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Iowa State University

Plant Sciences

Ecology, Evolution and Organismal Biology Publications

Allopolyploid

Publication Year

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Core Cis-Element Variation Confers Subgenome-Biased Expression Of A Transcription Factor That Functions In Cotton Fiber Elongation, Bo Zhao, Jun-Feng Cao, Guan-Jing Hu, Zhi-Wen Chen, Lu-Yao Wang, Xiao-Xia Shangguan, Ling-Jian Wang, Ying-Bo Mao, Tian-Zhen Zhang, Jonathan F. Wendel, Xiao-Ya Chen Jan 2018

Core Cis-Element Variation Confers Subgenome-Biased Expression Of A Transcription Factor That Functions In Cotton Fiber Elongation, Bo Zhao, Jun-Feng Cao, Guan-Jing Hu, Zhi-Wen Chen, Lu-Yao Wang, Xiao-Xia Shangguan, Ling-Jian Wang, Ying-Bo Mao, Tian-Zhen Zhang, Jonathan F. Wendel, Xiao-Ya Chen

Ecology, Evolution and Organismal Biology Publications

  • Cotton cultivars have evolved to produce extensive, long, seed-born fibers important for the textile industry, but we know little about the molecular mechanism underlying spinnable fiber formation. Here, we report how PACLOBUTRAZOL RESISTANCE 1 (PRE1) in cotton, which encodes a basic helix-loop-helix (bHLH) transcription factor, is a target gene of spinnable fiber evolution.
  • Differential expression of homoeologous genes in polyploids is thought to be important to plant adaptation and novel phenotypes. PRE1 expression is specific to cotton fiber cells, upregulated during their rapid elongation stage and A-homoeologous biased in allotetraploid cultivars. Transgenic studies demonstrated that PRE1 is a positive regulator ...


Insights Into The Evolution Of Cotton Diploids And Polyploids From Whole-Genome Re-Sequencing, Justin T. Page, Mark D. Huynh, Zach S. Liechty, Kara Grupp, David M. Stelly, Amanda M. Hulse, Hamid Ashrafi, Allen Van Deynze, Jonathan F. Wendel, Joshua A. Udall Oct 2013

Insights Into The Evolution Of Cotton Diploids And Polyploids From Whole-Genome Re-Sequencing, Justin T. Page, Mark D. Huynh, Zach S. Liechty, Kara Grupp, David M. Stelly, Amanda M. Hulse, Hamid Ashrafi, Allen Van Deynze, Jonathan F. Wendel, Joshua A. Udall

Ecology, Evolution and Organismal Biology Publications

Understanding the composition, evolution, and function of the Gossypium hirsutum (cotton) genome is complicated by the joint presence of two genomes in its nucleus (AT and DT genomes). These two genomes were derived from progenitor A-genome and D-genome diploids involved in ancestral allopolyploidization. To better understand the allopolyploid genome, we re-sequenced the genomes of extant diploid relatives that contain the A1 (Gossypium herbaceum), A2 (Gossypium arboreum), or D5 (Gossypium raimondii) genomes. We conducted a comparative analysis using deep re-sequencing of multiple accessions of each diploid species and identified 24 million SNPs between the A-diploid and D-diploid genomes. These analyses facilitated ...


Duplicate Gene Expression In Allopolyploid Gossypium Reveals Two Temporally Distinct Phases Of Expression Evolution, Lex E. Flagel, Joshua A. Udall, Dan Nettleton, Jonathan F. Wendel Apr 2008

Duplicate Gene Expression In Allopolyploid Gossypium Reveals Two Temporally Distinct Phases Of Expression Evolution, Lex E. Flagel, Joshua A. Udall, Dan Nettleton, Jonathan F. Wendel

Ecology, Evolution and Organismal Biology Publications

Polyploidy has played a prominent role in shaping the genomic architecture of the angiosperms. Through allopolyploidization, several modern Gossypium (cotton) species contain two divergent, although largely redundant genomes. Owing to this redundancy, these genomes can play host to an array of evolutionary processes that act on duplicate genes. We compared homoeolog (genes duplicated by polyploidy) contributions to the transcriptome of a natural allopolyploid and a synthetic interspecific F1 hybrid, both derived from a merger between diploid species from the Gossypium A-genome and D-genome groups. Relative levels of A- and D-genome contributions to the petal transcriptome were determined for 1,383 ...


A Global Assembly Of Cotton Ests, Joshua A. Udall, Jordan M. Swanson, Karl Haller, Ryan A. Rapp, Michael Edward Sparks, Jamie Hatfield, Yeisoo Yu, Yingru Wu, Catriona Dowd, Aladdin B. Arpat, Brad A. Sickler, Thea A. Wilkins, Yin Ying Guo, Xiao Ya Chen, Jodi Scheffler, Earl Taliercio, Ricky Turley, Helen Mcfadden, Paxton Payton, Natalya Klueva, Randell Allen, Deshui Zhang, Candace Haigler, Curtis Wilkerson, Jinfeng Suo, Stefan R. Schulze, Margaret L. Pierce, Margaret Essenberg, Hyeran Kim, Danny J. Llewellyn, Elizabeth S. Dennis, Rod Wing, Andrew H. Paterson, Cari Soderlund, Jonathan F. Wendel Feb 2006

A Global Assembly Of Cotton Ests, Joshua A. Udall, Jordan M. Swanson, Karl Haller, Ryan A. Rapp, Michael Edward Sparks, Jamie Hatfield, Yeisoo Yu, Yingru Wu, Catriona Dowd, Aladdin B. Arpat, Brad A. Sickler, Thea A. Wilkins, Yin Ying Guo, Xiao Ya Chen, Jodi Scheffler, Earl Taliercio, Ricky Turley, Helen Mcfadden, Paxton Payton, Natalya Klueva, Randell Allen, Deshui Zhang, Candace Haigler, Curtis Wilkerson, Jinfeng Suo, Stefan R. Schulze, Margaret L. Pierce, Margaret Essenberg, Hyeran Kim, Danny J. Llewellyn, Elizabeth S. Dennis, Rod Wing, Andrew H. Paterson, Cari Soderlund, Jonathan F. Wendel

Ecology, Evolution and Organismal Biology Publications

Approximately 185,000 Gossypium EST sequences comprising >94,800,000 nucleotides were amassed from 30 cDNA libraries constructed from a variety of tissues and organs under a range of conditions, including drought stress and pathogen challenges. These libraries were derived from allopolyploid cotton (Gossypium hirsutum; AT and DT genomes) as well as its two diploid progenitors,Gossypium arboreum (A genome) and Gossypium raimondii (D genome). ESTs were assembled using the Program for Assembling and Viewing ESTs (PAVE), resulting in 22,030 contigs and 29,077 singletons (51,107 unigenes). Further comparisons among the singletons and contigs led to ...