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Fiber Evolution

Introgression Populations
Homoeolog-specific Profiling
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Effects of Selection
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Journal Publications (current renewal/award # 0817707)

Bao, Y., G. Hu, L. Flagel, A. Salmon, M. Bezanilla, A. Paterson, Z. Wang, and J. F. Wendel., "Convergent upregulation of the profilin gene family following independent domestication of diploid and allopolyploid cotton (Gossypium", Proceedings of the National Academy of Sciences USA, p. 21152-21157, vol. 108(52), (2012).

Betancur, L., B. Singh, R. A. Rapp, J. F. Wendel, M. D. Marks, A. W. Roberts and C. H. Haigler, "Phylogenetically distinct cellulose synthase genes support secondary wall thickening in Arabidopsis shoot trichomes and cotton fiber", Journal of Integrative Plant Biology, p. 205, vol. 52, (2010).

Byers R, D. Harker, S. Yourstone, P. Maughan, and J. Udall, "Development and Mapping of SNP Assays in Allotetraploid Cotton.", Theoretical and Applied Genetics, p. 1201–1214, vol. 124(7), (2012).

Cronn, R., B. Knaus, A. Liston, P. Maughan, M. Parks, J. Syring, and J. Udall., "Methods and applications of Next-Generation Sequencing in Botany", American Journal of Botany, p. 291-311, vol. 99, (2012).

Flagel, L. E. and J. F. Wendel, "Evolutionary rate variation and scope of duplicate gene expression evolution in five allotetraploid cotton species", New Phytologist, p. 184, vol. 186, (2010).

Flagel, L. E., J. A. Udall, and J. F. Wendel, "Duplicate gene evolution, homoeologous recombination, and transcriptome characterization in allopolyploid cotton.", BMC Genomics, 13:302 doi:10.1186/1471-2164-13-302, (2012).

Grover, C. E. and J. F. Wendel, "Recent insights into mechanisms of genome size change in plants", Journal of Botany, p. , vol. , (2010). 10.1155/2010/382732

Grover, C. E., A. Salmon, and J. F. Wendel, "Targeted sequence capture as a powerful tool for evolutionary analysis", American Journal of Botany, p. 312–319 , vol. 99(2), (2012).

Grover, C. E., K. K. Grupp, R. J. Wanzek, and J. F. Wendel., "Assessing the monophyly of polyploid Gossypium", Plant Systematics and Evolution, p. 20064776, vol. 6, (2012).

Hanegan, N., & Bigler, A, "Infusing authentic inquiry in biotechnology.", Journal of Science Education and Technology, p. 393, vol. 18, (2009).

Hanegan, N., Friden, K., & Nelson, C. R., "Authentic and simulated inquiry: Teachers reflect what is modeled.", School Science & Mathematics Journal., p. 79, vol. 108(2), (2009).

Hu, G., N. L. Houston, D. Pathak, L. Schmidt, J. J. Thelen and J. F. Wendel, "Genomically biased accumulation of seed storage proteins in allopolyploid cotton", Genetics, p. 1103, vol. 189, (2011).

Lin, L., G. J. Pierce, J. E. Bowers, J. C. Estill, R. O. Compton, L. K Nelson, C. Kim, C. Lemke, J. Rong, H. Tang, X. Wang, M. Braidotti, A. H. Chen, K. Collura, E. Epps, W. Golser, C. Grover, K. Chicola, J. Ingles, S. Karunakaran, D. Kudrna, J. Olive, N., " A draft physical map of a D-genome cotton species (Gossypium raimondii)", BMC Genomics, p. 395, vol. 11, (2010).

Lin, L., and A. H. Paterson, "Size variation in homologous segments across divergent plant genomes", Mobile Genetic Elements, p. 1, vol. 1, (2011).

Lin, L., H. Tang, R. O. Compton, C. Lemke, L. K Rainville, X. Wang, J. Rong, M. Kumar and A. H. Paterson, "Comparative analysis of Gossypium and Vitis genomes indicates genome duplication specific to the Gossypium lineage", Genomics, p. 313, vol. 97, (2011).

Mehboob-ur-Rahman, Tayyaba Shaheen, Nabila Tabbasam, Muhammad Atif Iqbal, Muhammad Ashraf, Yusuf Zafar and Andrew H Paterson, "Genetic resources in cotton and their improvement", Agronomy for Sustainable Development, p. , vol. , (2012). Submitted

Paterson, A. H., J. Rong, A. R. Gingle, P. W. Chee, E. Dennis, D. Llewellyn, L. S. Dure III, C. Haigler, G. O. Meyers, D. G. Peterson, M. ur Rahman, Y. Zafar, U. Reddy, Y. Saranga, J. McD. Stewart, J. A. Udall, V. N. Waghmare, J. F. Wendel, T. A. Wilkins,, "Sequencing and utilization of the Gossypium genomes", Tropical Plant Biology, p. 71, vol. 3, (2010).

Paterson, A. H., "Cotton: Biotechnological Advances. Chapter 3 (pages 45-63) in", U. Zehr and J. Widholm, Biotechnology in Agriculture and Forestry. Springer, Heidelberg, p. , vol. 45, (2010).

Paterson, A. H., "Cotton: Biotechnological Advances", in U. Zehr and J. Widholm, Biotechnology in Agriculture and Forestry. Springer, Heidelberg., p. , vol. , (2010).

Paterson, A. H. (ed.), "Genetics and Genomics of Cotton (20 chapters)", Springer, New York, p. , vol. , (2009).

Paterson, A.H., X. Wang, H. Tang, and T. H. Lee, "Synteny and genomic rearrangements, In", Plant Genome Diversity (J. F. Wendel, Chief Editor, with I. Leitch, J. Dolezel, and J. Greilhuber). Springer, Vienna, p. , vol. 1, (2012).

Pleasants, J. M. and J. F. Wendel, "Reproductive and pollination biology of the endemic Hawaiian cotton, Gossypium tomentosum (Malvaceae).", Pacific Science, p. 45, vol. 64, (2010).

Rapp, R. A. C. H. Haigler, L. Flagel, R. H. Hovav, J. A. Udall and J. F. Wendel, "Gene expression in developing fibers of Upland cotton (Gossypium hirsutum L.) was massively altered by domestication", BMC Biology, p. 139, vol. 8, (2010).

Reddy, U.K., Jun-kang Rong, Padma Nimmakayala, Gopinath Vajja, Mohammad Rahman, John Z Yu, Khairy Soliman, Katarzyna Heller-Uszynska, Andrzej Kilian, and Andrew H Paterson, "Use of DArT markers for integration into cotton reference map and anchoring to a RIL map", Genome, p. 349, vol. 54, (2011).

Richards, C. L. and J. F. Wendel., "The hairy problem of epigenetics in evolution", New Phytologist, p. 7, vol. 191, (2011).

Rong, J., Frank A. Feltus, Limei Liu, Lifeng Lin, Andrew H. Paterson, "Gene copy number evolution during tetraploid cotton radiation", Heredity, p. 463, vol. 105, (2010).

Salmon, A., L. E. Flagel, B. Ying, J. A. Udall, and J. F. Wendel., "Homoeologous gene conversion following allopolyploidy in cotton.", New Phytologist, p. 123, vol. 186, (2010).

Salmon, A., J. A. Udall, J. A. Jeddeloh, and J. Wendel., "Targeted capture of homoeologous coding and non-coding sequence in polyploid cotton.", Genes, Genomes, and Genetics, p. 921-930, vol. 2, (2012).

ur-Rahman, M., M. Asif, T. Shaheen, N. Tabbasum, Y. Zafar, A.H. Paterson, "Marker-assisted Breeding in Higher Plants.", Chapter 3 in Sustainable Agriculture Reviews 6, Alternative Farming Systems, Biotechnology, Drought Stress, and Ecological Fertilisation. E. Lichtfouse (ed.), p. , vol. , (2011).

Waghmare, V., J.K. Rong, C. J. Rogers, J. E. Bowers, P. W. Chee, J. F. Wendel, J. R. Gannaway, A. H. Paterson, "Comparative transmission genetics of introgressed chromatin in Gossypium", polyploids, p. , vol. , (2012). Submitted

Wang, Y., X. Wang and A. H Paterson, "Genome and gene duplications and gene expression divergence: a view from angiosperms.", Annals of the New York Academy of Sciences, p. , vol. , (2012). Accepted

Wendel, J. F. (ed.), "Plant Genome Diversity (17 chapters).", Springer, Vienna, p. , vol. , (2012).

Wendel, J. F., and M. M. Goodman., "Stanley George Stephens", Biographical Memoirs of the National Academy of Sciences, p. 1, vol. 93, (2011).

Journal Publications (previous/award # 0211700)

Adams, K., R. Cronn, R. Percifield, and J. F. Wendel. "Genes duplicated by polyploidy show unequal contributions to the transcriptome and organ-specific reciprocal silencing. Proceedings of the National Academy of Sciences USA 100: 4649-4654, (2003).

Adams, K.L., R. Percifield, and J. F. Wendel. "Organ-specific silencing of duplicated genes in a newly synthesized cotton allotetraploid. Genetics 168:2217-2226, (2004).

Adams, K. L. and J. F. Wendel. "Polyploidy and genome evolution in plants. Current opinions in plant biology 8: 135-141, (2005).

Adams, K. L. and J. F. Wendel. "Novel patterns of gene expression in polyploid plants. Trends in Genetics 21: 539-543, (2005).

Adams, K. L. and J. F. Wendel. "Allele-specific, bi-directional silencing of an alcohol dehydrogenase gene in different organs of interspecific cotton hybrids. Genetics 17: 2139-2142, (2006).

Adams, K. L., L. Flagel, and J. F. Wendel. "Responses of the cotton genome to polyploidy. "In: Genomics of cotton, A.H. Paterson (Ed.), Springer, New York (in press), (2008).

Amarasinghe B. R., Faivre-Nitschke E, Wu Y, Udall JA, Dennis ES, Constable G, Llewellyn DJ. "Genomic approaches to the discovery of promoters for sustained expression in cotton (Gossypium hirsutum L.) under field conditions: expression analysis in transgenic cotton and Arabidopsis of a Rubisco small subunit promoter identified using EST sequence analysis and cDNA microarrays. Plant Biotechnology 23: 437-450, (2006).

Aparna, D., P. W. Chee, J. Rong, O. L. May, and A. H. Paterson. "Chromosome structural changes in diploid and tetraploid A genomes of Gossypium. Genome 49:336-345, (2006).

Bowers, J. E., B. A. Chapman, J. Rong, A. H. Paterson. "Unravelling angiosperm chromosome evolution by phylogenetic analysis of chromosomal duplication events. Nature 422:433-438, (2003).

Chaudhary, B., R, Hovav, R, Rapp, N, Verma, J, A. Udall and J, F. Wendel. "Global analysis of gene expression in cotton fibers from wild and domesticated Gossypium barbadense. Evolution and Development 10: 567-582, (2008).

Chaudhary, B., L. Flagel, R. M. Stupar, J. A. Udall, N. Verma, N. M. Springer, and J. F. Wendel. "Reciprocal silencing, transcriptional bias and functional divergence of homoeologs in polyploid cotton (Gossypium). Genetics (in review), (2008).

Chen, Z. J., B. E. Scheffler, E. Dennis, B. Triplett, T. Zhang, X. Chen, D. M. Stelly, P. D. Rabinowicz, C. Town, T. Arioli, C. Brubaker, R. Cantrell, J.-M. Lacape, M. Ulloa, P. Chee, A. R. Gingle, C. Haigler, R. Percy, S. Saha, T. Wilkins, R. J. Wright, A. Van Deynze, Y. Zhu, S. Yu, W. Guo, I. Abdurakhmonov, I. Katageri, M. Rahman, Y. Zafar, J. Z. Yu, R. J. Kohel, J. Wendel, and A. H. Paterson. "Towards sequencing cotton (Gossypium) genomes. Plant Physiology 145: 1303-1310, (2007).

Desai, A., P. W. Chee, O. L. May, A. H. Paterson. "Co-localization of lint fiber and trichome mutations in diploid cotton. J. Heredity 99:182-186, (2008).

Doyle, J. J., L. A. Flagel, A. H. Paterson, R. Rapp, D. E. Soltis, P.S. Soltis, and J. F. Wendel. "Evolutionary genetics of genome merger and doubling in plants. Annual Review of Genetics (in press), (2008).

Flagel, L., J. A. Udall, D. Nettleton, and J. F. Wendel. "Duplicate gene expression in allopolyploid Gossypium reveals two temporally distinct phases of expression evolution. BMC Biology 6:16 doi:10.1186/1741-7007-6-16, (2008).

Flagel, L., R. A Rapp, C. E. Grover, M. P. Widrlechner, J. H. Hawkins, J. L. Grafenberg, I. Alvarez, G. Y. Chung, and Jonathan F Wendel. "Phylogenetic, morphological, and chemotaxonomic incongruence in the North American endemic genus Echinacea Moench. American Journal of Botany 95: 756-765, (2008).

Gingle, A. R., Yang, H., Chee, P. W., May, O. L., Rong, J., Bowman, D. T., Lubbers, E. L., Day, J. L. and Paterson, A. H."An Integrated Web Resource for Cotton. Crop Sci. 46, 1998-2007, (2006).

Grover, C.E., HR Kim, RA Wing, AH Paterson, and JF. Wendel. "Incongruent patterns of local and global genome size evolution in cotton. Genome Research 14:1474 - 1482, (2004).

Grover, C.E., J.S. Hawkins, and J.F. Wendel. "Tobacco genome quickly goes up in smoke. New Phytologist 175: 599-602, (2007).

Grover, C. E., H. Kim, R. A. Wing, A. H. Paterson, and J. F. Wendel. "Microcolinearity and genome size evolution in the AdhA region of diploid and polyploid cotton (Gossypium). The Plant Journal 50: 995-1006, (2007).

Grover, C.E., J.S. Hawkins, and J.F. Wendel. "Phylogenetic insights into the pace and pattern of plant genome size evolution. Pp 57-68 in: Genome Dynamics, Volume 4, Genome Dynamics (J-N Volff, ed). Karger Publishers, Basel, Switzerland, (2008).

Grover, C. E., Y. Yu, R. A. Wing, A. H. Paterson, and J. F. Wendel. "A phylogenetic analysis of indel dynamics in the cotton genus. Molecular Biology and Evolution 25: 1415–1428, (2008).

Hawkins, J. S., H. Kim, J. D. Nason, R. A. Wing, and J. F. Wendel. "Differential lineage-specific amplification of transposable elements is responsible for genome size variation in Gossypium. Genome Research 16: 1252-1261, (2006).

Hawkins, J. S., C. E. Grover, and J. F. Wendel. "Repeated big bangs and the expanding universe: directionality in plant genome size evolution. Plant Science 174: 557-562, (2008).

Hawkins, J. S., G. Hu, R. A. Rapp, J. L. Grafenberg, and J. F. Wendel. "Phylogenetic determination of the pace of transposable element proliferation in plants: copia and LINE-like elements in Gossypium. Genome 51:11-18, (2008).

Hovav, R., J. A. Udall, B. Chaudhary, E. Hovav, L. Flagel, G. Hu, and J. F. Wendel. "The evolution of spinable cotton fiber entailed natural selection for prolonged development and a novel metabolism. PLOS Genetics 4, e25 doi:10.1371/journal.pgen.0040025, (2008).

Hovav, R., B. Chaudhary, J. A. Udall, L. Flagel, and J. F. Wendel. "Parallel domestication, convergent evolution, and duplicate gene recruitment in allopolyploid cotton. Genetics 179: 1725-1733, (2008).

Hovav, R., J. A. Udall, B. Chaudhary, R. Rapp, L. Flagel, and J. F. Wendel. "Partitioned expression of duplicated genes during development and evolution of a single cell in a polyploid plant. Proceedings of the National Academy of Sciences USA 105: 6191-6195, (2008).

Hovav, R., J. A. Udall, E. Hovav, R. Rapp, L. Flagel, and J. F. Wendel. "Gene expression during cellular differentiation of the single-celled cotton trichome (fiber). Planta 227: 319-329, (2008).

Ji, Y., X. Zhao, A.H. Paterson, H.J. Price and D.M. Stelly, "Integrative mapping of Gossypium hirsutum L. by meiotic fluorescent in situ hybridization of a tandemly repetitive sequence (B77). Genetics 176:115-123, (2007).

Keyte, A. L., R. Percifield, B. Liu, and J. F. Wendel. "Infraspecific DNA methylation polymorphism in cotton (Gossypium hirsutum L.). Journal of Heredity 97: 444-450, (2006).

Liu, B. and J. F. Wendel. "Epigenetic phenomena and the evolution of plant allopolyploids. Molecular Phylogenetics and Evolution 29:365-379, (2003).

Paterson, A. H. J. E. Bowers, B. A. Chapman, D. G. Peterson, J. Rong , T. M. Wicker. "Comparative genome analysis of monocots and dicots, toward characterization of angiosperm diversity. Curr. Opin. Biotechnol. 15:120-125, (2004).

Paterson, A. H. "A cornucopia of genomes. Genome Biol., 7:311, (2006).

Paterson, A. H. "Leafing through the genomes of our major crop plants: strategies for capturing unique information. Nature Reviews Genetics 7:174-184, (2006).

Paterson, A. H. "Paleopolyploidy and its Impact on the Structure and Function of Modern Plant Genomes. Genome Dynamics 4:1-12, (2008).

Petrov, D. A. and J. F. Wendel. "Genome evolution in eukaryotes: the genome size perspective. Pp 144-156, in: Evolutionary Genetics: Concepts and Case Studies (C. W. Fox and J. B. Wolf, Eds.). Oxford Univ. Press, (2006).

Rapp, R. and J. F. Wendel. "Epigenetics and plant evolution. New Phytologist 168: 81-91, (2005).

Rapp, R. A., J. A. Udall and Jonathan F. Wendel. "Genomic expression dominance in allopolyploids. PLoS Genetics (in review), (2008).

Rong, J., C. Abbey, J. E. Bowers, C. L. Brubaker, C. Chang, P. Chee, T. Delmonte, J. J. Garza, C. Park, G. J. Pierce, K. M. Rainey, V. Rastogi, K. Reischmann, S. Schulze, N. Trolinder, J. F. Wendel, T. A. Wilkins, T. D. Williams-Coplin, R. Wing, X. Zhao, L. Zhu, A. H. Paterson. "A 3364-locus genetic recombination map of sequence-tagged sites reveals features of genome organization, transmission and evolution of cotton (Gossypium). Genetics 166:389-417, (2004).

Rong, J. Gary J. Pierce, Vijay N. Waghmare, Carl J. Rogers, Aparna Desai, Peng W. Chee, O. Lloyd May, John R. Gannaway, Jonathan F. Wendel, Thea A. Wilkins, and Andrew H. Paterson. "Genetic mapping and comparative analysis of seven mutants related to seed fiber development in cotton. Theor. Appl. Genet. 111:1137-1146, (2005).

Rong, J. J.E. Bowers, S. R. Schulze, V. Waghmare, C. Rogers, G. Pierce, H. Zhang, J. C. Estill, A.H. Paterson. "Comparative genomics of Gossypium and Arabidopsis: Unraveling the consequences of both ancient and recent polyploidy. Genome Research, 15:1198-1210, (2005).

Rong, J., A. Feltus, V. N. Waghmare, G. J. Pierce, P. W. Chee, X. Draye, Y. Saranga, R. J. Wright, T. A. Wilkins, O. L. May, J. R. Gannaway, J. F. Wendel, A. H. Paterson. "Meta-analysis of polyploid cotton QTLs shows unequal contributions of subgenomes to a complex network of genes and gene clusters implicated in lint fiber development. Genetics 176: 2577-2588, (2007).

Senchina, D. S., I. Alvarez, R. C. Cronn, B. Liu, A. H. Paterson, J. Rong, R. D. Noyes, R. A. Wing, T. A. Wilkins, and J. F. Wendel, "Rate variation among nuclear genes and the age of polyploidy in Gossypium. Mol. Biol. Evol 20:633-643, (2003).

Tang, H., Bowers, J. E., Wang, X., Ming, R., Alam, M., Paterson, A. H., "Synteny and colinearity in plant genomes. Science 320:486-488, (2008).

Udall, J. A., J. Swanson, K. Haller, R.A. Rapp, M. Sparks, J. Hatfield, Y. Yu, Y. Wu, A.B. Arpat, B.A. Sickler, T.A. Wilkins, J.-Y. Guo, X.-Y. Chen, E. Taliercio, R. Turley, C. Dowd, H. McFadden, N. Klueva, P. Payton, R. Allen, D. Zhang, C. Haigler, C. Wilkerson, J. Suo, S.R. Schulze, M.L. Pierce, M. Essenberg, H. Kim, D.J. Llewellyn, E.S. Dennis, D. Kudrna, R. Wing, A.H. Paterson, C. Soderlund, and J.F. Wendel, "A global assembly of cotton ESTs. Genome Research 16: 441-450, (2006).

Udall, J. A., J. M. Swanson, D. Nettleton, R. J. Percifield, and J. F. Wendel, "A novel approach for characterizing expression levels of genes duplicated by polyploidy. Genetics 173(3): 1823–1827, (2006).

Udall, J. A. and J. F. Wendel, "Polyploidy and crop improvement. The Plant Genome, a Supplement to Crop Science 46: S3-14, (2006).

Udall, J. A., F. Cheung, A. W. Woodward, J. M. Swanson, L. Flagel, R. Hovav, R. A. Rapp, D. Nettleton, J. J. Lee, A. R. Gingle, C. Town, Z. J. Chen, and J. F. Wendel, "Spotted cotton oligonucleotide microarrays for gene expression analysis. BMC Genomics 8:81, (2007).

Waghmare, V. N., J. Rong, C. J. Rogers, G. J. Pierce, J. F. Wendel, and A. H. Paterson, "Genetic mapping of a cross between Gossypium hirsutum (cotton) and the Hawaiian endemic, G. tomentosum. Theoretical and Applied Genetics 111: 665-676, (2005).

Wendel, J. F., C. L. Brubaker, I. Alvarez, R. C. Cronn, and J. McD. Stewart, "Evolution and natural history of the cotton genus. In: Genomics of cotton, A.H. Paterson (Ed.), Springer, New York (in press), (2008).

Wu, Y., S. Rozenfeld, A. Defferrard, K. Ruggiero, J.A. Udall, D.J. Llewellyn, and E.S. Dennis, "Cycloheximide treatment of cotton ovules alters the abundance of specific classes of mRNAs and generates novel ESTs for microarray expression profiling. Mol. Gen. Genetics 274: 477-493, (2005).

Yang, H., H. Wang, and A.R. Gingle, "IntegratedMap: a Web interface for integrating genetic map data." Bioinformatics 21:2126-2127, (2005).

Yang, H, and A.R. Gingle, "OxfordGrid: a Web interface for pairwise comparative map views." Bioinformatics 21:4307-4308, (2005).

Books or Other One-time Publications

Adams, K. L., and J. F. Wendel, "Dynamics of duplicated gene expression in polyploid cotton", In Polyploid and Hybrid Genomics (Z. J. Chen and J. Birchler, Eds.), Wiley Blackwell, p. , vol. , (2012). In press

Chaudhary, B., L. Flagel, J. Udall, and J. F. Wendel., "Expression Evolution of Genes Duplicated by Polyploidy in Cotton (Gossypium).", (2009). Presentation, Presented Bibliography: German Genetics Society, University of Cologne.

Gingle, A. R., "Gossypium Bioinformatics Resources." In Genetics and Genomics of Cotton, Plant Genetics and Genomics: Crops and Models 3, Ed. A.H. Paterson, Springer, New York, pp 227-254, (2009).

Grover, C.E., R.A. Rapp, L.E. Flagel, A. Salmon, M.J. Yoo, R. Hovav, J.A. Udall, Y. Bao, A.H. Paterson, and J.F. Wendel, "Polyploidy and fiber evolution in Gossypium.", (2010). presentation, Published Bibliography: International Cotton Genetics Initiative Meetings, Canberra, Australia

Paterson, Andrew, "Sequencing the cotton genomes", (2010). presentation, Published Bibliography: Plenary talk, International Cotton Genome Initiative meeting, Canberra, Australia

Paterson, Andrew, "Ancient polyploidy and modern plants", (2010). Presentations, Published Bibliography: Three different talks, at Univ. CA, Berkeley May 2009, IPMB, St Louis, Sept 2009, and Univ Delaware, May 2010

Paterson, A. H. "Plant Genome Mapping and Strategy" In H. Doelle, ed., Encyclopedia for Life Support Systems. UNESCO. In press, (2008).

Salmon, A., L. Flagel, J. Udall, and J. Wendel., "Detection of homoeologous recombinants from cotton EST assemblies.", (2010). Presentation, Pending presentation Bibliography: Plant and Animal Genome Conference, San Diego.

Salmon, A., L. Flagel, J. Udall, and J. Wendel, "Assessment of gene conversion events in the Gossypium hirsutum polyploid genome.", (2009). presentation, presented Bibliography: International Conference on Polyploidy, Hybridization, and Biodiversity, St. Malo, France.

Standage, D., A. Salmon, L. Flagel, K. Grupp, J. F. Wendel, and J. A. Udall., "Measuring gene expression in tetraploid cotton through Illumina sequencing", (2010). presentation, Published Bibliography: Plant and Animal Genome Conference, San Diego

Udall, J. A., L. E. Flagel, and J. F. Wendel, "A cotton reference transcriptome", (2010). presentation, Published Bibliography: International International Cotton Genetics Initiative Meetings, Canberra, Australia.

Udall, J. A., A. Salmon, K. Grupp, J. A. Jeddeloh, and J. F. Wendel, "Diversity of 534 pairs of duplicated genes in allotetraploid Gossypium hirsutum", (2011). Presentation, Published Bibliography: Plant and Animal Genome Conference, San Diego

Udall, J. A., L. Flagel, and J.F. Wendel, " A cotton reference transcriptome with 454 sequencing.", (2010). presentation, Published Bibliography: Roche 454 Users Meeting, Salt Lake City, Utah

Wang, X.-Y. and A. H. Paterson, "Gene Conversion In Angiosperm Genomes with an Emphasis on Genes Duplicated by Polyploidization", Genes, p. 1, vol. 2, (2011).

Wendel, J. F., "Gene Expression & Polyploidy in Cotton.", (2009). Presentation, Presented Bibliography: IPMB, St. Louis.

Wendel, J. F., "Gossypium as a model for exploring the origin of novel phenotypes in ; polyploids.", (2009). presentation, presented Bibliography: International Conference on Polyploidy, Hybridization, and Biodiversity, St. Malo, France.

Wendel, J. F., L. E. Flagel, and K. L. Adams, "Jeans, genes, and genomes: cotton as a model for studying polyploidy", In Polyploidy and Genome Evolution (P. S. Soltis and D. E. Soltis, Eds), Springer, New York, p. , vol. , (2012). In press

Wendel, J. F., R. Hovav, B. Chaudhary, R. Rapp, L. Flagel and J. Udall., "Gene expression and polyploidy in cotton.", (2009). Presentation, Presented Bibliography: International Plant Molecular Biology Congress, St. Louis.

Collaborator Lab Publications

Plant Genome Mapping lab publications

Udall lab publications

Wendel lab publications

We welcome your comments and suggestions.