Genome-wide chromatin accessibility analysis unveils open chromatin convergent evolution during polyploidization in cotton

J Han, D Lopez-Arredondo, G Yu… - Proceedings of the …, 2022 - National Acad Sciences
Allopolyploidization, resulting in divergent genomes in the same cell, is believed to trigger a
“genome shock”, leading to broad genetic and epigenetic changes. However, little is …

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 …

Dynamic 3D genome architecture of cotton fiber reveals subgenome-coordinated chromatin topology for 4-staged single-cell differentiation

L Pei, X Huang, Z Liu, X Tian, J You, J Li, DD Fang… - Genome Biology, 2022 - Springer
Background Despite remarkable advances in our knowledge of epigenetically mediated
transcriptional programming of cell differentiation in plants, little is known about chromatin …

Homoeolog expression bias and expression level dominance in allopolyploid cotton

MJ Yoo, E Szadkowski, JF Wendel - Heredity, 2013 - nature.com
Allopolyploidy is an evolutionary and mechanistically intriguing process, in that it entails the
reconciliation of two or more sets of diverged genomes and regulatory interactions. In this …

[HTML][HTML] Asymmetric evolution and domestication in allotetraploid cotton (Gossypium hirsutum L.)

L Fang, X Guan, T Zhang - The Crop Journal, 2017 - Elsevier
Polyploidy plays a major role in genome evolution, which corresponds to environmental
changes over millions of years. The mechanisms of genome evolution, particularly during …

Histone modifications define expression bias of homoeologous genomes in allotetraploid cotton

D Zheng, W Ye, Q Song, F Han, T Zhang… - Plant …, 2016 - academic.oup.com
Histone modifications regulate gene expression in eukaryotes, but their roles in gene
expression changes in interspecific hybrids or allotetraploids are poorly understood. Histone …

Evolutionary dynamics of 3D genome architecture following polyploidization in cotton

M Wang, P Wang, M Lin, Z Ye, G Li, L Tu, C Shen, J Li… - Nature Plants, 2018 - nature.com
The formation of polyploids significantly increases the complexity of transcriptional
regulation, which is expected to be reflected in sophisticated higher-order chromatin …

Gene-expression novelty in allopolyploid cotton: a proteomic perspective

G Hu, J Koh, MJ Yoo, S Chen, JF Wendel - Genetics, 2015 - academic.oup.com
Allopolyploidization is accompanied by changes in gene expression that are thought to
contribute to phenotypic diversification. Here we describe global changes in the single …

Duplicate gene expression in allopolyploid Gossypiumreveals two temporally distinct phases of expression evolution

L Flagel, J Udall, D Nettleton, J Wendel - BMC biology, 2008 - Springer
Background Polyploidy has played a prominent role in shaping the genomic architecture of
the angiosperms. Through allopolyploidization, several modern Gossypium (cotton) species …

Genomically biased accumulation of seed storage proteins in allopolyploid cotton

G Hu, NL Houston, D Pathak, L Schmidt, JJ Thelen… - Genetics, 2011 - academic.oup.com
Allopolyploidy is an important process during plant evolution that results in the reunion of
two divergent genomes into a common nucleus. Many of the immediate as well as longer …