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Polyploidy and the petal transcriptome of Gossypium
BACKGROUND: Genes duplicated by polyploidy (homoeologs) may be differentially expressed in plant tissues. Recent research using DNA microarrays and RNAseq data have described a cacophony of complex expression patterns during development of cotton fibers, petals, and leaves. Because of its highly can...
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
BioMed Central
2014
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3890615/ https://www.ncbi.nlm.nih.gov/pubmed/24393201 http://dx.doi.org/10.1186/1471-2229-14-3 |
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author | Rambani, Aditi Page, Justin T Udall, Joshua A |
author_facet | Rambani, Aditi Page, Justin T Udall, Joshua A |
author_sort | Rambani, Aditi |
collection | PubMed |
description | BACKGROUND: Genes duplicated by polyploidy (homoeologs) may be differentially expressed in plant tissues. Recent research using DNA microarrays and RNAseq data have described a cacophony of complex expression patterns during development of cotton fibers, petals, and leaves. Because of its highly canalized development, petal tissue has been used as a model tissue for gene expression in cotton. Recent advances in cotton genome annotation and assembly now permit an enhanced analysis of duplicate gene deployment in petals from allopolyploid cotton. RESULTS: Homoeologous gene expression levels were quantified in diploid and tetraploid flower petals of Gossypium using the Gossypium raimondii genome sequence as a reference. In the polyploid, most homoeologous genes were expressed at equal levels, though a subset had an expression bias of A(T) and D(T) copies. The direction of gene expression bias was conserved in natural and recent polyploids of cotton. Conservation of direction of bias and additional comparisons between the diploids and tetraploids suggested different regulation mechanisms of gene expression. We described three phases in the evolution of cotton genomes that contribute to gene expression in the polyploid nucleus. CONCLUSIONS: Compared to previous studies, a surprising level of expression homeostasis was observed in the expression patterns of polyploid genomes. Conserved expression bias in polyploid petals may have resulted from cis-acting modifications that occurred prior to polyploidization. Some duplicated genes were intriguing exceptions to general trends. Mechanisms of gene regulation for these and other genes in the cotton genome warrants further investigation. |
format | Online Article Text |
id | pubmed-3890615 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2014 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-38906152014-01-15 Polyploidy and the petal transcriptome of Gossypium Rambani, Aditi Page, Justin T Udall, Joshua A BMC Plant Biol Research Article BACKGROUND: Genes duplicated by polyploidy (homoeologs) may be differentially expressed in plant tissues. Recent research using DNA microarrays and RNAseq data have described a cacophony of complex expression patterns during development of cotton fibers, petals, and leaves. Because of its highly canalized development, petal tissue has been used as a model tissue for gene expression in cotton. Recent advances in cotton genome annotation and assembly now permit an enhanced analysis of duplicate gene deployment in petals from allopolyploid cotton. RESULTS: Homoeologous gene expression levels were quantified in diploid and tetraploid flower petals of Gossypium using the Gossypium raimondii genome sequence as a reference. In the polyploid, most homoeologous genes were expressed at equal levels, though a subset had an expression bias of A(T) and D(T) copies. The direction of gene expression bias was conserved in natural and recent polyploids of cotton. Conservation of direction of bias and additional comparisons between the diploids and tetraploids suggested different regulation mechanisms of gene expression. We described three phases in the evolution of cotton genomes that contribute to gene expression in the polyploid nucleus. CONCLUSIONS: Compared to previous studies, a surprising level of expression homeostasis was observed in the expression patterns of polyploid genomes. Conserved expression bias in polyploid petals may have resulted from cis-acting modifications that occurred prior to polyploidization. Some duplicated genes were intriguing exceptions to general trends. Mechanisms of gene regulation for these and other genes in the cotton genome warrants further investigation. BioMed Central 2014-01-06 /pmc/articles/PMC3890615/ /pubmed/24393201 http://dx.doi.org/10.1186/1471-2229-14-3 Text en Copyright © 2014 Rambani et al.; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Research Article Rambani, Aditi Page, Justin T Udall, Joshua A Polyploidy and the petal transcriptome of Gossypium |
title | Polyploidy and the petal transcriptome of Gossypium |
title_full | Polyploidy and the petal transcriptome of Gossypium |
title_fullStr | Polyploidy and the petal transcriptome of Gossypium |
title_full_unstemmed | Polyploidy and the petal transcriptome of Gossypium |
title_short | Polyploidy and the petal transcriptome of Gossypium |
title_sort | polyploidy and the petal transcriptome of gossypium |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3890615/ https://www.ncbi.nlm.nih.gov/pubmed/24393201 http://dx.doi.org/10.1186/1471-2229-14-3 |
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