 30 47 38 12,18 50 14Ht-012 16 16,19 11 27 24 11 13 14 10 11 14 18 15 18 23 10 21 10 11 12 20 18 36,38 20,22,24.1 41 13 37 29 23 26 47 35 10,13,16 51 13,18Ht-013 15 12,17 12 28 24 11 13 12 10 12 14 19 15 16 21 11 23 13 11 11 16 18 38,40 21,23,26.1 36 15 38 30 21 31 51 38 12,15,16 57 13,16Ht-014 15 13,15 11 27 24 10 13 13 10 12 15 19 14 17 21 12 24 12 11 11 14 19 39,41 21,27.1 38 14 38 31 24 30 50 37 14,15,17 59 13,15Ht-015 17 12,14 12 28 24 10 12 14 10 12 14 17 16 13 20 12 25 11 12 11 19 19 36,40 20,26,26.1 40 13 35 30 23 28 48 36 13 50 15,16Ht-016 15 13,14 12 28 21 9 12 14 10 12 14 17 15 14 22 13 23 11 11 11 17 16 36,39 23,24.1,25 40 13 34 29 21 29 47 35 12,13,14 49 15Ht-017 15 12,13 12 28 23 10 14 13 10 13 14 18 18 17 21 12 24 11 12 12 18 16 37,38 22,24.1 37 15 38 29 21 30 50 35 11,17,19 50 14Ht-018 17 13,19 12 28 24 10 13 12 10 12 15 19 15 15 21 13 24 11 11 11 18 19 37 22,23,23.1 39 15 35 33 23 34 50 36 13 50 14Ht-019 15 12,15 12 28 24 10 13 13 10 12 15 19 16 15 22 11 24 13 11 11 15 18 39,40 20,25.1 37 14 37 30 23 31 48 40 12,16,17 58 13,16Ht-020 16 12,13 12 28 23 10 14 13 10 13 14 18 19 15 21 11 25 11 12 11 19 19 37,39 22,23 36 14 38 29 21 32 51 38 12,19,23 50 13,15Ht-021 15 12,14 12 29 21 9 12 13 10 11 14 17 15 14 21 14 23 11 11 11 19 16 36,38 20,23,26.1 38 13 34 28 18 28 46 35 13,14 50 15,17Ht-022 15 14,18 13 30 24 10 11 14 8 12 14 18 15 18 21 10 22 10 13 11 18 20 37,38 22,24.1,25 38 13 38 28 21 27 49 38 11,13 53 13,16Ht-023 15 13,13 12 27 23 10 14 13 10 12 14 18 17 15 19 12 25 11 12 11 19 16 37,39 23,24,24.1 37 13 36 29 19 32 48 38 12,13,16 51 14Ht-024 15 13,18 14 31 25 11 13 15 10 12 14 17 15 18 23 10 22 10 13 12 17 19 37,38 20,25,26.1 42 13 38 27 19 30 48 36 11,13 51 11,13Ht-025 15 13,18 14 31 25 11 13 15 10 11 14 17 16 17 21 10 22 10 12 12 17 19 35 21,26.1 42 13 38 27 19 29 48 39 12,13 51 14Ht-026 15 12,13 12 28 23 10 15 13 10 12 14 18 16 17 22 12 24 11 12 12 19 16 38,39 23,24,24.1 37 14 38 29 21 30 48 38 12,18,20 50 15,16Ht-027 17 14,19 12 28 24 11 13 12 11 11 15 20 16 17 25 10 25 11 13 12 18 17 41 25 38 14 38 31 20 34 52 36 11,14 52 15Ht-028 15 15,20 13 30 25 11 13 14 10 12 14 18 14 15 22 11 24 10 12 12 17 18 36,39 21,23.1,24 41 13 36 29 21 29 48 38 11,12,14 52 13Ht-029 15 12,18 12 28 24 10 13 13 10 13 14 19 15 17 21 12 22 13 11 11 15 20 39,40 21,25,26.1 36 15 39 30 22 31 51 39 13,16,17 59 13,14Ht-030 15 14,17 12 27 24 10 14 12 11 11 15 20 15 21 20 12 23 12 12 11 19 17 36,37 20,23.1,24 34 17 40 28 18 35 49 34 14,15,16 52 13Ht-031 15 12,15 12 29 21 9 12 14 10 11 14 17 14 14 21 13 24 11 13 11 18 15 36,38 21,24,26.1 38 13 35 29 22 29 48 36 13,14 49 15Ht-032 14 12,20 13 29 24 11 12 14 9 11 15 16 15 16 21 11 26 11 13 12 17 16 37,38 21,24.1 39 13 34 33 20 29 48 34 14,16 50 14Ht-033 15 13,13 12 28 23 10 14 13 10 11 14 17 19 16 19 12 24 11 12 11 20 19 40,41 22,23,24.1 37 13 35 30 19 29 47 38 9,20,22 50 14,15Ht-034 13 15,15.2 13 30 25 10 12 13 8 11 14 19 15 17 20 12 21 12 12 12 19 18 35,39 20,25 40 14 39 28 21 24 45 38 15,17,18 44 14Ht-035 15 12,15 12 28 23 10 14 13 11 12 15 18 17 16 30 12 23 11 12 11 20 17 37,40 19,20,27 38 13 40 30 22 31 47 36 11,16,17 50 16Ht-036 15 14,14 12 28 23 10 15 13 10 11 14 16 18 18 21 12 27 11 12 11 17 18 38,39 21,23,27.1 38 13 37 30 21 29 49 37 12,13,16 53 14,16Ht-037 16 12,14 13 31 25 11 11 13 11 11 14 20 15 16 23 13 23 12 12 10 19 20 36,37 19.1,20,25 42 15 39 33 18 31 48 37 8,15,16 50 14Ht-038 15 13,13 12 30 23 10 14 13 10 11 14 18 16 16 20 11 24 11 12 11 17 17 37,39 22,23,24.1 38 13 36 30 23 32 49 38 13,18,22 51 15,16Ht-039 15 13,13 12 28 23 10 14 13 10 11 14 18 15 16 20 12 24 11 12 11 20 17 35,39 22,24.1,25 35 14 36 27 21 31 54 38 12,17 51 12,13Ht-040 15 12,16 12 28 24 10 13 12 10 12 14 19 15 16 22 12 24 13 11 11 16 17 38,39 22,24.1 38 15 37 29 22 32 50 39 16 59 12,16Ht-041 17 13,14 12 29 23 10 14 13 10 12 14 16 15 18 21 12 27 11 13 11 17 17 38,39 21,24,26.1 36 13 38 33 19 30 50 39 11,16 52 14,15Ht-042 15 12,17 12 28 24 10 13 13 10 12 15 19 15 16 21 12 24 13 12 11 14 19 39,40 21,24.1,25.1 37 14 37 32 21 29 49 36 15 55 13,16Ht-043 15 13,15 13 30 23 10 14 12 10 12 14 19 16 16 20 12 25 11 13 11 20 18 38,39 19,22,28.1 40 13 36 29 17.2 30 48 35 14,17 50 14Ht-044 15 11,14 13 31 25 10 11 13 11 10 14 20 15 15 23 12 23 12 12 10 19 16 36,39 21,22.1,26 44 16 41 34 17 32 48 38 12,13,16 49 14,17Ht-045 15 12,12 12 28 23 10 13 12 10 13 13 19 15 17 19 12 21 12 13 10 16 18 35,36 21,22.1,24 34 14 39 32 20 31 53 32 14,15,18 59 13,14Ht-046 15 11,17 12 28 21 11 11 12 10 12 14 21 15 18 24 11 27 12 13 9 19 19 33,39 21,22.1,24 40 14 36 33 24 30 44 40 10.2,12,16 52 8,13Ht-047 15 12,14 12 29 21 9 12 13 10 11 14 17 15 14 21 14 23 11 12 11 17 16 36,41 19,24,24.1 38 13 36 31 18 29 47 35 12,15,16 50 15Ht-048 13 13,20 13 28 25 10 13 13 10 11 14 20 14 16 22 11 26 11 13 11.1 16 17 37,39 22,24,30.1 37 13 38 29 21 30 49 36 13,14,16 50 15,16Ht-049 15 12,15 12 28 23 10 13 13 10 12 15 19 16 15 22 11 24 13 11 11 15 18 39 20,24.1 35 14 36 30 22 32 49 40 13,17 58 13,16Ht-050 16 15,16 13 29 23 11 12 13 10 11 15 19 15 18 21 11 26 12 13 11 18 14 36 21,24.1 38 14 38 31 20 36 51 35 14,18 51 15Ht-051 15 13,13 12 28 23 10 13 13 10 11 14 17 19 15 19 12 24 11 13 11 16 18 36,38 20,21,22,23,23.1 38 13 35 29 20 31 48 37 10,19 52 14Ht-052 15 12,13 12 27 24 10 13 12 10 13 15 19 14 15 21 12 22 13 11 11 15 19 36,41 20,24.1 36 14 38 29 22 30 51 38 14,16,17 56 13,15Ht-053 15 12,17 12 28 24 10 13 12 10 14 14 19 15 17 21 13 24 12 11 11 15 18 37,41 21,23,26.1 38 15 40 31 23 31 51 39 13,17 59 13,14Ht-054 15 12,13 12 29 23 10 14 13 10 11 14 18 17 17 19 11 24 11 12 11 19 17 37,39 23,24,24.1 37 13 37 29 18 31 47 38 13,17,18 48 14,15Ht-055 15 13,21 13 29 24 10 13 12 10 13 15 19 15 17 21 12 27 11 12 11 18 17 38,39 20,21.1,23 41 14 40 30 22 33 53 36 12,13,15 58 15Ht-056 15 13,18 14 31 25 11 13 15 10 11 14 17 16 17 21 10 22 10 13 12 17 18 36 21,25.1 41 13 38 27 19 29 48 39 12,13 51 14Ht-057 15 12,18 14 31 25 11 13 14 10 11 14 17 15 17 22 10 22 10 13 12 17 18 36,38 21,24,26.1 42 13 36 26 21 28 48 37 11,13 52 13,14Ht-058 15 11,17 12 28 23 10 12 12 10 14 15 19 15 15 20 11 21 13 13 11 15 16 37,38 19,23,23.1 35 15 39 31 22 34 51 36 14 56 12,14Ht-059 15 14,15 13 29 24 10 11 13 9 11 14 20 15 18 20 12 27 11 13 11 18 18 39 26.1,27.1 43 13 35 31 21 26 48 38 11,12 49 15Ht-060 14 11,11 13 29 24 11 13 13 12 13 15 19 15 18 23 11 21 12 12 10 18 18 34,36 20,24,26.1 37 14 37 29 22 32 48 38 11,13,18 50 15Ht-061 16 11,16 12 28 24 10 14 13 10 12 15 19 17 17 21 12 24 12 11 11 15 18 39,40 22,23.1,27.1 38 14 37 33 23 31 50 39 14,18 57 13,16Ht-062 15 12,17 12 28 24 11 13 12 10 12 14 19 15 16 22 12 23 13 11 11 16 18 40 20,24,25.1 36 15 38 30 23 31 51 39 12,15,16 58 13,15Ht-063 16 11,17 12 28 24 10 13 12 10 12 16 19 15 13 22 11 24 12 11 11 15 18 37,39 20,24.1,26.1 39 12 37 32 22 31 49 39 12,15,17 60 14,15Ht-064 13 15,15 12 30 23 10 11 14 11 12 15 19 15 15 19 12 25 12 12 10 19 18 37,39 18.3,23,25 36 16 38 35 19 26 52 35 13,14,17 44 16,17Ht-065 16 12,19 12 31 25 10 13 12 10 11 14 19 14 18 24 12 24 11 13 10 18 17 36,37 20,23,23.1 40 14 37 30 22 33 47 36 11,12,13 53 15Ht-066 17 13,13 13 29 22 10 11 13 10 11 14 16 17 19 21 12 27 12 13 11 19 16 39,40 18,22,26.1 37 14 38 31 22 29 49 39 12,13,17 52 14,16Ht-067 14 15,20 12 29 23 10 14 12 11 12 15 20 13 17 20 12 23 11 13 11 17 18 35,38 21,24,28.1 37 16 38 28 22 36 52 38 14,15 54 13,14Ht-068 14 15,18 12 28 23 10 14 12 11 12 15 20 15 18 20 12 23 11 13 11 18 18 35,39 21,23,25.1 38 16 39 28 20 32 50 37 14,16 54 13,14Ht-069 15 12,21 12 29 24 10 13 13 10 13 14 20 14 18 21 12 25 11 13 11 18 18 36,38 22,23,25.1 39 14 37 32 23 29 53 38 13,15,16 54 14,15Ht-070 15 12,16 12 28 24 11 13 13 10 13 15 19 15 16 24 12 24 14 11 10 15 18 39 22,23.1,25.1 37 14 37 29 24 29 51 40 15,17,18 56 13Ht-071 15 13,13 12 28 23 10 14 13 10 13 15 18 16 15 21 11 24 11 11 11 16 16 37,38 22,23.1 39 14 38 29 22 30 50 39 12,15,18 51 14,15Ht-072 17 13,23 14 31 24 10 13 12 10 12 15 20 14 17 22 12 23 11 12 11 16 16 34,40 20.1,21,25 40 16 42 31 23 33 49 35 13 54 13,14Ht-073 15 13,14 12 26 22 10 14 13 10 12 14 18 15 17 20 12 26 11 12 11 18 16 35,37 20,21,23.1 37 13 37 28 19 29 48 42.2 13 49 14,16Ht-074 16 13,14 12 28 23 10 14 13 10 11 14 16 16 17 21 11 27 11 12 11 19 16 38 22,27.1 38 13 37 31 21 30 49 37 11,16,17 54 14Ht-075 16 14,14 12 27 23 10 12 15 10 13 14 17 16 14 22 12 25 11 13 11 19 16 37,39 21,23,25.1 39 13 35 30 19 28 50 39 13,14,16 50 14,16Ht-076 15 11,16 12 27 21 10 11 12 10 11 14 21 15 17 21 11 27 11 13 9 18 18 33,38 22,23,24.1 39 14 37 32 20 30 44 37 10.2,11,16 54 12,14

Salvador et al.: Filipino Y-STR DNA VariationSpecial Issue on Genomics

54

Page 13: Filipino DNA Variation at 36 Y-chromosomal Short Tandem Repeat (STR… · 2019. 10. 9. · INTRODUCTION Male-specific polymorphisms on the non-recombining region (NRY) of the Y-chromosome,

Table I. Y-STI haplotype data of 299 Filipino samples.

DY

S19

DY

S385

a/b

DY

S389

I

DY

S389

II

DY

S390

DY

S391

DY

S392

DY

S393

DY

S438

DY

S439

DY

S437

DY

S448

DY

S456

DY

S458

DY

S635

YG

ATA

H4

DY

S481

DY

S533

DY

S549

DY

S643

DY

S570

DY

S576

DY

F387

S1

DY

F399

S1

DY

S518

DY

S526

a

DY

S526

b

DY

S626

DY

S627

DY

S449

DY

S547

DY

S612

DY

F403

S1a

DY

F403

S1b

DY

F404

S1

Ht-001 16 13,20 13 28 25 10 13 12 10 12 14 19 14 18 24 12 24 12 12 10 18 17 35,38 20,24,26.1 38 14 36 30 22 31 49 36 11,14 53 15,16Ht-002 15 11,15 12 27 21 10 11 12 10 11 14 21 15 19 24 11 25 12 14 9 19 18 33,38 21,22.1 39 14 37 35 21 29 44 39 10.2,12,18 51 12,14Ht-003 15 12,15 12 28 25 11 13 13 10 14 14 19 15 17 22 12 25 12 11 12 15 18 39,40 20,23,25.1 35 15 38 30 22 32 51 36 12,17 56 13,16Ht-004 15 13,19 13 31 25 11 13 15 10 11 14 17 15 18 21 10 22 10 14 13 16 20 36,38 22,27.1,28 41 13 38 27 22 29 49 37 11,12,13 51 13,14Ht-005 16 11,16 13 29 23 11 11 15 10 11 14 21 16 19 21 11 23 14 12 9 16 18 37,39 22,23.1,24 38 12 34 32 17 30 44 34 11,15,16 46 15,16Ht-006 15 13,16 13 29 25 11 13 12 10 12 14 19 15 15 21 11 25 12 11 11 16 17 39,40 20,25.1,26 38 15 37 29 23 32 50 36 15,16 59 13,15Ht-007 15 15,19 13 29 25 10 13 13 10 14 14 18 16 17 21 11 23 10 12 12 17 19 36,37 20,22,24.1 40 13 37 29 21 28 46 36 11,12,14 53 12,13Ht-008 15 11,13 12 29 21 9 12 14 10 10 14 17 15 14 21 13 24 11 12 11 17 15 37 19,24.1 39 13 35 30 18 31 49 31.2 13,14 47 14Ht-009 15 15,20 13 31 25 12 13 13 10 12 14 18 16 15 21 11 23 10 12 12 17 22 36,37 21,23,27.1 41 13 38 30 22 28 48 38 12,13,14 51 13Ht-010 14 12,14 13 28 24 10 14 13 11 12 15 18 16 17 27 13 17 11 12 11 19 18 36,40 20,21,25 38 13 42 28 23 30 47 37 11,15,16 50 17Ht-011 15 13,13 12 28 23 10 14 13 10 11 14 18 18 16 19 11 23 11 12 11 20 19 37,40 23,24,25.1 38 13 37 29 19 30 47 38 12,18 50 14Ht-012 16 16,19 11 27 24 11 13 14 10 11 14 18 15 18 23 10 21 10 11 12 20 18 36,38 20,22,24.1 41 13 37 29 23 26 47 35 10,13,16 51 13,18Ht-013 15 12,17 12 28 24 11 13 12 10 12 14 19 15 16 21 11 23 13 11 11 16 18 38,40 21,23,26.1 36 15 38 30 21 31 51 38 12,15,16 57 13,16Ht-014 15 13,15 11 27 24 10 13 13 10 12 15 19 14 17 21 12 24 12 11 11 14 19 39,41 21,27.1 38 14 38 31 24 30 50 37 14,15,17 59 13,15Ht-015 17 12,14 12 28 24 10 12 14 10 12 14 17 16 13 20 12 25 11 12 11 19 19 36,40 20,26,26.1 40 13 35 30 23 28 48 36 13 50 15,16Ht-016 15 13,14 12 28 21 9 12 14 10 12 14 17 15 14 22 13 23 11 11 11 17 16 36,39 23,24.1,25 40 13 34 29 21 29 47 35 12,13,14 49 15Ht-017 15 12,13 12 28 23 10 14 13 10 13 14 18 18 17 21 12 24 11 12 12 18 16 37,38 22,24.1 37 15 38 29 21 30 50 35 11,17,19 50 14Ht-018 17 13,19 12 28 24 10 13 12 10 12 15 19 15 15 21 13 24 11 11 11 18 19 37 22,23,23.1 39 15 35 33 23 34 50 36 13 50 14Ht-019 15 12,15 12 28 24 10 13 13 10 12 15 19 16 15 22 11 24 13 11 11 15 18 39,40 20,25.1 37 14 37 30 23 31 48 40 12,16,17 58 13,16Ht-020 16 12,13 12 28 23 10 14 13 10 13 14 18 19 15 21 11 25 11 12 11 19 19 37,39 22,23 36 14 38 29 21 32 51 38 12,19,23 50 13,15Ht-021 15 12,14 12 29 21 9 12 13 10 11 14 17 15 14 21 14 23 11 11 11 19 16 36,38 20,23,26.1 38 13 34 28 18 28 46 35 13,14 50 15,17Ht-022 15 14,18 13 30 24 10 11 14 8 12 14 18 15 18 21 10 22 10 13 11 18 20 37,38 22,24.1,25 38 13 38 28 21 27 49 38 11,13 53 13,16Ht-023 15 13,13 12 27 23 10 14 13 10 12 14 18 17 15 19 12 25 11 12 11 19 16 37,39 23,24,24.1 37 13 36 29 19 32 48 38 12,13,16 51 14Ht-024 15 13,18 14 31 25 11 13 15 10 12 14 17 15 18 23 10 22 10 13 12 17 19 37,38 20,25,26.1 42 13 38 27 19 30 48 36 11,13 51 11,13Ht-025 15 13,18 14 31 25 11 13 15 10 11 14 17 16 17 21 10 22 10 12 12 17 19 35 21,26.1 42 13 38 27 19 29 48 39 12,13 51 14Ht-026 15 12,13 12 28 23 10 15 13 10 12 14 18 16 17 22 12 24 11 12 12 19 16 38,39 23,24,24.1 37 14 38 29 21 30 48 38 12,18,20 50 15,16Ht-027 17 14,19 12 28 24 11 13 12 11 11 15 20 16 17 25 10 25 11 13 12 18 17 41 25 38 14 38 31 20 34 52 36 11,14 52 15Ht-028 15 15,20 13 30 25 11 13 14 10 12 14 18 14 15 22 11 24 10 12 12 17 18 36,39 21,23.1,24 41 13 36 29 21 29 48 38 11,12,14 52 13Ht-029 15 12,18 12 28 24 10 13 13 10 13 14 19 15 17 21 12 22 13 11 11 15 20 39,40 21,25,26.1 36 15 39 30 22 31 51 39 13,16,17 59 13,14Ht-030 15 14,17 12 27 24 10 14 12 11 11 15 20 15 21 20 12 23 12 12 11 19 17 36,37 20,23.1,24 34 17 40 28 18 35 49 34 14,15,16 52 13Ht-031 15 12,15 12 29 21 9 12 14 10 11 14 17 14 14 21 13 24 11 13 11 18 15 36,38 21,24,26.1 38 13 35 29 22 29 48 36 13,14 49 15Ht-032 14 12,20 13 29 24 11 12 14 9 11 15 16 15 16 21 11 26 11 13 12 17 16 37,38 21,24.1 39 13 34 33 20 29 48 34 14,16 50 14Ht-033 15 13,13 12 28 23 10 14 13 10 11 14 17 19 16 19 12 24 11 12 11 20 19 40,41 22,23,24.1 37 13 35 30 19 29 47 38 9,20,22 50 14,15Ht-034 13 15,15.2 13 30 25 10 12 13 8 11 14 19 15 17 20 12 21 12 12 12 19 18 35,39 20,25 40 14 39 28 21 24 45 38 15,17,18 44 14Ht-035 15 12,15 12 28 23 10 14 13 11 12 15 18 17 16 30 12 23 11 12 11 20 17 37,40 19,20,27 38 13 40 30 22 31 47 36 11,16,17 50 16Ht-036 15 14,14 12 28 23 10 15 13 10 11 14 16 18 18 21 12 27 11 12 11 17 18 38,39 21,23,27.1 38 13 37 30 21 29 49 37 12,13,16 53 14,16Ht-037 16 12,14 13 31 25 11 11 13 11 11 14 20 15 16 23 13 23 12 12 10 19 20 36,37 19.1,20,25 42 15 39 33 18 31 48 37 8,15,16 50 14Ht-038 15 13,13 12 30 23 10 14 13 10 11 14 18 16 16 20 11 24 11 12 11 17 17 37,39 22,23,24.1 38 13 36 30 23 32 49 38 13,18,22 51 15,16Ht-039 15 13,13 12 28 23 10 14 13 10 11 14 18 15 16 20 12 24 11 12 11 20 17 35,39 22,24.1,25 35 14 36 27 21 31 54 38 12,17 51 12,13Ht-040 15 12,16 12 28 24 10 13 12 10 12 14 19 15 16 22 12 24 13 11 11 16 17 38,39 22,24.1 38 15 37 29 22 32 50 39 16 59 12,16Ht-041 17 13,14 12 29 23 10 14 13 10 12 14 16 15 18 21 12 27 11 13 11 17 17 38,39 21,24,26.1 36 13 38 33 19 30 50 39 11,16 52 14,15Ht-042 15 12,17 12 28 24 10 13 13 10 12 15 19 15 16 21 12 24 13 12 11 14 19 39,40 21,24.1,25.1 37 14 37 32 21 29 49 36 15 55 13,16Ht-043 15 13,15 13 30 23 10 14 12 10 12 14 19 16 16 20 12 25 11 13 11 20 18 38,39 19,22,28.1 40 13 36 29 17.2 30 48 35 14,17 50 14Ht-044 15 11,14 13 31 25 10 11 13 11 10 14 20 15 15 23 12 23 12 12 10 19 16 36,39 21,22.1,26 44 16 41 34 17 32 48 38 12,13,16 49 14,17Ht-045 15 12,12 12 28 23 10 13 12 10 13 13 19 15 17 19 12 21 12 13 10 16 18 35,36 21,22.1,24 34 14 39 32 20 31 53 32 14,15,18 59 13,14Ht-046 15 11,17 12 28 21 11 11 12 10 12 14 21 15 18 24 11 27 12 13 9 19 19 33,39 21,22.1,24 40 14 36 33 24 30 44 40 10.2,12,16 52 8,13Ht-047 15 12,14 12 29 21 9 12 13 10 11 14 17 15 14 21 14 23 11 12 11 17 16 36,41 19,24,24.1 38 13 36 31 18 29 47 35 12,15,16 50 15Ht-048 13 13,20 13 28 25 10 13 13 10 11 14 20 14 16 22 11 26 11 13 11.1 16 17 37,39 22,24,30.1 37 13 38 29 21 30 49 36 13,14,16 50 15,16Ht-049 15 12,15 12 28 23 10 13 13 10 12 15 19 16 15 22 11 24 13 11 11 15 18 39 20,24.1 35 14 36 30 22 32 49 40 13,17 58 13,16Ht-050 16 15,16 13 29 23 11 12 13 10 11 15 19 15 18 21 11 26 12 13 11 18 14 36 21,24.1 38 14 38 31 20 36 51 35 14,18 51 15Ht-051 15 13,13 12 28 23 10 13 13 10 11 14 17 19 15 19 12 24 11 13 11 16 18 36,38 20,21,22,23,23.1 38 13 35 29 20 31 48 37 10,19 52 14Ht-052 15 12,13 12 27 24 10 13 12 10 13 15 19 14 15 21 12 22 13 11 11 15 19 36,41 20,24.1 36 14 38 29 22 30 51 38 14,16,17 56 13,15Ht-053 15 12,17 12 28 24 10 13 12 10 14 14 19 15 17 21 13 24 12 11 11 15 18 37,41 21,23,26.1 38 15 40 31 23 31 51 39 13,17 59 13,14Ht-054 15 12,13 12 29 23 10 14 13 10 11 14 18 17 17 19 11 24 11 12 11 19 17 37,39 23,24,24.1 37 13 37 29 18 31 47 38 13,17,18 48 14,15Ht-055 15 13,21 13 29 24 10 13 12 10 13 15 19 15 17 21 12 27 11 12 11 18 17 38,39 20,21.1,23 41 14 40 30 22 33 53 36 12,13,15 58 15Ht-056 15 13,18 14 31 25 11 13 15 10 11 14 17 16 17 21 10 22 10 13 12 17 18 36 21,25.1 41 13 38 27 19 29 48 39 12,13 51 14Ht-057 15 12,18 14 31 25 11 13 14 10 11 14 17 15 17 22 10 22 10 13 12 17 18 36,38 21,24,26.1 42 13 36 26 21 28 48 37 11,13 52 13,14Ht-058 15 11,17 12 28 23 10 12 12 10 14 15 19 15 15 20 11 21 13 13 11 15 16 37,38 19,23,23.1 35 15 39 31 22 34 51 36 14 56 12,14Ht-059 15 14,15 13 29 24 10 11 13 9 11 14 20 15 18 20 12 27 11 13 11 18 18 39 26.1,27.1 43 13 35 31 21 26 48 38 11,12 49 15Ht-060 14 11,11 13 29 24 11 13 13 12 13 15 19 15 18 23 11 21 12 12 10 18 18 34,36 20,24,26.1 37 14 37 29 22 32 48 38 11,13,18 50 15Ht-061 16 11,16 12 28 24 10 14 13 10 12 15 19 17 17 21 12 24 12 11 11 15 18 39,40 22,23.1,27.1 38 14 37 33 23 31 50 39 14,18 57 13,16Ht-062 15 12,17 12 28 24 11 13 12 10 12 14 19 15 16 22 12 23 13 11 11 16 18 40 20,24,25.1 36 15 38 30 23 31 51 39 12,15,16 58 13,15Ht-063 16 11,17 12 28 24 10 13 12 10 12 16 19 15 13 22 11 24 12 11 11 15 18 37,39 20,24.1,26.1 39 12 37 32 22 31 49 39 12,15,17 60 14,15Ht-064 13 15,15 12 30 23 10 11 14 11 12 15 19 15 15 19 12 25 12 12 10 19 18 37,39 18.3,23,25 36 16 38 35 19 26 52 35 13,14,17 44 16,17Ht-065 16 12,19 12 31 25 10 13 12 10 11 14 19 14 18 24 12 24 11 13 10 18 17 36,37 20,23,23.1 40 14 37 30 22 33 47 36 11,12,13 53 15Ht-066 17 13,13 13 29 22 10 11 13 10 11 14 16 17 19 21 12 27 12 13 11 19 16 39,40 18,22,26.1 37 14 38 31 22 29 49 39 12,13,17 52 14,16Ht-067 14 15,20 12 29 23 10 14 12 11 12 15 20 13 17 20 12 23 11 13 11 17 18 35,38 21,24,28.1 37 16 38 28 22 36 52 38 14,15 54 13,14Ht-068 14 15,18 12 28 23 10 14 12 11 12 15 20 15 18 20 12 23 11 13 11 18 18 35,39 21,23,25.1 38 16 39 28 20 32 50 37 14,16 54 13,14Ht-069 15 12,21 12 29 24 10 13 13 10 13 14 20 14 18 21 12 25 11 13 11 18 18 36,38 22,23,25.1 39 14 37 32 23 29 53 38 13,15,16 54 14,15Ht-070 15 12,16 12 28 24 11 13 13 10 13 15 19 15 16 24 12 24 14 11 10 15 18 39 22,23.1,25.1 37 14 37 29 24 29 51 40 15,17,18 56 13Ht-071 15 13,13 12 28 23 10 14 13 10 13 15 18 16 15 21 11 24 11 11 11 16 16 37,38 22,23.1 39 14 38 29 22 30 50 39 12,15,18 51 14,15Ht-072 17 13,23 14 31 24 10 13 12 10 12 15 20 14 17 22 12 23 11 12 11 16 16 34,40 20.1,21,25 40 16 42 31 23 33 49 35 13 54 13,14Ht-073 15 13,14 12 26 22 10 14 13 10 12 14 18 15 17 20 12 26 11 12 11 18 16 35,37 20,21,23.1 37 13 37 28 19 29 48 42.2 13 49 14,16Ht-074 16 13,14 12 28 23 10 14 13 10 11 14 16 16 17 21 11 27 11 12 11 19 16 38 22,27.1 38 13 37 31 21 30 49 37 11,16,17 54 14Ht-075 16 14,14 12 27 23 10 12 15 10 13 14 17 16 14 22 12 25 11 13 11 19 16 37,39 21,23,25.1 39 13 35 30 19 28 50 39 13,14,16 50 14,16Ht-076 15 11,16 12 27 21 10 11 12 10 11 14 21 15 17 21 11 27 11 13 9 18 18 33,38 22,23,24.1 39 14 37 32 20 30 44 37 10.2,11,16 54 12,14

Salvador et al.: Filipino Y-STR DNA VariationSpecial Issue on Genomics

55

Page 14: Filipino DNA Variation at 36 Y-chromosomal Short Tandem Repeat (STR… · 2019. 10. 9. · INTRODUCTION Male-specific polymorphisms on the non-recombining region (NRY) of the Y-chromosome,

Table 1. Y-STI haplotype data of 299 Filipino samples.

DY

S19

DY

S385

a/b

DY

S389

I

DY

S389

II

DY

S390

DY

S391

DY

S392

DY

S393

DY

S438

DY

S439

DY

S437

DY

S448

DY

S456

DY

S458

DY

S635

YG

ATA

H4

DY

S481

DY

S533

DY

S549

DY

S643

DY

S570

DY

S576

DY

F387

S1

DY

F399

S1

DY

S518

DY

S526

a

DY

S526

b

DY

S626

DY

S627

DY

S449

DY

S547

DY

S612

DY

F403

S1a

DY

F403

S1b

DY

F404

S1

Ht-077 15 13,13 12 27 24 10 14 13 10 12 14 18 15 15 20 12 23 11 11 11 19 18 36,41 22,22.1 39 13 36 29 21 30 48 35 12,16,18 50 15Ht-078 16 12,14 12 28 23 10 12 14 10 11 14 19 15 15 21 12 25 11 13 11 17 17 37,40 20,23,24.1 40 13 35 30 19 27 49 34 13,14,15 50 14,15Ht-079 15 12,16 12 28 24 10 13 13 10 13 14 19 16 17 21 12 24 13 11 11 17 18 39 23,24.1,25.1 34 14 37 31 25 30 51 38 15,16,17 58 13,16Ht-080 16 13,13 12 27 23 10 14 13 10 11 14 18 17 15 19 12 24 11 12 11 18 17 38,40 23,26.1 35 14 37 29 21 29 45 34 12,17,20 51 13,14Ht-081 13 13,19 13 29 25 11 13 13 10 11 14 20 14 16 21 11 24 11 12 11.1 16 21 35,41 21.1,22,23 37 13 39 31 20 34 50 37 15 49 14,18Ht-082 15 11,16 12 28 25 10 13 13 10 13 14 19 15 17 23 12 24 12 11 11 15 17 38,39 22,25.1 37 15 41 30 22 31 49 35 14,16 57 13,16Ht-083 15 16,16 12 29 24 10 13 14 10 10 14 19 14 16 23 12 25 12 13 10 20 15 36,39 18,22.1,23 40 15 40 29 22 27 49 36 7,15,16 50 12,14Ht-084 15 13,13 12 28 22 10 15 13 10 13 14 18 17 15 20 12 24 11 12 11 19 16 37,39 24,25,25.1 38 13 36 29 20 31 49 39 9,13,16 51 14,15Ht-085 15 12,17 12 28 24 11 13 12 10 12 14 19 15 16 21 12 23 13 11 11 16 18 39,40 21,24,27.1 37 15 39 31 22 31 50 38 11,15,16 58 13,15Ht-086 15 12,17 12 28 25 11 13 12 10 12 14 19 15 16 22 12 23 13 11 11 16 18 39,40 21,24,27.1 37 15 39 30 21 31 50 39 12,15,16 58 13,15Ht-087 16 12,14 12 28 23 10 12 14 10 12 14 19 15 14 21 11 25 11 13 11 18 18 38,40 20,22.1,24 39 13 37 30 19 27 47 35 11,13,16 51 14,15Ht-088 15 12,13 12 28 23 10 14 13 10 13 14 18 17 15 23 11 24 12 12 11 18 16 37,39 21,22,24.1 37 14 37 28 22 28 49 42 11,18 50 15,17Ht-089 14 12,14 12 29 21 9 12 13 10 11 14 17 15 14 22 13 25 11 13 11 18 15 36 19,25.1 39 13 34 28 18 29 47 36 13,15 49 16Ht-090 15 12,16 13 29 24 10 13 13 10 13 14 19 15 16 24 13 24 12 11 11 15 18 39 20,23,25.1 37 16 40 29 22 31 48 38 14,17 58 13,16Ht-091 15 13,18 14 30 24 10 13 14 10 11 14 18 15 18 23 10 24 10 12 10 20 19 36 20,25.1,28 43 13 37 29 20 26 48 37 12,13,15 51 13,15Ht-092 15 13,23 12 28 25 10 14 12 10 11 15 20 15 17 21 11 23 12 12 11 20 19 37,40 21,25,25.1 39 14 36 29 20 34 48 36 11,13,16 51 13,14Ht-093 15 12,13 12 28 23 10 14 13 10 12 14 17 17 15 23 12 24 11 12 11 18 20 37,39 21,23,23.1 37 14 38 30 21 30 51 38 11,18,19 48 14,16Ht-094 16 11,15 13 32 25 10 11 13 11 10 14 22 15 16 23 13 23 12 12 10 20 21 37,39 20.1,22,24 39 15 38 34 17 31 48 37 9,14,16 52 14,15Ht-095 15 12,16 11 27 24 10 13 13 10 12 15 19 15 16 21 12 24 13 11 11 15 18 38,40 21,25.1,26.1 36 14 38 31 23 31 50 36 14,16,17 61 13,17Ht-096 17 13,15 12 29 23 10 14 13 10 11 14 16 16 18 24 12 26 11 12 11 17 17 38 18,22,27.1 38 12 35 31 22 28 50 36 11,14,19 51 14,16Ht-097 15 12,16 12 29 24 10 13 13 10 12 15 19 15 17 21 12 25 13 11 11 14 19 39 20,25.1,29.1 38 14 38 31 22 28 50 37 13,15,16 59 13,17Ht-098 15 12,16 12 28 24 10 12 13 10 14 15 19 15 17 24 12 24 12 11 11 15 17 37,38 23.1,24.1,25.1 38 14 37 31 21 30 48 39 13,17 60 14,16Ht-099 16 12,14 13 31 24 10 11 13 11 11 14 20 16 15 23 11 24 13 12 10 19 20 37,38 23,23.2,26.1 41 15 39 31 17 28 48 37 11,16,17 50 14,16Ht-100 15 12,16 12 28 24 10 13 13 10 12 15 19 15 18 22 13 24 13 11 11 14 21 40,41 21,24.1,27.1 36 14 37 31 21 32 51 37 13,17 56 14,15Ht-101 17 13,18 13 28 24 10 13 13 10 11 14 20 15 21 22 11 27 11 13 10 18 17 36,38 19,24,25.1 41 15 38 29 20 26 48 36 10,11,14 54 14,15Ht-102 15 13,13 12 28 23 10 14 13 10 11 14 18 18 16 21 11 25 11 12 11 18 15 36,38 21,24,25.1 37 14 38 29 21 31 49 37 11,17,18 50 14,15Ht-103 13 13,14 12 28 24 11 14.1 12 11 12 14 20 15 18 20 12 25 13 12 10 20 20 35,38 23,24,24.1 36 15 38 28 20 33 47 37 13,15,17 53 13Ht-104 15 12,16 12 28 24 11 13 12 10 12 14 19 15 16 21 11 25 14 11 11 16 15 39,40 20,23,25.1 37 15 36 30 27 31 51 37 13,16 59 14,15Ht-105 15 12,17 12 28 24 10 13 13 10 13 15 19 17 15 23 12 26 12 11 11 14 18 40,41 21,27.1 36 14 41 31 20 29 52 33 14,16,17 61 13,16Ht-106 15 13,17 13 30 24 11 13 14 10 12 14 18 15 17 23 11 23 10 12 12 17 20 37,38 21,24.1,25 41 13 39 31 20 26 51 37 11,12,15 50 12,16Ht-107 15 12,17 14 31 22 9 13 14 10 11 16 20 14 17 22 13 23 13 12 15 18 17 37 20,26.1 36 14 37 30 18 29 47 33 14 46 16Ht-108 15 13,18 14 31 24 12 13 14 10 12 14 18 15 17 21 10 22 10 13 13 17 19 37,38 20,24.1,26.1 41 13 37 27 23 27 47 35 11,13.1 51 13,14Ht-109 16 11,16 12 29 25 10 13 12 10 13 15 19 15 16 21 13 26 12 12 11 15 17 39,42 22,24.1,25 37 14 38 28 20 31 49 37 15,16,18 57 13,14Ht-110 15 11,18 13 29 23 10 13 12 11 10 14 20 13 16 23 12 23 11 13 9 17 15 37,39 21,22,22.1 36 13 37 33 21 31 45 36 10,13,16 49 13,14Ht-111 15 13,21 13 28 23 10 13 12 10 13 15 19 15 18 20 11 27 11 12 11 18 18 38,39 20,21.1,25 40 14 39 31 22 33 51 38 12,15 56 15,16Ht-112 15 12,15 12 29 23 10 12 14 10 12 14 17 14 14 22 11 25 11 15 11 19 16 38,39 20,24,25.1 40 13 35 30 19 28 48 33 12,14,16 49 14,15Ht-113 15 12,13 12 29 23 10 14 13 10 12 14 18 17 15 21 10 25 11 12 11 17 17 37,38 22,23 37 14 36 30 20 30 48 37 12,18,19 49 15Ht-114 16 12,15 12 28 23 10 14 13 10 12 14 16 16 19 22 12 27 11 14 11 16 18 36,38 20,24,27.1 35 14 39 32 22 29 51 36 12,14,15 51 13,15Ht-115 15 12,17 12 26 25 10 13 13 10 12 14 19 15 15 22 12 23 14 11 11 15 19 39,40 21,22.1,24 37 16 40 31 22 32 48 39 13,15,16 57 13,14Ht-116 14 12,16 12 28 24 9 14 13 10 14 15 19 16 16 21 12 24 13 10 12 15 20 38,40 22,23.1,26.1 37 15 39 30 22 30 54 36 14,16,18 54 14,15Ht-117 15 12,15 12 29 25 10 13 13 10 12 15 19 15 16 21 12 24 12 12 10 15 19 39 21,24.1,26.1 36 14 38 30 23 30 50 37 13,16,17 55 13,16Ht-118 15 13,13 12 28 22 10 15 13 10 12 14 18 17 15 19 12 24 11 12 11 19 16 37,39 24,25,25.1 38 13 36 29 20 32 49 38 9,13,16 51 14Ht-119 16 12,13 12 29 21 9 12 14 10 12 14 17 15 14 22 13 23 11 12 11 19 16 35,40 20,24.1,27 36 13 35 29 19 31 46 36 13,16,17 48 15,17Ht-120 15 12,17 12 29 24 10 13 13 10 13 15 19 15 16 22 12 25 12 11 11 15 19 38,40 21,26.1 39 14 38 32 22 30 50 37 15,16,17 57 13,16Ht-121 15 12,17 12 29 24 10 13 12 10 12 14 19 15 17 21 13 24 12 11 11 15 19 39 21,22,26.1 38 15 40 31 23 31 53 39 13,16,18 59 13,14Ht-122 15 12,15 13 29 24 10 13 13 10 13 14 19 15 16 23 12 23 13 11 11 15 17 39,40 20,23,24.1 37 15 39 31 24 30 51 39 14,16,18 58 13,17Ht-123 17 11,17 13 29 23 10 11 15 10 10 14 19 15 16 20 11 24 12 13 8 15 18 37,40 21,23,25.1 38 12 36 31 21 30 46 33 13,18,20 49 13Ht-124 17 13,14 12 28 23 10 14 13 10 12 14 16 17 17 21 12 27 12 13 11 19 17 38,39 21,22,26.1 39 13 38 30 21 31 52 37 11,15,17 51 15,17Ht-125 17 14,14 12 28 23 10 14 13 10 11 14 17 15 18 21 11 27 11 12 11 17 17 38,39 21,23.1,24 36 13 37 30 21 30 51 37 12,13,16 52 14,15Ht-126 15 12,13 12 28 23 10 14 13 10 13 14 18 18 14 21 11 25 12 12 11 18 16 37,40 22,25,26.1 36 14 38 30 21 30 49 38 12,19,20 49 14Ht-127 15 12,13 14 31 23 10 14 13 10 12 14 18 17 16 21 12 25 11 12 11 19 16 37,38 23,24.1 38 14 39 29 20 30 49 37 12,17,22 49 14,15Ht-128 15 13,14 12 30 21 9 12 13 10 12 14 17 15 15 21 14 23 11 12 11 18 16 36,39 21,24,27.1 39 13 36 29 18 28 47 35 14 49 15Ht-129 15 12,17 12 28 24 11 13 12 10 12 14 19 15 16 22 12 24 13 11 11 16 18 40 22,24,25.1 38 15 40 30 22 31 50 39 12,15,16 57 14,15Ht-130 15 12,14 12 30 23 10 12 14 10 11 14 19 15 14 21 12 25 11 13 11 17 18 37,40 21,22.1,24 40 13 38 30 19 27 47 35 9,13,16 50 14,15Ht-131 15 12,15 12 28 24 10 13 13 10 12 14 19 15 16 21 12 24 13 11 12 14 17 39 22,25.1,26.1 40 13 38 30 19 32 52 37 14,15,16 60 13,17Ht-132 15 13,13 13 29 23 10 14 13 10 10 14 18 17 17 19 12 24 11 12 11 19 17 38 21.1,22,23 39 13 36 29 19 30 47 38 12,17,19 50 14Ht-133 16 12,16 12 28 24 9 13 13 10 11 15 19 15 16 21 11 24 13 11 11 15 19 37,39 20,24.1,26.1 37 14 37 31 23 29 49 38 13,16,17 58 15,16Ht-134 15 12,15 12 29 25 10 13 13 10 13 15 19 15 17 21 12 24 12 13 11 14 19 39,40 21,25.1,26.1 37 14 38 30 21 30 52 38 15,17 58 13,15Ht-135 16 13,20 13 29 24 11 13 12 10 13 15 19 15 17 21 11 27 11 12 11 18 17 38,39 20,21.1,23 41 15 39 31 22 32 53 36 12,13,17 57 15Ht-136 15 12,18 12 28 24 10 13 12 10 12 14 19 15 16 22 11 23 13 11 11 16 18 40 21,24,25.1 37 15 39 30 21 32 50 37 12,15,16 58 13,15Ht-137 15 13,13 12 28 23 10 14 13 10 13 14 18 17 15 21 12 23 11 12 11 19 16 38 20,22,25.1 38 14 38 29 20 30 51 40 12,19 50 14Ht-138 17 14,19 12 27 24 9 13 12 11 12 15 20 15 17 20 10 24 11 12 12 19 18 35,40 20,22.1,24 38 14 36 32 20 33 54 35 11,13,14 54 15,17Ht-139 16 12,21 13 30 25 10 13 12 10 12 14 19 14 19 21 11 24 11 14 10 20 19 36,37 20,26,26.1 37 14 38 31 21 31 50 35 11,13 55 14,16Ht-140 17 12,15 12 28 23 10 14 13 10 12 14 16 18 19 22 12 25 11 14 11 16 18 37,38 20,23,28.1 36 14 39 30 22 31 51 36 12,13,17 51 14,15Ht-141 16 13,14 12 28 23 10 14 13 10 11 14 16 17 17 21 12 25 11 12 13 17 16 38 20,22,28.1 38 14 38 31 21 28 50 37 12,13,18 51 15Ht-142 16 13,14 12 29 23 10 14 13 10 12 14 16 17 19 20 12 28 11 13 11 19 16 37,40 20,21,26.1 35 13 37 31 21 28 49 38 12,13,17 52 15,16Ht-143 15 12,14 12 28 24 10 13 12 10 12 14 19 15 16 22 12 25 12 11 11 15 16 40,41 22,23,23.1 38 15 39 31 22 30 50 39 12,15,17 59 13,16Ht-144 14 12,14 12 27 23 10 14 13 12 12 15 18 15 17 28 13 17 10 12 11 19 18 36,40 20,21,27 38 13 44 28 22 29 47 37 11,16 50 16,18Ht-145 13 11,13 13 29 23 10 13 13 12 12 15 19 15 17 23 13 22 12 13 10 17 18 36 21,24.1,25 37 14 37 29 21 29 47 34 11,14,16 48 13,14Ht-146 15 12,16 12 28 24 10 13 13 10 12 14 19 15 16 21 12 25 13 11 11 15 19 39,41 22,26.1 37 15 38 31 24 33 51 37 17,18 58 13,14Ht-147 15 12,16 12 28 23 10 12 12 10 12 14 19 16 18 19 11 21 11 12 11 16 21 37,39 18,25,27.1 39 15 39 30 22 34 52 38 16,17 55 13,15Ht-148 15 12,13 13 30 23 10 15 13 10 13 14 17 19 15 21 11 25 11 13 11 18 17 37,38 22,23,24.1 35 14 38 29 21 31 49 38 12,16,18 50 14,15Ht-149 17 12,17 14 30 24 10 13 14 10 11 14 18 15 16 21 12 24 11 12 11 21 17 39,41 18,24,24.1 38 14 35 29 21 28 47 35 15,15.3,16 53 13,15Ht-150 15 13,13 12 28 23 10 12 13 10 11 14 18 18 15 19 12 24 11 13 11 18 17 39,40 22,23,24.1 38 13 36 29 20 30 47 37 10,18,20 51 14,15Ht-151 15 13,18 12 28 24 10 12 12 10 12 15 20 15 18 19 12 20 11 12 12 16 18 36,38 20,23,26.1 37 15 39 31 23 34 47 36 15,19 55 15,16Ht-152 16 12,17 14 31 22 9 13 14 10 11 16 20 14 18 21 13 22 12 12 14 19 15 36,38 19,21,24.1 39 14 37 30 18 28 51 35 12,14,18 46 14,18

Table I. continuation . . . .

Salvador et al.: Filipino Y-STR DNA VariationSpecial Issue on Genomics

56

Page 15: Filipino DNA Variation at 36 Y-chromosomal Short Tandem Repeat (STR… · 2019. 10. 9. · INTRODUCTION Male-specific polymorphisms on the non-recombining region (NRY) of the Y-chromosome,

Table 1. Y-STI haplotype data of 299 Filipino samples.

DY

S19

DY

S385

a/b

DY

S389

I

DY

S389

II

DY

S390

DY

S391

DY

S392

DY

S393

DY

S438

DY

S439

DY

S437

DY

S448

DY

S456

DY

S458

DY

S635

YG

ATA

H4

DY

S481

DY

S533

DY

S549

DY

S643

DY

S570

DY

S576

DY

F387

S1

DY

F399

S1

DY

S518

DY

S526

a

DY

S526

b

DY

S626

DY

S627

DY

S449

DY

S547

DY

S612

DY

F403

S1a

DY

F403

S1b

DY

F404

S1

Ht-077 15 13,13 12 27 24 10 14 13 10 12 14 18 15 15 20 12 23 11 11 11 19 18 36,41 22,22.1 39 13 36 29 21 30 48 35 12,16,18 50 15Ht-078 16 12,14 12 28 23 10 12 14 10 11 14 19 15 15 21 12 25 11 13 11 17 17 37,40 20,23,24.1 40 13 35 30 19 27 49 34 13,14,15 50 14,15Ht-079 15 12,16 12 28 24 10 13 13 10 13 14 19 16 17 21 12 24 13 11 11 17 18 39 23,24.1,25.1 34 14 37 31 25 30 51 38 15,16,17 58 13,16Ht-080 16 13,13 12 27 23 10 14 13 10 11 14 18 17 15 19 12 24 11 12 11 18 17 38,40 23,26.1 35 14 37 29 21 29 45 34 12,17,20 51 13,14Ht-081 13 13,19 13 29 25 11 13 13 10 11 14 20 14 16 21 11 24 11 12 11.1 16 21 35,41 21.1,22,23 37 13 39 31 20 34 50 37 15 49 14,18Ht-082 15 11,16 12 28 25 10 13 13 10 13 14 19 15 17 23 12 24 12 11 11 15 17 38,39 22,25.1 37 15 41 30 22 31 49 35 14,16 57 13,16Ht-083 15 16,16 12 29 24 10 13 14 10 10 14 19 14 16 23 12 25 12 13 10 20 15 36,39 18,22.1,23 40 15 40 29 22 27 49 36 7,15,16 50 12,14Ht-084 15 13,13 12 28 22 10 15 13 10 13 14 18 17 15 20 12 24 11 12 11 19 16 37,39 24,25,25.1 38 13 36 29 20 31 49 39 9,13,16 51 14,15Ht-085 15 12,17 12 28 24 11 13 12 10 12 14 19 15 16 21 12 23 13 11 11 16 18 39,40 21,24,27.1 37 15 39 31 22 31 50 38 11,15,16 58 13,15Ht-086 15 12,17 12 28 25 11 13 12 10 12 14 19 15 16 22 12 23 13 11 11 16 18 39,40 21,24,27.1 37 15 39 30 21 31 50 39 12,15,16 58 13,15Ht-087 16 12,14 12 28 23 10 12 14 10 12 14 19 15 14 21 11 25 11 13 11 18 18 38,40 20,22.1,24 39 13 37 30 19 27 47 35 11,13,16 51 14,15Ht-088 15 12,13 12 28 23 10 14 13 10 13 14 18 17 15 23 11 24 12 12 11 18 16 37,39 21,22,24.1 37 14 37 28 22 28 49 42 11,18 50 15,17Ht-089 14 12,14 12 29 21 9 12 13 10 11 14 17 15 14 22 13 25 11 13 11 18 15 36 19,25.1 39 13 34 28 18 29 47 36 13,15 49 16Ht-090 15 12,16 13 29 24 10 13 13 10 13 14 19 15 16 24 13 24 12 11 11 15 18 39 20,23,25.1 37 16 40 29 22 31 48 38 14,17 58 13,16Ht-091 15 13,18 14 30 24 10 13 14 10 11 14 18 15 18 23 10 24 10 12 10 20 19 36 20,25.1,28 43 13 37 29 20 26 48 37 12,13,15 51 13,15Ht-092 15 13,23 12 28 25 10 14 12 10 11 15 20 15 17 21 11 23 12 12 11 20 19 37,40 21,25,25.1 39 14 36 29 20 34 48 36 11,13,16 51 13,14Ht-093 15 12,13 12 28 23 10 14 13 10 12 14 17 17 15 23 12 24 11 12 11 18 20 37,39 21,23,23.1 37 14 38 30 21 30 51 38 11,18,19 48 14,16Ht-094 16 11,15 13 32 25 10 11 13 11 10 14 22 15 16 23 13 23 12 12 10 20 21 37,39 20.1,22,24 39 15 38 34 17 31 48 37 9,14,16 52 14,15Ht-095 15 12,16 11 27 24 10 13 13 10 12 15 19 15 16 21 12 24 13 11 11 15 18 38,40 21,25.1,26.1 36 14 38 31 23 31 50 36 14,16,17 61 13,17Ht-096 17 13,15 12 29 23 10 14 13 10 11 14 16 16 18 24 12 26 11 12 11 17 17 38 18,22,27.1 38 12 35 31 22 28 50 36 11,14,19 51 14,16Ht-097 15 12,16 12 29 24 10 13 13 10 12 15 19 15 17 21 12 25 13 11 11 14 19 39 20,25.1,29.1 38 14 38 31 22 28 50 37 13,15,16 59 13,17Ht-098 15 12,16 12 28 24 10 12 13 10 14 15 19 15 17 24 12 24 12 11 11 15 17 37,38 23.1,24.1,25.1 38 14 37 31 21 30 48 39 13,17 60 14,16Ht-099 16 12,14 13 31 24 10 11 13 11 11 14 20 16 15 23 11 24 13 12 10 19 20 37,38 23,23.2,26.1 41 15 39 31 17 28 48 37 11,16,17 50 14,16Ht-100 15 12,16 12 28 24 10 13 13 10 12 15 19 15 18 22 13 24 13 11 11 14 21 40,41 21,24.1,27.1 36 14 37 31 21 32 51 37 13,17 56 14,15Ht-101 17 13,18 13 28 24 10 13 13 10 11 14 20 15 21 22 11 27 11 13 10 18 17 36,38 19,24,25.1 41 15 38 29 20 26 48 36 10,11,14 54 14,15Ht-102 15 13,13 12 28 23 10 14 13 10 11 14 18 18 16 21 11 25 11 12 11 18 15 36,38 21,24,25.1 37 14 38 29 21 31 49 37 11,17,18 50 14,15Ht-103 13 13,14 12 28 24 11 14.1 12 11 12 14 20 15 18 20 12 25 13 12 10 20 20 35,38 23,24,24.1 36 15 38 28 20 33 47 37 13,15,17 53 13Ht-104 15 12,16 12 28 24 11 13 12 10 12 14 19 15 16 21 11 25 14 11 11 16 15 39,40 20,23,25.1 37 15 36 30 27 31 51 37 13,16 59 14,15Ht-105 15 12,17 12 28 24 10 13 13 10 13 15 19 17 15 23 12 26 12 11 11 14 18 40,41 21,27.1 36 14 41 31 20 29 52 33 14,16,17 61 13,16Ht-106 15 13,17 13 30 24 11 13 14 10 12 14 18 15 17 23 11 23 10 12 12 17 20 37,38 21,24.1,25 41 13 39 31 20 26 51 37 11,12,15 50 12,16Ht-107 15 12,17 14 31 22 9 13 14 10 11 16 20 14 17 22 13 23 13 12 15 18 17 37 20,26.1 36 14 37 30 18 29 47 33 14 46 16Ht-108 15 13,18 14 31 24 12 13 14 10 12 14 18 15 17 21 10 22 10 13 13 17 19 37,38 20,24.1,26.1 41 13 37 27 23 27 47 35 11,13.1 51 13,14Ht-109 16 11,16 12 29 25 10 13 12 10 13 15 19 15 16 21 13 26 12 12 11 15 17 39,42 22,24.1,25 37 14 38 28 20 31 49 37 15,16,18 57 13,14Ht-110 15 11,18 13 29 23 10 13 12 11 10 14 20 13 16 23 12 23 11 13 9 17 15 37,39 21,22,22.1 36 13 37 33 21 31 45 36 10,13,16 49 13,14Ht-111 15 13,21 13 28 23 10 13 12 10 13 15 19 15 18 20 11 27 11 12 11 18 18 38,39 20,21.1,25 40 14 39 31 22 33 51 38 12,15 56 15,16Ht-112 15 12,15 12 29 23 10 12 14 10 12 14 17 14 14 22 11 25 11 15 11 19 16 38,39 20,24,25.1 40 13 35 30 19 28 48 33 12,14,16 49 14,15Ht-113 15 12,13 12 29 23 10 14 13 10 12 14 18 17 15 21 10 25 11 12 11 17 17 37,38 22,23 37 14 36 30 20 30 48 37 12,18,19 49 15Ht-114 16 12,15 12 28 23 10 14 13 10 12 14 16 16 19 22 12 27 11 14 11 16 18 36,38 20,24,27.1 35 14 39 32 22 29 51 36 12,14,15 51 13,15Ht-115 15 12,17 12 26 25 10 13 13 10 12 14 19 15 15 22 12 23 14 11 11 15 19 39,40 21,22.1,24 37 16 40 31 22 32 48 39 13,15,16 57 13,14Ht-116 14 12,16 12 28 24 9 14 13 10 14 15 19 16 16 21 12 24 13 10 12 15 20 38,40 22,23.1,26.1 37 15 39 30 22 30 54 36 14,16,18 54 14,15Ht-117 15 12,15 12 29 25 10 13 13 10 12 15 19 15 16 21 12 24 12 12 10 15 19 39 21,24.1,26.1 36 14 38 30 23 30 50 37 13,16,17 55 13,16Ht-118 15 13,13 12 28 22 10 15 13 10 12 14 18 17 15 19 12 24 11 12 11 19 16 37,39 24,25,25.1 38 13 36 29 20 32 49 38 9,13,16 51 14Ht-119 16 12,13 12 29 21 9 12 14 10 12 14 17 15 14 22 13 23 11 12 11 19 16 35,40 20,24.1,27 36 13 35 29 19 31 46 36 13,16,17 48 15,17Ht-120 15 12,17 12 29 24 10 13 13 10 13 15 19 15 16 22 12 25 12 11 11 15 19 38,40 21,26.1 39 14 38 32 22 30 50 37 15,16,17 57 13,16Ht-121 15 12,17 12 29 24 10 13 12 10 12 14 19 15 17 21 13 24 12 11 11 15 19 39 21,22,26.1 38 15 40 31 23 31 53 39 13,16,18 59 13,14Ht-122 15 12,15 13 29 24 10 13 13 10 13 14 19 15 16 23 12 23 13 11 11 15 17 39,40 20,23,24.1 37 15 39 31 24 30 51 39 14,16,18 58 13,17Ht-123 17 11,17 13 29 23 10 11 15 10 10 14 19 15 16 20 11 24 12 13 8 15 18 37,40 21,23,25.1 38 12 36 31 21 30 46 33 13,18,20 49 13Ht-124 17 13,14 12 28 23 10 14 13 10 12 14 16 17 17 21 12 27 12 13 11 19 17 38,39 21,22,26.1 39 13 38 30 21 31 52 37 11,15,17 51 15,17Ht-125 17 14,14 12 28 23 10 14 13 10 11 14 17 15 18 21 11 27 11 12 11 17 17 38,39 21,23.1,24 36 13 37 30 21 30 51 37 12,13,16 52 14,15Ht-126 15 12,13 12 28 23 10 14 13 10 13 14 18 18 14 21 11 25 12 12 11 18 16 37,40 22,25,26.1 36 14 38 30 21 30 49 38 12,19,20 49 14Ht-127 15 12,13 14 31 23 10 14 13 10 12 14 18 17 16 21 12 25 11 12 11 19 16 37,38 23,24.1 38 14 39 29 20 30 49 37 12,17,22 49 14,15Ht-128 15 13,14 12 30 21 9 12 13 10 12 14 17 15 15 21 14 23 11 12 11 18 16 36,39 21,24,27.1 39 13 36 29 18 28 47 35 14 49 15Ht-129 15 12,17 12 28 24 11 13 12 10 12 14 19 15 16 22 12 24 13 11 11 16 18 40 22,24,25.1 38 15 40 30 22 31 50 39 12,15,16 57 14,15Ht-130 15 12,14 12 30 23 10 12 14 10 11 14 19 15 14 21 12 25 11 13 11 17 18 37,40 21,22.1,24 40 13 38 30 19 27 47 35 9,13,16 50 14,15Ht-131 15 12,15 12 28 24 10 13 13 10 12 14 19 15 16 21 12 24 13 11 12 14 17 39 22,25.1,26.1 40 13 38 30 19 32 52 37 14,15,16 60 13,17Ht-132 15 13,13 13 29 23 10 14 13 10 10 14 18 17 17 19 12 24 11 12 11 19 17 38 21.1,22,23 39 13 36 29 19 30 47 38 12,17,19 50 14Ht-133 16 12,16 12 28 24 9 13 13 10 11 15 19 15 16 21 11 24 13 11 11 15 19 37,39 20,24.1,26.1 37 14 37 31 23 29 49 38 13,16,17 58 15,16Ht-134 15 12,15 12 29 25 10 13 13 10 13 15 19 15 17 21 12 24 12 13 11 14 19 39,40 21,25.1,26.1 37 14 38 30 21 30 52 38 15,17 58 13,15Ht-135 16 13,20 13 29 24 11 13 12 10 13 15 19 15 17 21 11 27 11 12 11 18 17 38,39 20,21.1,23 41 15 39 31 22 32 53 36 12,13,17 57 15Ht-136 15 12,18 12 28 24 10 13 12 10 12 14 19 15 16 22 11 23 13 11 11 16 18 40 21,24,25.1 37 15 39 30 21 32 50 37 12,15,16 58 13,15Ht-137 15 13,13 12 28 23 10 14 13 10 13 14 18 17 15 21 12 23 11 12 11 19 16 38 20,22,25.1 38 14 38 29 20 30 51 40 12,19 50 14Ht-138 17 14,19 12 27 24 9 13 12 11 12 15 20 15 17 20 10 24 11 12 12 19 18 35,40 20,22.1,24 38 14 36 32 20 33 54 35 11,13,14 54 15,17Ht-139 16 12,21 13 30 25 10 13 12 10 12 14 19 14 19 21 11 24 11 14 10 20 19 36,37 20,26,26.1 37 14 38 31 21 31 50 35 11,13 55 14,16Ht-140 17 12,15 12 28 23 10 14 13 10 12 14 16 18 19 22 12 25 11 14 11 16 18 37,38 20,23,28.1 36 14 39 30 22 31 51 36 12,13,17 51 14,15Ht-141 16 13,14 12 28 23 10 14 13 10 11 14 16 17 17 21 12 25 11 12 13 17 16 38 20,22,28.1 38 14 38 31 21 28 50 37 12,13,18 51 15Ht-142 16 13,14 12 29 23 10 14 13 10 12 14 16 17 19 20 12 28 11 13 11 19 16 37,40 20,21,26.1 35 13 37 31 21 28 49 38 12,13,17 52 15,16Ht-143 15 12,14 12 28 24 10 13 12 10 12 14 19 15 16 22 12 25 12 11 11 15 16 40,41 22,23,23.1 38 15 39 31 22 30 50 39 12,15,17 59 13,16Ht-144 14 12,14 12 27 23 10 14 13 12 12 15 18 15 17 28 13 17 10 12 11 19 18 36,40 20,21,27 38 13 44 28 22 29 47 37 11,16 50 16,18Ht-145 13 11,13 13 29 23 10 13 13 12 12 15 19 15 17 23 13 22 12 13 10 17 18 36 21,24.1,25 37 14 37 29 21 29 47 34 11,14,16 48 13,14Ht-146 15 12,16 12 28 24 10 13 13 10 12 14 19 15 16 21 12 25 13 11 11 15 19 39,41 22,26.1 37 15 38 31 24 33 51 37 17,18 58 13,14Ht-147 15 12,16 12 28 23 10 12 12 10 12 14 19 16 18 19 11 21 11 12 11 16 21 37,39 18,25,27.1 39 15 39 30 22 34 52 38 16,17 55 13,15Ht-148 15 12,13 13 30 23 10 15 13 10 13 14 17 19 15 21 11 25 11 13 11 18 17 37,38 22,23,24.1 35 14 38 29 21 31 49 38 12,16,18 50 14,15Ht-149 17 12,17 14 30 24 10 13 14 10 11 14 18 15 16 21 12 24 11 12 11 21 17 39,41 18,24,24.1 38 14 35 29 21 28 47 35 15,15.3,16 53 13,15Ht-150 15 13,13 12 28 23 10 12 13 10 11 14 18 18 15 19 12 24 11 13 11 18 17 39,40 22,23,24.1 38 13 36 29 20 30 47 37 10,18,20 51 14,15Ht-151 15 13,18 12 28 24 10 12 12 10 12 15 20 15 18 19 12 20 11 12 12 16 18 36,38 20,23,26.1 37 15 39 31 23 34 47 36 15,19 55 15,16Ht-152 16 12,17 14 31 22 9 13 14 10 11 16 20 14 18 21 13 22 12 12 14 19 15 36,38 19,21,24.1 39 14 37 30 18 28 51 35 12,14,18 46 14,18

Salvador et al.: Filipino Y-STR DNA VariationSpecial Issue on Genomics

57

Page 16: Filipino DNA Variation at 36 Y-chromosomal Short Tandem Repeat (STR… · 2019. 10. 9. · INTRODUCTION Male-specific polymorphisms on the non-recombining region (NRY) of the Y-chromosome,

Table 1. Y-STI haplotype data of 299 Filipino samples.

DY

S19

DY

S385

a/b

DY

S389

I

DY

S389

II

DY

S390

DY

S391

DY

S392

DY

S393

DY

S438

DY

S439

DY

S437

DY

S448

DY

S456

DY

S458

DY

S635

YG

ATA

H4

DY

S481

DY

S533

DY

S549

DY

S643

DY

S570

DY

S576

DY

F387

S1

DY

F399

S1

DY

S518

DY

S526

a

DY

S526

b

DY

S626

DY

S627

DY

S449

DY

S547

DY

S612

DY

F403

S1a

DY

F403

S1b

DY

F404

S1

Ht-153 15 12,14 12 29 21 9 12 13 10 11 14 17 15 14 21 13 23 11 12 11 19 15 36,39 19,24.1,25 41 13 35 31 20 27 45 36 14 49 15Ht-154 15 12,16 12 28 24 10 14 13 10 14 15 19 15 16 22 12 24 13 10 12 15 19 38,41 21,24.1,25.1 38 14 38 31 24 30 51 38 15,17 55 13,15Ht-155 15 13,15 12 31 23 10 14 13 10 11 14 18 17 13 21 12 25 11 12 10 19 15 37,40 23,24,26.1 39 13 35 29 21 31 48 37 12,17,19 49 13,14Ht-156 15 13,15 12 31 23 10 14 13 10 11 14 18 17 13 23 12 24 11 12 10 19 15 38,40 22,23,27.1 38 13 35 30 21 30 50 37 12,15,20 49 13,14Ht-157 17 13,14 12 28 23 10 14 14 10 12 14 16 17 17 21 11 26 11 13 11 18 16 37,38 19,23.1,24 36 13 37 31 21 29 51 37 12,15,18 51 14,15Ht-158 15 13,14 12 29 25 10 14 13 10 11 14 18 16 16 19 12 25 11 13 11 19 17 37,39 22,27.1 38 13 35 29 22 33 48 37 11,18 49 14Ht-159 15 14,14 12 28 23 10 14 13 10 11 14 16 16 18 21 12 26 11 12 11 18 16 38 20,24,27.1 34 13 37 31 21 31 51 40 12,17 49 14Ht-160 15 13,15 13 30 23 11 13 13 10 11 16 19 15 15 24 14 25 11 13 12 19 16 37,39 19,22,23 41 13 32 31 20 33 49 36 13,14 46 12,15Ht-161 15 12,19 13 30 25 11 13 15 10 11 14 18 15 18 22 10 22 10 13 13 17 19 36,38 21,24,24.1 42 13 38 27 22 27 46 35 11,13,14 51 13,15Ht-162 12 13,18 13 30 23 10 13 13 8 12 15 20 15 19 20 12 23 11 13 12 16 19 35,39 22,24.1,25 41 12 38 29 22 30 51 36 14,16 50 14Ht-163 15 13,18 12 28 24 10 14 12 11 12 14 20 15 17 20 12 23 12 12 11 19 20 36,38 19,24,24.1 34 16 40 28 19 34 49 36 13,16 53 13Ht-164 15 12,16 12 27 24 10 13 13 10 12 16 19 15 13 21 11 25 12 11 11 14 18 38,40 20,21.1,24.1 37 12 36 31 21 30 49 38 13,16 60 14,15Ht-165 15 12,15 12 28 24 10 13 13 10 12 15 19 16 15 22 11 24 13 11 11 15 17 38,41 21,25.1 38 14 38 30 24 31 49 39 13,16,17 58 13,16Ht-166 15 15,19 14 30 26 10 13 14 10 11 14 18 16 14 21 11 23 11 12 13 16 19 37 21,25,25.1 41 13 38 30 23 29 49 36 11,13,15 50 13Ht-167 15 12,16 12 28 24 11 13 12 10 13 14 19 15 15 21 12 25 12 11 11 16 18 38,40 21,24,27.1 38 15 39 31 22 31 50 37 13,15,17 58 13,16Ht-168 16 12,18 13 31 24 10 13 12 10 11 15 19 15 17 22 12 22 11 15 10 18 18 36,41 21,24,24.1 40 14 37 30 20 32 48 37 13,14 49 14,16Ht-169 15 12,17 12 28 24 11 13 12 10 12 14 19 15 16 22 12 23 13 11 11 16 17 40 21,25,25.1 37 15 40 30 22 31 51 38 12,15,16 59 13,15Ht-170 14 12,17 12 28 24 10 14 13 11 13 15 20 15 18 20 12 23 11 12 12 17 19 36,39 19,24,25.1 35 15 39 30 18 32 49 36 11,14,16 48 13,14Ht-171 15 13,18 13 29 25 11 13 14 10 12 14 19 15 16 21 10 24 10 12 12 17 20 38 24.1,26 42 13 36 32 22 27 49 38 12,14 51 17Ht-172 15 12,17 12 28 24 10 13 13 10 11 15 19 15 17 21 12 26 12 11 11 15 19 38,39 21,23.1,27.1 37 14 38 30 21 32 48 36 12,16,18 56 13,16Ht-173 15 12,17 12 28 24 12 13 12 10 12 14 19 15 16 22 12 23 12 11 11 16 18 40 21,24,25.1 37 15 38 30 22 31 51 38 11,15,16 58 13,16Ht-174 15 12,15 12 29 24 10 13 13 10 13 15 19 15 17 22 12 24 14 11 11 15 18 39,40 21,26.1,28.1 37 14 39 32 25 30 50 37 14,15,17 59 13,15Ht-175 13 16,19 13 30 23 10 11 13 10 12 14 20 17 15 22 12 23 12 13 12 19 18 35,38 19,24,24.1 39 13 34 27 22 31 49 37 16,17,19 49 16,17Ht-176 15 13,13 12 28 23 10 14 13 10 13 14 18 16 15 21 12 24 11 12 11 19 16 38 20,23,25.1 37 14 38 29 19 30 50 38 12,19,20 50 14,15Ht-177 15 12,16 12 29 24 11 14 13 10 13 15 19 15 17 24 12 23 12 11 11 15 19 38,41 21,23.1,24.1 37 13 37 31 24 30 48 38 14,16,17 59 13,15Ht-178 15 14,14 12 29 23 10 14 13 10 11 14 16 17 17 20 11 26 11 12 11 18 17 38 21,22,27.1 36 13 37 30 21 30 49 38 12,13,17 54 14,16Ht-179 17 13,19 13 28 26 10 13 12 10 12 14 19 15 21 23 13 24 11 12 10 18 18 36,38 20,24,26.1 37 14 36 30 22 29 50 35 11,12,13 53 13,16Ht-180 15 12,17 12 29 24 11 13 12 10 12 14 19 15 15 21 12 24 13 11 11 13 16 39,40 21,24,25.1 35 15 39 30 23 31 50 39 13,15 60 13,16Ht-181 15 12,15 12 29 25 10 13 14 10 12 15 19 15 16 21 12 24 12 12 11 15 19 39 21,24.1,26.1 37 14 39 30 23 31 52 37 13,15,16 55 13,16Ht-182 14 15,15.2 13 30 25 10 12 12 8 11 14 19 15 16 20 13 21 11 12 12 19 17 35,39 22,24,28 41 14 37 28 20 23 46 37 13,18 43 14Ht-183 12 13,18 14 31 24 10 13 13 10 12 15 20 15 17 21 11 24 11 12 12 15 18 36,39 21,24,24.1 40 12 36 28 23 30 49 36 14,15 49 15,16Ht-184 14 11,14 13 29 24 11 13 13 12 11 14 18 15 16 23 11 23 11 12 10 17 17 35,36 20,25,27.1 37 14 37 29 23 29 48 39 11,16 50 13,14Ht-185 15 12,12 12 27 24 11 13 13 10 12 14 19 15 15 21 12 25 12 11 11 15 17 39 21,22,27.1 36 15 38 32 23 30 48 37 13,15 59 13,16Ht-186 16 13,14 13 29 23 10 14 13 11 11 14 16 17 18 21 13 27 11 12 11 18 16 37,38 21,25,27.1 40 13 37 32 20 29 50 38 12,15,16 52 15Ht-187 15 12,18 12 28 23 10 13 13 10 13 14 19 15 16 21 13 23 12 11 11 15 20 39 22,25,25.1 38 15 39 30 24 32 51 37 15,16,17 58 13,14Ht-188 15 12,16 12 28 24 10 13 13 10 13 14 19 14 16 24 12 25 13 12 11 15 19 39,40 20,23,25.1 37 15 39 29 22 31 48 36 13,15,16 57 14,16Ht-189 15 13,14,16 12 28 24 10 11 12 9 12 16 19 15 19 21 11 23 10 12 9 17 16 40 18,25.1 39 12 34 29 22 29 50 37 11,13,18 48 10Ht-190 13 15,16.2 13 30 25 10 12 12 8 11 14 19 15 16 20 12 21 12 13 12 19 17 35,39 21,24 42 13 36 28 20 23 46 37 14,18,20 43 13,14Ht-191 15 12,13 12 28 23 10 15 13 10 12 14 18 17 14 23 11 24 11 14 11 18 16 37 22,22.1 37 14 39 30 21 30 49 39 12,17,19 50 14,15Ht-192 15 13,17 14 31 24 11 13 15 10 12 14 18 15 18 21 10 22 10 13 13 17 18 37,39 20,26.1 43 13 37 27 23 27 48 35 11,13,13.1 51 13,14Ht-193 15 12,16 14 31 24 10 13 14 10 11 14 18 16 15 21 12 23 11 12 11 20 19 40 24.1 38 14 35 29 20 29 49 35 15.3,16 53 14Ht-194 15 11,15 12 28 21 10 11 12 10 11 14 21 15 17 24 11 26 12 13 9 19 17 33,38 20,21,22,23.1 40 14 37 33 19 29 43 39 9.2,13,17 52 12,15Ht-195 15 13,18 14 30 24 10 14 15 10 11 14 17 15 18 22 10 23 9 13 12 17 19 36,37 20,27,27.1 42 13 36 27 21 28 49 38 11,12,13 54 13,15Ht-196 14 13,14 14 31 24 11 14 13 9 13 14 20 14 20 21 12 28 12 12 11 17 19 36 21,22,24 41 13 37 30 19 33 45 34 10,14,17 49 11,15Ht-197 15 12,16 12 28 24 11 13 12 10 13 14 19 15 16 22 12 25 13 11 11 13 17 39,40 20,23,25.1 36 15 38 30 22 32 49 39 13,15 60 13,16Ht-198 15 13,14 14 31 25 11 11 13 9 12 14 21 15 16 23 12 27 12 11 13 16 18 37,38 21,22 36 12 36 30 19 29 46 39 12,15,17 51 15,17Ht-199 15 12,16 12 28 24 11 13 12 10 13 14 19 15 15 21 11 25 13 11 11 16 17 39,40 20,24,25.1 37 14 36 30 23 32 50 36 14,15 60 13,15Ht-200 15 12,16 12 28 24 10 14 13 10 13 15 19 15 16 22 12 24 12 10 12 15 21 38,41 22,25.1 37 14 38 30 24 30 51 37 15,17,18 55 13,16Ht-201 13 15,15 12 30 23 10 11 13 11 12 15 19 14 16 19 12 25 12 12 10 18 19 36,39 18.2,23,25 37 16 38 34 18 26 52 35 13,14,17 44 16,17Ht-202 15 12,16 12 28 24 10 13 13 10 13 15 19 16 16 24 12 24 12 11 11 15 19 39,40 20,25.1,26.1 38 14 39 31 21 28 52 37 14,16 60 13,16Ht-203 15 12,16 12 28 24 10 13 13 11 14 15 19 16 17 22 11 24 12 11 11 15 20 40 21,25.1 37 14 40 31 21 30 55 38 13,15,16 59 13,17Ht-204 15 11,16 12 28 21 10 11 12 10 11 14 21 14 18 22 11 29 11 13 9 19 19 33,38 22,23,28.1 39 14 37 33 21 31 44 40 9.2,12,16 51 12,15Ht-205 15 12,17 12 28 24 11 13 12 10 12 14 19 15 15 22 13 23 13 11 11 16 18 40 21,22,26.1 37 15 39 30 23 31 50 37 12,15,16 57 13,15Ht-206 15 12,17 12 28 25 10 13 13 10 13 14 19 15 16 21 11 24 13 11 11 16 18 39,43 21,24,24.1 36 15 39 30 22 31 50 38 14,16,17 59 14,17Ht-207 15 13,15 12 28 24 11 13 15 10 12 14 19 15 16 22 12 25 13 10 11 15 19 40,41 20,23,23.1 38 15 39 30 26 28 50 40 12,16 55 13,15Ht-208 15 12,16 11 27 24 10 13 13 10 12 15 19 15 16 21 12 24 13 11 11 13 18 39,41 20,26.1,28.1 38 14 38 30 24 30 49 37 15,16,17 60 13,16Ht-209 12 13,17 14 31 24 10 13 13 10 13 15 20 15 18 21 11 23 11 12 12 15 17 36,39 20,25.1,26 39 12 37 28 23 30 50 36 14,15,16 49 14,16Ht-210 15 11,17 13 30 23 10 11 15 10 11 14 22 16 16 21 11 25 13 12 9 16 19 39 21,24,26.1 38 12 36 33 22 30 48 35 12,16,19 47 15,17Ht-211 15 12,20 12 29 25 10 13 13 10 12 14 20 16 18 21 13 25 12 12 11 20 19 37 23,24 40 14 36 33 22 31 56 38 14,15,16 53 14,16Ht-212 15 12,20 12 28 23 10 13 13 10 11 14 20 14 18 21 12 25 11 12 11 19 18 36,37 21,22.1,24 39 14 36 31 22 30 49 36 13,16,17 56 14,15Ht-213 15 12,12 12 29 24 10 13 13 10 12 15 19 15 16 23 12 24 12 11 11 15 20 38,39 19,24.1,25.1 37 14 38 31 22 30 47 37 13,16,17 60 15,16Ht-214 13 15,15.2 13 30 25 10 12 12 8 12 14 19 15 18 20 12 21 11 13 12 19 18 37,40 22,24,26 40 14 37 29 19 23 48 38 15,17,18 44 13,14Ht-215 13 11,12 13 31 22 10 14 14 10 12 14 20 16 14.1 21 11 22 12 12 10 19 19 37 21.1 38 13 35 30 21 29 45 35 9,12,15 49 19Ht-216 15 12,20 13 29 23 10 13 13 9 12 15 16 15 16 21 11 27 11 13 12 18 16 37 20,26.1 39 14 36 33 21 29 47 33 14,15 50 14,15Ht-217 16 12,19 12 30 24 10 13 13 10 11 14 21 15 18 21 12 25 11 12 11 19 17 36,37 22,23.1,25 38 15 38 31 23 33 50 39 13,15 53 14,15Ht-218 15 13,15 12 28 23 10 14 13 10 11 14 16 17 16 21 11 26 11 12 11 20 17 36,38 21,22,29.1 36 13 37 30 21 29 50 38 12,13,16 49 16Ht-219 15 12,16 12 27 24 10 13 13 10 13 16 19 15 13 21 12 24 12 12 11 14 20 39 22,23.1,24.1 37 12 35 30 20 30 47 37 13,16,19 60 15Ht-220 15 12,13 12 28 24 10 13 14 10 12 14 19 15 16 21 12 23 13 11 11 15 20 39 21,23,25.1 38 15 40 31 23 31 47 39 11,16 60 13,16Ht-221 15 12,15 12 29 21 9 12 14 10 11 14 17 15 15 21 12 23 11 12 11 17 15 36,40 21,24,26.1 41 13 37 29 17 27 47 37 12,14,16 48 14,17Ht-222 15 12,17 12 29 23 10 13 13 10 12 14 19 16 16 21 12 22 11 11 11 16 20 38,40 22,23,23.1 36 15 39 31 25 31 53 39 13,16,17 56 13,15Ht-223 14 15,19 12 28 23 10 14 12 11 12 15 20 15 16 20 12 23 11 13 11 17 18 35,39 20,23,27.1 37 16 39 28 20 33 51 38 13,14,15 54 14Ht-224 14 13,16 12 28 23 9 11 12 9 11 15 20 15 17 21 11 23 11 12 10 17 18 36,40 21,22,24.1 40 14 36 32 20 30 48 37 11,13,16 47 13,15Ht-225 15 12,17 12 27 23 10 15 13 11 10 14 17 17 15 21 11 23 12 12 11 17 17 39,40 22,23,25.1 35 14 36 31 22 30 50 36 13,15,18 50 14,15Ht-226 15 13,16 12 28 24 10 13 13 10 13 15 20 16 17 21 12 24 12 11 11 14 19 39,40 22,25.1,26.1 37 14 37 33 22 31 50 36 14,16,19 57 13,15Ht-227 15 12,14 12 29 21 9 12 14 10 11 14 17 15 14 22 13 23 11 13 9 19 16 35,40 19,24,26.1 38 13 36 31 18 28 46 38 10,13,14 49 14,16Ht-228 16 14,15 12 28 23 10 14 13 10 11 14 16 17 19 21 13 27 12 12 11 18 16 38 21,22,25.1 40 13 38 30 21 29 49 38 12,13,16 51 13,15

Table I. continuation . . . .

Salvador et al.: Filipino Y-STR DNA VariationSpecial Issue on Genomics

58

Page 17: Filipino DNA Variation at 36 Y-chromosomal Short Tandem Repeat (STR… · 2019. 10. 9. · INTRODUCTION Male-specific polymorphisms on the non-recombining region (NRY) of the Y-chromosome,

Table 1. Y-STI haplotype data of 299 Filipino samples.

DY

S19

DY

S385

a/b

DY

S389

I

DY

S389

II

DY

S390

DY

S391

DY

S392

DY

S393

DY

S438

DY

S439

DY

S437

DY

S448

DY

S456

DY

S458

DY

S635

YG

ATA

H4

DY

S481

DY

S533

DY

S549

DY

S643

DY

S570

DY

S576

DY

F387

S1

DY

F399

S1

DY

S518

DY

S526

a

DY

S526

b

DY

S626

DY

S627

DY

S449

DY

S547

DY

S612

DY

F403

S1a

DY

F403

S1b

DY

F404

S1

Ht-153 15 12,14 12 29 21 9 12 13 10 11 14 17 15 14 21 13 23 11 12 11 19 15 36,39 19,24.1,25 41 13 35 31 20 27 45 36 14 49 15Ht-154 15 12,16 12 28 24 10 14 13 10 14 15 19 15 16 22 12 24 13 10 12 15 19 38,41 21,24.1,25.1 38 14 38 31 24 30 51 38 15,17 55 13,15Ht-155 15 13,15 12 31 23 10 14 13 10 11 14 18 17 13 21 12 25 11 12 10 19 15 37,40 23,24,26.1 39 13 35 29 21 31 48 37 12,17,19 49 13,14Ht-156 15 13,15 12 31 23 10 14 13 10 11 14 18 17 13 23 12 24 11 12 10 19 15 38,40 22,23,27.1 38 13 35 30 21 30 50 37 12,15,20 49 13,14Ht-157 17 13,14 12 28 23 10 14 14 10 12 14 16 17 17 21 11 26 11 13 11 18 16 37,38 19,23.1,24 36 13 37 31 21 29 51 37 12,15,18 51 14,15Ht-158 15 13,14 12 29 25 10 14 13 10 11 14 18 16 16 19 12 25 11 13 11 19 17 37,39 22,27.1 38 13 35 29 22 33 48 37 11,18 49 14Ht-159 15 14,14 12 28 23 10 14 13 10 11 14 16 16 18 21 12 26 11 12 11 18 16 38 20,24,27.1 34 13 37 31 21 31 51 40 12,17 49 14Ht-160 15 13,15 13 30 23 11 13 13 10 11 16 19 15 15 24 14 25 11 13 12 19 16 37,39 19,22,23 41 13 32 31 20 33 49 36 13,14 46 12,15Ht-161 15 12,19 13 30 25 11 13 15 10 11 14 18 15 18 22 10 22 10 13 13 17 19 36,38 21,24,24.1 42 13 38 27 22 27 46 35 11,13,14 51 13,15Ht-162 12 13,18 13 30 23 10 13 13 8 12 15 20 15 19 20 12 23 11 13 12 16 19 35,39 22,24.1,25 41 12 38 29 22 30 51 36 14,16 50 14Ht-163 15 13,18 12 28 24 10 14 12 11 12 14 20 15 17 20 12 23 12 12 11 19 20 36,38 19,24,24.1 34 16 40 28 19 34 49 36 13,16 53 13Ht-164 15 12,16 12 27 24 10 13 13 10 12 16 19 15 13 21 11 25 12 11 11 14 18 38,40 20,21.1,24.1 37 12 36 31 21 30 49 38 13,16 60 14,15Ht-165 15 12,15 12 28 24 10 13 13 10 12 15 19 16 15 22 11 24 13 11 11 15 17 38,41 21,25.1 38 14 38 30 24 31 49 39 13,16,17 58 13,16Ht-166 15 15,19 14 30 26 10 13 14 10 11 14 18 16 14 21 11 23 11 12 13 16 19 37 21,25,25.1 41 13 38 30 23 29 49 36 11,13,15 50 13Ht-167 15 12,16 12 28 24 11 13 12 10 13 14 19 15 15 21 12 25 12 11 11 16 18 38,40 21,24,27.1 38 15 39 31 22 31 50 37 13,15,17 58 13,16Ht-168 16 12,18 13 31 24 10 13 12 10 11 15 19 15 17 22 12 22 11 15 10 18 18 36,41 21,24,24.1 40 14 37 30 20 32 48 37 13,14 49 14,16Ht-169 15 12,17 12 28 24 11 13 12 10 12 14 19 15 16 22 12 23 13 11 11 16 17 40 21,25,25.1 37 15 40 30 22 31 51 38 12,15,16 59 13,15Ht-170 14 12,17 12 28 24 10 14 13 11 13 15 20 15 18 20 12 23 11 12 12 17 19 36,39 19,24,25.1 35 15 39 30 18 32 49 36 11,14,16 48 13,14Ht-171 15 13,18 13 29 25 11 13 14 10 12 14 19 15 16 21 10 24 10 12 12 17 20 38 24.1,26 42 13 36 32 22 27 49 38 12,14 51 17Ht-172 15 12,17 12 28 24 10 13 13 10 11 15 19 15 17 21 12 26 12 11 11 15 19 38,39 21,23.1,27.1 37 14 38 30 21 32 48 36 12,16,18 56 13,16Ht-173 15 12,17 12 28 24 12 13 12 10 12 14 19 15 16 22 12 23 12 11 11 16 18 40 21,24,25.1 37 15 38 30 22 31 51 38 11,15,16 58 13,16Ht-174 15 12,15 12 29 24 10 13 13 10 13 15 19 15 17 22 12 24 14 11 11 15 18 39,40 21,26.1,28.1 37 14 39 32 25 30 50 37 14,15,17 59 13,15Ht-175 13 16,19 13 30 23 10 11 13 10 12 14 20 17 15 22 12 23 12 13 12 19 18 35,38 19,24,24.1 39 13 34 27 22 31 49 37 16,17,19 49 16,17Ht-176 15 13,13 12 28 23 10 14 13 10 13 14 18 16 15 21 12 24 11 12 11 19 16 38 20,23,25.1 37 14 38 29 19 30 50 38 12,19,20 50 14,15Ht-177 15 12,16 12 29 24 11 14 13 10 13 15 19 15 17 24 12 23 12 11 11 15 19 38,41 21,23.1,24.1 37 13 37 31 24 30 48 38 14,16,17 59 13,15Ht-178 15 14,14 12 29 23 10 14 13 10 11 14 16 17 17 20 11 26 11 12 11 18 17 38 21,22,27.1 36 13 37 30 21 30 49 38 12,13,17 54 14,16Ht-179 17 13,19 13 28 26 10 13 12 10 12 14 19 15 21 23 13 24 11 12 10 18 18 36,38 20,24,26.1 37 14 36 30 22 29 50 35 11,12,13 53 13,16Ht-180 15 12,17 12 29 24 11 13 12 10 12 14 19 15 15 21 12 24 13 11 11 13 16 39,40 21,24,25.1 35 15 39 30 23 31 50 39 13,15 60 13,16Ht-181 15 12,15 12 29 25 10 13 14 10 12 15 19 15 16 21 12 24 12 12 11 15 19 39 21,24.1,26.1 37 14 39 30 23 31 52 37 13,15,16 55 13,16Ht-182 14 15,15.2 13 30 25 10 12 12 8 11 14 19 15 16 20 13 21 11 12 12 19 17 35,39 22,24,28 41 14 37 28 20 23 46 37 13,18 43 14Ht-183 12 13,18 14 31 24 10 13 13 10 12 15 20 15 17 21 11 24 11 12 12 15 18 36,39 21,24,24.1 40 12 36 28 23 30 49 36 14,15 49 15,16Ht-184 14 11,14 13 29 24 11 13 13 12 11 14 18 15 16 23 11 23 11 12 10 17 17 35,36 20,25,27.1 37 14 37 29 23 29 48 39 11,16 50 13,14Ht-185 15 12,12 12 27 24 11 13 13 10 12 14 19 15 15 21 12 25 12 11 11 15 17 39 21,22,27.1 36 15 38 32 23 30 48 37 13,15 59 13,16Ht-186 16 13,14 13 29 23 10 14 13 11 11 14 16 17 18 21 13 27 11 12 11 18 16 37,38 21,25,27.1 40 13 37 32 20 29 50 38 12,15,16 52 15Ht-187 15 12,18 12 28 23 10 13 13 10 13 14 19 15 16 21 13 23 12 11 11 15 20 39 22,25,25.1 38 15 39 30 24 32 51 37 15,16,17 58 13,14Ht-188 15 12,16 12 28 24 10 13 13 10 13 14 19 14 16 24 12 25 13 12 11 15 19 39,40 20,23,25.1 37 15 39 29 22 31 48 36 13,15,16 57 14,16Ht-189 15 13,14,16 12 28 24 10 11 12 9 12 16 19 15 19 21 11 23 10 12 9 17 16 40 18,25.1 39 12 34 29 22 29 50 37 11,13,18 48 10Ht-190 13 15,16.2 13 30 25 10 12 12 8 11 14 19 15 16 20 12 21 12 13 12 19 17 35,39 21,24 42 13 36 28 20 23 46 37 14,18,20 43 13,14Ht-191 15 12,13 12 28 23 10 15 13 10 12 14 18 17 14 23 11 24 11 14 11 18 16 37 22,22.1 37 14 39 30 21 30 49 39 12,17,19 50 14,15Ht-192 15 13,17 14 31 24 11 13 15 10 12 14 18 15 18 21 10 22 10 13 13 17 18 37,39 20,26.1 43 13 37 27 23 27 48 35 11,13,13.1 51 13,14Ht-193 15 12,16 14 31 24 10 13 14 10 11 14 18 16 15 21 12 23 11 12 11 20 19 40 24.1 38 14 35 29 20 29 49 35 15.3,16 53 14Ht-194 15 11,15 12 28 21 10 11 12 10 11 14 21 15 17 24 11 26 12 13 9 19 17 33,38 20,21,22,23.1 40 14 37 33 19 29 43 39 9.2,13,17 52 12,15Ht-195 15 13,18 14 30 24 10 14 15 10 11 14 17 15 18 22 10 23 9 13 12 17 19 36,37 20,27,27.1 42 13 36 27 21 28 49 38 11,12,13 54 13,15Ht-196 14 13,14 14 31 24 11 14 13 9 13 14 20 14 20 21 12 28 12 12 11 17 19 36 21,22,24 41 13 37 30 19 33 45 34 10,14,17 49 11,15Ht-197 15 12,16 12 28 24 11 13 12 10 13 14 19 15 16 22 12 25 13 11 11 13 17 39,40 20,23,25.1 36 15 38 30 22 32 49 39 13,15 60 13,16Ht-198 15 13,14 14 31 25 11 11 13 9 12 14 21 15 16 23 12 27 12 11 13 16 18 37,38 21,22 36 12 36 30 19 29 46 39 12,15,17 51 15,17Ht-199 15 12,16 12 28 24 11 13 12 10 13 14 19 15 15 21 11 25 13 11 11 16 17 39,40 20,24,25.1 37 14 36 30 23 32 50 36 14,15 60 13,15Ht-200 15 12,16 12 28 24 10 14 13 10 13 15 19 15 16 22 12 24 12 10 12 15 21 38,41 22,25.1 37 14 38 30 24 30 51 37 15,17,18 55 13,16Ht-201 13 15,15 12 30 23 10 11 13 11 12 15 19 14 16 19 12 25 12 12 10 18 19 36,39 18.2,23,25 37 16 38 34 18 26 52 35 13,14,17 44 16,17Ht-202 15 12,16 12 28 24 10 13 13 10 13 15 19 16 16 24 12 24 12 11 11 15 19 39,40 20,25.1,26.1 38 14 39 31 21 28 52 37 14,16 60 13,16Ht-203 15 12,16 12 28 24 10 13 13 11 14 15 19 16 17 22 11 24 12 11 11 15 20 40 21,25.1 37 14 40 31 21 30 55 38 13,15,16 59 13,17Ht-204 15 11,16 12 28 21 10 11 12 10 11 14 21 14 18 22 11 29 11 13 9 19 19 33,38 22,23,28.1 39 14 37 33 21 31 44 40 9.2,12,16 51 12,15Ht-205 15 12,17 12 28 24 11 13 12 10 12 14 19 15 15 22 13 23 13 11 11 16 18 40 21,22,26.1 37 15 39 30 23 31 50 37 12,15,16 57 13,15Ht-206 15 12,17 12 28 25 10 13 13 10 13 14 19 15 16 21 11 24 13 11 11 16 18 39,43 21,24,24.1 36 15 39 30 22 31 50 38 14,16,17 59 14,17Ht-207 15 13,15 12 28 24 11 13 15 10 12 14 19 15 16 22 12 25 13 10 11 15 19 40,41 20,23,23.1 38 15 39 30 26 28 50 40 12,16 55 13,15Ht-208 15 12,16 11 27 24 10 13 13 10 12 15 19 15 16 21 12 24 13 11 11 13 18 39,41 20,26.1,28.1 38 14 38 30 24 30 49 37 15,16,17 60 13,16Ht-209 12 13,17 14 31 24 10 13 13 10 13 15 20 15 18 21 11 23 11 12 12 15 17 36,39 20,25.1,26 39 12 37 28 23 30 50 36 14,15,16 49 14,16Ht-210 15 11,17 13 30 23 10 11 15 10 11 14 22 16 16 21 11 25 13 12 9 16 19 39 21,24,26.1 38 12 36 33 22 30 48 35 12,16,19 47 15,17Ht-211 15 12,20 12 29 25 10 13 13 10 12 14 20 16 18 21 13 25 12 12 11 20 19 37 23,24 40 14 36 33 22 31 56 38 14,15,16 53 14,16Ht-212 15 12,20 12 28 23 10 13 13 10 11 14 20 14 18 21 12 25 11 12 11 19 18 36,37 21,22.1,24 39 14 36 31 22 30 49 36 13,16,17 56 14,15Ht-213 15 12,12 12 29 24 10 13 13 10 12 15 19 15 16 23 12 24 12 11 11 15 20 38,39 19,24.1,25.1 37 14 38 31 22 30 47 37 13,16,17 60 15,16Ht-214 13 15,15.2 13 30 25 10 12 12 8 12 14 19 15 18 20 12 21 11 13 12 19 18 37,40 22,24,26 40 14 37 29 19 23 48 38 15,17,18 44 13,14Ht-215 13 11,12 13 31 22 10 14 14 10 12 14 20 16 14.1 21 11 22 12 12 10 19 19 37 21.1 38 13 35 30 21 29 45 35 9,12,15 49 19Ht-216 15 12,20 13 29 23 10 13 13 9 12 15 16 15 16 21 11 27 11 13 12 18 16 37 20,26.1 39 14 36 33 21 29 47 33 14,15 50 14,15Ht-217 16 12,19 12 30 24 10 13 13 10 11 14 21 15 18 21 12 25 11 12 11 19 17 36,37 22,23.1,25 38 15 38 31 23 33 50 39 13,15 53 14,15Ht-218 15 13,15 12 28 23 10 14 13 10 11 14 16 17 16 21 11 26 11 12 11 20 17 36,38 21,22,29.1 36 13 37 30 21 29 50 38 12,13,16 49 16Ht-219 15 12,16 12 27 24 10 13 13 10 13 16 19 15 13 21 12 24 12 12 11 14 20 39 22,23.1,24.1 37 12 35 30 20 30 47 37 13,16,19 60 15Ht-220 15 12,13 12 28 24 10 13 14 10 12 14 19 15 16 21 12 23 13 11 11 15 20 39 21,23,25.1 38 15 40 31 23 31 47 39 11,16 60 13,16Ht-221 15 12,15 12 29 21 9 12 14 10 11 14 17 15 15 21 12 23 11 12 11 17 15 36,40 21,24,26.1 41 13 37 29 17 27 47 37 12,14,16 48 14,17Ht-222 15 12,17 12 29 23 10 13 13 10 12 14 19 16 16 21 12 22 11 11 11 16 20 38,40 22,23,23.1 36 15 39 31 25 31 53 39 13,16,17 56 13,15Ht-223 14 15,19 12 28 23 10 14 12 11 12 15 20 15 16 20 12 23 11 13 11 17 18 35,39 20,23,27.1 37 16 39 28 20 33 51 38 13,14,15 54 14Ht-224 14 13,16 12 28 23 9 11 12 9 11 15 20 15 17 21 11 23 11 12 10 17 18 36,40 21,22,24.1 40 14 36 32 20 30 48 37 11,13,16 47 13,15Ht-225 15 12,17 12 27 23 10 15 13 11 10 14 17 17 15 21 11 23 12 12 11 17 17 39,40 22,23,25.1 35 14 36 31 22 30 50 36 13,15,18 50 14,15Ht-226 15 13,16 12 28 24 10 13 13 10 13 15 20 16 17 21 12 24 12 11 11 14 19 39,40 22,25.1,26.1 37 14 37 33 22 31 50 36 14,16,19 57 13,15Ht-227 15 12,14 12 29 21 9 12 14 10 11 14 17 15 14 22 13 23 11 13 9 19 16 35,40 19,24,26.1 38 13 36 31 18 28 46 38 10,13,14 49 14,16Ht-228 16 14,15 12 28 23 10 14 13 10 11 14 16 17 19 21 13 27 12 12 11 18 16 38 21,22,25.1 40 13 38 30 21 29 49 38 12,13,16 51 13,15

Salvador et al.: Filipino Y-STR DNA VariationSpecial Issue on Genomics

59

Page 18: Filipino DNA Variation at 36 Y-chromosomal Short Tandem Repeat (STR… · 2019. 10. 9. · INTRODUCTION Male-specific polymorphisms on the non-recombining region (NRY) of the Y-chromosome,

Table 1. Y-STI haplotype data of 299 Filipino samples.

DY

S19

DY

S385

a/b

DY

S389

I

DY

S389

II

DY

S390

DY

S391

DY

S392

DY

S393

DY

S438

DY

S439

DY

S437

DY

S448

DY

S456

DY

S458

DY

S635

YG

ATA

H4

DY

S481

DY

S533

DY

S549

DY

S643

DY

S570

DY

S576

DY

F387

S1

DY

F399

S1

DY

S518

DY

S526

a

DY

S526

b

DY

S626

DY

S627

DY

S449

DY

S547

DY

S612

DY

F403

S1a

DY

F403

S1b

DY

F404

S1

Ht-229 16 13,16 12 29 23 10 14 13 10 12 14 16 17 18 21 10 28 11 13 11 16 16 36,38 21,25,26.1 35 13 36 31 24 29 49 37 11,14,18 51 14,15Ht-230 15 13,18 13 30 26 10 13 15 10 11 14 18 15 18 22 11 22 10 12 12 17 20 36,37 22,25,26.1 39 13 39 27 24 26 48 39 11,13,15 52 14,15Ht-231 15 12,16 12 29 24 10 13 13 10 13 15 19 15 18 21 12 24 13 11 11 14 18 39 22,25.1,27.1 36 14 36 33 21 31 51 39 14,16,17 57 13,15Ht-232 15 11,16 12 29 24 10 13 14 10 12 15 19 16 17 22 12 24 13 12 11 14 19 39 22,26.1,27.1 35 14 37 31 21 32 47 38 14,16,17 55 12,16Ht-233 16 14,15 12 28 23 10 14 13 10 11 14 16 17 19 21 13 27 12 12 11 17 16 38 21,22,25.1 40 13 38 30 22 29 49 38 12,13,16 52 13,15Ht-234 15 12,16 12 28 24 10 13 13 10 13 15 19 15 16 22 12 25 12 11 11 14 20 40 21,24.1 37 14 38 31 23 30 49 33 12,15,16 57 13,16Ht-235 15 12,15 12 28 24 10 14 13 10 15 15 19 15 16 22 12 24 12 10 12 15 21 38,41 22,24.1,26.1 38 14 38 31 21 30 50 37 15,16 55 13,15Ht-236 15 11,16 13 31 25 9 13 15 10 0 15 20 15 18 21 11 22 11 13 14 19 20 35,37 23,23.1,25.1 39 13 38 33 20 29 49 38 12,14,16 45 14,15Ht-237 15 12,16 12 28 24 10 13 13 10 13 14 19 15 17 23 12 24 13 11 10 15 18 40,41 23,26.1 38 15 38 33 22 30 50 38 14,15,16 58 14,17Ht-238 12 13,18 14 31 23 10 13 13 10 12 15 20 15 18 20 12 23 11 12 12 16 18 35,40 22,22.1,25 39 12 36 29 22 32 50 36 13,15,16 51 14,15Ht-239 15 11,17 12 29 21 11 11 12 10 10 14 21 15 20 24 11 27 11 13 9 20 19 34,38 19,21,23.1 39 14 37 34 21 31 43 38 9,12,18 55 12,13Ht-240 15 11,17 13 30 23 10 11 15 10 11 14 21 15 17 22 11 24 12 12 9 16 18 36,38 21,24.1 35 12 34 32 23 31 46 33 13,15,17 46 14,15Ht-241 15 15,17 12 28 24 10 13 14 10 12 14 19 15 17 23 12 26 14 12 11 20 14 37 18,24,24.1 42 15 40 32 22 27 50 34 8,12,18 49 12,15Ht-242 16 12,14 12 28 23 10 14 13 10 12 14 16 17 19 21 12 29 12 13 12 18 16 38 23,24,25.1 34 13 36 30 20 30 49 36 11,12,16 50 14,16Ht-243 16 12,19 12 28 26 10 13 13 10 12 14 19 16 20 22 11 26 11 12 10 17 18 36,38 20,22,22.1 40 14 36 30 19 32 52 39 9,10,13 53 15Ht-244 15 13,16 12 28 24 10 13 13 10 13 15 20 15 16 24 12 24 12 11 11 15 18 37,39 21,24.1,25.1 39 14 38 31 21 31 48 40 13,17,18 59 13,16Ht-245 15 12,14 12 29 22 9 12 13 10 11 14 17 16 14 23 12 23 11 12 11 18 17 36,41 20,24.1,26 41 13 36 24 18 28 47 35 13,15 49 15Ht-246 15 11,16 11 27 21 10 11 12 10 11 14 21 15 20 21 11 26 11 12 9 19 17 33,38 19,20,25.1 36 14 36 33 20 29 44 39 10.2,13,18 53 12,13Ht-247 14 12,17 12 28 24 10 13 12 11 12 15 19 16 15 21 12 25 11 12 11 16 17 34,39 23,25,25.1 37 15 36 33 20 30 49 34 12,14 55 13Ht-248 15 15,20 13 28 24 10 13 14 10 12 14 19 16 16 22 11 22 11 12 12 17 19 37,38 21,24,24.1 40 13 36 29 23 30 47 37 10,12,14 50 12,14Ht-249 15 12,19 12 28 24 10 13 12 11 11 14 18 14 17 22 11 25 11 13 10 18 18 36,38 21,23.1,24 39 15 38 31 22 33 49 38 8,12,14 51 14,15Ht-250 16 12,16 12 27 23 10 12 14 10 12 14 18 15 14 21 13 24 11 13 10 19 17 37,40 22,23,24.1 39 13 35 30 19 28 48 34 13,14,15 50 14,16Ht-251 15 13,14 12 28 23 10 14 13 10 12 14 16 16 20 21 13 28 12 13 11 20 16 37,39 20,22,25.1 38 13 36 31 20 30 48 39 12,15,16 52 13,15Ht-252 16 12,14 13 29 23 10 14 13 10 12 14 18 18 16 20 12 24 11 12 11 20 17 36,37 21,23.1 36 13 37 31 19 31 50 37 12,17,18 50 14Ht-253 16 11,14 13 31 23 11 11 13 11 10 14 20 16 16 23 12 23 12 12 10 19 17 37,38 21,23.1,25 40 15 38 32 17 31 48 35 10,13,15 50 15,16Ht-254 16 13,15 12 28 23 10 14 13 10 11 14 16 17 19 21 12 26 11 12 11 17 16 38,39 19,24,27.1 38 13 37 31 21 28 50 35 12,14,18 50 14,16Ht-255 15 12,14 12 27 23 10 14 10 11 11 15 18 15 16 27 14 23 11 12 11 19 17 38,40 20,21,27 38 13 41 30 21 30 48 35 11,16,19 50 16,17Ht-256 14 11,13 13 29 23 10 14 13 10 12 14 19 16 14 24 12 22 11 12 10 18 17 37 26.1 37 13 35 32 23 27 44 35 13,15 50 13Ht-257 15 12,21 12 30 24 11 13 13 10 11 14 20 13 19 21 11 25 11 12 11 19 18 38 23.1,24 38 14 37 31 23 34 53 36 12,13,15 54 14Ht-258 17 13,14 12 28 23 10 14 13 10 11 14 16 15 13 21 12 27 11 12 11 17 16 38 24 37 13 37 31 21 29 54 38 12,14,16 52 15Ht-259 15 14,14 12 27 22 10 15 13 10 11 14 16 16 20 21 12 27 11 12 11 18 17 38,39 20,25,26.1 38 13 37 30 21 30 48 40 12,13,16 53 14,16Ht-260 15 13,14 12 27 23 10 14 13 10 11 14 16 16 18 21 12 27 11 13 11 17 16 37 20,23,23.1 39 13 36 32 21 29 49 40 12,14,16 52 14,15Ht-261 15 12,16 12 28 24 10 13 13 10 12 14 19 15 15 22 12 23 14 12 11 15 19 38,39 21,22,22.1 37 16 40 30 22 33 48 39 13,15,16 59 13,15Ht-262 15 12,21 12 28 24 10 13 13 10 11 14 20 15 18 21 12 26 11 13 11 19 18 36,37 19,22,22.1 40 15 38 31 24 33 52 37 13,17 54 14Ht-263 15 15,22 13 29 25 10 13 14 10 12 14 18 16 16 22 11 24 7 12 12 17 16 36,38 20,24,26.1 41 13 37 29 19 28 47 33 11,14 51 14,16Ht-264 16 12,15 12 28 24 10 13 13 10 13 14 19 15 16 22 12 25 12 11 11 15 19 40 21,23,26.1 38 15 40 30 23 30 51 37 16,17 59 14,17Ht-265 13 13,20 13 30 25 10 13 13 10 12 15 20 14 18 24 11 25 11 13 11.1 16 17 37,39 21,27.1,28 37 13 37 28 20 33 49 37 13,16 50 17,18Ht-266 15 13,14 13 31 22 10 14 13 10 12 14 18 12 15 20 13 26 11 12 13 19 16 33,40 19,25.1 38 13 38 28 22 30 53 39 13,17 51 14Ht-267 15 12,14 12 29 21 9 12 13 10 11 14 17 15 14 23 12 22 11 12 11 18 16 36,40 20,24,25 39 13 35 29 18 29 46 37 13,14,15 49 15,16Ht-268 15 13,13 12 28 24 10 14 13 10 11 14 17 17 15 19 12 21 11 11 11 18 18 40,42 20,23,24.1 37 13 35 30 20 30 48 39 10,18,20 51 14,17Ht-269 15 13,18 13 30 25 11 13 15 10 11 14 17 15 18 21 10 22 10 14 10 16 19 36,38 22,27.1,28 41 13 38 27 22 28 49 38 11,12,13 51 13,14Ht-270 15 13,18 13 31 25 11 13 14 10 12 14 19 15 16 22 10 24 10 12 13 17 20 39 24,24.1 41 13 36 32 21 28 48 37 12,13 52 17Ht-271 16 13,14 12 28 23 10 15 13 10 11 14 16 18 17 21 11 28 11 14 11 16 14 36,38 20,22,27.1 35 13 37 32 21 30 48 37 11,15,18 50 13,16Ht-272 15 12,16 12 27 25 10 13 13 10 13 16 19 15 13 21 11 24 12 12 10 14 17 39 21,23.1,25.1 36 12 35 30 21 30 49 38 13,16,18 58 16Ht-273 15 10,14 12 27 23 10 14 13 10 11 14 18 16 17 19 11 24 11 12 11 18 17 38 21,23.1 37 12 34 29 21 30 48 38 12,17,18 52 13,14Ht-274 14 13,19 13 29 22 10 13 13 9 12 15 16 15 16 21 12 34 11 12 14 17 17 36,38 19,23.1,24 41 15 36 33 22 31 47 37 15,17 52 15,16Ht-275 15 12,16 12 29 25 10 13 13 10 12 15 19 15 18 21 12 24 13 11 11 13 19 39,40 20.1,21,25.1 35 14 38 29 21 32 50 37 15,16,17 59 14,17Ht-276 15 12,16 12 28 24 11 14 13 10 12 15 19 15 16 21 12 24 12 10 12 15 19 38,40 23,24.1,25.1 36 14 38 31 24 30 51 38 14,17 54 13,15Ht-277 16 11,12 14 30 24 11 14 13 10 10 14 18 14 18 20 11 21 13 12 11 19 18 35 23 36 13 35 30 22 29 43 30 11,12,15 50 14Ht-278 16 13,14 12 28 23 10 14 13 11 12 14 16 15 17 22 13 27 12 14 12 18 17 38 23,27.1 32 13 35 32 22 29 48 38 10,12,16 51 14,17Ht-279 15 15,16 12 28 24 10 13 14 10 13 14 19 15 16 22 12 26 12 12 10 20 14 37,38 18,23.1,24 41 16 41 31 23 28 51 33 8,11,18 50 12,15Ht-280 15 12,15 12 28 24 10 13 13 10 14 15 19 16 17 23 12 24 12 11 11 15 19 40 21,26.1,29.1 37 14 39 31 22 30 54 38 14,15,16 59 13,17Ht-281 15 12,13 13 31 23 11 14 13 10 13 14 18 17 15 19 12 24 12 12 11 20 19 38,40 21,22,25.1 39 13 36 30 23 32 47 40 12,17,18 50 14,15Ht-282 15 13,13 12 28 23 10 14 13 10 11 14 18 18 15 19 11 23 11 12 11 20 18 39,41 21,24.1 38 13 37 29 19 30 47 39 13,19 51 14Ht-283 13 11,12 13 30 22 10 14 14 10 10 14 19 16 14.1 21 11 22 12 14 10 20 18 37 23.1 38 13 35 30 22 30 46 34 9,12,14 47 16Ht-284 15 13,19 12 28 24 10 14 12 11 12 14 20 14 18 20 12 24 11 12 11 17 18 34,39 22,23,25.1 39 15 37 27 18 32 48 37 10,13,15 54 13,14Ht-285 15 11,16 11 27 21 10 11 12 10 11 14 21 15 19 21 11 26 11 12 9 19 17 33,38 18,20,24.1 36 14 36 33 21 29 45 38 9.2,12,18 53 12,13Ht-286 15 12,16 12 28 25 10 13 13 10 14 15 19 15 16 21 12 25 12 12 12 14 17 40 22,23.1,25.1 39 14 38 31 24 30 47 37 14,16 58 14,15Ht-287 15 12,16 12 28 24 10 13 13 10 12 15 19 16 16 21 12 24 13 12 11 14 19 39,40 20,24.1 37 14 37 32 23 30 50 36 15,16,18 57 13,16Ht-288 15 12,16 12 28 24 10 13 13 10 12 15 19 15 17 21 11 23 12 11 10 16 17 38,39 21,25.1,28.1 36 14 36 30 21 31 51 38 13,15,16 60 14,16Ht-289 16 12,19 14 30 24 10 13 14 10 12 14 18 15 15 21 12 23 11 12 11 23 17 38,41 19,24,26.1 39 14 36 29 22 29 48 35 13.3,14,16 53 13,15Ht-290 15 12,16 12 28 24 11 13 12 10 13 14 19 15 16 22 11 25 13 11 11 16 19 38,41 18,22.1,24 37 15 37 31 28 31 51 36 15,16 61 14,16Ht-291 15 12,19 12 27 24 10 13 12 11 12 15 20 15 16 20 12 25 12 12 11 17 18 34,40 22,23,25.1 42 15 36 31 23 31 48 39 10,13,16 56 13,16Ht-292 15 14,14 12 29 21 9 14 14 10 11 14 17 15 15 22 12 23 11 12 10 16 15 36,41 21,23,28.1 39 13 35 29 19 29 46 39 11,15,16 48 14,16Ht-293 17 13,15 12 28 23 10 14 13 10 11 14 16 17 18 23 12 26 11 12 11 17 17 38,39 18,22,27.1 38 12 36 32 21 28 51 36 11,14,19 51 14,16Ht-294 12 14,15 14 30 23 11 13 12 10 11 15 23 15 19 21 12 24 12 12 10 18 15 34,35 21,22 40 12 36 31 18 31 48 36 13,20 47 14.2,15.2Ht-295 15 13,18 14 31 24 11 13 15 10 12 14 18 15 17 21 10 22 10 13 13 17 18 37,38 20,25.1 41 13 37 27 23 27 47 35 11,13,13.1 51 13,14Ht-296 15 12,17 12 28 24 10 13 13 10 12 16 19 15 17 21 12 25 12 11 11 15 17 39,40 22,24.1,27.1 36 14 37 30 23 30 47 39 14,16,18 57 13,18Ht-297 12 14,15 14 30 23 11 14 12 10 11 15 23 15 19 21 12 24 12 12 10 18 15 34 20,22,25.1 40 12 36 30 18 31 47 39 13,14,18 47 13.2,15.2Ht-298 15 10,16 12 28 21 10 11 12 10 12 14 21 16 18 23 11 28 12 12 9 18 18 32,38 21,24.1 41 15 37 30 21 29 45 37 9.2,13,17 53 12,14Ht-299 16 12,14 12 29 22 9 12 13 10 11 14 17 16 13 23 13 23 12 12 11 18 15 36,40 20,23.1,27 39 13 36 30 18 29 46 35 13,15 49 15

Table 1. continuation . . . .

Salvador et al.: Filipino Y-STR DNA VariationSpecial Issue on Genomics

60

Page 19: Filipino DNA Variation at 36 Y-chromosomal Short Tandem Repeat (STR… · 2019. 10. 9. · INTRODUCTION Male-specific polymorphisms on the non-recombining region (NRY) of the Y-chromosome,

Table 1. Y-STI haplotype data of 299 Filipino samples.

DY

S19

DY

S385

a/b

DY

S389

I

DY

S389

II

DY

S390

DY

S391

DY

S392

DY

S393

DY

S438

DY

S439

DY

S437

DY

S448

DY

S456

DY

S458

DY

S635

YG

ATA

H4

DY

S481

DY

S533

DY

S549

DY

S643

DY

S570

DY

S576

DY

F387

S1

DY

F399

S1

DY

S518

DY

S526

a

DY

S526

b

DY

S626

DY

S627

DY

S449

DY

S547

DY

S612

DY

F403

S1a

DY

F403

S1b

DY

F404

S1

Ht-229 16 13,16 12 29 23 10 14 13 10 12 14 16 17 18 21 10 28 11 13 11 16 16 36,38 21,25,26.1 35 13 36 31 24 29 49 37 11,14,18 51 14,15Ht-230 15 13,18 13 30 26 10 13 15 10 11 14 18 15 18 22 11 22 10 12 12 17 20 36,37 22,25,26.1 39 13 39 27 24 26 48 39 11,13,15 52 14,15Ht-231 15 12,16 12 29 24 10 13 13 10 13 15 19 15 18 21 12 24 13 11 11 14 18 39 22,25.1,27.1 36 14 36 33 21 31 51 39 14,16,17 57 13,15Ht-232 15 11,16 12 29 24 10 13 14 10 12 15 19 16 17 22 12 24 13 12 11 14 19 39 22,26.1,27.1 35 14 37 31 21 32 47 38 14,16,17 55 12,16Ht-233 16 14,15 12 28 23 10 14 13 10 11 14 16 17 19 21 13 27 12 12 11 17 16 38 21,22,25.1 40 13 38 30 22 29 49 38 12,13,16 52 13,15Ht-234 15 12,16 12 28 24 10 13 13 10 13 15 19 15 16 22 12 25 12 11 11 14 20 40 21,24.1 37 14 38 31 23 30 49 33 12,15,16 57 13,16Ht-235 15 12,15 12 28 24 10 14 13 10 15 15 19 15 16 22 12 24 12 10 12 15 21 38,41 22,24.1,26.1 38 14 38 31 21 30 50 37 15,16 55 13,15Ht-236 15 11,16 13 31 25 9 13 15 10 0 15 20 15 18 21 11 22 11 13 14 19 20 35,37 23,23.1,25.1 39 13 38 33 20 29 49 38 12,14,16 45 14,15Ht-237 15 12,16 12 28 24 10 13 13 10 13 14 19 15 17 23 12 24 13 11 10 15 18 40,41 23,26.1 38 15 38 33 22 30 50 38 14,15,16 58 14,17Ht-238 12 13,18 14 31 23 10 13 13 10 12 15 20 15 18 20 12 23 11 12 12 16 18 35,40 22,22.1,25 39 12 36 29 22 32 50 36 13,15,16 51 14,15Ht-239 15 11,17 12 29 21 11 11 12 10 10 14 21 15 20 24 11 27 11 13 9 20 19 34,38 19,21,23.1 39 14 37 34 21 31 43 38 9,12,18 55 12,13Ht-240 15 11,17 13 30 23 10 11 15 10 11 14 21 15 17 22 11 24 12 12 9 16 18 36,38 21,24.1 35 12 34 32 23 31 46 33 13,15,17 46 14,15Ht-241 15 15,17 12 28 24 10 13 14 10 12 14 19 15 17 23 12 26 14 12 11 20 14 37 18,24,24.1 42 15 40 32 22 27 50 34 8,12,18 49 12,15Ht-242 16 12,14 12 28 23 10 14 13 10 12 14 16 17 19 21 12 29 12 13 12 18 16 38 23,24,25.1 34 13 36 30 20 30 49 36 11,12,16 50 14,16Ht-243 16 12,19 12 28 26 10 13 13 10 12 14 19 16 20 22 11 26 11 12 10 17 18 36,38 20,22,22.1 40 14 36 30 19 32 52 39 9,10,13 53 15Ht-244 15 13,16 12 28 24 10 13 13 10 13 15 20 15 16 24 12 24 12 11 11 15 18 37,39 21,24.1,25.1 39 14 38 31 21 31 48 40 13,17,18 59 13,16Ht-245 15 12,14 12 29 22 9 12 13 10 11 14 17 16 14 23 12 23 11 12 11 18 17 36,41 20,24.1,26 41 13 36 24 18 28 47 35 13,15 49 15Ht-246 15 11,16 11 27 21 10 11 12 10 11 14 21 15 20 21 11 26 11 12 9 19 17 33,38 19,20,25.1 36 14 36 33 20 29 44 39 10.2,13,18 53 12,13Ht-247 14 12,17 12 28 24 10 13 12 11 12 15 19 16 15 21 12 25 11 12 11 16 17 34,39 23,25,25.1 37 15 36 33 20 30 49 34 12,14 55 13Ht-248 15 15,20 13 28 24 10 13 14 10 12 14 19 16 16 22 11 22 11 12 12 17 19 37,38 21,24,24.1 40 13 36 29 23 30 47 37 10,12,14 50 12,14Ht-249 15 12,19 12 28 24 10 13 12 11 11 14 18 14 17 22 11 25 11 13 10 18 18 36,38 21,23.1,24 39 15 38 31 22 33 49 38 8,12,14 51 14,15Ht-250 16 12,16 12 27 23 10 12 14 10 12 14 18 15 14 21 13 24 11 13 10 19 17 37,40 22,23,24.1 39 13 35 30 19 28 48 34 13,14,15 50 14,16Ht-251 15 13,14 12 28 23 10 14 13 10 12 14 16 16 20 21 13 28 12 13 11 20 16 37,39 20,22,25.1 38 13 36 31 20 30 48 39 12,15,16 52 13,15Ht-252 16 12,14 13 29 23 10 14 13 10 12 14 18 18 16 20 12 24 11 12 11 20 17 36,37 21,23.1 36 13 37 31 19 31 50 37 12,17,18 50 14Ht-253 16 11,14 13 31 23 11 11 13 11 10 14 20 16 16 23 12 23 12 12 10 19 17 37,38 21,23.1,25 40 15 38 32 17 31 48 35 10,13,15 50 15,16Ht-254 16 13,15 12 28 23 10 14 13 10 11 14 16 17 19 21 12 26 11 12 11 17 16 38,39 19,24,27.1 38 13 37 31 21 28 50 35 12,14,18 50 14,16Ht-255 15 12,14 12 27 23 10 14 10 11 11 15 18 15 16 27 14 23 11 12 11 19 17 38,40 20,21,27 38 13 41 30 21 30 48 35 11,16,19 50 16,17Ht-256 14 11,13 13 29 23 10 14 13 10 12 14 19 16 14 24 12 22 11 12 10 18 17 37 26.1 37 13 35 32 23 27 44 35 13,15 50 13Ht-257 15 12,21 12 30 24 11 13 13 10 11 14 20 13 19 21 11 25 11 12 11 19 18 38 23.1,24 38 14 37 31 23 34 53 36 12,13,15 54 14Ht-258 17 13,14 12 28 23 10 14 13 10 11 14 16 15 13 21 12 27 11 12 11 17 16 38 24 37 13 37 31 21 29 54 38 12,14,16 52 15Ht-259 15 14,14 12 27 22 10 15 13 10 11 14 16 16 20 21 12 27 11 12 11 18 17 38,39 20,25,26.1 38 13 37 30 21 30 48 40 12,13,16 53 14,16Ht-260 15 13,14 12 27 23 10 14 13 10 11 14 16 16 18 21 12 27 11 13 11 17 16 37 20,23,23.1 39 13 36 32 21 29 49 40 12,14,16 52 14,15Ht-261 15 12,16 12 28 24 10 13 13 10 12 14 19 15 15 22 12 23 14 12 11 15 19 38,39 21,22,22.1 37 16 40 30 22 33 48 39 13,15,16 59 13,15Ht-262 15 12,21 12 28 24 10 13 13 10 11 14 20 15 18 21 12 26 11 13 11 19 18 36,37 19,22,22.1 40 15 38 31 24 33 52 37 13,17 54 14Ht-263 15 15,22 13 29 25 10 13 14 10 12 14 18 16 16 22 11 24 7 12 12 17 16 36,38 20,24,26.1 41 13 37 29 19 28 47 33 11,14 51 14,16Ht-264 16 12,15 12 28 24 10 13 13 10 13 14 19 15 16 22 12 25 12 11 11 15 19 40 21,23,26.1 38 15 40 30 23 30 51 37 16,17 59 14,17Ht-265 13 13,20 13 30 25 10 13 13 10 12 15 20 14 18 24 11 25 11 13 11.1 16 17 37,39 21,27.1,28 37 13 37 28 20 33 49 37 13,16 50 17,18Ht-266 15 13,14 13 31 22 10 14 13 10 12 14 18 12 15 20 13 26 11 12 13 19 16 33,40 19,25.1 38 13 38 28 22 30 53 39 13,17 51 14Ht-267 15 12,14 12 29 21 9 12 13 10 11 14 17 15 14 23 12 22 11 12 11 18 16 36,40 20,24,25 39 13 35 29 18 29 46 37 13,14,15 49 15,16Ht-268 15 13,13 12 28 24 10 14 13 10 11 14 17 17 15 19 12 21 11 11 11 18 18 40,42 20,23,24.1 37 13 35 30 20 30 48 39 10,18,20 51 14,17Ht-269 15 13,18 13 30 25 11 13 15 10 11 14 17 15 18 21 10 22 10 14 10 16 19 36,38 22,27.1,28 41 13 38 27 22 28 49 38 11,12,13 51 13,14Ht-270 15 13,18 13 31 25 11 13 14 10 12 14 19 15 16 22 10 24 10 12 13 17 20 39 24,24.1 41 13 36 32 21 28 48 37 12,13 52 17Ht-271 16 13,14 12 28 23 10 15 13 10 11 14 16 18 17 21 11 28 11 14 11 16 14 36,38 20,22,27.1 35 13 37 32 21 30 48 37 11,15,18 50 13,16Ht-272 15 12,16 12 27 25 10 13 13 10 13 16 19 15 13 21 11 24 12 12 10 14 17 39 21,23.1,25.1 36 12 35 30 21 30 49 38 13,16,18 58 16Ht-273 15 10,14 12 27 23 10 14 13 10 11 14 18 16 17 19 11 24 11 12 11 18 17 38 21,23.1 37 12 34 29 21 30 48 38 12,17,18 52 13,14Ht-274 14 13,19 13 29 22 10 13 13 9 12 15 16 15 16 21 12 34 11 12 14 17 17 36,38 19,23.1,24 41 15 36 33 22 31 47 37 15,17 52 15,16Ht-275 15 12,16 12 29 25 10 13 13 10 12 15 19 15 18 21 12 24 13 11 11 13 19 39,40 20.1,21,25.1 35 14 38 29 21 32 50 37 15,16,17 59 14,17Ht-276 15 12,16 12 28 24 11 14 13 10 12 15 19 15 16 21 12 24 12 10 12 15 19 38,40 23,24.1,25.1 36 14 38 31 24 30 51 38 14,17 54 13,15Ht-277 16 11,12 14 30 24 11 14 13 10 10 14 18 14 18 20 11 21 13 12 11 19 18 35 23 36 13 35 30 22 29 43 30 11,12,15 50 14Ht-278 16 13,14 12 28 23 10 14 13 11 12 14 16 15 17 22 13 27 12 14 12 18 17 38 23,27.1 32 13 35 32 22 29 48 38 10,12,16 51 14,17Ht-279 15 15,16 12 28 24 10 13 14 10 13 14 19 15 16 22 12 26 12 12 10 20 14 37,38 18,23.1,24 41 16 41 31 23 28 51 33 8,11,18 50 12,15Ht-280 15 12,15 12 28 24 10 13 13 10 14 15 19 16 17 23 12 24 12 11 11 15 19 40 21,26.1,29.1 37 14 39 31 22 30 54 38 14,15,16 59 13,17Ht-281 15 12,13 13 31 23 11 14 13 10 13 14 18 17 15 19 12 24 12 12 11 20 19 38,40 21,22,25.1 39 13 36 30 23 32 47 40 12,17,18 50 14,15Ht-282 15 13,13 12 28 23 10 14 13 10 11 14 18 18 15 19 11 23 11 12 11 20 18 39,41 21,24.1 38 13 37 29 19 30 47 39 13,19 51 14Ht-283 13 11,12 13 30 22 10 14 14 10 10 14 19 16 14.1 21 11 22 12 14 10 20 18 37 23.1 38 13 35 30 22 30 46 34 9,12,14 47 16Ht-284 15 13,19 12 28 24 10 14 12 11 12 14 20 14 18 20 12 24 11 12 11 17 18 34,39 22,23,25.1 39 15 37 27 18 32 48 37 10,13,15 54 13,14Ht-285 15 11,16 11 27 21 10 11 12 10 11 14 21 15 19 21 11 26 11 12 9 19 17 33,38 18,20,24.1 36 14 36 33 21 29 45 38 9.2,12,18 53 12,13Ht-286 15 12,16 12 28 25 10 13 13 10 14 15 19 15 16 21 12 25 12 12 12 14 17 40 22,23.1,25.1 39 14 38 31 24 30 47 37 14,16 58 14,15Ht-287 15 12,16 12 28 24 10 13 13 10 12 15 19 16 16 21 12 24 13 12 11 14 19 39,40 20,24.1 37 14 37 32 23 30 50 36 15,16,18 57 13,16Ht-288 15 12,16 12 28 24 10 13 13 10 12 15 19 15 17 21 11 23 12 11 10 16 17 38,39 21,25.1,28.1 36 14 36 30 21 31 51 38 13,15,16 60 14,16Ht-289 16 12,19 14 30 24 10 13 14 10 12 14 18 15 15 21 12 23 11 12 11 23 17 38,41 19,24,26.1 39 14 36 29 22 29 48 35 13.3,14,16 53 13,15Ht-290 15 12,16 12 28 24 11 13 12 10 13 14 19 15 16 22 11 25 13 11 11 16 19 38,41 18,22.1,24 37 15 37 31 28 31 51 36 15,16 61 14,16Ht-291 15 12,19 12 27 24 10 13 12 11 12 15 20 15 16 20 12 25 12 12 11 17 18 34,40 22,23,25.1 42 15 36 31 23 31 48 39 10,13,16 56 13,16Ht-292 15 14,14 12 29 21 9 14 14 10 11 14 17 15 15 22 12 23 11 12 10 16 15 36,41 21,23,28.1 39 13 35 29 19 29 46 39 11,15,16 48 14,16Ht-293 17 13,15 12 28 23 10 14 13 10 11 14 16 17 18 23 12 26 11 12 11 17 17 38,39 18,22,27.1 38 12 36 32 21 28 51 36 11,14,19 51 14,16Ht-294 12 14,15 14 30 23 11 13 12 10 11 15 23 15 19 21 12 24 12 12 10 18 15 34,35 21,22 40 12 36 31 18 31 48 36 13,20 47 14.2,15.2Ht-295 15 13,18 14 31 24 11 13 15 10 12 14 18 15 17 21 10 22 10 13 13 17 18 37,38 20,25.1 41 13 37 27 23 27 47 35 11,13,13.1 51 13,14Ht-296 15 12,17 12 28 24 10 13 13 10 12 16 19 15 17 21 12 25 12 11 11 15 17 39,40 22,24.1,27.1 36 14 37 30 23 30 47 39 14,16,18 57 13,18Ht-297 12 14,15 14 30 23 11 14 12 10 11 15 23 15 19 21 12 24 12 12 10 18 15 34 20,22,25.1 40 12 36 30 18 31 47 39 13,14,18 47 13.2,15.2Ht-298 15 10,16 12 28 21 10 11 12 10 12 14 21 16 18 23 11 28 12 12 9 18 18 32,38 21,24.1 41 15 37 30 21 29 45 37 9.2,13,17 53 12,14Ht-299 16 12,14 12 29 22 9 12 13 10 11 14 17 16 13 23 13 23 12 12 11 18 15 36,40 20,23.1,27 39 13 36 30 18 29 46 35 13,15 49 15

Salvador et al.: Filipino Y-STR DNA VariationSpecial Issue on Genomics

61

Page 20: Filipino DNA Variation at 36 Y-chromosomal Short Tandem Repeat (STR… · 2019. 10. 9. · INTRODUCTION Male-specific polymorphisms on the non-recombining region (NRY) of the Y-chromosome,

DYS19 Count Frequency

12 6 0.02007

13 13 0.04348

14 17 0.05686

15 202 0.67559

16 43 0.14381

17 18 0.06020

GD 0.51548

DYS385 a/b Count Frequency

10, 14 1 0.0033410, 16 1 0.0033411, 11 1 0.0033411, 12 3 0.0100311, 13 3 0.0100311, 14 3 0.0100311, 15 3 0.0100311, 16 10 0.0334411, 17 7 0.0234111, 18 1 0.0033412, 12 3 0.0100312, 13 15 0.0501712, 14 20 0.0668912, 15 19 0.0635512, 16 38 0.1270912, 17 25 0.0836112, 18 5 0.0167212, 19 7 0.0234112, 20 4 0.0133812, 21 4 0.0133813, 13 19 0.0635513, 14 20 0.06689

13, 14, 16 1 0.0033413, 15 10 0.0334413, 16 5 0.0167213, 17 3 0.0100313, 18 17 0.0568613, 19 6 0.0200713, 20 4 0.0133813, 21 2 0.0066913, 23 2 0.0066914, 14 7 0.0234114, 15 5 0.0167214, 17 1 0.0033414, 18 1 0.0033414, 19 2 0.0066915, 15 2 0.00669

15, 15.2 3 0.0100315, 16 2 0.00669

15, 16.2 1 0.0033415, 17 1 0.0033415, 18 1 0.0033415, 19 3 0.0100315, 20 4 0.0133815, 22 1 0.0033416, 16 1 0.0033416, 19 2 0.00669

GD 0.950214361

Table II. Alleles, allele counts, allele frequencies, and gene diversity (GD) indices for each marker unit.

DYS389 I Count Frequency

11 6 0.02007

12 203 0.67893

13 65 0.21739

14 25 0.08361

GD 0.48603

DYS389 II Count Frequency

26 2 0.00669

27 27 0.09030

28 135 0.45151

29 67 0.22408

30 35 0.11706

31 32 0.10702

32 1 0.00334

GD 0.71496

DYS390 Count Frequency

21 22 0.07358

22 13 0.04348

23 97 0.32441

24 119 0.39799

25 44 0.14716

26 4 0.01338

GD 0.70959

DYS391 Count Frequency

9 22 0.07358

10 219 0.73244

11 55 0.18395

12 3 0.01003

GD 0.42560

DYS392 Count Frequency

11 27 0.09030

12 32 0.10702

13 148 0.49498

14 82 0.27425

14.1 1 0.00334

15 9 0.03010

GD 0.66147

DYS393 Count Frequency

10 1 0.00334

12 68 0.22742

13 172 0.57525

14 41 0.13712

15 17 0.05686

GD 0.59732

DYS438 Count Frequency

8 6 0.02007

9 8 0.02676

10 253 0.84615

11 28 0.09365

12 4 0.01338

GD 0.27488

DYS439 Count Frequency

10 12 0.04027

11 99 0.33221

12 125 0.41946

13 51 0.17114

14 10 0.03356

15 1 0.00336

GD 0.68392

DYS437 Count Frequency

13 1 0.00334

14 208 0.69565

15 81 0.27090

16 9 0.03010

GD 0.44324

DYS448 Count Frequency

16 30 0.10033

17 32 0.10702

18 57 0.19064

19 121 0.40468

20 42 0.14047

21 13 0.04348

22 2 0.00669

23 2 0.00669

GD 0.27488 0.75920

Salvador et al.: Filipino Y-STR DNA VariationSpecial Issue on Genomics

62

Page 21: Filipino DNA Variation at 36 Y-chromosomal Short Tandem Repeat (STR… · 2019. 10. 9. · INTRODUCTION Male-specific polymorphisms on the non-recombining region (NRY) of the Y-chromosome,

DYS456 Count Frequency

12 1 0.00334

13 3 0.01003

14 24 0.08027

15 170 0.56856

16 52 0.17391

17 35 0.11706

18 10 0.03344

19 4 0.01338

GD 0.62703

DYS458 Count Frequency

13 9 0.03010

14 20 0.06689

14.1 2 0.00669

15 49 0.16388

16 81 0.27090

17 63 0.21070

18 49 0.16388

19 17 0.05686

20 6 0.02007

21 3 0.01003

GD 0.82209

DYS635 Count Frequency

19 19 0.06355

20 32 0.10702

21 135 0.45151

22 59 0.19732

23 32 0.10702

24 17 0.05686

25 1 0.00334

27 2 0.00669

28 1 0.00334

30 1 0.00334

GD 0.72939

YGATAH4 Count Frequency

10 20 0.06689

11 85 0.28428

12 156 0.52174

13 33 0.11037

14 5 0.01672

GD 0.63215

DYS481 Count Frequency

17 2 0.00669

20 1 0.00334

21 11 0.03679

22 24 0.08027

23 62 0.20736

24 89 0.29766

25 55 0.18395

26 22 0.07358

27 24 0.08027

28 6 0.02007

29 2 0.00669

34 1 0.00334

GD 0.81713

DYS533 Count Frequency

7 1 0.00334

9 1 0.00334

10 22 0.07358

11 137 0.45819

12 86 0.28763

13 45 0.15050

14 7 0.02341

GD 0.68097

DYS549 Count Frequency

10 6 0.02007

11 75 0.25084

12 142 0.47492

13 64 0.21405

14 10 0.03344

15 2 0.00669

GD 0.66638

DYS643 Count Frequency

8 1 0.00334

9 15 0.05017

10 39 0.13043

11 185 0.61873

11.1 3 0.01003

12 42 0.14047

13 10 0.03344

14 3 0.01003

15 1 0.00334

GD 0.57851

DYS570 Count Frequency

13 4 0.01338

14 16 0.05351

15 50 0.16722

16 42 0.14047

17 52 0.17391

18 52 0.17391

19 58 0.19398

20 23 0.07692

21 1 0.00334

23 1 0.00334

GD 0.84804

DYS576 Count Frequency

14 4 0.01338

15 16 0.05351

16 48 0.16054

17 66 0.22074

18 81 0.27090

19 56 0.18729

20 21 0.07023

21 6 0.02007

22 1 0.00334

GD 0.81136

DYF387S1 Count Frequency

32, 38 1 0.00334

33, 38 6 0.02007

33, 39 1 0.00334

33, 40 1 0.00334

34 1 0.00334

34, 35 1 0.00334

34, 36 1 0.00334

34, 38 1 0.00334

34, 39 2 0.00669

34, 40 2 0.00669

35 2 0.00669

35, 36 2 0.00669

35, 37 2 0.00669

35, 38 4 0.01338

35, 39 7 0.02341

35, 40 4 0.01338

35, 41 1 0.00334

36 6 0.02007

36, 37 12 0.04013

36, 38 24 0.08027

36, 39 10 0.03344

36, 40 7 0.02341

36, 41 6 0.02007

37 12 0.04013

37, 38 21 0.07023

37, 39 23 0.07692

37, 40 11 0.03679

37, 41 1 0.00334

38 16 0.05351

38, 39 19 0.06355

38, 40 13 0.04348

38, 41 7 0.02341

39 19 0.06355

39, 40 25 0.08361

39, 41 5 0.01672

39, 42 1 0.00334

39, 43 1 0.00334

40 13 0.04348

40, 41 6 0.02007

40, 42 1 0.00334

41 1 0.00334

GD 0.95423

Salvador et al.: Filipino Y-STR DNA VariationSpecial Issue on Genomics

63

Page 22: Filipino DNA Variation at 36 Y-chromosomal Short Tandem Repeat (STR… · 2019. 10. 9. · INTRODUCTION Male-specific polymorphisms on the non-recombining region (NRY) of the Y-chromosome,

DYF399S1 Count Frequency

18, 20, 24.1 1 0.00334

18, 22, 26.1 1 0.00334

18, 22, 27.1 2 0.00669

18, 22.1, 23 1 0.00334

18, 22.1, 24 1 0.00334

18, 23.1, 24 1 0.00334

18, 24, 24.1 2 0.00669

18, 25, 27.1 1 0.00334

18, 25.1 1 0.00334

18.2, 23, 25 1 0.00334

18.3, 23, 25 1 0.00334

19, 20, 25.1 1 0.00334

19, 20, 27 1 0.00334

19, 21, 23.1 1 0.00334

19, 21, 24.1 1 0.00334

19, 22, 22.1 1 0.00334

19, 22, 23 1 0.00334

19, 22, 28.1 1 0.00334

19, 23, 23.1 1 0.00334

19, 23.1, 24 2 0.00669

19, 24, 24.1 3 0.01003

19, 24, 25.1 2 0.00669

19, 24, 26.1 2 0.00669

19, 24, 27.1 1 0.00334

19, 24.1 1 0.00334

19, 24.1, 25 1 0.00334

19, 24.1, 25.1 1 0.00334

19, 25.1 2 0.00669

19.1, 20, 25 1 0.0033420, 21, 22, 23,

23.1 1 0.00334

20, 21, 22, 23.1 1 0.00334

20, 21, 23.1 1 0.00334

20, 21, 25 1 0.00334

20, 21, 26.1 1 0.00334

20, 21, 27 2 0.00669

20, 21.1, 23 2 0.00669

20, 21.1, 24.1 1 0.00334

20, 21.1, 25 1 0.00334

20, 22, 22.1 1 0.00334

20, 22, 24.1 2 0.00669

20, 22, 25.1 3 0.01003

20, 22, 27.1 1 0.00334

20, 22, 28.1 1 0.00334

20, 22.1, 24 2 0.00669

20, 23, 23.1 3 0.01003

20, 23, 24.1 3 0.01003

DYF399S1 Count Frequency

20, 23, 25.1 6 0.02007

20, 23, 26.1 2 0.00669

20, 23, 27.1 1 0.00334

20, 23, 28.1 1 0.00334

20, 23.1, 24 1 0.00334

20, 23.1, 27 1 0.00334

20, 24, 25 1 0.00334

20, 24, 25.1 3 0.01003

20, 24, 26.1 4 0.01338

20, 24, 27.1 2 0.00669

20, 24.1 3 0.01003

20, 24.1, 26 1 0.00334

20, 24.1, 26.1 3 0.01003

20, 24.1, 27 1 0.00334

20, 25 1 0.00334

20, 25, 26.1 2 0.00669

20, 25, 27.1 1 0.00334

20, 25.1 2 0.00669

20, 25.1, 26 2 0.00669

20, 25.1, 26.1 1 0.00334

20, 25.1, 28 1 0.00334

20, 25.1, 29.1 1 0.00334

20, 26, 26.1 2 0.00669

20, 26.1 3 0.01003

20, 26.1, 28.1 1 0.00334

20, 27, 27.1 1 0.00334

20.1, 21, 25 1 0.00334

20.1, 21, 25.1 1 0.00334

20.1, 22, 24 1 0.00334

21, 22 2 0.00669

21, 22, 22.1 2 0.00669

21, 22, 24 1 0.00334

21, 22, 24.1 2 0.00669

21, 22, 25.1 3 0.01003

21, 22, 26.1 3 0.01003

21, 22, 27.1 2 0.00669

21, 22, 29.1 1 0.00334

21, 22.1 1 0.00334

21, 22.1, 24 5 0.01672

21, 22.1, 26 1 0.00334

21, 23, 23.1 1 0.00334

21, 23, 25.1 4 0.01338

21, 23, 26.1 3 0.01003

21, 23, 27.1 2 0.00669

21, 23, 28.1 1 0.00334

21, 23.1 2 0.00669

DYF399S1 Count Frequency

21, 23.1, 24 3 0.01003

21, 23.1, 24.1 1 0.00334

21, 23.1, 25 1 0.00334

21, 23.1, 25.1 1 0.00334

21, 23.1, 27.1 1 0.00334

21, 24 1 0.00334

21, 24, 24.1 5 0.01672

21, 24, 25.1 4 0.01338

21, 24, 26.1 5 0.01672

21, 24, 27.1 4 0.01338

21, 24, 28.1 1 0.00334

21, 24.1 6 0.02007

21, 24.1, 25 2 0.00669

21, 24.1, 25.1 3 0.01003

21, 24.1, 26.1 2 0.00669

21, 24.1, 27.1 1 0.00334

21, 25, 25.1 3 0.01003

21, 25, 26.1 2 0.00669

21, 25, 27.1 1 0.00334

21, 25.1 3 0.01003

21, 25.1, 26.1 2 0.00669

21, 25.1, 28.1 1 0.00334

21, 26.1 2 0.00669

21, 26.1, 28.1 1 0.00334

21, 26.1, 29.1 1 0.00334

21, 27.1 2 0.00669

21, 27.1, 28 1 0.00334

21.1 1 0.00334

21.1, 22, 23 2 0.00669

22, 22.1 2 0.00669

22, 22.1, 25 1 0.00334

22, 23 2 0.00669

22, 23, 23.1 3 0.01003

22, 23, 24.1 6 0.02007

22, 23, 25.1 4 0.01338

22, 23, 27.1 1 0.00334

22, 23, 28.1 1 0.00334

22, 23.1 1 0.00334

22, 23.1, 24 1 0.00334

22, 23.1, 24.1 1 0.00334

22, 23.1, 25 1 0.00334

22, 23.1, 25.1 2 0.00669

22, 23.1, 26.1 1 0.00334

22, 23.1, 27.1 1 0.00334

22, 24, 25.1 1 0.00334

22, 24, 26 1 0.00334

22, 24, 28 1 0.00334

DYF399S1 Count Frequency

22, 24, 30.1 1 0.00334

22, 24.1 2 0.00669

22, 24.1, 25 4 0.01338

22, 24.1, 26.1 1 0.00334

22, 24.1, 27.1 1 0.00334

22, 25, 25.1 1 0.00334

22, 25, 26.1 2 0.00669

22, 25.1 2 0.00669

22, 25.1, 26.1 2 0.00669

22, 25.1, 27.1 1 0.00334

22, 26.1 1 0.00334

22, 26.1, 27.1 1 0.00334

22, 27.1 2 0.00669

22, 27.1, 28 2 0.00669

23 1 0.00334

23, 23.1, 25.1 1 0.00334

23, 23.2, 26.1 1 0.00334

23, 24 1 0.00334

23, 24, 24.1 4 0.01338

23, 24, 25.1 2 0.00669

23, 24, 26.1 1 0.00334

23, 24.1 1 0.00334

23, 24.1, 25 1 0.00334

23, 24.1, 25.1 2 0.00669

23, 25, 25.1 1 0.00334

23, 26.1 2 0.00669

23, 27.1 1 0.00334

23.1 1 0.00334

23.1, 24 1 0.00334

23.1, 24.1, 25.1 1 0.00334

24 1 0.00334

24, 24.1 1 0.00334

24, 25, 25.1 2 0.00669

24.1 1 0.00334

24.1, 26 1 0.00334

25 1 0.00334

26.1 1 0.00334

26.1, 27.1 1 0.00334

GD 0.99535

Table II. continuation . . . .

Salvador et al.: Filipino Y-STR DNA VariationSpecial Issue on Genomics

64

Page 23: Filipino DNA Variation at 36 Y-chromosomal Short Tandem Repeat (STR… · 2019. 10. 9. · INTRODUCTION Male-specific polymorphisms on the non-recombining region (NRY) of the Y-chromosome,

DYS518 Count Frequency

32 1 0.00334

34 6 0.02007

35 16 0.05351

36 35 0.11706

37 66 0.22074

38 64 0.21405

39 42 0.14047

40 29 0.09699

41 26 0.08696

42 10 0.03344

43 3 0.01003

44 1 0.00334

GD 0.85340

DYS526a Count Frequency

12 19 0.06355

13 110 0.36789

14 100 0.33445

15 57 0.19064

16 12 0.04013

17 1 0.00334

GD 0.71318

DYS526b Count Frequency

32 1 0.00334

34 9 0.03010

35 29 0.09699

36 58 0.19398

37 68 0.22742

38 72 0.24080

39 38 0.12709

40 16 0.05351

41 5 0.01672

42 2 0.00669

44 1 0.00334

GD 0.82575

DYS626 Count Frequency

24 1 0.00334

26 1 0.00334

27 14 0.04682

28 21 0.07023

29 58 0.19398

30 84 0.28094

31 70 0.23411

32 24 0.08027

33 20 0.06689

34 4 0.01338

35 2 0.00669

GD 0.81307

DYS627 Count Frequency

17 6 0.02007

17.2 1 0.00334

18 19 0.06355

19 29 0.09699

20 39 0.13043

21 72 0.24080

22 69 0.23077

23 42 0.14047

24 16 0.05351

25 3 0.01003

26 1 0.00334

27 1 0.00334

28 1 0.00334

GD 0.83796

DYS449 Count Frequency

23 3 0.01003

24 1 0.00334

26 8 0.02676

27 14 0.04682

28 28 0.09365

29 51 0.17057

30 76 0.25418

31 62 0.20736

32 28 0.09365

33 16 0.05351

34 9 0.03010

35 1 0.00334

36 2 0.00669

GD 0.84173

DYS547 Count Frequency

43 3 0.01003

44 7 0.02341

45 8 0.02676

46 14 0.04682

47 38 0.12709

48 59 0.19732

49 55 0.18395

50 48 0.16054

51 39 0.13043

52 13 0.04348

53 8 0.02676

54 5 0.01672

55 1 0.00334

56 1 0.00334

GD 0.86472

DYS612 Count Frequency

30 1 0.00334

31.2 1 0.00334

32 1 0.00334

33 9 0.03010

34 11 0.03679

35 34 0.11371

36 49 0.16388

37 70 0.23411

38 65 0.21739

39 44 0.14716

40 12 0.04013

42 1 0.00334

42.2 1 0.00334

GD 0.83536

DYF403S1a Count Frequency

10, 11, 14 1 0.00334

10, 12, 14 1 0.00334

10, 12, 16 1 0.00334

10, 13, 14 1 0.00334

10, 13, 15 2 0.00669

10, 13, 16 3 0.01003

10, 14, 17 1 0.00334

10, 18, 20 2 0.00669

10, 19 1 0.00334

10.2, 11, 16 1 0.00334

10.2, 12, 16 1 0.00334

10.2, 12, 18 1 0.00334

10.2, 13, 18 1 0.00334

11, 12 1 0.00334

11, 12, 13 5 0.01672

11, 12, 14 2 0.00669

11, 12, 15 2 0.00669

11, 12, 16 1 0.00334

11, 13 4 0.01338

11, 13, 13.1 2 0.00669

11, 13, 14 2 0.00669

11, 13, 15 2 0.006689

11, 13, 16 3 0.0100334

11, 13, 18 2 0.006689

11, 13.1 1 0.0033445

11, 14 3 0.0100334

11, 14, 16 2 0.006689

11, 14, 18 1 0.0033445

11, 14, 19 2 0.006689

11, 15, 16 5 0.0167224

11, 15, 17 1 0.0033445

11, 15, 18 1 0.0033445

11, 16 4 0.0133779

11, 16, 17 3 0.0100334

11, 16, 19 1 0.0033445

11, 17, 18 1 0.0033445

11, 17, 19 1 0.0033445

11, 18 2 0.006689

11, 18, 19 1 0.0033445

12, 13 3 0.0100334

12, 13, 14 2 0.006689

12, 13, 15 3 0.0100334

12, 13, 16 8 0.0267559

12, 13, 17 5 0.0167224

12, 13, 18 1 0.0033445

12, 14 2 0.006689

12, 14, 15 1 0.0033445

Salvador et al.: Filipino Y-STR DNA VariationSpecial Issue on Genomics

65

Page 24: Filipino DNA Variation at 36 Y-chromosomal Short Tandem Repeat (STR… · 2019. 10. 9. · INTRODUCTION Male-specific polymorphisms on the non-recombining region (NRY) of the Y-chromosome,

DYF403S1a Count Frequency

12, 14, 16 5 0.0167224

12, 14, 18 2 0.006689

12, 15 1 0.0033445

12, 15, 16 11 0.0367893

12, 15, 17 3 0.0100334

12, 15, 18 2 0.006689

12, 15, 20 1 0.0033445

12, 16 1 0.0033445

12, 16, 17 1 0.0033445

12, 16, 18 3 0.0100334

12, 16, 19 1 0.0033445

12, 17 3 0.0100334

12, 17, 18 3 0.0100334

12, 17, 19 3 0.0100334

12, 17, 20 1 0.0033445

12, 17, 22 1 0.0033445

12, 18 1 0.0033445

12, 18, 19 1 0.0033445

12, 18, 20 1 0.0033445

12, 19 1 0.0033445

12, 19, 20 2 0.006689

12, 19, 23 1 0.0033445

13 4 0.0133779

13, 14 5 0.0167224

13, 14, 15 4 0.0133779

13, 14, 16 2 0.006689

13, 14, 17 2 0.006689

13, 14, 18 1 0.0033445

13, 15 8 0.0267559

13, 15, 16 9 0.0301003

13, 15, 17 3 0.0100334

13, 15, 18 1 0.0033445

13, 16 4 0.0133779

13, 16, 17 8 0.0267559

13, 16, 18 2 0.006689

13, 16, 19 1 0.0033445

13, 17 6 0.0200669

13, 17, 18 2 0.006689

13, 18 1 0.0033445

13, 18, 20 1 0.0033445

13, 18, 22 1 0.0033445

13, 19 1 0.0033445

13, 20 1 0.0033445

13.3, 14, 16 1 0.0033445

14 4 0.0133779

14, 15 4 0.0133779

14, 15, 16 6 0.0200669

DYF403S1a Count Frequency

14, 15, 17 2 0.006689

14, 15, 18 1 0.0033445

14, 16 6 0.0200669

14, 16, 17 7 0.0234114

14, 16, 18 3 0.0100334

14, 16, 19 1 0.0033445

14, 17 3 0.0100334

14, 18 2 0.006689

14, 18, 20 1 0.0033445

15 2 0.006689

15, 15.3, 16 1 0.0033445

15, 16 3 0.0100334

15, 16, 17 5 0.0167224

15, 16, 18 2 0.006689

15, 17 3 0.0100334

15, 17, 18 4 0.0133779

15, 19 1 0.0033445

15.3, 16 1 0.0033445

16 1 0.0033445

16, 17 2 0.006689

16, 17, 19 1 0.0033445

17, 18 1 0.0033445

7, 15, 16 1 0.0033445

8, 11, 18 1 0.0033445

8, 12, 14 1 0.0033445

8, 12, 18 1 0.0033445

8, 15, 16 1 0.0033445

9, 10, 13 1 0.0033445

9, 12, 14 1 0.0033445

9, 12, 15 1 0.0033445

9, 12, 18 1 0.0033445

9, 13, 16 3 0.0100334

9, 14, 16 1 0.0033445

9, 20, 22 1 0.0033445

9.2, 12, 16 1 0.0033445

9.2, 12, 18 1 0.0033445

9.2, 13, 17 2 0.006689

GD 0.99044

DYF403S1b Count Frequency

43 2 0.00669

44 4 0.01338

45 1 0.00334

46 5 0.01672

47 6 0.02007

48 8 0.02676

49 31 0.10368

50 49 0.16388

51 43 0.14381

52 21 0.07023

53 18 0.06020

54 16 0.05351

55 13 0.04348

56 10 0.03344

57 15 0.05017

58 20 0.06689

59 21 0.07023

60 13 0.04348

61 3 0.01003

GD 0.91479

DYF404S1 Count Frequency

10 1 0.00334

11, 13 1 0.00334

11, 15 1 0.00334

12, 13 5 0.01672

12, 14 6 0.02007

12, 15 5 0.01672

12, 16 3 0.01003

13 10 0.03344

13, 14 29 0.09699

13, 15 33 0.11037

13, 16 32 0.10702

13, 17 6 0.02007

13, 18 2 0.00669

13.2, 15.2 1 0.00334

14 29 0.09699

14, 15 40 0.13378

14, 16 24 0.08027

14, 17 8 0.02676

14, 18 2 0.00669

14.2, 15.2 1 0.00334

15 21 0.07023

15, 16 15 0.05017

15, 17 7 0.02341

16 6 0.02007

16, 17 4 0.01338

16, 18 1 0.00334

17 3 0.01003

17, 18 1 0.00334

19 1 0.00334

8, 13 1 0.00334

GD 0.92413

Salvador et al.: Filipino Y-STR DNA VariationSpecial Issue on Genomics

66

Page 25: Filipino DNA Variation at 36 Y-chromosomal Short Tandem Repeat (STR… · 2019. 10. 9. · INTRODUCTION Male-specific polymorphisms on the non-recombining region (NRY) of the Y-chromosome,

Salvador et al.: Filipino Y-STR DNA VariationSpecial Issue on Genomics

67

Page 26: Filipino DNA Variation at 36 Y-chromosomal Short Tandem Repeat (STR… · 2019. 10. 9. · INTRODUCTION Male-specific polymorphisms on the non-recombining region (NRY) of the Y-chromosome,

Table III. Pairwise FST values (below diagonal) and associated p-values (above diagonal) among 13 populations based on the same set of 34 Y-STR markers at significant level = 0.05.

Population Spain_Spanish Italy_Italian Hungary_Hungarian

Lithiuania_Lithuanian Latvia_Latvian Estonia_

EstonianNetherlands_

Dutch S.Africa_Xhosa Japan_Japanese Philippines_Filipino

Singapore_Chinese

Singapore_Indian

Singapore_Malay

Spain_Spanish * 0.34947 0.00000 0.00000 0.00000 0.00000 0.02673 0.00000 0.00000 0.00000 0.00000 0.00000 0.00000

Italy_Italian 0.00123 * 0.14662 0.00168 0.00188 0.00079 0.03059 0.00000 0.00000 0.00000 0.00000 0.0001 0.00000

Hungary_Hungarian 0.02342 0.00586 * 0.00000 0.00000 0.00000 0.00000 0.00000 0.00000 0.00000 0.00000 0.00000 0.00000

Lithiuania_Lithuanian 0.07283 0.03594 0.03609 * 0.61964 0.00218 0.00000 0.00000 0.00000 0.00000 0.00000 0.00000 0.00000

Latvia_Latvian 0.07406 0.03936 0.03525 0.00000 * 0.00257 0.00000 0.00000 0.00000 0.00000 0.00000 0.00000 0.00000

Estonia_Estonian 0.07386 0.04232 0.04641 0.01647 0.01223 * 0.00000 0.00000 0.00000 0.00000 0.00000 0.00000 0.00000

Netherlands_Dutch 0.0078 0.01383 0.03065 0.07548 0.07705 0.06912 * 0.00000 0.00000 0.00000 0.00000 0.00000 0.00000

S.Africa_Xhosa 0.14614 0.12511 0.11137 0.13237 0.136 0.1398 0.15709 * 0.00000 0.00000 0.00000 0.00000 0.00000

Japan_Japanese 0.10058 0.07523 0.07801 0.10399 0.10197 0.0978 0.10663 0.13725 * 0.00000 0.00000 0.00000 0.00000

Philippines_Filipino 0.06659 0.04448 0.06266 0.08694 0.08683 0.07877 0.08049 0.11844 0.06979 * 0.00000 0.00000 0.00000

Singapore_Chinese 0.07012 0.05319 0.06572 0.09119 0.09181 0.08257 0.08598 0.11849 0.07843 0.02379 * 0.00000 0.00000

Singapore_Indian 0.04651 0.02367 0.0249 0.04991 0.05141 0.05617 0.06097 0.10039 0.06607 0.05312 0.04676 * 0.00000

Singapore_Malay 0.05896 0.03706 0.05207 0.07339 0.0728 0.0628 0.07506 0.09759 0.05462 0.01019 0.01978 0.03967 *

p-values in bold and italics represent insignificant difference before and after applying the Bonferroni adjustment, respectively.

Table IV. AMOVA results for different Y-STR panels in the 13* populations.

Percentage of variation (%)

Within populations Among populations within groups Among groups

PPY 85.10 2.20 12.71

Yfiler 87.91 2.01 10.08

SMMY 88.39 1.69 9.80

RMY 96.20 0.82 2.98

Maximal 96.24 1.28 6.09

*13 population data were grouped according to their geographic position:Eastern Europe: Lithuania, Latvia, Estonia, HungaryWestern Europe: Spain, Italy, NetherlandsSoutheast Asia: Philippines, Singapore (Chinese), Singapore (Malay)South Asia: Singapore (Indian)East Asia: JapanSouth Africa: South Africa

Salvador et al.: Filipino Y-STR DNA VariationSpecial Issue on Genomics

68

Page 27: Filipino DNA Variation at 36 Y-chromosomal Short Tandem Repeat (STR… · 2019. 10. 9. · INTRODUCTION Male-specific polymorphisms on the non-recombining region (NRY) of the Y-chromosome,

Table III. Pairwise FST values (below diagonal) and associated p-values (above diagonal) among 13 populations based on the same set of 34 Y-STR markers at significant level = 0.05.

Population Spain_Spanish Italy_Italian Hungary_Hungarian

Lithiuania_Lithuanian Latvia_Latvian Estonia_

EstonianNetherlands_

Dutch S.Africa_Xhosa Japan_Japanese Philippines_Filipino

Singapore_Chinese

Singapore_Indian

Singapore_Malay

Spain_Spanish * 0.34947 0.00000 0.00000 0.00000 0.00000 0.02673 0.00000 0.00000 0.00000 0.00000 0.00000 0.00000

Italy_Italian 0.00123 * 0.14662 0.00168 0.00188 0.00079 0.03059 0.00000 0.00000 0.00000 0.00000 0.0001 0.00000

Hungary_Hungarian 0.02342 0.00586 * 0.00000 0.00000 0.00000 0.00000 0.00000 0.00000 0.00000 0.00000 0.00000 0.00000

Lithiuania_Lithuanian 0.07283 0.03594 0.03609 * 0.61964 0.00218 0.00000 0.00000 0.00000 0.00000 0.00000 0.00000 0.00000

Latvia_Latvian 0.07406 0.03936 0.03525 0.00000 * 0.00257 0.00000 0.00000 0.00000 0.00000 0.00000 0.00000 0.00000

Estonia_Estonian 0.07386 0.04232 0.04641 0.01647 0.01223 * 0.00000 0.00000 0.00000 0.00000 0.00000 0.00000 0.00000

Netherlands_Dutch 0.0078 0.01383 0.03065 0.07548 0.07705 0.06912 * 0.00000 0.00000 0.00000 0.00000 0.00000 0.00000

S.Africa_Xhosa 0.14614 0.12511 0.11137 0.13237 0.136 0.1398 0.15709 * 0.00000 0.00000 0.00000 0.00000 0.00000

Japan_Japanese 0.10058 0.07523 0.07801 0.10399 0.10197 0.0978 0.10663 0.13725 * 0.00000 0.00000 0.00000 0.00000

Philippines_Filipino 0.06659 0.04448 0.06266 0.08694 0.08683 0.07877 0.08049 0.11844 0.06979 * 0.00000 0.00000 0.00000

Singapore_Chinese 0.07012 0.05319 0.06572 0.09119 0.09181 0.08257 0.08598 0.11849 0.07843 0.02379 * 0.00000 0.00000

Singapore_Indian 0.04651 0.02367 0.0249 0.04991 0.05141 0.05617 0.06097 0.10039 0.06607 0.05312 0.04676 * 0.00000

Singapore_Malay 0.05896 0.03706 0.05207 0.07339 0.0728 0.0628 0.07506 0.09759 0.05462 0.01019 0.01978 0.03967 *

p-values in bold and italics represent insignificant difference before and after applying the Bonferroni adjustment, respectively.

Salvador et al.: Filipino Y-STR DNA VariationSpecial Issue on Genomics

69