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Iowa State University

Plant Sciences

Ecology, Evolution and Organismal Biology Publications

Molecular evolution

Publication Year

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Insights Into The Evolution Of The New World Diploid Cottons (Gossypium, Subgenus Houzingenia) Based On Genome Sequencing, Corrinne E. Grover, Mark A. Arick Ii, Adam Thrash, Justin L. Conover, William S. Sanders, Daniel G. Peterson, James E. Frelichowski, Jodi A. Scheffler, Brian E. Scheffler, Jonathan F. Wendel Nov 2018

Insights Into The Evolution Of The New World Diploid Cottons (Gossypium, Subgenus Houzingenia) Based On Genome Sequencing, Corrinne E. Grover, Mark A. Arick Ii, Adam Thrash, Justin L. Conover, William S. Sanders, Daniel G. Peterson, James E. Frelichowski, Jodi A. Scheffler, Brian E. Scheffler, Jonathan F. Wendel

Ecology, Evolution and Organismal Biology Publications

We employed phylogenomic methods to study molecular evolutionary processes and phylogeny in the geographically widely dispersed New World diploid cottons (Gossypium, subg. Houzingenia). Whole genome resequencing data (average of 33X genomic coverage) were generated to reassess the phylogenetic history of the subgenus and provide a temporal framework for its diversification. Phylogenetic analyses indicate that the subgenus likely originated following trans-oceanic dispersal from Africa about 6.6 mya, but that nearly all of the biodiversity evolved following rapid diversification in the mid-Pleistocene (0.5-2.0 mya), with multiple long-distance dispersals required to account for range expansion to Arizona, the Galapagos Islands ...


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 ...


Independent Domestication Of Two Old World Cotton Species, Jonathan F. Wendel, Simon Renny-Byfield, Justin T. Page, Joshua A. Udall, William S. Sanders, Daniel G. Peterson, Mark A. Arick Ii, Corrinne E. Grover Jan 2016

Independent Domestication Of Two Old World Cotton Species, Jonathan F. Wendel, Simon Renny-Byfield, Justin T. Page, Joshua A. Udall, William S. Sanders, Daniel G. Peterson, Mark A. Arick Ii, Corrinne E. Grover

Ecology, Evolution and Organismal Biology Publications

Domesticated cotton species provide raw material for the majority of the world's textile industry. Two independent domestication events have been identified in allopolyploid cotton, one in Upland cotton ( Gossypium hirsutum L.) and the other to Egyptian cotton ( Gossypium barbadense L.). However, two diploid cotton species, Gossypium arboreum L. and Gossypium herbaceum L., have been cultivated for several millennia, but their status as independent domesticates has long been in question. Using genome resequencing data, we estimated the global abundance of various repetitive DNAs. We demonstrate that, despite negligible divergence in genome size, the two domesticated diploid cotton species contain different ...


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 ...