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Repeated Polyploidization Of Gossypium Genomes And The Evolution Of Spinnable Cotton Fibres, Andrew H. Paterson, Jonathan F. Wendel, Heidrun Gundlach, Hui Guo, Jerry Jenkins, Dianchuan Jin, Danny Llewellyn, Kurtis C. Showmaker, Shengqiang Shu, Joshua A. Udall, Mijeong Yoo, Robert Byers, Wei Chen, Adi Doron-Faigenboim, Mary V. Duke, Lei Gong, Jane Grimwood, Corrinne E. Grover, Kara Grupp, Guanjing Hu, Tae-Ho Lee, Jingping Li, Lifeng Lin, Tao Liu, Barry S. Marler, Justin T. Page, Alison W. Roberts, Elisson Romanel, William S. Sanders, Emmanuel Szadkowski, Xu Tan, Haibao Tang, Chunming Xu, Jinpeng Wang, Zining Wang, Dong Zhang, Lan Zhang, Hamid Ashrafi, Frank Bedon, John E. Bowers, Curt L. Brubaker, Peng W. Chee, Sayan Das, Alan R. Gingle, Candace Haigler, David Harker, Lucia V. Hoffmann, Ran Hovav, Donald C. Jones, Cornelia Lemke, Shahid Mansoor, Mehboob Ur Rahman, Lisa N. Rainville, Aditi Rambani, Umesh K. Reddy, Jun-Kang Rong, Jehoshua Saranga, Brian E. Scheffler, Jodi A. Scheffler, David M. Stelly, Barbara A. Triplett, Allen Van Deynze, Maite F. S. Vaslin, Vijay N. Waghmare, Sally A. Walford, Robert J. Wright, Essam A. Zaki, Tianzhen Zhang, Elizabeth S. Dennis, Klaus F. X. Mayer, Daniel G. Peterson, Daniel S. Rokhsar, Xiyin Wang, Jeremy Schmutz Dec 2012

Repeated Polyploidization Of Gossypium Genomes And The Evolution Of Spinnable Cotton Fibres, Andrew H. Paterson, Jonathan F. Wendel, Heidrun Gundlach, Hui Guo, Jerry Jenkins, Dianchuan Jin, Danny Llewellyn, Kurtis C. Showmaker, Shengqiang Shu, Joshua A. Udall, Mijeong Yoo, Robert Byers, Wei Chen, Adi Doron-Faigenboim, Mary V. Duke, Lei Gong, Jane Grimwood, Corrinne E. Grover, Kara Grupp, Guanjing Hu, Tae-Ho Lee, Jingping Li, Lifeng Lin, Tao Liu, Barry S. Marler, Justin T. Page, Alison W. Roberts, Elisson Romanel, William S. Sanders, Emmanuel Szadkowski, Xu Tan, Haibao Tang, Chunming Xu, Jinpeng Wang, Zining Wang, Dong Zhang, Lan Zhang, Hamid Ashrafi, Frank Bedon, John E. Bowers, Curt L. Brubaker, Peng W. Chee, Sayan Das, Alan R. Gingle, Candace Haigler, David Harker, Lucia V. Hoffmann, Ran Hovav, Donald C. Jones, Cornelia Lemke, Shahid Mansoor, Mehboob Ur Rahman, Lisa N. Rainville, Aditi Rambani, Umesh K. Reddy, Jun-Kang Rong, Jehoshua Saranga, Brian E. Scheffler, Jodi A. Scheffler, David M. Stelly, Barbara A. Triplett, Allen Van Deynze, Maite F. S. Vaslin, Vijay N. Waghmare, Sally A. Walford, Robert J. Wright, Essam A. Zaki, Tianzhen Zhang, Elizabeth S. Dennis, Klaus F. X. Mayer, Daniel G. Peterson, Daniel S. Rokhsar, Xiyin Wang, Jeremy Schmutz

Ecology, Evolution and Organismal Biology Publications

Polyploidy often confers emergent properties, such as the higher fibre productivity and quality of tetraploid cottons than diploid cottons bred for the same environments1. Here we show that an abrupt five- to sixfold ploidy increase approximately 60 million years (Myr) ago, and allopolyploidy reuniting divergent Gossypium genomes approximately 1–2 Myr ago2, conferred about 30–36-fold duplication of ancestral angiosperm (flowering plant) genes in elite cottons (Gossypium hirsutum and Gossypium barbadense), genetic complexity equalled only by Brassica3 among sequenced angiosperms. Nascent fibre evolution, before allopolyploidy, is elucidated by comparison of spinnable-fibredGossypium herbaceum A and non-spinnable Gossypium ...


Spatial Heterogeneity Across Five Rangelands Managed With Pyric-Herbivory, Devan A. Mcgranahan, David M. Engle, Samuel D. Fuhlendorf, Steven J. Winter, Diane M. Debinski Aug 2012

Spatial Heterogeneity Across Five Rangelands Managed With Pyric-Herbivory, Devan A. Mcgranahan, David M. Engle, Samuel D. Fuhlendorf, Steven J. Winter, Diane M. Debinski

Ecology, Evolution and Organismal Biology Publications

1. Many rangelands evolved under an interactive disturbance regime in which grazers respond to the spatial pattern of fire and create a patchy, heterogeneous landscape. Spatially heterogeneous fire and grazing create heterogeneity in vegetation structure at the landscape level (patch contrast) and increase rangeland biodiversity. We analysed five experiments comparing spatially heterogeneous fire treatments to spatially homogeneous fire treatments on grazed rangeland along a precipitation gradient in the North American Great Plains. 2. We predicted that, across the precipitation gradient, management for heterogeneity increases both patch contrast and variance in the composition of plant functional groups. Furthermore, we predicted that ...


Targeted Capture Of Homoeologous Coding And Noncoding Sequence In Polyploid Cotton, Armel Salmon, Joshua A. Udall, Jeffrey A. Jeddeloh, Jonathan F. Wendel Aug 2012

Targeted Capture Of Homoeologous Coding And Noncoding Sequence In Polyploid Cotton, Armel Salmon, Joshua A. Udall, Jeffrey A. Jeddeloh, Jonathan F. Wendel

Ecology, Evolution and Organismal Biology Publications

Targeted sequence capture is a promising technology in many areas in biology. These methods enable efficient and relatively inexpensive sequencing of hundreds to thousands of genes or genomic regions from many more individuals than is practical using whole-genome sequencing approaches. Here, we demonstrate the feasibility of target enrichment using sequence capture in polyploid cotton. To capture and sequence both members of each gene pair (homeologs) of wild and domesticated Gossypium hirsutum, we created custom hybridization probes to target 1000 genes (500 pairs of homeologs) using information from the cotton transcriptome. Two widely divergent samples of G. hirsutum were hybridized to ...


Duplicate Gene Revolution, Homoeologous Recombination, And Transcriptome Characterization In Allopolyploid Cotton, Lex E. Flagel, Jonathan F. Wendel, Joshua A. Udall Jul 2012

Duplicate Gene Revolution, Homoeologous Recombination, And Transcriptome Characterization In Allopolyploid Cotton, Lex E. Flagel, Jonathan F. Wendel, Joshua A. Udall

Ecology, Evolution and Organismal Biology Publications

Modern allotetraploid cotton contains an “A” and “D” genome from an ancestral polyploidy event that occurred approximately 1–2 million years ago. Diploid A- and D-genome species can be compared to the A- and D-genomes found within these allotetraploids to make evolutionary inferences about polyploidy. In this paper we present a comprehensive EST assembly derived from diploid and model allotetraploid cottons and demonstrate several evolutionary inferences regarding genic evolution that can be drawn from these data. We generated a set of cotton expressed sequence tags (ESTs), comprising approximately 4.4 million Sanger and next-generation (454) transcripts supplemented by approximately 152 ...