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Page 1: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

REFERENCES

Page 2: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

165

REFERENCES

Aceituno, F.F., Moseyko, N., Rhee, S.Y. and Gutierrez, R.A., 2008. The rules of gene

expression in plants: Organ identity and gene body methylation are key factors

for regulation of gene expression in Arabidopsis thaliana. BMC Genomics, 9:

438.

Acuna, C., Fernandez, P., Villalba, P., Garcia, M., Hopp, H. and Poltri S.M. 2012a.

Discovery, validation, and in silico functional characterization of EST-SSR

markers in Eucalyptus globulus. Tree Genetics and Genomes, 8: 289-301.

Acuna, C.V., Villalba, P.V., Garcia, M., Pathauer, P., Hopp, H.E. and Poltri, S.N.M.

2012b. Microsatellite markers in candidate genes for wood properties and its

application in functional diversity assessment in Eucalyptus globulus.

Electronic Journal of Biotechnology, 15: 2.

Almeida de, L.M., Ruede, C.M., Ricachenevsky, F.K., Sperotto, R.A., Pasquali, G. and

Neto, A.G.F. 2010. Reference gene selection for quantitative reverse

transcription- polymerase chain reaction-normalization during in vitro

adventitious rooting in Eucalyptus globulus. BMC Molecular Biology, 11: 73.

Almeida, C.M.A., Donato V.M.T.S., Amaral, D.O.J., Lima, G.S.A., Brito, G.G., Lima,

M.M.A., Correia, M.T.S. and Silva, M.V. 2013. Differential gene expression in

sugarcane induced by salicylic acid and under water deficit conditions.

Agricultural Science Research, 3: 38-44.

Aloni, R., Feigenbaum, P., Kalev, N. and Rozovsky, S. 2000. Hormonal control of

vascular differentiation in plants: the physiological basis of cambium ontogeny

and xylem evolution, 223-236: In Cell and Molecular Biology of Wood

Formation, Savidge, R.A., Barnett, J.R. and Napier, R. (eds.) BIOS Scientific

Publishers, Oxford.

Aloni, R. 2001. Foliar and axial aspects of vascular differentiation- hypothesis and

evidence. Journal of Plant Growth Regulation, 20: 22–34.

Aloni, R. 2007. Phytohormonal mechanisms that control wood quality formation in

young and mature trees, 1-22: In the Compromised wood workshop 2007,

Entwistle, K., Harris, P. and Walker, J. (eds). The wood technology research

centre, University of Canterbury, Christchurch, New Zealand.

Al-Taweel, K. and Fernando, W.G.D. 2011. Differential Gene Expression is a

promising tool for understanding host–pathogen interactions. The Americas

Journal of Plant Science and Biotechnology, 5: 1-10.

Andersen, C.L., Jensen, J.L. and Orntoft, T.F. 2004. Normalization of real-time

quantitative reverse transcription-PCR data: a model-based variance estimation

approach to identify genes suited for normalization, applied to bladder and

colon cancer data sets. Cancer Research, 64: 5245-5250.

Appenzeller, L., Doblin, M.S., Barreiro, R., Wang, H., Niu, X., Kollipara. K., Carrigan,

L., Tomes, D., Chapman, M. and Dhugga, K.S. 2004. Cellulose synthesis in

Page 3: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

166

maize: isolation and expression analysis of the cellulose synthase (CesA) gene

family. Cellulose, 11: 287-289.

Arioli, T., Peng, L.C., Betzer, A.S., Burn, J., Wittke, W., Herth, W., Camilleri, C.,

Hofte, H., Plazinski, J., Birch, R., Cork, A., Glover, J., Redmond, J. and

Williamson, R.E. 1998. Molecular analysis of cellulose biosynthesis in

Arabidopsis. Science, 278: 717–720.

Artico, S., Nardeli, S.M., Brilhante, O., Grossi-de-Sa, M.F. and Alves-Ferreira, M.

2010. Identification and evaluation of new reference genes in Gossypium

hirsutum for accurate normalization of real-time quantitative RT-PCR data.

BMC Plant Biology, 10: 49.

Arumugasundaram, S., Ghosh, M., Veerasamy, S. and Ramasamy, Y. 2011. Species

discrimination, population structure and linkage disequilibrium in Eucalyptus

camaldulensis and Eucalyptus tereticornis using SSR Markers. PLoS ONE, 6:

e28252.

Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51.

Assis, T.F. 2000. Production and use of Eucalyptus hybrids for industrial purposes, In

Hybrid breeding and genetics of forest trees: QFRI/ CRC-SPF Symposium, 63-

74: Dungey, H.S., Dieters, M.J. and Nikles, D.G. (eds.) Proceedings of an

International symposium, Department of Primary Industries, Noosa.

Assis, T.F. 2001. To improve productivity and quality of hardwood pulp. In Workshop

on improvement of forest species and palm trees in Brazil, 193-214: Resende

M.D.V. (eds.) Proceedings of a National conference, Embrapa forests, Curitiba.

Assis, T.F. and de Resende, M.D.V. 2011. Genetic improvement of forest tree species.

Crop Breeding and Applied Biotechnology, S1: 44-49.

Australia's State of the Forests Report, 2013. Montreal Process Implementation Group

for Australia and National Forest Inventory Steering Committee, ABARES,

Canberra.

Baba, K., Karlberg, A., Schmidt, J., Schrader, J., Hvidsten, T.R.,

Bako, L., and

Bhalerao, R.P. 2011. Proceedings of the National Academy of Sciences of the

United States of America, 108: 3418–3423.

Bai, H., Euring, D., Volmer, K., Janz, D. and Polle, A. 2013. The Nitrate Transporter

(NRT) Gene Family in Poplar. PLoS ONE, 8: e72126.

Baima, S., Nobili, F., Sessa, G., Lucchetti, S., Ruberti, I. and Morelli, G. 1995. The

expression of the athb-8 homeobox gene is restricted to provascular cells in

Arabidopsis thaliana. Development, 121: 4171- 4182.

Balasaravanan, T., Chezhian, P., Kamalakannan, R., Ghosh, M., Yasodha, R., Varghese,

M. and Gurumurthi, K. 2005. Determination of inter- and intra-species genetic

relationships among six Eucalyptus species based on inter-simple sequence

repeats (ISSR). Tree Physiology, 25: 1295-1302.

Page 4: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

167

Balasaravanan, T., Chezhian, P., Kamalakannan, R., Yasodha, R., Varghese, M.,

Gurumurthi, K. and Ghosh, M. 2006. Identification of species-diagnostic ISSR

markers for six Eucalyptus species. Silvae Genetica, 55: 119-122.

Baltunis, B.S., Wu, H.X. and Powell, M.B. 2007 Inheritance of density, microfibril

angle, and modulus of elasticity in juvenile wood of Pinus radiata at two

locations in Australia. Canadian Journal of Forest Research, 37: 2164-2174.

Bao, Y., Dharmawardhana, P., Arias, R.S., Allen, M. B., Ma, C. and Steven, S.H. 2009.

WUS and STM-based reporter genes for studying meristem development in

Poplar. Plant Cell Reports, 28: 947–962.

Barros, E., Verryn, S. and Hettasch, M. 2002. Identification of PCR-base markers

linked to wood splitting in Eucalyptus grandis. Annals of Forest Science, 59:

675-678.

Barros, E., van Staden, C.A. and Lezar, S. 2009. A microarray based method for the

parallel analysis of genotypes and expression profiles of wood-forming tissues

in Eucalyptus grandis. BMC Biotechnolology, 9: 51.

Beyer, E.M. Jr., and Morgan, P.W. 1970. Effect of ethylene on the uptake, distribution,

and metabolism of indoleacetic acid-1–14C and -2–14C and naphthaleneacetic

acid-1–14C. Plant Physiology, 46: 157–162.

Bhandari, S., Fujino, T., Thammanagowda, S., Zhang, D., Xu, F. and Joshi, C.P. 2006.

Xylem-specific and tension stress-responsive co-expression of KORRIGAN

endoglucanase and three secondary wall-associated cellulose synthase genes in

Aspen trees. Planta, 224: 828–837.

Bhat, K.M. 1990. Wood quality improvement of eucalypts in India. An assessment of

property variations. Journal of the Indian Academy of wood science, 21: 33-38.

Bhuiyan, N. 2008. Identification of genes influencing wood fibre properties in

Eucalyptus nitens. PhD thesis, The University of Melbourne, Australia.

Biemelt, S., Tschiersch, H. and Sonnewald, U. 2004. Impact of altered gibberellin

metabolism on biomass accumulation, lignin biosynthesis, and photosynthesis

in transgenic tobacco plants. Plant Physiology, 135: 254–265.

Bjorklund, S., Antti, H., Uddestrand, I., Moritz, T. and Sundberg, B. 2007. Cross-talk

between gibberellin and auxin in development of Populus wood: Gibberellin

stimulates polar auxin transport and has a common transcriptome with auxin.

Plant Journal, 52: 499-511.

Boava, L.P., Laia, M.L., Jacob, T.R., Dabbas, K.M., Gonçalves, J.F., Ferro, J.A., Ferro,

M. I.T. and Furtado, E.L. 2010. Selection of endogenous genes for gene

expression studies in Eucalyptus under biotic (Puccinia psidii) and abiotic

(acibenzolar-S-methyl) stresses using RT-qPCR. BMC Research Notes, 3: 43.

Boland, D.J., Brooker, M.I.H., Chippendale, G.M., Hall, N., Hyland, B.P.M., Johnson,

R.D., Kleinig, D.A., McDonald, M.W. and Turner, J.D. 2006. Forest Trees of

Australia, CSIRO Publishing, Collingwood.

Page 5: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

168

Bolduc, N., Yilmaz, A., Mejia-Guerra, M.K., Morohashi, K., O'Connor, D., Grotewold,

E. and Hake, S. 2012. Unraveling the KNOTTED1 regulatory network in maize

meristems. Genes and Development, 26: 1685-1690.

Booth, T.H. 2012. Eucalypts plantations and climate change. Forest Ecology and

Management, in press, http://dx.doi.org/10.1016/j.foreco.2012.04.004.

Brabham, C., and Debolt, S. 2012. Chemical genetics to examine cellulose biosynthesis.

Frontiers in Plant Science, 3: 309.

Brooker, M.I.H. 2000. A new classification of the genus Eucalyptus L'Her.

(Myrtaceae). Australian Systematic Botany, 13: 79-148.

Brooker, M.I.H. and Kleing, D.A. 2004. Field Guide to Eucalyptus. 2nd

(eds.)

Melbourne Blooming Books, Northern Australia.

Brooker, M.I.H. and Kleinig, D.A. 2006. Field Guide to Eucalyptus. 3rd

(eds.)

Melbourne Bloomings, South-eastern Australia.

Brown, R.M., Jr. and Saxena, I.M. 2000. Cellulose biosynthesis: A model for

understanding the assembly of biopolymers. Plant Physiology and

Biochemistry, 38: 57-67.

Brown, G.R., Bassoni, D.L., Gill, G.P., Fontana, J.R., Wheeler, N.C., Megraw,

R.A., Davis, M.F., Sewell, M.M., Tuskan, G.A. and Neale, D.B. 2003.

Identification of Quantitative Trait Loci Influencing Wood Property Traits in

Loblolly Pine (Pinus taeda L.) Genetics, 164: 1537–1546.

Brown, G.R., Gill, G.P., Kuntz, R.J, Langley, C.H. and Neale, D.B. 2004. Nucleotide

variation and linkage disequilibrium in loblolly pine. Proceedings of the

National Academy of Sciences of the United States of America, 101: 15255–

15260.

Brown, D.M., Zeef, L.A., Ellis, J., Goodacre, R. and Turner, S.R. 2005. Identification of

novel genes in Arabidopsis involved in secondary cell wall formation using

expression profiling and reverse genetics. Plant Cell, 17: 2281–2295.

Bundock, P.C., Hayden, M. and Vaillancourt, R.E. 2000. Linkage maps of Eucalyptus

globulus using RAPD and microsatellite markers. Silvae Genetica, 49: 223-232.

Bundock, P.C., Potts, B.M. and Vaillancourt, R.E. 2008. Detection and stability of

quantitative trait loci (QTL) in Eucalyptus globulus. Tree Genetics and

Genomes, 4: 85-95.

Burn, J.E., Hocart, C.H., Birch, R.J., Cork, A.C. and Williamson, R.E. 2002. Functional

analysis of the cellulose synthase genes CesA1, CesA2, and CesA3 in

Arabidopsis. Plant Physiology, 129: 797–807.

Burton, R.A., Shirley, N.J., King, B.J., Harvey, A.J. and Fincher, G.B. 2004. The CesA

gene family of barley (Hordeum vulgare): quantitative Analysis of transcripts

reveals two groups of co-expressed genes. Plant Physiology, 134: 224–236.

Page 6: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

169

Burton, R.A., Collins, H.M., Kibble, N.A., Smith, J.A., Shirley, N.J., Jobling, S.A.,

Henderson, M., Singh, R.R., Pettolino, F., Wilson, S.M., Bird, A.R., Topping,

D.L., Bacic, A. and Fincher, G.B. 2011. Over-expression of specific HvCslF

cellulose synthase-like genes in transgenic barley increases the levels of cell

wall (1, 3; 1, 4)-β-d-glucans and alters their fine structure. Plant Biotechnology

Journal, 9: 117-35.

Busch, W. and Lohmann, J.U. 2007. Profiling a plant: expression analysis in

Arabidopsis. Current Opinion in Plant Biology, 10: 136-141.

Bustin, S. 2002. Quantification of mRNA using real-time reverse transcription PCR

(RT-PCR): trends and problems. Journal of Molecular Endocrinology, 29: 23–

39.

Bustin, S.A. 2005. Real-time, fluorescence-based quantitative PCR: a snapshot of

current procedures and preferences. Expert Review of Molecular

Diagnostics, 5: 493–498.

Bustin, S., Benes, V., Nolan, T. and Pfaffl, M. 2005. Quantitative real-time RT-PCR- a

perspective. Journal of Molecular Endocrinology, 34: 597–601.

Bustin, S.A., Benes, V., Garson, J.A., Hellemans, J., Huggett, J., Kubista, M., Mueller,

R., Nolan, T., Pfaffl, M.W., Shipley, G.L. Vandesompele, J. and Wittwer, C.T.

2009.

The MIQE Guidelines -Minimum Information for Publication of Quantitative

Real-Time PCR Experiments. Clinical Chemistry, 55: 611-622.

Byrne, M., Murrell, J.C., Owen, J.V., Kriedemann, P., Williams, E.R. and Moran, G.F.

1997. Identification and mode of action of quantitative trait loci affecting

seedling height and leaf area in Eucalyptus nitens. Theoretical and Applied

Genetics, 94: 674-681.

Byrne, M. 2008. Phylogeny, diversity and evolution of eucalypts, 303-346: In Plant

Genome - Biodiversity and Evolution, Sharma, A.K. and Sharma, A. (eds.)

Science Publishers, Enfield New Hampshire, USA.

Campbell, J.A., Davies, G.J., Bulone, V. and Henrissat, B. 1998. A classification of

nucleotide-diphospho-sugar glycosyl transferases based on amino acid

sequence similarities. Biochemistry Journal, 329: 719.

Campinhos, E.J.R. 1999. Sustainable plantations of high-yield Eucalyptus trees for

production of fiber: The Aracruz case. New Forests, 17: 129–143.

Cano-Delgado, A., Yin, Y., Yu, C., Vafeados, D., Mora-Garcia, S., Cheng, J.C., Nam,

K.H., Li, J. and Chory, J. 2004. BRL1 and BRL3 are novel brassinosteroid

receptors that function in vascular differentiation in Arabidopsis. Development,

131: 5341- 5351.

Cardoso, D.C., Martinati, J.C., Giachetto, P.F., Vidal, R.O., Carazzolle, M.F., Padilha,

L., Guerreiro-Filho, O. and Maluf, M.P. 2014. Large-scale analysis of

differential gene expression in coffee genotypes resistant and susceptible to leaf

Page 7: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

170

miner–toward the identification of candidate genes for marker assisted-

selection. BMC Genomics, 15: 66.

Carlsbecker, A. and Helariutta, Y. 2005. Phloem and xylem specifications: pieces of the

puzzle emerge. Current Opinion in Plant Biology, 8: 512-517.

Carpita, N. and McCann, M. 2000. The cell wall. 52-108: In Biochemistry and

Molecular Biology of Plants, Buchanan, B.B., Gruissem, W. and Jones, R.L.

(eds.) ASPP Press, Rockville.

Carvalho A., Paiva, J., Louzada, J. and Lima-Brito, J. 2013. The transcriptomics of

secondary growth and wood formation in Conifers. Molecular Biology

International, doi:10.1155/2013/974324.

Cassan-Wang, H., Goue, N., Saidi, M.N. Legay, S., Sivadon, P., Goffner, D. and

Grima-Pettenati, J. 2013. Identification of novel transcription factors regulating

secondary cell wall formation in Arabidopsis. Frontiers in Plant Science, 4: 189.

Chaffey, N., Barnett, J. and Barlow, P. 1999. A cytoskeletal basis for wood formation in

angiosperm trees: the involvement of cortical microtubules. Planta, 208: 19-30.

Chaffey, N. 2001. Wood formation in trees. In Cell and Molecular Biology techniques,

Harwood Academic Publishers, London.

Chaffey, N., Cholewa, E., Regan, S. and Sundberg, B. 2002. Secondary xylem

development in Arabidopsis: a model for wood formation, Plant Physiology,

114: 594-600.

Chaffin, D.O. and Rubens, C.E. 1998. Blue/white screening of recombinant plasmids in

Gram-positive bacteria by interruption of alkaline phosphatase gene (phoZ)

expression. Gene, 219: 91-99.

Cha-um, S. and Kirdmanee, C. 2008. Assessment of salt tolerance in Eucalyptus, rain

tree and thai neem under laboratory and the field conditions. Pakistan Journal of

Botany, 40: 2041-2051.

Chen, C.Y., Hsieh, M.H., Yang, C.C., Lin, C.S. and Wang, A.Y. 2010a. Analysis of the

cellulose synthase genes associated with primary cell wall synthesis in

Bambusa oldhamii. Phytochemistry, 71: 1270-1279.

Chen, R., Gyokusen, A., Nakazawa, Y. and Gyokusen, K. 2010b. Selection of

housekeeping genes for transgene expression analysis in Eucommia ulmoides

(Oliver) using Real-Time RT-PCR. Journal of Botany,

doi:10.1155/2010/230961.

Chen, Z., Wang, J., Mei-Xia, Ye., Li, H., Le-Xiangm Ji., Ying, Li., Dong-Qing, Cui.,

Jun-Mei Liu, and Xin-Min, 2013. A Novel Moderate Constitutive Promoter

Derived from Poplar (Populus tomentosa Carriere). International Journal of

Molecular Science, 14: 6187–6204.

Chezhian, P., Yasodha, R. and Ghosh, M. 2010. Genetic diversity analysis in a seed

orchard of Eucalyptus tereticornis. New Forest, 40: 85-99.

Page 8: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

171

Chezhian, P., Yasodha, R. and Ghosh Dasgupta, M. 2012. Molecular Discrimination of

eucalypts Clones using the ISSR marker system. Journal of Sustainable

Forestry, 31: 537–548.

Clarke, C.R.E., Palmer, B. And Gounden, D. 2008. Understanding and adding value

to Eucalyptus fibre, Southern Forests, 70: 169-174.

Clouse, S.D. and Sasse, J.M. 1998. Brassinosteroids: Essential regulators of plant

growth and development. Annual Review of Plant Physiology and Plant

Molecular Biology, 49: 427–51.

Corton, J.C. and Gustafsson, J.A. 1997. Increased efficiency in screening large numbers

of cDNA fragments generated by differential display. Bio- Techniques, 22:

802-804.

Cosgrove, D.J. 2005. Growth of the plant cell wall. Nature Reviews Molecular Cell

Biology, 6: 850–861.

Costa, S. and Grattapaglia, D. 1995. RAPD relatedness of elite Eucalyptus clones:

Application in breeding, mapping and forest plantation. In Silviculture and

Genetic Improvement of Eucalyptus, 161–166: Proceedings of Symposium

Salvador, State of Bahia, Brazil.

Coutinho, P.M., Deleury, E., Davies, G.J. and Henrissat, B. 2003. An evolving

hierarchical family classification for glycosyl transferases. Journal of Molecular

Biology, 328: 307–317.

Couto, L., Nicholas, I. and Wright, L. 2011. Short Rotation Eucalypt Plantations for

Energy in Brazil; IEA Bioenergy Task, 43: 02.

Creux, N.M, Ranik, M., Berger, D.K. and Myburg, A.A. 2008. Comparative analysis of

orthologous cellulose synthase promoters from Arabidopsis, Populus and

Eucalyptus: evidence of conserved regulatory elements in angiosperms. New

Phytologist, 179: 722-737.

Creux, N., Minique De Castro, Ranik, M., Spokevicius, A., Bossinger, G., Christine

Maritz-Olivier, and Myburg, Z. 2011. In silico and functional characterization

of the promoter of a Eucalyptus secondary cell wall associated cellulose

synthase gene (EgCesA1). BMC Proceedings, 5: 107.

Creux, N.M. and de Castro, M H., Ranik, M. Maleka, M F. and Myburg, A.A. 2013.

Diversity and cis-element architecture of the promoter regions of cellulose

synthase genes in Eucalyptus. Tree Genetics & Genomes, 9: 989–1004.

Cutler, S. and Somerville, C. 1997. Cellulose synthesis: cloning in silico. Current

Biology, 7: 108–111.

Dasgupta, M.G., Chezhian, P. and Yasodha, R. 2010. Identification of putative trait

based markers for genetic improvement of Eucalyptus tereticornis. Electronic

Journal of Plant Breeding, 1: 1213-1226.

Page 9: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

172

David, B. and Bala, T. 2013. Characterising a Eucalyptus cladocalyx breeding

population using SNP markers. Tree Genetics and Genomes, 9: 741.

Davidson, E.J., Harwood, C. and Vanwyk, G. 1993. Eucalypts domestication and

breeding. Clarendon Press, Oxford.

Dayan, J., Schwarzkopf, M. and Avni, A. 2010. Enhancing plant growth and fiber

production by silencing GA 2-oxidase. Plant Biotechnology Journal, 8: 425–

435.

De Araujo, E.S.N.N., Gimenes, M.A. and Lopes, C.R. 2002. Phylogenetic relationship

among eucalyptus and Corymbia based on rnDNA internal transcribed spacer

sequence. Scientia Forestalis, 62: 75-85.

De Bruyne, L., Hofte, M. and De Vleesschauwer, D. 2014. Connecting growth and

defense: the emerging roles of brassinosteroids and gibberellins in plant innate

immunity. Molecular Plant Advance, doi: 10.1093/mp/ssu050.

Delbarre, A., Muller, P. and Imhoff, V. 1996. Comparison of mechanisms controlling

uptake and accumulation of 2,4-dichlorophenoxy acetic acid, naphthalene-1-

acetic acid and indole-3-acetic acid in suspension-cultured tobacco cells. Planta,

198: 532–541.

Delmer, D.P. and Amor, Y. 1995. Cellulose biosynthesis. Plant Cell, 7: 987–1000.

Delmer, D.P. 1999. Cellulose biosynthesis: Exciting times for a difficult field of study.

Annual Review of Plant Physiology and Plant Molecular Biology, 50: 245- 276.

Delmer, D.P. and Haigler, C.H. 2002. The regulation of metabolic flux to cellulose, a

major sink for carbon in plants. Metabolic Engineering, 4: 22–28.

Demura, T. and Fukuda, H. 2007. Transcriptional regulation in wood formation. Trends

in Plant Science, 12: 64-70.

Dhugga, K.S. 2001. Building the wall: genes and enzyme complexes for polysaccharide

synthases. Current Opinion in Plant Biology, 4: 488–493.

Dilks, D.W., Ring, R.H., Khawaja, X.Z., Novak, T.J. and Aston, C. 2003. High-

throughput confirmation of differential display PCR results using reverse

Northern blotting. Journal of Neuroscience Methods, 123: 47-54.

Dillon, S.K., Nolan, M., Li, W., Bell, C., Wu, H.X. and Southerton, S.G. 2010. Allelic

variation in cell wall candidate genes affecting solid wood properties in natural

populations and land races of Pinus radiata. Genetics, 185: 1477–1487.

Ding, S.Y. and Himmel, M.E. 2006. The maize primary cell wall microfibril: a new

model derived from direct visualization. Journal of Agricultural and Food

Chemistry, 54: 597-606.

Page 10: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

173

Diotallevi, F. and Mulder, B. 2007. The cellulose synthase complex: a polymerization

driven supramolecular motor. Journal of Biophysics, 92: 2666-2673.

Djerbi, S., Aspeborg, H., Nilsson, P., Sundberg, B., Mellerowicz, E., Blomqvist, K. and

Teeri, T.T. 2004. Identification and expression analysis of genes encoding

putative cellulose synthases (CesA) in the hybrid aspen, Populus tremula (L.) X

P. tremuloides (Michx.). Cellulose, 11: 301-312.

Djerbi, S., Lindskog, M., Arvestad, L., Sterky, F. and Teeri, T.T. 2005. The genome

sequence of black cottonwood (Populus trichocarpa) reveals 18 conserved

cellulose synthase (CesA) genes. Planta, 221: 739-746.

Doblin, M.S., Kurek, I., Jacob-Wilk, D. and Delmer, D.P. 2002. Cellulose biosynthesis

in plants: from genes to rosettes. Plant Cell Physiology, 43: 1407–1420.

Doblin, M.S., Pettolino, F.A., Wilson, S.M., Campbell, R., Burton, R.A., Fincher, G.B.,

Newbigin, E. and Bacic, A. 2009. A barley cellulose synthase-like CSLH gene

mediates (1, 3; 1,4)-b-D-glucan synthesis in transgenic Arabidopsis.

Proceedings of the National Academy of Sciences of the United States of

America, 106: 5996–6001.

Doran, J.C. and Burgess, I.P. 1993. Variation in floral bud morphology in the

intergrading zone between Eucalyptus camaldulensis and Eucalyptus

tereticornis in Northern Queensland. Commonwealth Forestry Review, 72:

198–202.

Dornelas, M.C. and Rodriguez, A.P.M. 2005. Identifying Eucalyptus expressed

sequence tags related to Arabidopsis flowering-time pathway genes. Brazilian

Journal of Plant Physiology, 17: 255-266.

Doughty, R.W. 2000. The Eucalyptus. A natural and commercial history of the gum

tree. The Johns Hopkins University Press, Baltimore, London.

Douglas, C.J. and Difazio, S. 2010. The Populus genome and comparative genomics.

67-90: In Genetics and Genomics of Populus, Jansson, S., Bhalerao, R. and

Groover, A. (eds.) Springer Verlag, Berlin.

Doyle, J.J. and Doyle, J.L. 1987. A rapid DNA isolation procedure for small quantities

of fresh leaf tissue. Phytochemical Bulletin, 19: 11-15.

Du, J. and Groover, A. 2010. Transcriptional Regulation of Secondary Growth and

Wood Formation. Journal of Integrative Plant Biology, 52: 17–27.

Du, Q., Wang, B., Wei, Z., Zhang, D. and Li, B. 2012. Genetic diversity and population

structure of Chinese white poplar (Populus tomentosa) revealed by SSR

markers. Journal of Heredity, 103: 853-862.

Du, Q., Pan, W., Xu, B., Li, B. and Zhang, D. 2013. Polymorphic simple sequence

repeat (SSR) loci within cellulose synthase (PtoCesA) genes are associated with

growth and wood properties in Populus tomentosa. New Phytologist, 197: 763-

776.

Page 11: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

174

Dungey, H. S., Matheson, A. C., Kain, D. and Evans, R. 2006. Genetics of wood

stiffness and its component traits in Pinus radiata. Canadian Journal of Forest

Research, 36: 1165–1178.

Duran, C., Edwards, D. and Batley, J. 2008. Genetic Maps and the Use of Synteny.

Methods in Molecular Biology, 513: 41-55.

Eathington, S.R., Crosbie, T.M., Edwards, M.D., Reiter, R. and Bull, J.K. 2007.

Molecular markers in a commercial breeding program. Crop Science, 47: S154–

S163.

Eldridge, K., Davidson, J., Harwood, C. van. and Wyk, G. 1993. Eucalypts

domestication and breeding. Clarendon Press, Oxford. 288pp.

Emery, J.F., Floyd, S.K., Alvarez, J., Eshed, Y., Hawker, N.P., Izhaki, A., Baum, S.F.

and Bowman, J.L. 2003. Radial patterning of Arabidopsis shoots by Class III

HD-ZIP and KANADI genes. Current Biology, 13: 1768– 1774.

Eriksson, M.E., Israelsson, B.M., Olsson, O. and Moritz, T. 2000. Increased gibberellin

biosynthesis in transgenic trees promotes growth, biomass production and

xylem fiber length. Nature Biotechnology, 18: 784–788.

Evans, J. 1992. Plantation forestry in the tropics, In Tree planting for industrial, social,

environmental, and agro forestry purposes, (2nd

eds.) Oxford Science

Publications, Oxford, New York.

Evans, R., Kibblewhite, R.P. and Stringer, S. 1997. Kraft pulp fibre property prediction

from wood properties in eleven radiate pine clones. Appita Journal, 50: 25–33.

Evans, J. and Turnbull, J. 2004. Plantation forestry in the tropics, In The role,

silviculture, and use of planted forests for industrial, social, environmental, and

agroforestry purposes, (3rd

eds.) Oxford University Press, Oxford,

United Kingdom.

Eveland, A.L., McCarty, D.R. and Koch, K.E. 2008. Transcript Profiling by 3′-

Untranslated Region Sequencing Resolves Expression of Gene Families. Plant

Physiology, 146: 32–44.

Evtuguin, D. and Neto, P. 2007. Recent advances in eucalyptus wood chemistry:

Structural features through the prism of technological response. In 3rd

International Colloquium on eucalyptus pulp, Belo Horizonte, Brazil.

Fagard, M., Desons, T., Goubet, D.F., Refregier, G., Mouille, G., McCann, M., Rayon,

C., Vernhettes, S. and Hofte, H. 2000. PROCUSTE1 encodes a cellulose

synthase required for normal cell elongation specifically in roots and dark-

grown hypocotyls of Arabidopsis. Plant Cell, 12: 2409–2423.

FAO, 2001. Glossary of biotechnology for food and agriculture - A revised and

augmented edition of the glossary of biotechnology and genetic engineering.

Page 12: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

175

Zaid, A., Hughes, H.G., Porceddu, E. and Nicholas, F. (eds.) FAO Research and

Technology Paper, 9.

FAO, 2007. Marker-assisted selection: Current status and future perspectives in crops,

livestock, forestry and fish. Guimaraes, E.P., Ruane, J., Sonnino, A., Scherf,

B.D. and Dargie, J.D. (eds.) Rome.

Farquharson, K.L. 2008. Probing the Role of Auxin in wood Formation. The Plant Cell,

20: 822.

Favreau, B., Camus-Kulandaivelu, L., Ueno, S. and Bouvet, J-M. Pattern and genetic

diversity of lignin and cellulose candidate gene in Eucalyptus urophylla natural

population. NCBI Submission, 2013.

Fernandez, M., Villarroel, C., Balbontin, C. and Valenzuela, S. 2010. Validation of

reference genes for real-time RT-qPCR normalization during cold acclimation

in Eucalyptus globulus. Trees, 24: 1109–1116.

Festucci-Buselli, R.A., Otoni, W.C. and Joshi, C.P. 2007. Structure, organization, and

functions of cellulose synthase complexes in higher plants. Brazilian Journal of

Plant Physiology, 19: 1–13. Flavell, R. 2008. Role of model plant species. Methods in Molecular Biology, 513: 1-

18.

Florence, R.G. 1996. Ecology and silviculture of eucalypts forests. CSIRO Publishing,

Collingwood.

Floris, M., Mahgoub, H., Lanet, E., Robaglia, C. and Menand, B. 2009. Post-

transcriptional Regulation of gene expression in plants during abiotic stress.

International journal of Molecular Science, 10: 3168–3185.

Flynn, R. and Shield, E.D. 1999. Eucalyptus: Progress in higher value utilization: A

global review. Robert Flynn and Associates, Tacoma, Washington. 212 pp.

Foucart, C., Jauneau, A., Gion, J.M., Amelot, N., Martinez, Y., Panegos, P., Grima-

Pettenati, J. and Sivadon, P. 2009. Overexpression of EgROP1, a Eucalyptus

vascular expressed Rac-like small GTPase, affects secondary xylem formation

in Arabidopsis thaliana. New Phytologist, 183: 1014-1029.

Freeman, J.S., Whittock, S.P., Potts, B.M., Vaillancourt, R.E. 2009. QTL influencing

growth and wood properties in Eucalyptus globulus. Tree Genetics and

Genomes, 5: 713-722.

Freemont, P.S. 2000. Ubiquitination: ring for destruction? Current Biology, 10: R84–

R87.

Fukuda, H. 1992. Tracheary element formation as a model system of cell

differentiation. International Review of Cytology, 136: 289–332.

Fukuda, H. 1997. Tracheary element differentiation. Plant Cell, 9: 1147–1156.

Page 13: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

176

Fukuda, H. 2004. Signals that control plant vascular cell differentiation. Nature

Reviews Molecular Cell Biology, 5: 379–390.

Funada, R., Miura, T., Shimizu, Y., Kinase, T., Nakaba, S., Kubo, T. and Sano, Y.

2008. Gibberellin-induced formation of tension wood in angiosperm trees.

Planta, 227: 1409–1414.

Gaiotto, F.A., Bramucci, M. and Grattapaglia, D. 1997. Estimation of out crossing rate

in a breeding population of Eucalyptus urophylla with dominant RAPD and

AFLP markers. Theoretical and Applied Genetics, 95: 842–849.

Gan, S., Shi, J., Li, M., Wu, K., Wu, J. and Bai, J. 2003. Moderate density molecular

maps of Eucalyptus urophylla S.T. Blake and E. tereticornis Smith genomes

based on RAPD markers. Genetica, 118: 59-67.

Gapare, W.J., Wu, H. X. and Abarquez, A., 2006 Genetic control of the time of

transition from juvenile to mature wood in Pinus radiata D. Don. Annals of

Forest Science, 63: 871–878.

Garcia, M. Villalba, P., Acuna, C., Oberschelp, J., Harrand, L., Surenciski, M.,

Martinez, M., Petroli, C., Sansaloni, C., Faria, D., Grattapaglia, D. and Poltri,

S.M. 2011. A genetic linkage map for a Full sib population of Eucalyptus

grandis using SSR, DArT, CG-SSR and EST-SSR markers. BMC Proceedings,

5: P26.

Gardiner, J.C., Taylor, N.G. and Turner, S.R. 2003. Control of Cellulose Synthase

Complex Localization in Developing Xylem. The Plant Cell, 15: 1740-1748

Gemas, V.J.V., Neves, L.O., Araujo, C. and Fevereiro, P. 2004. How Can ISSR

Markers be useful in the management of genetic resources in a Eucalyptus

globulus ssp. Globulus baseline Collection. In Eucalyptus in a Changing World,

373–377: Proceedings of IUFRO Conference, 2004, Aveiro, Portugal.

Ginwal, H.S., Kumar, P., Sharma, V.K., Mandal, A.K. and Harwood, C.E. 2004.

Genetic variability and early growth performance of Eucalyptus tereticornis

Sm. in provenance cum progeny trials in India. Silvae Genetica, 53: 148-153.

Gion, J-M., Carouche, A., Deweer, S., Bedon, F., Pichavant, F., Charpentier, J-P.,

Bailleres, H., Rozenberg, P., Carocha, V., Ognouabi, N., Verhaegen, D.,

Grima-Pettenati, J., Vigneron, P. and Plomion, C. 2011. Comprehensive

genetic dissection of wood properties in a widely-grown tropical tree:

Eucalyptus. BMC Genomics, 12: 301.

Githiomi, J.K. and Dougal, E. 2012. Analysis of Heartwood and Sapwood Demarcation

Methods and Variation of Sapwood and heartwood within and between 15 Year

Old Plantation Grown Eucalyptus Regnans. International Journal of Applied

Science and Technology, 2: 8.

Goda, H., Shimada, Y., Asami, T., Fujioka, S. and Yoshida, S. 2002. Microarray

analysis of Brassinosteroid-Regulated Genes in Arabidopsis. Plant Physiology,

130: 1319-1334.

Page 14: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

177

Goda, H., Sawa, S., Asami, T., Fujioka, S., Shimada, Y. and Yoshida. S. 2004.

Comprehensive comparison of auxin-regulated and brassinosteroid-regulated

genes in Arabidopsis. Plant Physiology, 134: 1555-1573.

Goddard, M.E. and Hayes, B.J. 2007. Genomics selection. Journal of Animal Breeding

and Genetics, 124: 323–330.

Godoy, A., Morita, R.J., Cordenunsi, B.R., Lajolo, F.M., Joao Robert, O. and do

Nascimento. 2009. Expression analysis of a set of genes related to the ripening

of bananas and mangoes. Brazilian Journal of Plant Physiology, 21: 251-259.

Goicoechea, M., Lacombe, E., Legay, S., Mihaljevic, S., Rech, P., Jauneau, A.,

Lapierre, C., Pollet, B., Verhaegen, D., Chaubet-Gigot, N. and Grima-Pettenati,

J. 2005. EgMYB2, a new transcriptional activator from Eucalyptus xylem,

regulates secondary cell wall formation and lignin biosynthesis. Plant Journal,

43: 553-567.

Goldsbrough, A.P, Albrecht, H. and Stratford, R. 1993. Salicylic acid-inducible binding

of a tobacco nuclear protein to a 10 bp sequence which is highly conserved

amongst stress-inducible genes. Plant Journal, 3: 563-71.

Gomide, J.L., Colodette, J.L., de Oliveira, R.C. and Silva, C.M. 2005. Technological

characterization for production of cellulose, the new generation of clones of

Eucalyptus in Brazil. Revista Arvore, 29: 129-137.

Gonzalez-Martinez, S.C., Wheeler, N.C., Ersoz, E., Nelson, D.C. and Neale, D.B. 2007.

Association Genetics in Pinus taeda L. I. Wood Property Traits. Genetics, 175:

399-409.

Goue, N., Lesage-Descauses, M.C., Mellerowicz, E. J., Magel, E., Label, P. and

Sundberg, B. 2008. Microgenomic analysis reveals cell type-specific gene

expression patterns between ray and fusiform initials within the cambial

meristem of Populus. New Phytologist, 180: 45-56.

Grattapaglia, D., O‟ Malley, D. and Sederoff, R. 1992. Multiple applications of RAPD

markers to genetic analysis in Eucalyptus sp. In Resolving Tropical Forest

Resources Concerns through Tree Improvement, Gene Conservation and

Domestication of New Species, 436–450: Proceedings of the IUFRO meeting,

1992, Cali, Colombia.

Grattapaglia, D. and Sederoff, R. 1994. Genetic linkage maps of Eucalyptus grandis

and Eucalyptus urophylla using a pseudo-testcross mapping strategy and RAPD

markers. Genetics, 137: 1121-1137.

Grattapaglia, D. and Bradshaw, H.D. 1994. Nuclear-DNA content of commercially

important Eucalyptus species and hybrids. Canadian Journal of Forest

Research, 24: 1074–1078.

Grattapaglia, D., Bertolucci, F.L.G., Penchel, R. and Sederoff, R.R. 1996. Genetic

mapping of quantitative trait loci controlling growth and wood quality traits in

Page 15: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

178

Eucalyptus grandis using a maternal half-sib family and RAPD markers.

Genetics, 144: 1205-1214.

Grattapaglia, D. 2003. Genolyptus. 51-72: In Breeding, Borem, A., Giudice, M. and

Sediyama, T. (eds.) UFV, Lush, MG, Brazil.

Grattapaglia, D. 2004. Integrating genomics into eucalyptus breeding. Genetics and

molecular research, 3: 369-379.

Grattapaglia, D. 2008. Genomics of Eucalyptus, a global tree for energy, paper, and

wood, 259–298: In Genomics of tropical crop plants, Moore, P., Ming, R. (eds.)

Springer, New York, USA.

Grattapaglia, D. and Kirst, M. 2008. Eucalyptus applied genomics: from gene sequences

to breeding tools. New Phytologist, 179: 911–929.

Grattapaglia, D., Plomion, C., Kirst, M. and Sederoff, R.R. 2009. Genomics of growth

traits in forest trees. Current Opinion in Plant Biology, 12: 148–156

Grattapaglia, D. and Resende, M.D.V. 2011. Genomics selection in forest tree breeding.

Tree Genetics and Genomes, 7: 241–255.

Grattapaglia, D., Silva-Junior, O., Kirst, M., de Lima, B., Faria, D. and Pappas, G.

2011. High-throughput SNP genotyping in the highly heterozygous genome of

Eucalyptus: assay success, polymorphism and transferability across species.

BMC Plant Biology, 11: 65

Grattapaglia, D., Vaillancourt, R.E., Shepherd, M., Thumma, B.R., Foley, W., Külheim,

C., Potts, B.M., Alexander, A. and Myburg. 2012. Progress in Myrtaceae

genetics and genomics: Eucalyptus as the pivotal genus. Tree Genetics and

Genomes, 8: 463–508.

Groover, A.T. 2005. What genes make a tree? Trends in Plant Science, 10: 210-214.

Groover, A. and Robischon, M. 2006. Developmental mechanisms regulating secondary

growth in woody plants. Current Opinion in Plant Biology, 9: 5–58.

Grushetskaya, Z.E., Lemesh, V.A. and Khotyleva, L.V. 2010. Development of specific

and degenerate primers for CesA genes encoding cellulose synthase in flax

(Linum usitatissimum L.) Cytology and Genetics, 44: 195-199.

Gubler, F. and Jacobsen, J.V. 1992. Gibberellin-responsive elements in the promoter of

a barley high-pI amylase gene. Plant Cell, 4: 1435–1441.

Guenin, S., Mauriat, M., Pelloux, J., van Wuytswinkel, O. and Bellini, C. 2009.

Normalization of qRT-PCR data: the necessity of adopting a systematic,

experimental conditions-specific, validation of references. Journal of

Experimental Botany, 60: 487–493.

Page 16: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

179

Gutierrez, L., Mauriat, M., Guenin, S., Pelloux, J. and Lefebvre, J-F. 2008. The lack of

a systematic validation of reference genes: a serious pitfall undervalued in

reverse transcription-polymerase chain reaction (RT-PCR) analysis in plants.

Plant Biotechnology Journal, 6: 609-618.

Hawkins, S., Boudet, A. and Grima-Pettenati, J. 2003. Characterisation of caffeic acid

O-methyltransferase and cinnamyl alcohol dehydrogenase gene expression

patterns by in situ hybridisation in Eucalyptus gunnii Hook. Plantlets. Plant

Science, 164: 165-173.

Hay, A. and Tsiantis, M. 2010. KNOX genes: Versatile regulators of plant development

and diversity. Development, 137: 3153–3165.

Hayes, B.J., Bowman, P.J. and Chamberlain, A.J. 2009. Invited review: genomic

selection in dairy cattle: progress and challenges. Journal of Dairy Science, 92:

433–443.

Hazen, S.P., Scott-Craig, J.S. and Walton, J.D. 2002. Cellulose synthase like genes of

rice. Plant Physiology, 128: 336–340.

Hefer, C., Mizrachi, E., Joubert, F. and Myburg, A. 2011. The Eucalyptus genome

integrative explorer (EucGenIE): a resource for Eucalyptus genomics and

transcriptomics. BMC Proceedings, 5: O49.

Hellgren, J.M., Olofsson, K. and Sundberg, B. 2004. Patterns of auxin distribution

during gravitational induction of reaction wood in poplar and pine. Plant

Physiology, 135: 212–220.

Henrissat, B., Coutinho, P.M. and Davies, G.J. 2001. A census of carbohydrate-active

enzymes in the genome of Arabidopsis thaliana. Plant Molecular Biology, 47:

55–72.

Hertzberg, M., Aspeborg, H., Schrader, J., Andersson, A., Erlandsson, R., Blomqvist,

K., Bhalerao, R., Uhlen, M., Teeri, T.T. and Lundeberg, J. 2001. A

transcriptional roadmap to wood formation. Proceedings of the National

Academy of Sciences of the United States of America, 98: 14732–14737.

Higashi, E.N., Silveira, R.L.V.A. and Gonçalves, A.N. 2000. Nutritional monitoring

and fertilization on macro, mini, and microjardim clonal eucalyptus. 191-217:

Jlm in Gonçalves and Benedetti, V (eds.) Nutrition and forest fertilization,

IPEF, pyramidal.

Hinchee, M., Rottmann, W., Mullinax, L., Zhang, C., Chang, S., Cunningham, M.,

Pearson, L. and Nehra, N. 2009. Short-rotation woody crops for bioenergy and

biofuels applications. In Vitro Cellular and Developmental Biology-Plant, 45:

619-629.

Hirakawa, H., Nakamura, Y., Kaneko, T., Isobe S., Sakai, H., Kato, T., Hibino, T.,

Sasamoto, S., Watanabe, A., Yamada, M., Nakayama, S., Fujishiro, T., Kishida,

Y., Kohara, M., Tabata, S. and Sato S. 2011. Survey of the genetic information

Page 17: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

180

carried in the genome of Eucalyptus camaldulensis. Plant Biotechnology, 28:

471-80.

Ho, W.S, Ling, P.S. and Lau, P. 2011. Sequence Variation in the Cellulose Synthase (

SpCesA1 ) Gene from Shorea parvifolia ssp. parvifolia Mother Trees. Pertanika

Journal of Tropical Agricultural Science, 34: 317-323.

Holland, N., Holland, D., Helentjaris, T., Dhugga, K. S., Xoconostle-Cazares B. and

Delmer D.P. 2000. A comparative analysis of the plant cellulose synthase gene

(CesA) gene family. Plant Physiology, 123: 1313–1323.

Hong, X., Scofield, D.G. and Lynch, M. 2006. Intron Size, Abundance, and Distribution

within Untranslated Regions of Genes. Molecular Biology and Evolution, 23:

2392–2404.

Hong, S.Y., Seo, P.J., Yang, M.S., Xiang, F. and Park, C.M. 2008. Exploring valid

reference genes for gene expression studies in Brachypodium distachyon by

real-time PCR. BMC Plant Biology, 8: 1–11.

Huang, X. and Madan, A. 1999. CAP3: A DNA sequence assembly program. Genome

Research, 9: 868-77.

Hudson, C.J. 2012. Eucalyptus genomics: Linkage mapping, QTL analysis and

population genomic Studies. Ph.D. thesis, University of Tasmania, Australia.

Huggett, J., Dheda, K., Bustin, S. and Zumla, A. 2005. Real-time RT-PCR

normalization; strategies and considerations. Genes and Immunity, 6: 279–284.

Huis, R., Hawkins, S. and Neutelings, G. 2010. Selection of reference genes for

quantitative gene expression normalization in flax (Linum usitatissimum L.).

BMC Plant Biology, 10: 71.

Iglesias Trabado, G. and Wilstermann, D. 2009. “Eucalyptus universalis. Global

cultivated eucalypt forests map 2009”. GIT Forestry Consulting's

Eucalyptologics. Available from http://www.git-forestry.com/ [Accessed 25

December 2013].

Ilegems, M., Douet, V., Meylan-Bettex, M., Uyttewaal, M., Brand, L. and Bowman, J.

L. 2010. Interplay of auxin, KANADI and Class III HD-ZIP transcription

factors in vascular tissue formation. Development, 137: 975–984

Inada, S., Tominaga, M. and Shimmen, T. 2000. Regulation of root growth by

gibberellin in Lemna minor. Plant Cell Physiology, 41: 657–665.

Ishida, K., Yamashino, T., Yokoyama, A. and Mizuno, T. 2008. Three type-B response

regulators, ARR1, ARR10 and ARR12, play essential but redundant roles in

cytokinin signal transduction throughout the life cycle of Arabidopsis thaliana.

Plant Cell Physiology, 49: 47-57

Israelsson, M., Mellerowicz, E., Chono, M., Gullberg, J. and Moritz, T. 2004. Cloning

and overproduction of gibberellin 3-oxidase in hybrid aspen trees. Effects of

gibberellin homeostasis and development. Plant Physiology, 135: 221-230.

Page 18: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

181

Israelsson, M., Sundberg B. and Moritz T. 2005. Tissue-specific localization of

gibberellins and expression of gibberellin-biosynthetic and signaling genes in

wood-forming tissues in Aspen. Plant Journal, 44: 494–504.

Jacobs, M.R. 1981. Eucalyptus for planting. FAO Forestry Series No.11, FAO, Rome.

Javelle, M., Marco, C.F. and Timmermans, M. 2011. In situ Hybridization for the

Precise Localization of Transcripts in Plants. Journal of Visualized

Experiments, 57: e3328.

Jiang, C., Iu, B. and Singh, J. 1996. Requirement of a CCGAC cis-acting element for

cold induction of the BN115 gene from winter Brassica napus. Plant Molecular

Biology, 30: 679-684.

Jones, A.M. 2001. Programmed cell death in development and defense. Plant

Physiology, 125: 94–97.

Jones, R.C., Steane, D.A., Potts, B.M. and Vaillancourt, R.E. 2002. Microsatellite and

morphological analysis of Eucalyptus globulus populations. Canadian Journal

of Forest Research, 32: 59–66.

Jones, M.E., Shepherd, M., Henry, R. and Delves, A. 2008. Pollen flow in Eucalyptus

grandis determined by paternity analysis using microsatellite markers. Tree

Genetics and Genomes, 4: 37-47.

Joshi, C.P. 2003. Molecular biology of cellulose biosynthesis in plants, 19-38: In

Recent research developments plant molecular biology, Pandalai, R. (eds.)

Research Signpost, Kerala, India.

Joshi, C.P. and Mansfield, S.D. 2007. The cellulose paradox: simple molecule, complex

biosynthesis. Current Opinion in Plant Biology, 10: 220–226.

Joshi, C.P., Suchita, R., Priya, C.K., Udaya, X., Liang, F., Takeshi and S. Anita, 2004.

Genomics of cellulose biosynthesis in Poplars. New Phytologist, 164: 53-61.

Joshi, C.P., Thammannagowda, S., Fujino, T., Gou, J.Q., Avci, U., Haigler, C.H.,

McDonnell, L.M., Mansfield, S.D., Menghesa, B., Carpita, N.C., Harris, D.,

DeBolt, S. and Peter, G.F. 2011. Perturbation of wood cellulose synthesis

causes pleiotropic effects in transgenic aspen. Molecular Plant, 4: 331–345.

Junghans, D., Alfenas, A.C., Brommonschenkel, S.H., Oda, S., Mello E.J. and

Grattapaglia, D. 2003. Resistance to Rust in Eucalyptus: mode of inheritance

and mapping of a major gene with RAPD markers. Theoretical and Applied

Genetics, 108: 175–180.

Kalluri, U.C. and Joshi, C.P. 2003. Isolation and characterization of a new, full-length

cellulose synthase cDNA, PtrCesA5 from developing xylem of aspen trees.

Journal of Experimental Botany, 54: 2187-2188.

Kalluri, U.C. and Joshi, C.P. 2004. Differential expression patterns of two cellulose

synthase genes are associated with primary and secondary cell wall

development in aspen trees. Planta, 220: 47-55.

Page 19: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

182

Kalluri, U.C., DiFazio, S.P., Brunner, A.M. and Tuskan, G.A. 2007. Genome-wide

analysis of Aux/IAA and ARF gene families in Populus trichocarpa. BMC

Plant Biology, 7:59.

Kamo, K., Kim, A-Y. and Joung, Y.H. 2012. The 5′UTR-intron of the Gladiolus

polyubiquitin promoter GUBQ1 enhances translation efficiency in Gladiolus

and Arabidopsis. BMC Plant Biology, 12: 79.

Karpaga Raja Sundari, B. and Dasgupta, M.G. 2012. Selection and validation of

reference genes for real-time qRT-PCR normalization in different tissues of

Eucalyptus tereticornis. Silvae Genetica, 61: 221-300.

Karpaga Raja Sundari, B. and Dasgupta M.G. 2014. Isolation of developing secondary

xylem specific cellulose synthase genes and their expression profiles during

hormone signalling in Eucalyptus tereticornis. Journal of Genetics, 93 (2):403-

414.

Kawagoe, Y. and Delmer, D.P. 1997. Cotton CelA1 has a LIM like Zn binding domain

in the N-terminal cytoplasmic region. Plant Physiology, 114: S-85.

Keegstra, K. and Raikhel, N. 2001. Plant glycosyl transferases. Current Opinion in Plant

Biology, 4: 219–224.

Keegstra, K. 2010. Plant Cell Walls. Plant Physiology, 154: 483–486.

Keller, G., Marchal, T., SanClemente, H., Navarro, M., Ladouce, N., Wincker, P.,

Couloux, A., Teulieres, C. and Marque, C. 2009. Development and functional

annotation of an 11, 303 EST collection from Eucalyptus for studies of cold

tolerance. Tree Genetics and Genomics, 5: 317–332.

Kertesz, S., Kerenyi, Z., Merai, Z., Bartos, I., Palfy, T., Barta, E. and Silhavy, D. 2006.

Both introns and long 39-UTRs operate as cis-acting elements to trigger

nonsense-mediated decay in plants. Nucleic Acids Research, 34: 6147–6157.

Kibblewhite, R. P., 1999 Designer fibres for improved papers through exploiting

genetic variation in wood microstructure. Appita Journal, 52: 429.

Kim, S.K., Abe, H., Little, C.H.A. and Pharis, R.P. 1990. Identification of two

brassinosteroids from the cambial region of scots pine (Pinus silvestris) by gas

chromatography-mass spectrometry, after detection using a dwarf rice lamina

inclination bioassay. Plant Physiology, 94: 1709-1713.

Kim, H.J., Kim, Y.K., Park, J.Y. and Kim, J. 2002. Light signalling mediated by

phytochrome plays an important rolein cold-induced gene expression through

the C-repeat/dehydration responsive element (C/DRE) in Arabidopsis thaliana.

Plant Journal, 29: 693-704.

Kim, J., Jung, J. H., Reyes, J. L., Kim, Y. S., Kim, S. Y. and Chung, K. S. 2005.

MicroRNA-directed cleavage of ATHB15 mRNA regulates vascular

development in Arabidopsis inflorescence stems. Plant Journal, 42: 84–94.

Page 20: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

183

Kim, H.J. and Triplett, B A. 2007. Cellulose synthase catalytic subunit (CesA) genes

associated with primary or secondary wall biosynthesis in developing cotton

fibers (Gossypium hirsutum). In The World Cotton Research Conference-4,

205-220: Proceedings of an International Workshop, 10-14 September, 2007,

Lubbock, Texas, USA.

Kim, H.J., Murai, N., Fang D.D. and Triplett, B.A. 2011. Functional analysis of

Gossypium hirsutum cellulose synthase catalytic subunit 4 promoter in

transgenic Arabidopsis and cotton tissues. Plant Science, 180: 323–332.

Kim, H.J., Triplett, B.A., Zhang, H.B., Lee, M.K., Hinchliffe, D.J., Li, P. and Fang,

D.D. 2012. Cloning and characterization of homeologous cellulose synthase

catalytic subunit 2 genes from allo-tetraploid cotton (Gossypium hirsutum L.).

Gene, 494: 181–189.

Kim W.C., Ko, J-H., Kim, J-Y., Kim J., Bae, H.J. and Han, K-H. 2013. MYB46 directly

regulates the gene expression of secondary wall-associated cellulose synthases

in Arabidopsis. The Plant Journal, 73: 26–36.

Kirst, M., Myburg, A.A., Jose, P.G., De Leon, Kirst, M.E., Scott, J. and Sederoff, R.

2004. Coordinated genetic regulation of growth and lignin revealed by

quantitative trait locus analysis of cDNA microarray data in an interspecific

backcross of eucalyptus. Plant Physiology, 135: 2368–2378.

Kirst, M., Basten, C.J., Myburg, A.A., Zeng, Z.B. and Sederoff, R.R. 2005. Genetic

architecture of transcript-level variation in differentiating xylem of a eucalyptus

hybrid. Genetics, 169: 2295–2303.

Klee, H. and Estelle, M. 1991. Molecular genetic approaches to plant hormone biology.

Annu. Rev. Plant Physiol. Plant Molecular Biology, 42: 529–551.

Klemn, D., Heublein, B., Fink, H.P. and Bohn, A. 2005. Cellulose: Fascinating

biopolymer and sustainable raw material. Angewandte Chemie International

Edition, 44: 3358-3393.

Klocko, A.L., Vining, K., Amarasinghe, V. and Romanel, E. 2013. Floral transcriptome

of Eucalyptus grandis. In Proceedings of Plant and Animal Genome XXI, 11–

16 January, 2013, San Diego, California, USA.

Koerber, G.R., Anderson, P, A. and Seekamp, J.V. 2013. Morphology, physiology and

AFLP markers validate that green box is a hybrid of Eucalyptus

largiflorens and E. gracilis (Myrtaceae). Australian Systematic Botany, 26:

156-166.

Koia, J.H., Moyle, R.L. and Botella, J.R. 2012. Microarray analysis of gene expression

profiles in ripening pineapple fruits. BMC Plant Biology, 12: 240.

Krutovsky, K.V. and Neale, D.B. 2005. Nucleotide diversity and linkage disequilibrium

in cold-hardiness and wood quality-related candidate genes in Douglas fir.

Genetics, 171: 2029–2041.

Page 21: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

184

Kulheim, C., Yeoh, S.H., Maintz, J., Foley, W.J. and Moran, G.F. 2009. Comparative

SNP diversity among four Eucalyptus species for genes from secondary

metabolite biosynthetic pathways. BMC Genomics, 10: 1–11.

Kulheim, C., Yeoh, S.H., Wallis, I.R., Laffan, S., Moran, G.F. and Foley, W.J. 2011.

The molecular basis of quantitative variation in foliar secondary metabolites in

Eucalyptus globulus. New Phytologist, 191: 1041-53.

Kumar G.M., Mamidala, P. and Podile, A.R. 2009. Regulation of Polygalacturonase-

inhibitory proteins in plants is highly dependent on stress and light responsive

elements. Plant Omics Journal, 2: 238-249.

Kumar, S. 2004. Genetic parameter estimates for wood stiffness, strength, internal

checking, and resin bleeding for radiata pine. Canadian Journal of Forest

Research, 34: 2601–2610.

Kurek, I., Kawagoe, Y., Jacob-Wilk, D., Doblin, M. and Delmer, D. 2002. Dimerization

of cotton fiber cellulose synthase catalytic subunits occurs via oxidation of the

zinc binding domains. Proceedings of the National Academy of Sciences of

United States of America, 99: 11109- 11114.

Lachaud, S., Catesson, A.M. and Bonnemain, J.L. 1999. Structure and functions of the

vascular cambium. Proceedings of the French Academy of Sciences, 322: 633–

650.

Lacombe, E., Van Doorsselaere, J., Boerjan, W., Boudet, A.M. and Grima-Pettenati, J.

2000. Characterization of cis-elements required for vascular expressionof the

cinnamoyl CoA reductase gene and for protein-DNA complex formation. Plant

Journal, 23: 663-676

Ladiges, P.Y., Udovicic, F. and Nelson, G. 2003. Australian biogeographical

connections and the phylogeny of large genera in the plant family Myrtaceae.

Journal of Biogeography, 30: 989–998.

Lal, P., Kulkarni, H.D., Srinivasa, K., Venkatesh, K.R. and Sanhakumar, P. 1997.

Genetically improved clonal planting stock of Eucalyptus- A success story from

India. Indian Forester, 123: 1117-1138.

Lal, 2001. Private sector forestry research: a success story from India. Tropical Woods

and Forests, 267: 33–48.

Lau, E.T., Ho, W.S. and Julaihi, A. 2009. Molecular cloning of cellulose synthase genes

SpCesA1 from developing xylem of Shorea parvifolia sp.parvifolia.

Biotechnology, 8: 416–424.

Lebourgeois, F. 2000. Climatic signals in early wood, latewood and total ring width of

Corsican pine from western France. Annals of Forest Science, 57: 155–164

Legay, S., Lacombe, E., Goicoechea, M., Briere, C., Seguin, A., Mackay, J. and Grima-

Pettenati, J. 2007. Molecular characterization of EgMYB1, a putative

transcriptional repressor of the lignin biosynthetic pathway. Plant Science, 173:

542–549.

Page 22: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

185

Legay, S., Sivadon, P., Blervacq, A-S., Pavy, N., Baghdady, A., Tremblay, L.,

Levasseur, C., Ladouce, N., Lapierre, C., Seguin, A., Hawkins, S., Mackay, J.

and Grima-Pettenati, J. 2010. EgMYB1, an R2R3 MYB transcription factor

from eucalyptus negatively regulates secondary cell wall formation in

Arabidopsis and Poplar. New Phytologist, 188: 774–786.

Lepoittevin, C., Harvengt, L., Christophe, P., Garnier-Gere, P. 2012. Association

mapping for growth, straightness and wood chemistry traits in the Pinus

pinaster Aquitaine breeding population. Tree Genetics & Genomes, 8: 113.

Lerouxel, O., Cavalier, D.M., Liepman, A.H., and Keegstra, K. 2006. Biosynthesis of

plant cell wall polysaccharides – a complex process. Current Opinion in Plant

Biology, 9: 621–630.

Lescot, M., Dehais, P., Thijs, G., Marchal, K., Moreau, Y., Van de Peer, Y., Rouze, P.

and Rombauts, S. 2002. PlantCARE, a database of plant cis-acting regulatory

elements and a portal to tools for in silico analysis of promoter sequences.

Nucleic Acids Research, 30: 325–327.

Li, X.G., Wu, H.X. and Southerton, S.G. 2011. Transcriptome profiling of Pinus

radiata juvenile wood with contrasting stiffness identifies putative candidate

genes involved in microfibril orientation and cell wall mechanics. BMC

Genomics, 12: 480.

Li, S. and Gu, Y. 2012. Cellulose biosynthesis in higher plants and the role of the

cytoskeleton. In eLS, Hetherington, A.M. (eds.) Chichester, John Wiley and

Sons, United Kingdom.

Liang, X. and Joshi, C.P. 2004. Molecular cloning of ten distinct hypervariable regions

from cellulose synthase gene superfamily in aspen trees. Tree Physiology, 24:

543-550.

Lin, Y., Kao, Y.Y., Chen, Z.Z., Chu, F.H. and Chung, J.D. 2013a. cDNA cloning and

molecular characterization of five cellulose synthase A genes from Eucalyptus

camaldulensis. Journal of Plant Biochemistry and Biotechnology, 23: 199–210.

Lin, Y-T., Jan, F-J., Lin, C-W., Chung, C-H. and Chen, J-C. 2013b. Differential gene

expression in response to Papaya ringspot virus infection in Cucumis

metuliferus using cDNA- Amplified Fragment Length Polymorphism Analysis.

PLoS ONE, 8: e68749.

Liu, X. and Vance Baird, W.M. 2003. Differential expression of genes regulated in

response to drought or salinity stress in sunflower. Crop Science, 43: 678–687.

Liu, F., Chang, X-J., Ye, Y., Xie, W-B, Wu, P. and Lian, X-M. 2011. Comprehensive

Sequence and Whole-Life-Cycle Expression Profile Analysis of the Phosphate

Transporter Gene Family in Rice. Molecular Plant, 4: 1105–1122.

Liu, X., Wang, Q., Chen, P., Song, F., Guan, M., Jin, L., Wang, Y. and Yang C. 2012.

Four Novel Cellulose Synthase (CESA) genes from Birch (Betula platyphylla

Page 23: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

186

Suk.) involved in Primary and Secondary Cell Wall Biosynthesis. International

Journal of Molecular Sciences, 13: 12195–12212.

Livak, K.J. and Schmittgen, T.D. 2001. Analysis of relative gene expression data using

real-time quantitative PCR and the 2∆∆ C(T) Method. Methods, 25: 402–408.

Lorenz, W.W. and Dean, J.F.D. 2002. SAGE Profiling and demonstration of differential

gene expression along the axial developmental gradient of lignifying xylem in

loblolly pine (Pinus taeda). Tree Physiology, 22: 301-310.

Lu, S., Li, L., Yi, X., Joshi, C. P. and Chiang, V.L. 2008. Differential expression of

three eucalyptus secondary cell wall-related cellulose synthase genes in

response to tension stress. Journal of Experimental Botany, 59: 681–695.

Lu, Y, Xie, L and Chen J. 2012 A novel procedure for absolute real-time quantification

of gene expression patterns. Plant Methods, 8: 9.

Lucas, W.J., Groover, A., Lichtenberger, R., Furuta, K., Yadav, S-R., Helariutta, Y.,

He, X-Q, Fukuda, H., Kang, J., Brady, S.M., Patrick, J.W., Sperry, J., Yoshida,

A., Lopez-Mill, A-F., Grusak, M.A. and Kachroo, P. 2013. The Plant Vascular

System: Evolution, Development and Functions. Journal of Integrative Plant

Biology, 55: 294–388.

Lukaszewicz, M., Jerouville, B. and Boutry, M. 1998. Signs of translational regulation

within the transcript leader of a plant plasma membrane H(+)-ATPase gene.

Plant Journal, 14: 413–423.

Malan, F.S. and Arbuthnot, A.L. 1995. The inter-relationships between density and

fibre properties of South-African grown Eucalyptus grandis. In: Eucalypt

plantation: Improving fibre yield and quality, 116-120: Borralho, N.M.G., Reid,

J.B., Cromer, R.N., Tibbits, W.N. and Raymond, C.A. (eds.) Proceedings of an

International CRCTHF-IUFRO conference, 19-24 February, 1995, Hobart,

Australia.

Maleka, M.F. 2007. Allelic diversity in cellulose and lignin biosynthetic genes of

Eucalyptus urophylla. S.T. Blake., Ph.D. thesis, University of Pretoria, South

Africa.

Mallona, I., Lischewski, S., Weiss, J., Hause, B. and Egea-Cortine, M. 2010. Validation

of reference genes for quantitative real-time PCR during leaf and flower

development in Petunia hybrid. BMC Plant Biology, 10: 4.

Markussen, T., Fladung, M., Achere, V., Favre, J.M., Faivre-Rampant, P., Aragones,

A., DA Silva Perez, D., Havengt, L. and Ritter, E. 2003. Identification of QTLs

controlling growth, chemical and physical wood property traits in Pinus

pinaster (Ait.). Silvae Genetica, 52: 8-15.

Maroufi, A., Van Bockstaele, E. and De Loose, M. 2010. Validation of reference genes

for gene expression analysis in chicory (Cichorium intybus) using quantitative

real-time PCR. BMC Molecular Biology, 11: 15.

Page 24: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

187

Marques, C.M., Araujo, J.A., Ferreira, J.G., Whetten, R., O'Malley, D.M., Liu, B.H. and

Sederoff, R. 1998. AFLP genetic maps of Eucalyptus globulus and Eucalyptus

tereticornis. Theoretical Applied Genetics, 96: 727-737.

Marum, L., Miguel, A., Ricardo, C.P. and Miguel, C. 2012. Correction: Reference Gene

Selection for Quantitative Real-time PCR Normalization in Quercus suber.

PLoS ONE, 7: 10.

Matsumura, H., Reich, S., Ito, A., Saitoh, H., Kamoun, S.,Winter, P., Kahl, G., Reuter,

M., Kruger, D.H. and Terauchi, R. 2003. Gene expression analysis of plant

host-pathogen interactions by SuperSAGE. Proceedings of the National

Academy of Sciences of the United States of America, 100: 15718-15723.

Mattsson, J., Sung, Z.R. and Berleth, T. 1999. Responses of plant vascular systems to

auxin transport inhibition. Development, 126: 2979–2991.

Mauriat, M. and Moritz, T. 2009. Analyses of GA20ox- and GID1-over-expressing

aspen suggest that gibberellins play two distinct roles in wood formation. Plant

Journal, 58: 989–1003.

Mcgraw, D.F. 2011. Checkoff programs in the forest products industry: examining and

report, 2011, USA.

Mellerowicz, E.J., Baucher, M., Sundberg, B. and Boerjan, W. 2001. Unravelling cell

wall formation in the woody dicot stem. Plant Molecular Biology, 47: 239–274.

Mena, M., Cejudo, F.J. Isabel-Lamoneda, I. and Carbonero, P. 2002. A Role for the

DOF Transcription Factor BPBF in the Regulation of Gibberellin-Responsive

Genes in Barley Aleurone. Plant Physiology, 130: 111-119.

Mendu, V., Stork, J., Harris, D. and DeBolt, S. 2011. Cellulose synthesis in two

secondary cell wall processes in a single cell type. Plant Signaling and

Behavior, 6: 1638-1643.

Merchant, A., Callister, A., Arndt, S., Tausz, M. and Adams, M. 2007. Contrasting

physiological responses of six Eucalyptus species to water deficit. Annals of

Botany, 100: 1507-1515.

Mignone, F., Gissi, C., Liuni, S. and Pesole, G. 2002. Untranslated regions of mRNAs.

Genome Biology, 3: 0004.1-0004.10.

Milioni, D., Sado, P.E., Stacey, N. J., Domingo, C., Roberts, K. and McCann, M.C.

2001. Differential expression of cell wall- related genes during formation of

tracheary elements in the Zinnia mesophyll cell system. Plant Molecular

Biology, 47: 221–238.

Mirand, I., Gominho, J. and Pereira, H. 2009. Variation of heartwood and sapwood in

18 year old Eucalyptus globulus trees grown with different spacing. Springer-

Verlag, 23: 367-372

Page 25: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

188

Mizrachi, E., Hefer, C.A., Ranik, M., Joubert, F. and Myburg, A.A. 2010. De novo

assembled expressed gene catalog of a fast-growing Eucalyptus tree produced

by Illumina mRNA-Seq. BMC Genomics, 11: 681.

Molhoj, M., Pagant, S. and Hofte, H. 2002. Towards understanding the role of

membrane bound endo-β-glucanases in cellulose biosynthesis. Plant and Cell

Physiology, 43: 1399-1406.

Moller, S., Croning, M.D.R. and Apweiler, R. 2001. Evaluation of methods for the

prediction of membrane spanning regions. Bioinformatics, 17: 646-653.

Moyle, R., Schrader, J., Stenberg, A., Olsson, O., Saxena, S., Sandberg, G. and

Bhalerao, R.P. 2002. Environmental and auxin regulation of wood formation

involves members of the Aux/IAA gene family in hybrid aspen. Plant Journal,

31: 675-685.

Myburg, A., Griffin, R., O‟Malley, D., Sederoff, R. and Whetten, R. 2001. Genetic

analysis of growth and wood quality traits in interspecific backcross families of

Eucalyptus grandis and Eucalyptus globulus. In Plant and Animal Genome IX

Conference, Proceedings of an International Conference, 2001, San Diego,

California, USA.

Myburg, A.A., Griffin, R.A., Sederoff, R.R. and Whetten, R.W. 2003. Comparative

genetic linkage maps of Eucalyptus grandis, Eucalyptus globulus and their F1

hybrid based on a double pseudo-backcross mapping approach. Theoretical and

Applied Genetics, 107: 1028–1042.

Myburg, Z., Hibino, T. and Steane, D. 2005. Report of the Eucalyptus genome research

planning Meeting, Japan.

Myburg, Z., Grattapaglia, D., Potts, B., Labate, C., Bossinger, G., Byrne, M.,

Vaillancourt, R., Sederoff, R. and Southerton, S. 2006. Sequencing of the

eucalyptus genome: a proposal to DOE-JGI report, (http://www.seralliance.

com/ enews/vol3no6/pdfs/proposal.pdf).

Myburg, A.A., Potts, B.M., Marques, C.M.P., Kirst, M., Gion, J.M., Grattapaglia, D.

and Grima-Pettenati. J. 2007. Eucalyptus. In Genome Mapping and Molecular

Breeding in plants. Kole, C.R. (eds.) Forest Trees, Springer, Heidelberg.

Myburg, A., Grattapaglia, D., Tuskan, G., Jenkins, J., Schmutz, J., Mizrachi, E.,

Hefer, C., Pappas, G., Sterck, L. and Rokhsar, D. 2011. The Eucalyptus

grandis Genome Project: Genome and transcriptome resources for comparative

analysis of woody plant biology, BMC Proceedings, 5: I20.

Myburg, A.A., Grattapaglia, D., Tuskan, G.A., Hellsten, U., Hayes, R.D., Grimwood, J.,

Jenkins, J., Lindquist, E., Tice, H., Bauer, D., Goodstein, D.M., Dubchak, I.,

Poliakov, A., Mizrach, E., Kullan, A.R.K., Hussey, S.G., Pinard, D., van der

Merwe, K., Singh, P., van Jaarsveld, I., Silva-Junior, O.B., Togawa, R.C.,

Pappas, M.R., Faria, D.A. and Sansaloni, C.P. et al., 2014. The genome of

Eucalyptus grandis, Nature, doi: 10.1038/nature13308.

Page 26: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

189

Myburgh, M. 2002. Development of ultra-high genotyping technology for genetic

mapping in hybrids of Eucalyptus tree species. Ph.D. thesis, Department of

Genetics, University of Pretoria, South Africa.

Nagabhushana, K., Hendre, P.S., Sharma, N. and Rathinavelu, R. 2011. Novel design

and deployment of orthologous genic SSR markers in Eucalyptus

camaldulensis Dehnh. BMC Proceedings, 5: 51.

Nagata, N., Asami, T. and Yoshida, S. 2001. Brassinazole, an inhibitor of

brassinosteroid biosynthesis inhibits development of secondary xylem in cress

plants (Lepidium sativum). Plant and Cell Physiology, 42: 1006-1011.

Nagawa, S., Sawa, S., Sato, S., Kato, T., Tabata, S. and Fukuda, H. 2006. Gene trapping

in Arabidopsis reveals genes involved in vascular development. Plant Cell

Physiology, 47: 1394–1405.

Nairn, C.J. and Haselkorn, T. 2005. Three loblolly Pine CesA genes expressed in

developing xylem are orthologous to secondary wall CesA genes of

angiosperms. New Phytologist, 166: 907–915.

Nakamura, M., Tsunoda, T. and Obokata, J. 2002. Photosynthesis nuclear genes

generally lack TATA-boxes: a tobacco photo system I gene responds to light

through an initiator. Plant Journal, 29: 1–10.

Nakashita, M.A., Nakamura, Y., Watanabe-Takahashi, A., Inoue, E., Yamaya, T. and

Takahashi, H. 2005. Identification of a novel cis-acting element conferring

sulfur deficiency response in Arabidopsis roots. Plant Journal, 42: 305-314.

Neale, D.B. and Savolainen, O. 2004. Association genetics of complex traits in conifers.

Trends in Plant Science, 9: 325–330.

Neale, D.B. and Ingvarsson, P.K. 2008. Population, quantitative and comparative

genomics of adaptation in forest trees. Current Opinion in Plant Biology, 11:

149–155.

Neale, D.B. and Kremer, A. 2011. Forest tree genomics: growing resources and

applications. Nature Reviews Genetics, 12: 111–122.

Negishi, N., Nanto, K., Hayashi, K., Onogi, S. and Kawaoka, A. Wood quality-related

gene expressions in Eucalyptus globulus. NCBI Submission, 2011.

Nemhauser, J.L., Mockler, T.C. and Chory, J. 2004. Interdependency of brassinosteroid

and auxin signaling in Arabidopsis. PLoS Biology, 2: E258.

Neto, P.C., Silvestre, A.J.D., Evtuguin, D.V., Freire, C.S.R., Pinto, P.C., Santiago, A.S.,

Fardim, P. and Holmbom, B. 2004. Bulk and surface composition of ECF

bleached hardwood kraft fibers. Nordic Pulp and Paper Research Journal, 19:

512.

Page 27: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

190

Neto, L.B., de Oliveira, R.R., Wiebke-Strohm, B., Bencke, M.,

Weber, R.L.M.,

Cabreira, C., Abdelnoor R.V.,

Marcelino F.C., Zanettini, M.H.B. and Passaglia,

L.M.P. 2013. Identification of the soybean HyPRP family and specific gene

response to Asian soybean rust disease. Genetics and Molecular Biology, 36:

214–224.

Nieminen, K., Immanen, J., Laxell, M., Kauppinen, L., Tarkowski, P., Dolezal, K.,

Tahtiharju, S., Elo, A., Decourteix, M., Ljung, K., Bhalerao, R., Keinonen, K.,

Albert, V.A. and Helariutta, Y. 2008. Cytokinin signaling regulates cambial

development in poplar. Proceedings of the National Academy of Science of

United States of America, 105: 20032–20037.

Nilsson, J., Karlberg, A, Antti, H., Lopez-Vernaza, M., Mellerowicz, E., Perrot-

Rechenmann, C., Sandberg, G.

and Bhalerao R.P. 2008. Dissecting the

molecular basis of the regulation of wood formation by auxin in hybrid Aspen.

The Plant Cell, 20: 843-855.

Nobles, D.R., Romanovicz, D.K. and Brown, R.M., Jr. 2001. Plant Physiology, 127:

529-542.

Nolan, T., Hands, R.E. and Bustin, S.A. 2006. Quantification of mRNA using real-time

RT-PCR. Nature Protocol, 1: 1559–1582.

Novaes, E., Drost, D.R., Farmerie, W.G., Pappas,G.J., Grattapaglia, D., Sederoff, R.R.

and Kirst, M. 2008. High-throughput gene and SNP discovery in Eucalyptus

grandis, an uncharacterized genome. BMC Genomics, 9: 312.

O‟Brien, T.P., Feder, N. and McCully, M.E. 1964. Polychromatic staining of plant cell

walls by toluidine blue. O. Protoplasma, 59: 368-373.

O‟Brien, B.A. 2011, Functional analysis of the cellulose synthase gene family in maize:

from bioinformatics to assessments at whole-plant, tissue, cell, and protoplast

levels. Ph.D. thesis, University of Florida, USA.

Obembe, O., Jacobsen, E., Vincken, J.P. and Visser, R.G.F. 2009. Differential

expression of cellulose synthase (CesA) gene transcripts in Potato as revealed

by RT-qPCR. Plant Physiology and Biochemistry, 47: 1116–1118.

Oh, S., Park, S. and Han, K.H. 2003. Transcriptional regulation of secondary growth in

Arabidopsis thaliana. Journal of Experimental Botany, 54: 2709–2722.

Oh, M.H., Sun, J., Oh, D.H., Zielinski, R.E., Clouse, S.D. and Huber, S.C. 2011.

Enhancing Arabidopsis leaf growth by engineering the brassinosteroid

insensitive Receptor Kinase. Plant Physiology, 157: 120-131.

Ohashi-Ito, K., Oda, Y. and Fukuda, H. 2010. Arabidopsis Vascular related Nac-

Domain6 directly regulates the genes that govern programmed cell death and

secondary wall formation during xylem differentiation. Plant Cell, 22: 3461–

3473.

Page 28: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

191

Ohtani, M., Nishikubo, N., Xu, B., Yamaguchi, M., Mitsuda, N., Goue N, Shi, F.,

Ohme-Takagi, M. and Demura, T. 2011. A NAC domain protein family

contributing to the regulation of wood formation in Poplar. The Plant Journal,

67: 499–512.

Okamuro, J.K., Den Boer, E.G.W., Lotys-Prass, C., Szeto, W. and Jofuku, K.D. 1996.

Flowers into shoots: Photo and hormonal control of meristem identity switch in

Arabidopsis. Proceedings of the National Academy of Sciences of the United

States of America, 93: 13831–13836.

Olbrich, M., Gerstner, E., Welzl, G., Fleischmann, F., Osswald, W., Bahnweg, G. and

Ernst, D.Z. 2008. Quantification of mRNAs and housekeeping gene selection

for quantitative real-time RT-PCR normalization in European beech (Fagus

sylvatica L.) during abiotic and biotic stress. Zeitschrift fur Naturforschung C,

63: 574-82.

Orwa, C., Mutua, A., Kindt, R., Jamnadass, R. and Anthony, S. 2009. Agroforestree

Database: A tree reference and selection guide version 4.0. World Agroforestry

Centre, Kenya

(http://www.worldagroforestry.org/sites/treedbs/treedatabases.asp).

Ottewell, K.M., Donnellan, S.C., Moran, G.F. and Paton, D.C. 2005. Multiplexed

microsatellite markers for the genetic analysis of Eucalyptus leucoxylon

(Myrtaceae) and their utility for ecological and breeding studies in other

eucalyptus species. Heredity, 96: 445–451.

Oudjehih, B. and Bentouati, A. 2006. Chromosome numbers of the 59 species of

Eucalyptus L'Herit. (Myrtaceae) Caryologia, 59: 207–212.

Paiva, J.A., Garces, M., Alves, A., Garnier-Gere, P., Rodrigues, J.C., Lalanne, C.,

Porcon, S., Le Provost, G., Perez Dda, S., Brachm, J., Frigerio, J.M., Claverol,

S., Barre, A., Fevereiro, P. and Plomion, C. 2008. Molecular and phenotypic

profiling from the base to the crown in maritime pine wood-forming tissue.

New Phytologist, 178: 283-301.

Paiva, J.A., Prat, E., Vautrin, S., Santos, M.D., San-Clemente, H., Brommonschenkel,

S., Fonseca, P.G., Grattapaglia, D., Song, X., Ammiraju, J.S., Kudrna. D.,

Wing, R.A., Freitas, A.T., Berges, H. and Grima-Pettenati, J. 2011. Advancing

Eucalyptus genomics: identification and sequencing of lignin biosynthesis

genes from deep-coverage BAC libraries. BMC Genomics, 12: 137.

Palle, S.R. 2010, Gene expression analyses and association studies of wood

development genes in loblolly Pine (Pinus taeda L.), Ph.D. thesis, Texas A&M

University, USA.

Paolacci, A.R., Tanzarella, O.A., Porceddu, E. and Ciaff, M. 2009. Identification and

validation of reference genes for quantitative RT-PCR normalization in wheat.

BMC Molecular Biology, 10: 11.

Page 29: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

192

Pasquali, G., Bastolla, F.M., Kirch, R. P., Brondani, R.P.V., Coelho, A.S.G.,

Grattapaglia, G., Brommonschenkel, S.H., Pappas, G.J.Jr., Pereira, G.A.G. and

Cascardo, J.C.M. 2005. Sequencing of the Eucalyptus transcriptome in the

Genolyptus project, S1-21: Proceedings of an International conference, 7-11

November, 2005, Abstracts of the IUFRO Tree Biotechnology, Pretoria, South

Africa.

Paux, E., Tamasloukht, M., Ladouce, N., Sivadon, P. and Pettenati, J.G. 2004.

Identification of genes preferentially expressed during wood formation in

Eucalyptus. Plant Molecular Biology, 55: 263–280.

Pavy, B., Boyle, C., Nelson, C., Paule, I., Giguere, S., Caron, L.S., Parsons, N.,

Dallaire, F., Bedon, H., Berube, J.E.K., Cooke and MacKay, J. 2008.

Identification of conserved core xylem gene sets: conifer cDNA microarray

development, transcript profiling and computational analyses. New Phytologist,

180: 766–786

Payn, K.G. 2008, Molecular Genetic Diversity and Population. Genetic Structure of the

commercially important tropical forest tree species. Ph. D thesis, ProQuest LLC

publishing, USA.

Pear, J.R., Kawagoe, Y., Schreckengost, W.E., Delmer, D.P. and Stalker, D.M. 1996.

Higher plants contain homologs of the bacterial celA genes encoding the

catalytic subunit of cellulose synthase. Proceedings of the National Academy of

Sciences USA, 93: 12637-12642.

Peng, L., Kawagoe, Y., Hogan, P. and Delmer, D. 2002. Sitosterol-β-glucoside as

Primer for Cellulose Synthesis in Plants. Science, 295: 147-150.

Perrin, R.M. 2001. Cellulose: how many cellulose synthases to make a plant? Current

Biology, 11: R213-R216.

Persson, S., Wei, H., Milne, J., Page, G.P. and Somerville, C.R. 2005. Identification of

genes required for cellulose synthesis by regression analysis of public

microarray data sets. Proceedings of the national academy of sciences of United

States of America, 102: 8633–8638.

Persson, S., Caffall, K.H., Freshour, G., Hilley, M.T., Bauer, S., Poindexter, P., Hahn,

M.G., Mohnen, D. and Somerville. C. 2007. The Arabidopsis irregular xylem8

mutant is deficient in glucuronoxylan and homogalacturonan, which are

essential for secondary cell wall integrity. Plant Cell, 19: 237–55.

Pesole, G., Mignone, F., Gissi, C., Grillo, G., Licciulli, F. and Liuni, S. 2001. Structural

and functional features of eukaryotic mRNA untranslated regions. Gene, 276:

73-81.

Peter, G. and Neale, D.B. 2004. Molecular basis for the evolution of xylem

lignification. Current Opinion in Plant Biology, 7: 737–742.

Petermann, A. 2011. Tree Biotechnology IUFRO 2011, Proceedings of an International

Conference, Arraial d‟Ajuda, Bahia, Brazil.

Page 30: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

193

Petroli, C.D., Sansaloni, C.P., Carling, J., Steane, D.A. and Vaillancourt, R.E. 2012.

Genomic Characterization of DArT Markers Based on High-Density Linkage

Analysis and physical mapping to the Eucalyptus genome. PLoS ONE, 7:

e44684.

Petrov, D.A., Sangster, T.A., Johnston, J.S., Hartl, D.L. and Shaw, K.L. 2000. Evidence

for DNA loss as a determinant of genome size. Science, 287: 1060–1062.

Petrov, D.A. 2002. Mutational equilibrium model of genome size evolution. Theoretical

Population Biology, 61: 531–544.

Pettengill, E.A., Pettengill, J.B. and Coleman, G.D. 2013. Elucidating the evolutionary

history and expression patterns of nucleoside phosphorylase paralogs

(vegetative storage proteins) in Populus and the plant kingdom. BMC

Plant Biology, 13: 118.

Pfaffl, M.W. 2001. A new mathematical model for relative quantification in real-time

RT–PCR. Nucleic Acids Research, 29: e45–e45.

Pfaffl, M.W., Tichopad, A., Prgomet, C. and Neuvians, T.P. 2004. Determination of

stable housekeeping genes, differentially regulated target genes and sample

integrity: BestKeeper – Excel-based tool using pair-wise correlations.

Biotechnology Letters, 26: 509–515.

Piechulla, B., Merforth, N. and Rudolph, B. 1998. Identification of tomato Lhc

promoter regions necessary for circadian expression. Plant Molecular Biology,

38: 655–662.

Plomion, C., Leprovost, G. and Stokes, A. 2001. Wood Formation in Trees. Plant

Physiology, 127: 1513-1523.

Poke, F.S. 2004. Summary of world-wide research in eucalypt genomics. In Griffin, R.,

Reid, J.B. and Vaillancourt, R. (ed.) Consultants Report, 2004, University of

Tasmania, Australia.

Poke, F.S., Vaillancourt, R.E., Potts, B.M. and ReidGenetica, J.B. 2005. Genomics

research in Eucalyptus. Genetica, 125: 79–101.

Poltri, S.N.M., Zelener, N., Traverso, J.R., Gelid, P. and Hopp, H.E. 2003. Selection of

a seed orchard of Eucalyptus dunnii based on diversity criteria calculated using

molecular markers. Tree Physiology, 23: 625–632.

Porth, I., Klapste, J., Skyba, O., Hannemann, J., McKown, A.D., Guy, R.D., DiFazio,

S.P., Muchero, W., Ranjan, P., Tuskan, G.A., Friedmann, M.C., Ehlting, J.,

Cronk, Q.C.B., El-Kassaby, Y.A., Douglas, C.J. and Mansfield, S.D. 2013.

Genome-wide association mapping for wood characterising Populus identifies

an array of candidate single nucleotide polymorphisms. New Phytologist, 200:

710–726.

Pot, D., Rodrigues, J-C., Rozenberg, P., Chantre, G. and Tibbits, J. Cahalan, C.

Pichavant, F. and Plomion, C. 2006. QTLs and candidate genes for wood

Page 31: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

194

properties in maritime pine (Pinus pinaster Ait.). Tree Genetics and Genomes,

2: 10-24.

Potts, B.M. and Pederick, L.A. 2000. Morphology, phylogeny, origin, distribution and

genetic diversity of the eucalypts, 11–34: In Diseases and pathogens of

eucalypts, Keane, P.J., Kile, G.A., Podger, F.D. and Brown, B.N. (eds.) CSIRO

Publishing, Melbourne.

Potts, B.M. 2004. Genetic improvement of eucalypts. 1480–1490: In Encyclopedia of

Forest science, Burley, J., Evans, J. and Youngquist, J.A. (eds.) Elsevier

Science, Oxford.

Pryor, L.D. and Johnson, L.A.S. 1971. A classification of the Eucalyptus. Australian

National University Press, Canberra, Australia, 102 pp.

Quang, T.H., Hallingback, H., Gyllenstrand, N., von Arnold, S. and Clapham, D. 2012.

Expression of genes of cellulose and lignin synthesis in Eucalyptus urophylla

and its relation to some economic traits. Trees, 26: 893-901.

Ragni, L., Nieminen, K. and Pacheco-Villalobos, D. 2011. Mobile gibberellin directly

stimulates Arabidopsis hypocotyl xylem expansion. Plant Cell, 23: 1322–1336

Ramirez, M., Rodriguez, J., Balocchi, J., Peredo, M., Elissetche, J.P., Mendonca, R.

and Valenzuela, S. 2009. Chemical composition and wood anatomy of

Eucalyptus globulus clones: variations and relationships with pulp ability and

hand sheet properties. Journal of Wood Chemistry and Technology, 29: 43.

Ranik, M. and Myburg, A.A. 2006. Six new cellulose synthase genes from Eucalyptus

are associated with primary and secondary cell wall biosynthesis. Tree

Physiology, 26: 545–556.

Rao, R.V., Shashikala, S., Sreevani, P., Kothiyal, V., Sharma, G.R. and Lal, P. 2002.

Within tree variation in anatomical properties of some clones of Eucalyptus

tereticornis Sm. Wood Science and Technology, 36: 271-285.

Rasmussen-Poblete, S., Valdes, J., Gamboa, M.C., Valenzuela, P.D.T. and Krauskopf,

E. 2008. Generation and analysis of an Eucalyptus globulus cDNA library

constructed from seedlings subjected to low temperature conditions. Electronic

Journal of Biotechnology, 11: 1.

Rathmann, R., Szklo, A. and Schaeffer, R. 2010. Land use competition for production

of food and liquid biofuels: An analysis of the arguments in the current debate.

Renewable Energy, 35: 14-22.

Rejmanek, M. and Richardson, D.M. 2011. In Encyclopedia of Biological Invasions,

Simberloff, D. and Rejmanek, M. (eds.) Berkeley and Los Angeles, University

of California Press, USA.

Rencoret, J., Gutierrez, A., Lidia, N., Jimenez-Barbero, J., Faulds, C.B., Kim, H.,

Ralph, J., Martinez, A.T. and Jose, C. 2011. Lignin composition and structure

Page 32: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

195

in young versus adult Eucalyptus globulus plants. Plant Physiology, 155: 667–

682.

Rengel, D., San Clemente, H., Servant, F., Ladouce, N., Paux, E., Wincker, P.,

Couloux, A., Sivadon, P. and Grima-Pettenati, J. 2009. A new genomic

resource dedicated to wood formation in Eucalyptus. BMC Plant Biology, 9:

36.

Resende, M.D.V. and Barbosa, M.H.P. 2005. Genetic improvement of plants asexual

propagation. Embrapa Forests, Colombo, 130p.

Resende, M.D.V., Resende, M.F.R., Sansaloni, C.P., Petroli, C.D., Missiaggia, A.A.,

Aguiar, A.M., Abad, J.M., Takahashi, E.K., Rosado, A.M., Faria, D.A., Pappas,

G.J., Kilian, A. and Grattapaglia, D. 2012. Genomic selection for growth and

wood quality in Eucalyptus: capturing the missing heritability and accelerating

breeding for complex traits in forest trees. New Phytologist, 194: 116–128.

Richmond, T.A. and Somerville, C.R. 2000. The cellulose synthase superfamily. Plant

Physiology, 124: 495-498.

Richmond, T. and Somerville, C. 2001. Integrative approaches to determining Csl

function. Plant Molecular Biology, 47: 131–143.

Ridoutt, B.G., Pharis, R.P. and Sands, R. 1996. Fibre length and gibberellins A1 and

A20 are decreased in Eucalyptus globulus by acylcyclo-hexanedione injected

into the stem. Physiologia Plantarum, 96: 559–566.

Ritland, K. 2002. Extensions of models for the estimation of mating systems using an

independent loci. Heredity, 88: 221–228.

Roberts, K. and McCann, M.C. 2000. Xylogenesis: the birth of a corpse. Current

Opinion in Plant Biology, 3: 517–522.

Rocha, R.B., Barros, E.G., Cruz, C.D., Rosado, A.M. and Araujo, E.F. 2007. Mapping

of QTLs related with wood quality and developmental characteristics in hybrids

(Eucalyptus grandis x Eucalyptus urophylla). Revista Arvore, 31: 13-24.

Rockwood, D.L., Rudie, A.W., Ralph, S.A., Zhu, J.Y. and Winandy, J.E. 2008. Energy

Product Options for Eucalyptus Species Grown as Short Rotation Woody

Crops. International Journal of Molecular sciences, 9: 1361–1378.

Rozen, S.

and Skaletsky, H. 2000. Primer3 for general users and for biologist

programmers. Methods in Molecular Biology, 132: 365-86.

Sadegh, A.N. and Kiaei, M. 2011. Formation of Juvenile/Mature wood in Pinus eldarica

medw and Related Wood Properties. World Applied Sciences Journal, 12: 460-

464.

Sahin-Çevik, M. 2013. Identification and expression analysis of early cold-induced

genes from cold-hardy Citrus relative Poncirus trifoliata (L.) Raf. Gene, 512:

536-545.

Page 33: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

196

Salazar, M.M., Nascimento, L.C., Camargo, E.L.O. 1, Gonçalves, D.C., Neto, J.L.,

Marques, W.L., Teixeira, P.J.P.L., Mieczkowski, P., Mondego, J.M.C.,

Carazzolle M.F., Deckmann, A. C. and Pereira, G.A.G. 2013. Xylem

transcription profiles indicate potential metabolic responses for economically

relevant characteristics of Eucalyptus species. BMC Genomics, 14: 201.

Sambrook, J., Fritsch, E.F. and Maniatis, T. 1989. Molecular cloning: A laboratory

Manual, II (eds.) Cold Spring Harbour Laboratory Press, Cold Spring Harbour,

NewYork.

Samuga, A. and Joshi, C.P. 2004. Cloning and characterization of cellulose synthase-

like gene, PtrCSLD2 from developing xylem of aspen trees, Physiologia

Plantarum, 120: 631-641.

Sansaloni, C.P., Petroli1, C.D, Carling, J., Hudson, C.J., Steane D.A., Myburg, A.A.,

Grattapaglia, D., Vaillancourt, R.E. and Kilian A. 2010. A high Density

Diversity Arrays Technology (DArT) microarray for genome-wide genotyping

in Eucalyptus. Plant Methods, 6: 16

Satoh, R., Nakashima, K., Seki, M., Shinozaki, K. and Yamaguchi-Shinozaki, K. 2002.

ACTCAT, a novel cis-acting element for proline- and hypoosmolarity-

responsive expression of the ProDH gene encoding proline dehydrogenase in

Arabidopsis. Plant Physiology, 130: 709-719.

Savaldi-Goldstein, S., Peto, C. and Chory, J. 2007. The epidermis both drives and

restricts plant shoot growth. Nature, 446: 199-202.

Savidge, R., Barnett, J. and Napier, R. 2000. Cell and Molecular Biology of Wood

Formation, BIOS Scientific Publishers Ltd. Oxford, UK.

Saxena, I.M., Lin, F.C. and Brown, R.M., Jr. 1990. Cloning and sequencing of the

cellulose synthase catalytic sub-unit gene of Acetobacter xylinum. Plant

Molecular Biology, 15: 673–683.

Saxena, I.M., Brown, R.M. Jr., Fevre, M., Geremia, R.A. and Henrissat, B. 1995.

Multidomain architecture of β-glycosyltransferases: implications for

mechanism of action. Journal of Bacteriology, 177: 1419–1424.

Saxena, I.M. and Brown, R.M. Jr. 1997. Identification of cellulose synthase(s) in higher

plants: sequence analysis of processive beta-glycosyltransferases with the

common motif „D, D, D 35Q(R, Q) XRW'. Cellulose, 4: 33-49.

Saxena, I.M., Brown, R.M., Jr. and Dandekar, T. 2001. Structure–function

characterization of cellulose synthase: relationship to other

glycosyltransferases. Phytochemistry, 57: 1135-1148.

Scheible, W.R., Eshed, R., Richmond, T., Delmer, D. and Somerville. C. 2001.

Modifications of cellulose synthase confer resistance to isoxaben and

thiazolidinone herbicides in Arabidopsis ixr1 mutants. Proceedings of the

Indian National Science USA, 98: 10079-10084.

Page 34: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

197

Seagull, R.W., Vito, O., Kim, M., Andrew, B. and Sushma, K. 2000. Cotton fiber

growth and development: changes in cell diameter and wall birefringence.

Journal of Cotton Science, 4: 97-104.

Seguin, A. 2011. How could forest trees play an important role as feedstock for

bioenergy production? Current Opinion in Environmental Sustainability, 3: 90-

94.

Seo, P.J., Hong, S-Y., Kim, S-G. and Park, C-M. 2011. Competitive inhibition of

transcription factors by small interfering peptides. Trends in Plant Science, 16:

541–549.

Sethaphong, L., Candace, H., James, H., Kubicki, D., Zimmer, J., Bonetta, D., DeBolt,

S., Yaroslava. and Yingling, G. 2013. Tertiary model of a plant cellulose

synthase. Proceedings of the national academy of sciences of United States of

America, 110: 7512-7517.

Sewell, M.M., Bassoni, D.L., Megraw, R.A., Wheeler, N.C. and Neale, D.B. 2000.

Identification of QTLs influencing wood property traits in loblolly pine (Pinus

taeda, L.). Theoretical and Applied Genetics, 101: 1273–1281.

Sewell M.M., Davis, M.F., Tuskan, G.A., Wheeler, N.C., Elam, C.C., Bassoni, D.L.

and Neale, D.B. 2002. Identification of QTLs influencing wood property traits

in loblolly pine (Pinus taeda, L.). II. Chemical wood properties. Theoretical and

Applied Genetics, 104: 214-222.

Shan, D-P., Huang, J-G., Yang, Y-T., Guo, Y-H., Wu, C-A., Yang, G-D., Gao, Z. and

Zheng, C-C. 2007. Cotton GhDREB1 increases plant tolerance to low

temperature and is negatively regulated by gibberellic acid. New Phytologist,

176: 70–81.

Sharma, S.K. 2014. Tree improvement work on Eucalyptus tereticornis in India - an

overview. Indian Forester, 140: 38-45.

Shepherd, M., Chaparro J.X. and Teasdale, R. 1999. Genetic mapping of monoterpene

composition in an interspecific eucalypt hybrid. Theoretical and Applied

Genetics, 99: 1207-1215.

Shibaoka, H. 1993. Regulation by gibberellins of the orientation of cortical

microtubules in plant cells. Australian Journal of Plant Physiology, 20: 461–

470.

Shu, Q., Wang, L., Wu, J., Hui, Du., Liu, Z., Ren, H. and Zhang J. 2012. Analysis of the

formation of flower shapes in wild species and cultivars of tree peony using the

MADS-box subfamily gene. Gene, 493: 113-123.

Simpson, S.D., Nakashima, K., Narusaka, Y., Seki, M., Shinozaki, K. and Yamaguchi-

Shinozaki, K. 2003. Two different novel cis-acting elements of erd1, a clpA

homologous Arabidopsis gene function in induction by dehydration stress and

dark-induced senescence. Plant Journal, 33: 259-270.

Page 35: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

198

Singh, A.V. 2011. Biopolymers in Drug Delivery: A Review. Pharmacology online, 1:

666-674.

Singh, B., Cheek, H.D. and Haigler, C.H. 2009. A synthetic auxin (NAA) suppresses

secondary wall cellulose synthesis and enhances elongation in cultured cotton

fiber. Plant Cell Reports, 28: 1023–1032.

Singh, S.V. and Naithani, S. 1994. Pulpwood demand and quality assessment. 99-111:

IPPTA Convention Issue, Indian Pulp and Paper Technical Association,

Saharanpur.

Sjostrom, E. 1993. Wood Chemistry: Fundamentals and Applications. (2nd

eds.)

Academic press, San Diego, 292 pp.

Slee, A.V., Connors, J., Brooker, M.I.H., Duffy, S.M. and West, J.G. 2006. EUCLID

Eucalypts of Australia. (3rd

eds.) CD ROM Centre for Plant Biodiversity

Research, CSIRO Publishing, Melbourne.

Solomon, O.L., Berger, D.K. and Myburg, A.A. 2010. Diurnal and circadian patterns of

gene expression in the developing xylem of Eucalyptus trees. South African

Journal of Botany, 76: 425-439.

Somerville, C. 2006. Cellulose synthesis in higher plants. Annual Review of Cell and

Developmental Biology, 22: 53–78.

Song, D., Shen, J. and Li, L. 2010. Characterization of cellulose synthase complexes in

Populus xylem differentiation. New Phytology, 187: 777-790.

Sorce, C., Giovannelli, A., Sebastiani, L. and Anfodillo, T. 2013. Hormonal signals

involved in the regulation of cambial activity, xylogenesis and vessel patterning

in trees. Plant Cell Reports, 32: 885–898.

Southerton, S.G., MacMillan, C.P., Bell, J.C., Bhuiyan, N., Dowries, G., Ravenwood,

I.C., Joyce, K.R., Williams, D. and Thumma, B.R. 2010. Association of allelic

variation in xylem genes with wood properties in Eucalyptus nitens. Australian

Forestry, 73: 259–264.

Sreevani, P. and Rao, R.V. 2013. Variation in basic density, fibre and vessel

morphology of Eucalyptus tereticornis Sm. Clones. International Journal of

Scientific and Technology Research, 2: ISSN 2277-8616.

Stanturf, J.A., Vance, E.D., Fox, T.R. and Kirst, M. 2013. Eucalyptus beyond Its Native

Range: Environmental Issues in Exotic bioenergy plantations. International

Journal of Forestry Research, doi.org/10.1155/2013/463030.

Steane, D.A., Jones, R.C. and Vaillancourt, R.E. 2005. A set of chloroplast

microsatellite primers for Eucalyptus (Myrtaceae). Molecular Ecology Notes, 5:

538–541.

Steane, D.A., Conod, N., Rebecca, C., Jones, R.C., Vaillancourt, R.E. and Potts, B.M.

2006. Comparative analysis of population structure of a forest tree, Eucalyptus

Page 36: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

199

globulus (Myrtaceae), using microsatellite markers and quantitative traits. Tree

Genetics and Genomes, 2: 30–38.

Steane, D.A., Nicolle, D., Sansaloni, C.P., Petroli, C.D., Carling, J., Kilian, A., Myburg,

A.A., Grattapaglia, D. and Vaillancourt, R.E. 2011. Population genetic analysis

and phylogeny reconstruction in Eucalyptus (Myrtaceae) using high-

throughput, genome-wide genotyping. Molecular Phylogenetics and Evolution,

59: 206–224.

Sundberg, B., Uggla, C. and Tuominen, H. 2000. Cambial growth and auxin gradients.

169-188: In Cell and Molecular Biology of Wood Formation, Savidge, R.,

Barnett, J. and Napier, R. (eds.) BIOS Scientific Publishers, Oxford, UK.

Suzuki, S., Li, L., Sun, Y. and Chiang, V.L. 2006. The cellulose synthase gene super

family and biochemical functions of xylem-specific cellulose synthase-like

genes in Populus trichocarpa. Plant Physiology, 142: 1233-1245.

Tamura, K., Peterson, D., Peterson, N., Nei, G.S.M. and Kumar, S. 2011. MEGA5:

Molecular Evolutionary Genetics Analysis Using Maximum Likelihood,

Evolutionary Distance, and Maximum Parsimony Methods. Molecular Biology

and Evolution, 28: 2731-2739.

Tan, X., Calderon-Villabolos, L.I.A., Sharon, M., Zheng, C., Robinson, C. V., Estelle,

M. and Zheng, N. 2007. Mechanism of auxin perception by the TIR1 ubiquitin

ligase. Nature, 446: 640–645.

Tanaka, K., Murata, K., Yamazaki, M., Onosato, K., Miyao, A. and Hirochika, H. 2003.

Three Distinct Rice Cellulose Synthase Catalytic Subunit Genes Required for

Cellulose Synthesis in the Secondary Wall. Plant Physiology, 133: 73–83.

Taylor, N.G., Scheible, W.R., Cutler, S., Somerville C.R. and Turner, S.R. 1999. The

irregular xylem3 locus of Arabidopsis encodes a cellulose synthase required for

secondary cell wall synthesis. Plant Cell, 11: 769–779.

Taylor, N.G., Laurie, S. and Turner, S.R. 2000. Multiple cellulose synthase catalytic

subunits are required for cellulose synthesis in Arabidopsis. Plant Cell, 12:

2529–2539.

Taylor, A.M., Gartner, B.L. and Morrell, J.J. 2002. Heartwood formation and Natural

Durability-A review. Wood and Fiber Science, 34: 587-611.

Taylor, N.G., Howells, R.M., Huttly, A.K., Vickers, K. and Turner, S.R. 2003.

Interactions among three distinct CesA proteins essential for cellulose

synthesis. Proceedings of the National Academy of Sciences of the United

States of America, 100: 1450–1455.

Taylor, N.G. 2008. Cellulose biosynthesis and deposition in higher plants. New

Phytologist, 178: 239–252.

Page 37: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

200

Teale, W.D., Paponov, I.A. and Palme, K. 2006. Auxin in action: signalling, transport

and the control of plant growth and development. Current Biology, 7: 847-859.

Teixeira, J., Missiaggia, A., Dias, D., Scarpinati, E., Viana, J., Paula, N., Paula, R. and

Bonine, C. 2011. QTL analyses of drought tolerance in Eucalyptus under two

contrasting water regimes. BMC Proceedings, 5: 40.

Teulieres, C. and Marque. C. 2007. Eucalyptus. 387-402: In Biotechnology in

agriculture and forestry, Pua, E.C. and Davey, M.R. (eds.) Transgenic Crops V,

Springer, New York.

Thamarus, K.A., Groom, K., Bradley, A.D., Raymond, C.A. and Moran, G.F. 2004.

Identification of quantitative trait loci for wood and fibre properties in two full

sib pedigrees of Eucalyptus globulus. Theoretical and Applied Genetics, 109:

856-864.

Thavamanikumar, S., Southerton, S.G., Bossinger, G. and Thumma, B.R. 2013.

Dissection of complex traits in forest trees- opportunities for marker-assisted

selection. Tree Genetics and Genomes, 9: 627-639.

Thum, K.E., Kim, M., Morishige, D.T., Eibl, C., Koop, H.U. and Mullet, J.E. 2001.

Analysis of barley chloroplast psbD light-responsive promoterelements in

transplastomic tobacco. Plant Molecular Biology, 47: 353-366.

Thumma, B.R., Nolan, M.F., Evans, R. and Moran, G.F. 2005. Polymorphisms in

cinnamoyl CoA reductase (CCR) are associated with variation in microfibril

angle in Eucalyptus spp. Genetics, 171: 1257–1265.

Thumma, B.R., Matheson, B.A., Zhang, D., Meeske, C., Meder, R., Downes, G.M. and

Southerton, S.G. 2009. Identification of a cis-acting regulatory polymorphism

in a Eucalypt COBRA-like gene affecting cellulose content. Genetics, 183:

1153–1164.

Thumma, B.R., Southerton, S.G., Bell, J.C., Owen, J.V., Henery, M.L. and Moran, G.F.

2010. Quantitative trait locus (QTL) analysis of wood quality traits in

Eucalyptus nitens. Tree Genetics and Genomes, 6: 305-317.

Thumma, B.R., Sharma, N. and Southerton, S.G. 2012. Transcriptome sequencing of

Eucalyptus camaldulensis seedlings subjected to water stress reveals functional

single nucleotide polymorphisms and genes under selection. BMC Genomics,

13: 364.

Tiwari, S., Tiwari, R., Srivastava, R., Kumari, P. and Sujeet Kr. Singh. 2013. Molecular

genetic analysis of Eucalyptus tereticornis by using RAPD markers. European

Journal of Experimental Biology, 3: 103-110.

Tong, Z., Gao, Z., Wang, F., Zhou, J. and Zhang, Z. 2009. Selection of reliable

reference genes for gene expression studies in peach using real-time PCR. BMC

Molecular Biology, 10: 71.

Page 38: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

201

Traas, J. 2008. Whole-Mount In Situ Hybridization of RNA Probes to Plant Tissues.

Cold Spring Harbor Laboratory Press, 3: 2.

Triplett, B.A., Kim, H-U., Hinchliffe, D., Sze, S.H., Thaxton, P., Stelly, D. and Jeffrey

Chen Z. 2007. Phyto-hormone Regulation of Cotton Fiber Development In

Vitro, 153-156: In Biotechnology and Sustainable Agriculture 2006 and

Beyond, Xu, Z. (eds.) Springer, NewYork.

Tsekos, I. 1999. The sites of cellulose synthesis in algae: Diversity and evolution of

cellulose-synthesizing enzyme complexes. Journal of Phycology, 35: 635-655.

Tuominen, H., Puech, L., Fink, S. and Sundberg, B. 1997. A radial concentration

gradient of Indole-3-Acetic Acid is related to secondary xylem development in

hybrid Aspen. Plant Physiology, 115: 577-585.

Turnbull, J.W. 1999. Eucalypts plantations. New Forests, 17: 37–52.

Turner, S.R. and Somerville, C.R. 1997. Collapsed xylem phenotype of Arabidopsis

identifies mutants deficient in cellulose deposition in the secondary cell wall.

Plant Cell, 9: 689-701

Turner, S., Gallois, P. and Brown, D. 2007. Tracheary element differentiation. Annual

review in Plant Biology, 58: 407-433.

Tuskan, G.A., DiFazio, S., Jansson, S. and Bohlmann, J. et al., 2006. The Genome of

Black Cottonwood, Populus trichocarpa (Torr. & Gray). Science, 313: 1596–

1604.

Uchiyama, K., Iwata, H., Moriguchi, Y., Ujino-Ihara, T., Ueno, S., Taguchi, Y.,

Tsubomura, M., Mishima, K., Iki, T., Watanabe, A., Futamura, N., Shinohara,

K. and Tsumur, Y. 2013. Demonstration of Genome-Wide Association Studies

for Identifying Markers for Wood Property and Male Strobili Traits

in Cryptomeria japonica. PLoS ONE, 8: e79866.

Uggla, C., Moritz, T., Sandberg, G. and Sundberg, B. 1996. Auxin as a positional signal

in pattern formation in plants. Proceedings of the National Academy of

Sciences of the United States of America, 93: 9282–9286.

Uggla, C., Mellerowicz, E.J. and Sundberg, B. 1998. Indole-3-acetic acid controls

cambial growth in Scots pine by positional signalling. Plant Physiology, 117:

113–121.

Uggla, C., Magel, E., Moritz, T. and Sundberg, B. 2001. Function and dynamics of

auxin and carbohydrates during earlywood/ latewood transition in Pinus

sylvestris. Plant Physiology, 125: 2029–2039.

Ukrainetz, N.K. and Ritland, K. and Mansfield, S.D. 2008a. An AFLP linkage map for

Douglas-fir based upon multiple full-sib families. Tree Genetics and Genomes,

4: 181–191.

Page 39: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

202

Ukrainetz, N.K., Ritland, K. and Mansfield, S. D. 2008b Identification of quantitative

trait loci for wood quality and growth across eight full-sib coastal Douglas-fir

families. Tree Genetics and Genomes, 4: 159–170.

Urao, T., Noji, M., Yamaguchi-Shinozaki, K., Shinozaki, K. and Plant, J.A. 1996.

transcriptional activation domain of ATMYB2, a drought-inducible Arabidopsis

Myb-related protein. The Plant Journal, 10: 1145-1148.

Van Acker, R., Vanholme, R., Storme, V., Mortimer, J.C., Dupree, P., and Boerjan,

W. 2013. Biotechnology for Biofuels, 6: 46.

Vandesompele, J., De Preter, K., Pattyn, F., Poppe, B., Van Roy, N., De Paepe, A. and

Speleman, F. 2002. Accurate normalization of real-time quantitative RT-PCR

data by geometric averaging of multiple internal control genes. Genome

Biology, 3: 1-11.

Vergara, C.E. and Carpita, N.C. 2001. β-D-glycan synthases and the CesA gene family.

Plant Molecular Biology, 47: 145–160.

Verhaegen, D., Plomion, C., Gion, J.M., Poitel, M., Costa, P. and Kremer, A. 1997.

Quantitative trait dissection analysis in Eucalyptus using RAPD markers:

Detection of QTL in interspecific hybrid progeny, stability of QTL expression

across different ages. Theoretical and Applied Genetics, 95: 597-608.

Villar, E., Klopp, C., Noirot, C., Novaes, E., Kirst, M., Plomion, C. and Gion, J-M.

2011. RNA-Seq reveals genotype-specific molecular responses to water deficit

in eucalyptus. BMC Genomics, 12: 538.

Vishwakarma, R. K., Srivastava, S., Singh, S. and Khan, B. M. 2012. Molecular cloning

and characterization of two differentially expressed cellulose synthase gene

isoforms in Leucaena leucocephala: A pulp yielding tree species. Advances in

Biosciences and Biotechnology, 3: 92-100.

Wakasa, Y., Oono, Y., Yazawa, T., Hayashi, S., Ozawa, K., Handa, H., Matsumoto, T.

and Takaiwa F. 2014. RNA sequencing-mediated transcriptome analysis of rice

plants in endoplasmic reticulum stress conditions. BMC Plant Biology, 14: 101.

Walker, S. 2006. Hardwood Fibre Requirements of the Indian Pulp and Paper Industry,

In Australian Forest Growers conference, Gottstein Fellowship Report,

Proceedings of national conference, 2006, Launceston.

Wang, Z., Ni, Z., Wu, H., Nie, X. and Sun, Q. 2006. Heterosis in root development and

differential gene expression between hybrids and their parental inbreds in wheat

(Triticum aestivum L.). Theoretical and Applied Genetics, 113: 1283-94.

Wang, M.J., Qi, X.L., Zhao, S.T., Zhang, S.G. and Lu, M.Z. 2009. Dynamic changes in

transcripts during regeneration of the secondary vascular system in Populus

tomentosa Carr. revealed by cDNA microarrays. BMC Genomics, 10: 215.

Wang, L.Q., Guo, K., Li, Y., Tu, Y., Hu, H., Wang, B., Cui, X. and Peng, L. 2010.

Expression profiling and integrative analysis of the CESA/CSL superfamily in

rice. BMC Plant Biology, 10: 282.

Page 40: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

203

Wang, H., Soler, M., Yu, H., Camargo, E.L.O., Clemente, H.S., Savelli, B., Ladouce,

N., Paiva, J. and Grima-Pettenati, J. 2011. Master regulators of wood formation

in Eucalyptus. BMC Proceedings, 5: 110.

Wegrzyn, J.L., Eckert, A.J., Choi, M., Lee, J.M., Stanton, B.J., Sykes, R., Davis, M.F.,

Tsai, C.J. and Neale, D.B. 2010. Association genetics of traits controlling lignin

and cellulose biosynthesis in black cottonwood (Populus trichocarpa,

Salicaceae) secondary xylem. New Phytologist, 188: 515–532.

Wei, J-Z., Tirajoh, A., Effendy, J. and Plant, A. 2000. Characterization of salt-induced

changes in gene expression in Tomato (Lycopersicon esculentum) roots and the

role played by abscisic acid. Plant Science, 159: 135–148.

Weltmeier, F., Ehlert, A., Mayer, C.S., Dietrich, K., Wang, X., Schutze, K., Alonso, R.,

Harter, K., Vicente-Carbajosa, J. and Droge-Laser, W. 2006. Combinatorial

control of Arabidopsis proline dehydrogenase transcription by specific hetero-

dimerisation of bZIP transcription factors. The EMBO Journal, 25: 3133-3143.

Wiltshire, R.J.E. 2004. Eucalypts, 1687–1699: In Encyclopedia of Forest Science,

Burley, J., Evans, J. and Young quist, J.A. (eds.) Elsevier Science, Oxford.

Wong, H.C., Fear, A.L., Calhoon, R.D., Eichinger, G.H., Mayer, R., Amikam, D.,

Benziman, M., Gelfand, D.H., Meade, J.H., Emerick, A.W., Bruner, R., Ben-

Bassat, A. and Tal, R. 1990. Genetic organization of the cellulose synthase

operon in Acetobacter xylinum. Proceedings of the National Academy of

Science of United States of America, 7: 8130-8134.

Wong M.M.L., Cannon, C.H. and Wickneswari, R. 2011. Identification of lignin genes

and regulatory sequences involved in secondary cell wall formation in Acacia

auriculiformis and Acacia mangium via de novo transcriptome sequencing.

BMC Genomics, 12: 342.

Wu, L., Joshi, C.P. and Chiang, V.L. 2000. A xylem-specific cellulose synthase gene

from aspen (Populus tremuloides) is responsive to mechanical stress. Plant

Journal, 22: 495–502.

Wu, H.X., Powell, M.B., Yang, J.L., Ivkovic, M. and McRae, T.A. 2007. Efficiency of

early selection for rotation-aged wood quality traits in radiata pine. Annals of

Forest Science, 64: 1-9.

Wu, A., Hu, J.S. and Liu, J. 2009. Functional analysis of a cotton cellulose synthase A4

gene promoter in transgenic tobacco plants, Plant Cell Reporter, 28: 1539–

1548.

Wu, F., Zhang, P.D, Pei, J.C. and Kang, X.Y. 2013. Genotypic parameters of wood

density and fiber traits in triploid hybrid clones of Populus tomentosa at five

clonal trials. Annals of Forest Science, 70: 751–759.

Page 41: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

204

Xie, L., Yang, C. and Wang, X. 2011. Brassinosteroids can regulate cellulose

biosynthesis by controlling the expression of CESA genes in Arabidopsis.

Journal of Experimental Botany, 62: 4495–4506.

Xu, M., Zhang, B., Su, X., Zhang, S. and Huang, M. 2011a. Reference gene selection

for quantitative real-time polymerase chain reaction in Populus. Analytical

Biochemistry, 408: 337–339.

Xu, W., Yang, R., Li, M., Xing, Z., Yang, W., Chen, G.,

Guo, H., Gong,

Du, Z.,

Zhang, Z., Hu, X., Wang, D., Qian, Q., Wang, T., Su, Z. and Xue, Y. 2011b.

Transcriptome Phase Distribution Analysis Reveals Diurnal Regulated

Biological Processes and Key Pathways in Rice Flag Leaves and Seedling

Leaves. PLoS ONE, 6: e17613.

Xu, P., Kong, Y., Song, D., Huang, C., Li, X., and Li, L. 2014. Conservation and

functional influence of alternative splicing in wood formation of Populus and

Eucalyptus. BMC Genomics, 15: 780.

Yamaguchi, M., Kubo, M., Fukuda, H. and Demura, T. 2008. Vascular-related NAC-

DOMAIN7 is involved in the differentiation of all types of xylem vessels in

Arabidopsis roots and shoots. Plant Journal, 55: 652–664.

Yamamoto, R., Fujioka, S., Demura, T., Takatsuto, S., Yoshida, S. and Fukuda, H.

2001. Brassinosteroid levels increase drastically prior to morphogenesis of

tracheary elements. Plant Physiology, 125: 556-563.

Yamamoto, R., Fujioka, S., Iwamoto, K., Demura, T. and Takatsuto, S. 2007. Co-

Regulation of brassinosteroids biosynthesis-related genes during xylem cell

differentiation. Plant Cell Physiology, 48: 74–83.

Yang, S.H., van Zyl, L., No, E.G. and Loopstra, C.A. 2004. Microarray analysis of

genes preferentially expressed in differentiating xylem of loblolly pine (Pinus

taeda). Plant Science, 166: 1185–1195.

Yang, C., Liu, J., Dong, X., Cai, Z., Tian, W. and Wang, X. 2014. Short-term and

continuing stresses differentially interplay with multiple hormones to regulate

plant survival and growth. Molecular Plant, doi: 10.1093/mp/ssu013.

Yanhui, C., Xiaoyuan, Y., Ku, H., Meihua, L., Jigang, L., Zhaofeng, G., Zhiqiang, L.,

Yunfei, Z., Xiaoxiao. W., Xiaoming. Q., Yunping. S., Li. Z., Xiaohui. D.,

Jingchu. L., Xing-Wang, D., Zhangliang, C., Hongya, G. and Li-Ji, Q. 2006.

The MYB transcription factor superfamily of Arabidopsis: expression analysis

and phylogenetic comparison with the rice MYB family. Plant Molecular

Biology, 60: 107-124.

Yao, Y., Ni, Z., Zhang, Y., Chen, Y., Ding, Y., Han, Z., Liu, Z. and Sun, Q. 2005.

Identification of differentially expressed genes in leaf and root between wheat

hybrid and its parental inbreds using PCR-based cDNA subtraction. Plant

Molecular Biology, 58: 367-368.

Yasodha, R., Sumathi, R., and Gurumurthi, K. 2004. Micropropagation for quality

propagule production in plantation forestry. Indian Journal of Biotechnology, 3:

159-170.

Page 42: REFERENCES - Shodhgangashodhganga.inflibnet.ac.in/bitstream/10603/43692/17/17...Assis, T.F. 1996. Genetic improvement of Eucalyptus. Agricultural report, 18: 32-51. Assis, T.F. 2000

205

Ye, X., Kang, B-G., Osburn, L.D., Li, Y. and Zong-Ming, C. 2009. Identification of

the flavin-dependent mono-oxygenase-encoding YUCCA gene family in

Populus trichocarpa and their expression in vegetative tissues and in response

to hormone and environmental stresses. Plant Cell Tissue and Organ Culture,

97: 271-283.

Yin, Y., Huang, J. and Xu, Y. 2009. The cellulose synthase superfamily in fully

sequenced plants and algae. BMC Plant Biology, 9: 99.

Yong, S.Y. and Wickneswari, R. 2013. Molecular characterization of a cellulose

synthase gene (AaxmCesA1) isolated from an Acacia auriculiformis x Acacia

mangium hybrid. Plant Molecular Biology Reports, 31: 303–313.

Yuan, J.S., Reed A., Chen F. and Stewart Jr, C.N. 2006. Statistical analysis of real-time

PCR data. BMC Bioinformatics, 22: 85.

Zhao, C., Craig, J.C., Petzold, H.E., Dickerman, A.W. and Beers, E.P. 2005. The xylem

and phloem transcriptomes from secondary tissues of the Arabidopsis root-

hypocotyl. Plant Physiology, 138: 803-818.

Zhao, Y., Qi, Z. and Berkowitz, G A. 2013. Teaching an old hormone new tricks:

cytosolic ca2+

elevation involvement in plant brassino-steroid signal

transduction cascades. Plant Physiology, 163: 555–565.

Zhong, R., Morrison, W.H., Freshour, G.D., Hahn, M.G. and Ye, Z-H. 2003.

Expression of a mutant form of cellulose synthase AtCesA7 causes dominant

negative effect on cellulose biosynthesis. Plant Physiology, 132: 786–795.

Zhong, R., Demura, T. and Ye, Z-H. 2006. SND1, a NAC Domain Transcription Factor,

is a Key Regulator of Secondary Wall Synthesis in Fibers of Arabidopsis. Plant

Cell, 18: 3158–3170.

Zhong, R., Lee, C., Zhou, J., McCarthy, R.L. and Ye, Z-H. 2008. A Battery of

Transcription Factors Involved in the Regulation of Secondary Cell Wall

Biosynthesis in Arabidopsis. The Plant Cell, 20: 2763-2782.

Zhong, R. and Ye, Z-H. 2010a. The poplar PtrWNDs are transcriptional activators of

secondary cell wall biosynthesis. Plant Signalling and Behaviour, 5: 469-472.

Zhong, R., Lee, C. and Zheng-Hua, Y. 2010b. Functional Characterization of Poplar

Wood-Associated NAC Domain Transcription Factors, 152: 1044-1055.

Zhong, R., McCarthy, R.L., Lee, C. and Ye, Z-H. 2011. Dissection of the transcriptional

program regulating secondary wall biosynthesis during wood Formation in

Poplar. Plant physiology, 157: 1452-68.

Zhou, D.X. 1999. Regulatory mechanism of plant gene transcription by GT-elements

and GT-factors. Trends in Plant Science, 4: 210-214.

Zobel, B.J., Wyk, G.V. and Stahl, P. 1987. Growing Exotic Forests. John Wiley and

Sons, New York, 508 pp.