the biodegradation of polystyrene
TRANSCRIPT
Biodegradation of Polystyrene Foam by the Microorganisms from Landfill
Researcher : Pat Pataranutaporn1
Assistant prof. Savaporn Supaphol2, prof. Amornrat Phongdara3 ,Sureeporn Nualkaew3 1 PSU.Wittayanusorn school, 2 Kasetsart University, 3 Prince of Songkhla University
Pat Pataranutaporn !Assistant prof. Savaporn Supaphol prof. Amornrat Phongdara Sureeporn Nualkaew
Biodegradation of Polystyrene Foam by the Microorganisms from Landfill
Hi, My name is Pat. I’m a high school student from Thailand with a weird hobby, doing research project. This is one of my proudest research. I would like to invite you to take a look on this
! Enjoy Pat
!
• Non-biodegradable in the environment
• Made from non-renewable petroleum products
• Chronic, low-level exposure risks undetermined
“Styrofoam”Polystyrene
Physical PropertiesDisadvantages• chemical formula is (C8H8)n • monomer styrene
• Thermoplastic
• blowing agents
Introduction !4
Bacteria nutritional requirements !
‣ Energy source ‣ Carbon source ‣ Nitrogen source ‣ Minerals ‣ Water ‣ Growth factors
http://faculty.ccbcmd.edu/courses/bio141/lecguide/unit6/metabolism/growth/factors.html
Polystyrene structure
Biodegradation
Introduction !5
Possibly work?
Aims of the research ‣To identify the microbe that able to growth in the condition, which polystyrene is a sole carbon source !
‣To study the changing of microbe community structure in the selective culture which polystyrene is a sole carbon source !
‣To observe the biodegradability of polystyrene
Introduction !6
Agar cultivation
Degradability observation
(SEM)
Microbe sampling
Community
fingerprint
16s Ribosomal RNA
identification
Molecular cloning
Phylogenetic tree
2 months later
!8Methodology
Screening Cultivation
Methodology !9
Degradability observation
(SEM)
Agar cultivation
Phylogenetic tree
2 months later Screening
CultivationMicrobe sampling
Community
fingerprint
16s Ribosomal RNA
identification
Molecular cloning
Microbe sampling & cultivation
2 aspects of samples were collected from the landfill that was contaminated by
Polystyrene foam in Pattani,Thailand
Styrofoam in the landfill Contaminated soil
Methodology !10Community structure analysis
Control MSM broth
+ Sterile Polystyrene
!!S
MSM broth + Sterile Polystyrene
+ Landfill soil
F MSM broth
+ Sterile Polystyrene + Landfill styrofoam
MSM broth !
‣K2HPO4
‣KH2PO4
‣(NH4)2SO4 ‣MgSO4
‣ FeSO4.2HO2
‣MnCl2.4H2O ‣CoCl2.6H2O ‣CuCl2.2H2O ‣NiCl2.6H2O ‣Na2MoO4.2H2O ‣ZnSO4.7H2O ‣H3BO3
Sterile Polystyrene
Methodology !11Community structure analysis
Shake for 1 month then inoculate to the new fresh broth for sub culture.
Methodology !12Community structure analysis
Methodology !13Community structure analysis
Every week, The cell suspension in particular flask was taken to the eppendorf then stored at 2C๐ for stop bacteria growth. This
solution used to monitor the changing of bacteria population.
0 1 2 3 4 5 6 7 8 96 7 8time(week)
1
400 µl.
5 9
transfer culture
Methodology !14Community structure analysis
Sampling schedule
Methodology !15
Screening Cultivation
Degradability observation
(SEM)
Agar cultivation
Microbe sampling
Community
fingerprint
16s Ribosomal RNA
identification
Molecular cloning
Phylogenetic tree
2 months later
Community structure analysis
DNA Extraction (Methode : QIAamp Protocol)
Polymerase Chain Reaction (PCR) 16S rRNA gene Amplification Primer VFC &VR
Denature Gradient Gel Electrophoresis (DGGE) Community structure analysis
16s Ribosomal RNA
identification
Community fingerprint
Cell suspensions collected from each week of cultivation.
Methodology !16Community structure analysis
Result !17
DNA Replication : PCR(TopTaq Master Mix Kit) 16S rRNA gene Amplification
by using Primer VR (Medlin et al., 1998) & VFC (Muyzer et al., 1993)
Community structure analysis
Community structure trend
time(week)
Microbe diversity
Dominant species
DGGE Denature Gradient Gel Electrophoresis
Each DNA band represent 1 microbe
Looking for survivor!
Methodology !18Community structure analysis
Mar
ker
Soil
wee
k 1
Soil
wee
k 5
Soil
wee
k 6
Soil
wee
k 7
Soil
wee
k 8
Soil
wee
k 20
Foam
wee
k 1
Foam
wee
k 5
Foam
wee
k 6
Foam
wee
k 7
Foam
wee
k 8
Foam
wee
k 20
Con
trol
wee
k 6
Con
trol
wee
k 7
Con
trol
wee
k 8
Mar
ker
Mar
ker
Neg
ativ
e
DGGE 26/04/55
Running 300 minutefrom PCR product 24/04/55
template use 8 µl.
Bacteria from styrofoam Bacteria from soil Control
Continuing band & found in control
Continuing band
Non-continuing band
Result !19Community structure analysis
Methodology !20
Mar
ker
Soil
wee
k 1
Soil
wee
k 5
Soil
wee
k 6
Soil
wee
k 7
Soil
wee
k 8
Soil
wee
k 20
Foam
wee
k 1
Foam
wee
k 5
Foam
wee
k 6
Foam
wee
k 7
Foam
wee
k 8
Foam
wee
k 20
Con
trol
wee
k 6
Con
trol
wee
k 7
Con
trol
wee
k 8
Mar
ker
Mar
ker
Neg
ativ
e
Bacteria from styrofoam Bacteria from soil Control
Selected DNA
Molecular cloning & identification
Selected for cloning
Methodology !21
DNA from S week7, F week 7 and con week 7
Polymerase Chain Reaction (PCR) 16S rRNA gene Amplification Primer AF1 & 1541R
16s Ribosomal RNA
identification
Molecular cloning & identification
Molecular cloning
Ligate with pGEM T-Easy Plasmid
Transfer Plasmid to the competent cell (E.Coli) + Propagate
extracted Plasmid + cutcheck with EcoR1
Nucleotide sequencing
Phylogenetic tree
Blasting + Neighbourhood joining tree contracting
Purify Plasmid + cutcheck with EcoR1
Result !22Molecular cloning & identification
extracted Plasmid + cutcheck with EcoR1
Purify Plasmid + cutcheck with EcoR1
PCR Product 16S rRNA gene Amplification Primer AF1 & 1541R
Gel electrophoresis
Result !23Molecular cloning & identification
Sequence report - Electropherogram
F3 F10 S7
Control 4 Control 7 F5
Result !24Molecular cloning & identification
Sequence blasting
SampleLength (bp)
Similar sequenceMax
iden
Max
score
E.Value
F10 444 Herbasprillium.sp 98% 753 0.0F3 504 Massialia aerilata 97% 830 0.0S7 485 Caulobacter segnis
ATCC 2175698% 830 0.0
Control4 1,055 Azohydromonas australica
83%1297 0.0
Control7 1,006 Ochrobactrum rhizosphaerea
82%1193 0.0
Result !25Molecular cloning & identification
Herbaspirillum chlorophenolicum
Herbaspirillum frisingense
Herbaspirillum seropedicae
F10
Collimonas arenae
Herminiimonas glaciei
Janthinobacterium lividum
Janthinobacterium agaricidamnosum
Janthinobacterium agaricidamnosum(2)
Massilia brevitalea
Naxibacter varians
Naxibacter haematophilus
F3
Massilia aerilata
Methylibium petroleiphilum PM1
Schlegelella thermodepolymerans
Azohydromonas lata
Rubrivivax gelatinosus IL144
Aquincola tertiaricarbonis
Control4
Azohydromonas australica
Brevundimonas nasdae
Streptomyces longisporoflavus
Mycoplana bullata
S7
Caulobacter segnis ATCC 21756
Phenylobacterium koreense
Rhizobium alamii
Ensifer adhaerens
Sinorhizobium fredii NGR234
Brucella ovis ATCC 25840
Ochrobactrum haematophilum
Control7
Ochrobactrum rhizosphaerae
out group
0.00783
0.00391
0.00391
0.00922
0.00521
0.00521
0.01596
0.01541
0.00783
0.01259
0.01099
0.00260
0.00260
0.01553
0.61463
0.00523
0.00700
0.00523
0.00655
0.00000
0.00260
0.01006
0.00390
0.00260
0.00952
0.00000
0.00479
0.00260
0.01535
0.00653
0.00653
0.00787
0.02785
0.00787
0.01328
0.00541
0.00023
0.00697
0.01434
0.00476
0.01231
-0.00160
0.00393
0.00061
0.02719
0.03951
0.04718
0.51242
0.00531
0.00110
0.00511
0.00509
0.00055
0.02928
0.05697
0.00132
0.00045
0.01396
0.024280.00260
0.00219
0.013570.00561
-0.00301
0.00130
0.00616
0.00883
-0.00053
Neighbourhood joining tree contract from the
Specimen DNA sequence
Result !26Molecular cloning & identification
Herbaspirillum chlorophenolicum
Herbaspirillum frisingense
Herbaspirillum seropedicae
F10
Collimonas arenae
Herminiimonas glaciei
Janthinobacterium lividum
Janthinobacterium agaricidamnosum
Janthinobacterium agaricidamnosum(2)
Massilia brevitalea
Naxibacter varians
Naxibacter haematophilus
F3
Massilia aerilata
Methylibium petroleiphilum PM1
Schlegelella thermodepolymerans
Azohydromonas lata
Rubrivivax gelatinosus IL144
Aquincola tertiaricarbonis
Control4
Azohydromonas australica
Brevundimonas nasdae
Streptomyces longisporoflavus
Mycoplana bullata
S7
Caulobacter segnis ATCC 21756
Phenylobacterium koreense
Rhizobium alamii
Ensifer adhaerens
Sinorhizobium fredii NGR234
Brucella ovis ATCC 25840
Ochrobactrum haematophilum
Control7
Ochrobactrum rhizosphaerae
out group
0.00783
0.00391
0.00391
0.00922
0.00521
0.00521
0.01596
0.01541
0.00783
0.01259
0.01099
0.00260
0.00260
0.01553
0.61463
0.00523
0.00700
0.00523
0.00655
0.00000
0.00260
0.01006
0.00390
0.00260
0.00952
0.00000
0.00479
0.00260
0.01535
0.00653
0.00653
0.00787
0.02785
0.00787
0.01328
0.00541
0.00023
0.00697
0.01434
0.00476
0.01231
-0.00160
0.00393
0.00061
0.02719
0.03951
0.04718
0.51242
0.00531
0.00110
0.00511
0.00509
0.00055
0.02928
0.05697
0.00132
0.00045
0.01396
0.024280.00260
0.00219
0.013570.00561
-0.00301
0.00130
0.00616
0.00883
-0.00053
Neighbourhood joining tree contract from the
Specimen DNA sequence
Result !27Molecular cloning & identification
!information
Found in soil culture(S) Found in foam culture(F) Found in control
Caulobacter segnis Massilia aerilata Herbaspirillum seropedicae Ochrobactrum sp. Azohydromonas
Taxonomy
Bacteria; Proteobacteria;
Alphaproteobacteria; Caulobacterales;
Caulobacteraceae; Caulobacter
Bacteria;ProteobacteriaBetaProteobacteri
a Burkholderiales Oxalobacteraceae
Massilia
Bacteria; Proteobacteria;
Betaproteobacteria; Burkholderiales;
Oxalobacteraceae; Herbaspirillum
Bacteria; Proteobacteria;
Alphaproteobacteria; Rhizobiales;
Brucellaceae; Ochrobactrum
Bacteria Proteobacteria
Betaproteobacteria Burkholderiales Alcaligenaceae Azohydromonas
Morphology & classification
Negative, Bacilli, Aerobic, Mesophilic
Negative, Bacilli, Aerobic
Negative, Spirilla, Aerobic, Mesophilic Negative, Bacilli Negative, Bacilli
Styrene degradation ✓ Na ✓ ✓ Na
Aromatic compound
degradation✓ Na ✓ ✓ Na
Carbon fixation - Na - ✓ Na
Polycyclic aromatic degradation
✓ Na - ✓ Na
Chlorophenol degradation ✓ Na ✓ ✓ Na
Nitogen metabolism ✓ ✓ ✓ ✓ ✓
Other pathway Cellulose degradation pathway
polyhydroxybutyrate (PHB) production !
Polyhydroxybutyrate fermentation
Degradability observation
(SEM)
Agar cultivation
Phylogenetic tree
Community
fingerprint
16s Ribosomal RNA
identification
Molecular cloning
Methodology !28Degradability Observation
2 months later Screening
CultivationMicrobe sampling
Methodology !29Degradability Observation
The microscopic techniques !
‣Test Method Used : In house method refer to WI-RES-SEM-Quanta-001 and WI-RES-SEM-001
‣Test Equipment : Scanning Electron Microscope, Quanta40, FEI, Czech Republic
‣Test Technique : Electron micrograph ‣Test Condition
Mode : low vacuum Detector : Large Field Detector()LFD High Voltage : 15.00,20.00 kV
Methodology !30Degradability Observation
Control : Polystyrene in MSM broth without bacterial source.
Regular polystyrene foam that didn’t use in experiment.
100x 200x 500x
Methodology !31Degradability Observation
Polystyrene in Medium with bacteria from Styrofoam in the landfill.
100x 200x 500x
Regular polystyrene foam that didn’t use in experiment.
Polystyrene in Medium with bacteria from soil in the landfill.
Methodology !32Degradability Observation
100x 200x 500x
Regular polystyrene foam that didn’t use in experiment.
Methodology !33Degradability Observation
Polystyrene in Medium with bacteria from soil in the landfill.
Agar cultivation
Degradability observation
(SEM)
Phylogenetic tree
Community
fingerprint
16s Ribosomal RNA
identification
Molecular cloning
Methodology !35Agar Cultivation
2 months later Screening
CultivationMicrobe sampling
Methodology !36Agar Cultivation
MSM broth !
‣K2HPO4
‣KH2PO4
‣(NH4)2SO4 ‣MgSO4
‣ FeSO4.2HO2
‣MnCl2.4H2O ‣CoCl2.6H2O ‣CuCl2.2H2O ‣NiCl2.6H2O ‣Na2MoO4.2H2O ‣ZnSO4.7H2O ‣H3BO3
MSM + Agar
No carbon source
MSM broth
MSM + Agar
+ Polystyrene-coacrylic acid (PSA)
(particles diameter 500 nm)
Control
Methodology !37Agar Cultivation
‣The purpose is to isolate the single colony of the bacteria prior culture in the liquid broth !
x Problem : Agar is also the carbon source for bacteria result in unable to created selective condition !
‣Using thin filter(which no carbon structure) for bacteria attachment surface
Methodology !38Agar Cultivation
‣No bacteria colony grow on the thin filter
‣Bacteria colony not separate well on the plate
‣Bacteria density in the plate with PS is more than plate with out PS
Conclusion & Discussion !39
Soil
wee
k 1
Soil
wee
k 5
Soil
wee
k 6
Soil
wee
k 7
Soil
wee
k 8
Soil
wee
k 20
Foam
wee
k 1
Foam
wee
k 5
Foam
wee
k 6
Foam
wee
k 7
Foam
wee
k 8
Foam
wee
k 20
Con
trol
wee
k 6
Con
trol
wee
k 7
Con
trol
wee
k 8
Styrofoam sourceControl Soil source
Conclusion & Discussion !40
!information
Found in soil culture(S) Found in foam culture(F) Found in control
Caulobacter segnis Massilia aerilata Herbaspirillum seropedicae Ochrobactrum sp. Azohydromonas
Taxonomy
Bacteria; Proteobacteria;
Alphaproteobacteria; Caulobacterales;
Caulobacteraceae; Caulobacter
Bacteria;ProteobacteriaBetaProteobacteri
a Burkholderiales Oxalobacteraceae
Massilia
Bacteria; Proteobacteria;
Betaproteobacteria; Burkholderiales;
Oxalobacteraceae; Herbaspirillum
Bacteria; Proteobacteria;
Alphaproteobacteria; Rhizobiales;
Brucellaceae; Ochrobactrum
Bacteria Proteobacteria
Betaproteobacteria Burkholderiales Alcaligenaceae Azohydromonas
Morphology & classification
Negative, Bacilli, Aerobic, Mesophilic
Negative, Bacilli, Aerobic
Negative, Spirilla, Aerobic, Mesophilic Negative, Bacilli Negative, Bacilli
Styrene degradation ✓ Na ✓ ✓ Na
Aromatic compound
degradation✓ Na ✓ ✓ Na
Carbon fixation - Na - ✓ Na
Polycyclic aromatic degradation
✓ Na - ✓ Na
Chlorophenol degradation ✓ Na ✓ ✓ Na
Nitogen metabolism ✓ ✓ ✓ ✓ ✓
Other pathway Cellulose degradation pathway
polyhydroxybutyrate (PHB) production !
Polyhydroxybutyrate fermentation
Conclusion & Discussion !41
‣The highest degradation trade was made by the bacteria from the styrofoam in the landfill, relate to the dominance species that were present in the continuos bold DNA band in the DGGE gel. !
‣The DNA sequence reveals that the bacteria in the consortium, some have a metabolism to degrade styrene and aromatic- hydrocarbon.
‣The next step of research should focus on the metabolism & the by product of degradation of the bacteria in the consortium that were discovered.
Research Achievements
13th NCSC, Jaipur India 2011
Youth summit 2012, Dubai UAE
JSTP Scholarship
STT 36
BYEE, Leverkuzen Germany
BYEE Poster Prize from india
!44
A. M. Warhurst and C. A. Fewson. 1994. A review microbial metabolism and biotransformations of styrene.Journal of Applied Bacteriology !
G.C. Okpokwasili and C.O. Nweke. 2005. Microbial growth and substrate utilization kinetics. African Journal of Biotechnology !
Medlin, L., H.J. Elwood, S. Stickel and M.L. Sogin. 1998. The Characterization of amplifiled eukaryote 16S like rRNA coding regions. Gen. 71: 491-499. !
Muyzer G., E.C. De Waal and A.G. Uitterlinden. 1993. Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain restriction-amplified genes coding for 16S rRNA. Appl. Environ. Microbiol. 59: 695- 700. !
QIAGEN. 2001. QIAGEN PCR Cloning Handbook. !Sielicki, M., Focht. D.D. and Martin, J.P. (1978) .Microbial transformations of styrene and
['4C]styrene in soil and enrichment cultures. Applied and Encironmental Microbiology !Supaphol, S. 2005. Intrinsic Bioremediation and The Molecular Analysis of Microorganisms in
Hydrocarbon Contaminated Thai Soil. Ph.D. Thesis, Kasetsart University. !Zhou, J., M.A. Bruns and M.T. James. 1995. DNA Recovery from Soils of Diverse Composition.
Amer. Soc. Micro. 62: 316-322.
Reference
!46Mentor
Dr.Opas(Tun,thagoon( Dr.Ampai,p(Sookhom( Asst.Prof(Dr.Savaporn(Supaphol((Current(advisor)(
Advisor(
Miss(Apinya(Boonkhum( Mrs.RaCanawan(Inpang(
Dr.Opas(Tun,thagoon( Dr.Ampai,p(Sookhom( Asst.Prof(Dr.Savaporn(Supaphol((Current(advisor)(
Advisor(
Miss(Apinya(Boonkhum( Mrs.RaCanawan(Inpang(
Dr.Opas(Tun,thagoon( Dr.Ampai,p(Sookhom( Asst.Prof(Dr.Savaporn(Supaphol((Current(advisor)(
Advisor(
Miss(Apinya(Boonkhum( Mrs.RaCanawan(Inpang(
Dr.Opas(Tun,thagoon( Dr.Ampai,p(Sookhom( Asst.Prof(Dr.Savaporn(Supaphol((Current(advisor)(
Advisor(
Miss(Apinya(Boonkhum( Mrs.RaCanawan(Inpang(
!47Assistant Mentor
PSUWIT TEACHER SUT
KMUTT
PSU KU
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