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Article
Open AccessOrigin and diversity of the wild cottons (Gossypium hirsutum) of Mound Key, Florida
Elucidating genetic diversity within wild forms of modern crops is essential for understanding domestication and the possibilities of wild germplasm utilization. Gossypium hirsutum is a predominant source of natu...
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Article
iJAZ-based approach to engineer lepidopteran pest resistance in multiple crop species
The fall armyworm (FAW) poses a significant threat to global crop production. Here we showed that overexpression of jasmonate ZIM-domain (JAZ) protein GhJAZ24 confers resistance to cotton bollworm and FAW, whi...
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Article
Open AccessRegulatory controls of duplicated gene expression during fiber development in allotetraploid cotton
Polyploidy complicates transcriptional regulation and increases phenotypic diversity in organisms. The dynamics of genetic regulation of gene expression between coresident subgenomes in polyploids remains to b...
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Article
Open AccessGenomic rearrangements and evolutionary changes in 3D chromatin topologies in the cotton tribe (Gossypieae)
Analysis of the relationship between chromosomal structural variation (synteny breaks) and 3D-chromatin architectural changes among closely related species has the potential to reveal causes and correlates bet...
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Article
Genomic innovation and regulatory rewiring during evolution of the cotton genus Gossypium
Phenotypic diversity and evolutionary innovation ultimately trace to variation in genomic sequence and rewiring of regulatory networks. Here, we constructed a pan-genome of the Gossypium genus using ten represent...
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Article
Open AccessReshuffling of the ancestral core-eudicot genome shaped chromatin topology and epigenetic modification in Panax
All extant core-eudicot plants share a common ancestral genome that has experienced cyclic polyploidizations and (re)diploidizations. Reshuffling of the ancestral core-eudicot genome generates abundant genomic...
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Chapter
Correction to: Evolution and Diversity of the Cotton Genome
The original version of this chapter was revised to include a co-author. The correct version of the list of authors is as follows:
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Evolution and Diversity of the Cotton Genome
We present an overview of Gossypium genome evolution and the implications of this understanding for targeted breeding objectives. The cotton genus (Gossypium) contains more than 50 species distributed in arid to ...
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Article
Open AccessGenome-wide characterization of the GRF family and their roles in response to salt stress in Gossypium
Cotton (Gossypium spp.) is the most important world-wide fiber crop but salt stress limits cotton production in coastal and other areas. Growth regulation factors (GRFs) play regulatory roles in response to salt ...
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Article
Open AccessGenomic diversifications of five Gossypium allopolyploid species and their impact on cotton improvement
Polyploidy is an evolutionary innovation for many animals and all flowering plants, but its impact on selection and domestication remains elusive. Here we analyze genome evolution and diversification for all f...
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Article
Open AccessUnraveling cis and trans regulatory evolution during cotton domestication
Cis and trans regulatory divergence underlies phenotypic and evolutionary diversification. Relatively little is understood about the complexity of regulatory evolution accompanying crop domestication, particularl...
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Article
Open AccessIntergenomic gene transfer in diploid and allopolyploid Gossypium
Intergenomic gene transfer (IGT) between nuclear and organellar genomes is a common phenomenon during plant evolution. Gossypium is a useful model to evaluate the genomic consequences of IGT for both diploid and ...
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Article
Open AccessThe chromosome-scale reference genome of black pepper provides insight into piperine biosynthesis
Black pepper (Piper nigrum), dubbed the ‘King of Spices’ and ‘Black Gold’, is one of the most widely used spices. Here, we present its reference genome assembly by integrating PacBio, 10x Chromium, BioNano DLS op...
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Article
Open AccessDesignations for individual genomes and chromosomes in Gossypium
Gossypium, as the one of the biggest genera, the most diversity, and the highest economic value in field crops, is assuming an increasingly important role in studies on plant taxonomy, polyploidization, phylogeny...
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Article
Nucleotide diversity in the two co-resident genomes of allopolyploid cotton
Genetic diversity within and among populations lies at the heart of evolution. Unraveling the extent to which each intrinsic or extrinsic factor determines levels of diversity among genes, populations, and spe...
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Article
Open AccessGene-body CG methylation and divergent expression of duplicate genes in rice
Gene and genome duplication fosters genetic novelty, but redundant gene copies would undergo mutational decay unless preserved via selective or neutral forces. Molecular mechanisms mediating duplicate preserva...
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Article
Open AccessDiversity analysis of cotton (Gossypium hirsutum L.) germplasm using the CottonSNP63K Array
Cotton germplasm resources contain beneficial alleles that can be exploited to develop germplasm adapted to emerging environmental and climate conditions. Accessions and lines have traditionally been character...
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Article
Open AccessEvolution of plant genome architecture
We have witnessed an explosion in our understanding of the evolution and structure of plant genomes in recent years. Here, we highlight three important emergent realizations: (1) that the evolutionary history of
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Article
Open AccessRapid evolutionary divergence of Gossypium barbadense and G. hirsutum mitochondrial genomes
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 ...
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Article
Unraveling the fabric of polyploidy
Draft genome sequences of tetraploid Upland cotton and other polyploids promise insights into genome evolution and cotton fiber biology.
