Structural variation (SV)-based pan-genome and GWAS reveal the impacts of SVs on the speciation and diversification of allotetraploid cottons

S Jin, Z Han, Y Hu, Z Si, F Dai, L He, Y Cheng, Y Li… - Molecular Plant, 2023 - cell.com
Structural variations (SVs) have long been described as being involved in the origin,
adaption, and domestication of species. However, the underlying genetic and genomic …

Sequence-based ultra-dense genetic and physical maps reveal structural variations of allopolyploid cotton genomes

S Wang, J Chen, W Zhang, Y Hu, L Chang, L Fang… - Genome biology, 2015 - Springer
Background SNPs are the most abundant polymorphism type, and have been explored in
many crop genomic studies, including rice and maize. SNP discovery in allotetraploid cotton …

Sequencing of allotetraploid cotton (Gossypium hirsutum L. acc. TM-1) provides a resource for fiber improvement

T Zhang, Y Hu, W Jiang, L Fang, X Guan, J Chen… - Nature …, 2015 - nature.com
Upland cotton is a model for polyploid crop domestication and transgenic improvement.
Here we sequenced the allotetraploid Gossypium hirsutum L. acc. TM-1 genome by …

Parallel and intertwining threads of domestication in allopolyploid cotton

D Yuan, CE Grover, G Hu, M Pan, ER Miller… - Advanced …, 2021 - Wiley Online Library
The two cultivated allopolyploid cottons, Gossypium hirsutum and Gossypium barbadense,
represent a remarkable example of parallel independent domestication, both involving …

Insights into the evolution of cotton diploids and polyploids from whole-genome re-sequencing

JT Page, MD Huynh, ZS Liechty, K Grupp… - G3: Genes …, 2013 - academic.oup.com
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 …

Toward allotetraploid cotton genome assembly: integration of a high-density molecular genetic linkage map with DNA sequence information

L Zhao, L Yuanda, C Caiping, T Xiangchao… - BMC genomics, 2012 - Springer
Background Cotton is the world's most important natural textile fiber and a significant oilseed
crop. Decoding cotton genomes will provide the ultimate reference and resource for …

Genomic insights into divergence and dual domestication of cultivated allotetraploid cottons

L Fang, H Gong, Y Hu, C Liu, B Zhou, T Huang… - Genome Biology, 2017 - Springer
Background Cotton has been cultivated and used to make fabrics for at least 7000 years.
Two allotetraploid species of great commercial importance, Gossypium hirsutum and …

Resequencing of 243 diploid cotton accessions based on an updated A genome identifies the genetic basis of key agronomic traits

X Du, G Huang, S He, Z Yang, G Sun, X Ma, N Li… - Nature …, 2018 - nature.com
The ancestors of Gossypium arboreum and Gossypium herbaceum provided the A
subgenome for the modern cultivated allotetraploid cotton. Here, we upgraded the G …

Evolutionary divergence of duplicated genomes in newly described allotetraploid cottons

R Peng, Y Xu, S Tian, T Unver, Z Liu… - Proceedings of the …, 2022 - National Acad Sciences
Allotetraploid cotton (Gossypium) species represents a model system for the study of plant
polyploidy, molecular evolution, and domestication. Here, chromosome-scale genome …

Duplicate gene evolution, homoeologous recombination, and transcriptome characterization in allopolyploid cotton

LE Flagel, JF Wendel, JA Udall - BMC genomics, 2012 - Springer
Background 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 …