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Iowa State University

Plant Sciences

Ecology, Evolution and Organismal Biology Publications

Comparative genomics

Publication Year

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Rapid Evolutionary Divergence Of Gossypium Barbadense And G. Hirsutum Mitochondrial Genomes, Mingyong Tang, Zhiwen Chen, Corrinne E. Grover, Yumei Wang, Shuangshuang Li, Guozheng Liu, Zhiqing Ma, Jonathan F. Wendel, Jinping Hua Jan 2015

Rapid Evolutionary Divergence Of Gossypium Barbadense And G. Hirsutum Mitochondrial Genomes, Mingyong Tang, Zhiwen Chen, Corrinne E. Grover, Yumei Wang, Shuangshuang Li, Guozheng Liu, Zhiqing Ma, Jonathan F. Wendel, Jinping Hua

Ecology, Evolution and Organismal Biology Publications

Background

The mitochondrial genome from upland cotton, G. hirsutum, was previously sequenced. To elucidate the evolution of mitochondrial genomic diversity within a single genus, we sequenced the mitochondrial genome from Sea Island cotton (Gossypium barbadense L.).

Methods

Mitochondrial DNA from week-old etiolated seedlings was extracted from isolated organelles using discontinuous sucrose density gradient method. Mitochondrial genome was sequenced with Solexa using paired-end, 90 bp read. The clean reads were assembled into contigs using ABySS and finished via additional fosmid and BAC sequencing. Finally, the genome was annotated and analyzed using different softwares.

Results

The G. barbadense (Sea Island cotton) mitochondrial ...


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 ...