Genome-wide identification and characterization of R2R3MYB family in Cucumis sativus.

<h4>Background</h4>The R2R3MYB proteins comprise one of the largest families of transcription factors in plants. Although genome-wide analysis of this family has been carried out in some species, little is known about R2R3MYB genes in cucumber (Cucumis sativus L.).<h4>Principal fin...

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Autores principales:	Qiang Li, Cunjia Zhang, Jing Li, Lina Wang, Zhonghai Ren
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2012
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/53748af72c8141b9b283088856ed0bf0
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spelling	oai:doaj.org-article:53748af72c8141b9b283088856ed0bf02021-11-18T08:11:22ZGenome-wide identification and characterization of R2R3MYB family in Cucumis sativus.1932-620310.1371/journal.pone.0047576https://doaj.org/article/53748af72c8141b9b283088856ed0bf02012-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/23110079/pdf/?tool=EBIhttps://doaj.org/toc/1932-6203<h4>Background</h4>The R2R3MYB proteins comprise one of the largest families of transcription factors in plants. Although genome-wide analysis of this family has been carried out in some species, little is known about R2R3MYB genes in cucumber (Cucumis sativus L.).<h4>Principal findings</h4>This study has identified 55 R2R3MYB genes in the latest cucumber genome and the CsR2R3MYB family contained the smallest number of identified genes compared to other species that have been studied due to the absence of recent gene duplication events. These results were also supported by genome distribution and gene duplication analysis. Phylogenetic analysis showed that they could be classified into 11 subgroups. The evolutionary relationships and the intron-exon organizations that showed similarities with Arabidopsis, Vitis and Glycine R2R3MYB proteins were also analyzed and suggested strong gene conservation but also the expansions of particular functional genes during the evolution of the plant species. In addition, we found that 8 out of 55 (∼14.54%) cucumber R2R3MYB genes underwent alternative splicing events, producing a variety of transcripts from a single gene, which illustrated the extremely high complexity of transcriptome regulation. Tissue-specific expression profiles showed that 50 cucumber R2R3MYB genes were expressed in at least one of the tissues and the other 5 genes showed very low expression in all tissues tested, which suggested that cucumber R2R3MYB genes took part in many cellular processes. The transcript abundance level analysis during abiotic conditions (NaCl, ABA and low temperature treatments) identified a group of R2R3MYB genes that responded to one or more treatments.<h4>Conclusions</h4>This study has produced a comparative genomics analysis of the cucumber R2R3MYB gene family and has provided the first steps towards the selection of CsR2R3MYB genes for cloning and functional dissection that can be used in further studies to uncover their roles in cucumber growth and development.Qiang LiCunjia ZhangJing LiLina WangZhonghai RenPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 7, Iss 10, p e47576 (2012)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Qiang Li Cunjia Zhang Jing Li Lina Wang Zhonghai Ren Genome-wide identification and characterization of R2R3MYB family in Cucumis sativus.
description	<h4>Background</h4>The R2R3MYB proteins comprise one of the largest families of transcription factors in plants. Although genome-wide analysis of this family has been carried out in some species, little is known about R2R3MYB genes in cucumber (Cucumis sativus L.).<h4>Principal findings</h4>This study has identified 55 R2R3MYB genes in the latest cucumber genome and the CsR2R3MYB family contained the smallest number of identified genes compared to other species that have been studied due to the absence of recent gene duplication events. These results were also supported by genome distribution and gene duplication analysis. Phylogenetic analysis showed that they could be classified into 11 subgroups. The evolutionary relationships and the intron-exon organizations that showed similarities with Arabidopsis, Vitis and Glycine R2R3MYB proteins were also analyzed and suggested strong gene conservation but also the expansions of particular functional genes during the evolution of the plant species. In addition, we found that 8 out of 55 (∼14.54%) cucumber R2R3MYB genes underwent alternative splicing events, producing a variety of transcripts from a single gene, which illustrated the extremely high complexity of transcriptome regulation. Tissue-specific expression profiles showed that 50 cucumber R2R3MYB genes were expressed in at least one of the tissues and the other 5 genes showed very low expression in all tissues tested, which suggested that cucumber R2R3MYB genes took part in many cellular processes. The transcript abundance level analysis during abiotic conditions (NaCl, ABA and low temperature treatments) identified a group of R2R3MYB genes that responded to one or more treatments.<h4>Conclusions</h4>This study has produced a comparative genomics analysis of the cucumber R2R3MYB gene family and has provided the first steps towards the selection of CsR2R3MYB genes for cloning and functional dissection that can be used in further studies to uncover their roles in cucumber growth and development.
format	article
author	Qiang Li Cunjia Zhang Jing Li Lina Wang Zhonghai Ren
author_facet	Qiang Li Cunjia Zhang Jing Li Lina Wang Zhonghai Ren
author_sort	Qiang Li
title	Genome-wide identification and characterization of R2R3MYB family in Cucumis sativus.
title_short	Genome-wide identification and characterization of R2R3MYB family in Cucumis sativus.
title_full	Genome-wide identification and characterization of R2R3MYB family in Cucumis sativus.
title_fullStr	Genome-wide identification and characterization of R2R3MYB family in Cucumis sativus.
title_full_unstemmed	Genome-wide identification and characterization of R2R3MYB family in Cucumis sativus.
title_sort	genome-wide identification and characterization of r2r3myb family in cucumis sativus.
publisher	Public Library of Science (PLoS)
publishDate	2012
url	https://doaj.org/article/53748af72c8141b9b283088856ed0bf0
work_keys_str_mv	AT qiangli genomewideidentificationandcharacterizationofr2r3mybfamilyincucumissativus AT cunjiazhang genomewideidentificationandcharacterizationofr2r3mybfamilyincucumissativus AT jingli genomewideidentificationandcharacterizationofr2r3mybfamilyincucumissativus AT linawang genomewideidentificationandcharacterizationofr2r3mybfamilyincucumissativus AT zhonghairen genomewideidentificationandcharacterizationofr2r3mybfamilyincucumissativus
_version_	1718422105646694400

Genome-wide identification and characterization of R2R3MYB family in Cucumis sativus.

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