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Cercis: A Non-polyploid Genomic Relic Within the Generally Polyploid Legume Family

Based on evolutionary, phylogenomic, and synteny analyses of genome sequences for more than a dozen diverse legume species as well as analysis of chromosome counts across the legume family, we conclude that the genus Cercis provides a plausible model for an early evolutionary form of the legume geno...

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Autores principales: Stai, Jacob S., Yadav, Akshay, Sinou, Carole, Bruneau, Anne, Doyle, Jeff J., Fernández-Baca, David, Cannon, Steven B.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6499179/
https://www.ncbi.nlm.nih.gov/pubmed/31105714
http://dx.doi.org/10.3389/fpls.2019.00345
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author Stai, Jacob S.
Yadav, Akshay
Sinou, Carole
Bruneau, Anne
Doyle, Jeff J.
Fernández-Baca, David
Cannon, Steven B.
author_facet Stai, Jacob S.
Yadav, Akshay
Sinou, Carole
Bruneau, Anne
Doyle, Jeff J.
Fernández-Baca, David
Cannon, Steven B.
author_sort Stai, Jacob S.
collection PubMed
description Based on evolutionary, phylogenomic, and synteny analyses of genome sequences for more than a dozen diverse legume species as well as analysis of chromosome counts across the legume family, we conclude that the genus Cercis provides a plausible model for an early evolutionary form of the legume genome. The small Cercis genus is in the earliest-diverging clade in the earliest-diverging legume subfamily (Cercidoideae). The Cercis genome is physically small, and has accumulated mutations at an unusually slow rate compared to other legumes. Chromosome counts across 477 legume genera, combined with phylogenetic reconstructions and histories of whole-genome duplications, suggest that the legume progenitor had 7 chromosomes – as does Cercis. We propose a model in which a legume progenitor, with 7 chromosomes, diversified into species that would become the Cercidoideae and the remaining legume subfamilies; then speciation in the Cercidoideae gave rise to the progenitor of the Cercis genus. There is evidence for a genome duplication in the remaining Cercidoideae, which is likely due to allotetraploidy involving hybridization between a Cercis progenitor and a second diploid species that existed at the time of the polyploidy event. Outside the Cercidoideae, a set of probably independent whole-genome duplications gave rise to the five other legume subfamilies, at least four of which have predominant counts of 12–14 chromosomes among their early-diverging taxa. An earlier study concluded that independent duplications occurred in the Caesalpinioideae, Detarioideae, and Papilionoideae. We conclude that Cercis may be unique among legumes in lacking evidence of polyploidy, a process that has shaped the genomes of all other legumes thus far investigated.
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spelling pubmed-64991792019-05-17 Cercis: A Non-polyploid Genomic Relic Within the Generally Polyploid Legume Family Stai, Jacob S. Yadav, Akshay Sinou, Carole Bruneau, Anne Doyle, Jeff J. Fernández-Baca, David Cannon, Steven B. Front Plant Sci Plant Science Based on evolutionary, phylogenomic, and synteny analyses of genome sequences for more than a dozen diverse legume species as well as analysis of chromosome counts across the legume family, we conclude that the genus Cercis provides a plausible model for an early evolutionary form of the legume genome. The small Cercis genus is in the earliest-diverging clade in the earliest-diverging legume subfamily (Cercidoideae). The Cercis genome is physically small, and has accumulated mutations at an unusually slow rate compared to other legumes. Chromosome counts across 477 legume genera, combined with phylogenetic reconstructions and histories of whole-genome duplications, suggest that the legume progenitor had 7 chromosomes – as does Cercis. We propose a model in which a legume progenitor, with 7 chromosomes, diversified into species that would become the Cercidoideae and the remaining legume subfamilies; then speciation in the Cercidoideae gave rise to the progenitor of the Cercis genus. There is evidence for a genome duplication in the remaining Cercidoideae, which is likely due to allotetraploidy involving hybridization between a Cercis progenitor and a second diploid species that existed at the time of the polyploidy event. Outside the Cercidoideae, a set of probably independent whole-genome duplications gave rise to the five other legume subfamilies, at least four of which have predominant counts of 12–14 chromosomes among their early-diverging taxa. An earlier study concluded that independent duplications occurred in the Caesalpinioideae, Detarioideae, and Papilionoideae. We conclude that Cercis may be unique among legumes in lacking evidence of polyploidy, a process that has shaped the genomes of all other legumes thus far investigated. Frontiers Media S.A. 2019-04-11 /pmc/articles/PMC6499179/ /pubmed/31105714 http://dx.doi.org/10.3389/fpls.2019.00345 Text en Copyright © 2019 Stai, Yadav, Sinou, Bruneau, Doyle, Fernández-Baca and Cannon. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Plant Science
Stai, Jacob S.
Yadav, Akshay
Sinou, Carole
Bruneau, Anne
Doyle, Jeff J.
Fernández-Baca, David
Cannon, Steven B.
Cercis: A Non-polyploid Genomic Relic Within the Generally Polyploid Legume Family
title Cercis: A Non-polyploid Genomic Relic Within the Generally Polyploid Legume Family
title_full Cercis: A Non-polyploid Genomic Relic Within the Generally Polyploid Legume Family
title_fullStr Cercis: A Non-polyploid Genomic Relic Within the Generally Polyploid Legume Family
title_full_unstemmed Cercis: A Non-polyploid Genomic Relic Within the Generally Polyploid Legume Family
title_short Cercis: A Non-polyploid Genomic Relic Within the Generally Polyploid Legume Family
title_sort cercis: a non-polyploid genomic relic within the generally polyploid legume family
topic Plant Science
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6499179/
https://www.ncbi.nlm.nih.gov/pubmed/31105714
http://dx.doi.org/10.3389/fpls.2019.00345
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