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Genome-wide Analysis and Expression Divergence of the Trihelix family in Brassica Rapa: Insight into the Evolutionary Patterns in Plants

Trihelix gene family is an important transcription factor (TF) family involved in plants’ growth and development. This extensive study of trihelix genes from Arabidopsis thaliana to Brassica rapa could shed light on the evolution in plants and support crop breeding. In this study, a total of 52 trih...

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Autores principales: Wang, Wenli, Wu, Peng, Liu, TongKong, Ren, Haibo, Li, Ying, Hou, Xilin
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2017
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5526864/
https://www.ncbi.nlm.nih.gov/pubmed/28743951
http://dx.doi.org/10.1038/s41598-017-06935-0
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author Wang, Wenli
Wu, Peng
Liu, TongKong
Ren, Haibo
Li, Ying
Hou, Xilin
author_facet Wang, Wenli
Wu, Peng
Liu, TongKong
Ren, Haibo
Li, Ying
Hou, Xilin
author_sort Wang, Wenli
collection PubMed
description Trihelix gene family is an important transcription factor (TF) family involved in plants’ growth and development. This extensive study of trihelix genes from Arabidopsis thaliana to Brassica rapa could shed light on the evolution in plants and support crop breeding. In this study, a total of 52 trihelix genes were identified in B.rapa. Whole-genome annotation, molecular-evolution and gene-expression analyses of all known trihelix genes were conducted. By statistics of the number of trihelix genes in each species, we found the expansion of trihelix gene family started with angiosperm evolution. And SIP1 was more preferentially retained than other subgroups (GT-1, GT-2, GT(γ), SH4), consistent with the gene dosage hypothesis. Then we investigated the evolutionary patterns, footprints and conservation of trihelix genes in selected plants. The putative trihelix proteins were highly conserved, but their expression patterns varied. Half of these genes were highly expressed in all the selected organs but some showed tissue-specific expression patterns. Furthermore, among six abiotic stresses (Cold, Heat, PEG, NaCl, ABA and GA), most trihelix genes were activated by salt and ABA treatment. In summary, the phylogenetic, evolution and expression analyses of trihelix gene family in B.rapa establish a solid foundation for future comprehensive functional analysis of BraTHs.
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spelling pubmed-55268642017-08-02 Genome-wide Analysis and Expression Divergence of the Trihelix family in Brassica Rapa: Insight into the Evolutionary Patterns in Plants Wang, Wenli Wu, Peng Liu, TongKong Ren, Haibo Li, Ying Hou, Xilin Sci Rep Article Trihelix gene family is an important transcription factor (TF) family involved in plants’ growth and development. This extensive study of trihelix genes from Arabidopsis thaliana to Brassica rapa could shed light on the evolution in plants and support crop breeding. In this study, a total of 52 trihelix genes were identified in B.rapa. Whole-genome annotation, molecular-evolution and gene-expression analyses of all known trihelix genes were conducted. By statistics of the number of trihelix genes in each species, we found the expansion of trihelix gene family started with angiosperm evolution. And SIP1 was more preferentially retained than other subgroups (GT-1, GT-2, GT(γ), SH4), consistent with the gene dosage hypothesis. Then we investigated the evolutionary patterns, footprints and conservation of trihelix genes in selected plants. The putative trihelix proteins were highly conserved, but their expression patterns varied. Half of these genes were highly expressed in all the selected organs but some showed tissue-specific expression patterns. Furthermore, among six abiotic stresses (Cold, Heat, PEG, NaCl, ABA and GA), most trihelix genes were activated by salt and ABA treatment. In summary, the phylogenetic, evolution and expression analyses of trihelix gene family in B.rapa establish a solid foundation for future comprehensive functional analysis of BraTHs. Nature Publishing Group UK 2017-07-25 /pmc/articles/PMC5526864/ /pubmed/28743951 http://dx.doi.org/10.1038/s41598-017-06935-0 Text en © The Author(s) 2017 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.
spellingShingle Article
Wang, Wenli
Wu, Peng
Liu, TongKong
Ren, Haibo
Li, Ying
Hou, Xilin
Genome-wide Analysis and Expression Divergence of the Trihelix family in Brassica Rapa: Insight into the Evolutionary Patterns in Plants
title Genome-wide Analysis and Expression Divergence of the Trihelix family in Brassica Rapa: Insight into the Evolutionary Patterns in Plants
title_full Genome-wide Analysis and Expression Divergence of the Trihelix family in Brassica Rapa: Insight into the Evolutionary Patterns in Plants
title_fullStr Genome-wide Analysis and Expression Divergence of the Trihelix family in Brassica Rapa: Insight into the Evolutionary Patterns in Plants
title_full_unstemmed Genome-wide Analysis and Expression Divergence of the Trihelix family in Brassica Rapa: Insight into the Evolutionary Patterns in Plants
title_short Genome-wide Analysis and Expression Divergence of the Trihelix family in Brassica Rapa: Insight into the Evolutionary Patterns in Plants
title_sort genome-wide analysis and expression divergence of the trihelix family in brassica rapa: insight into the evolutionary patterns in plants
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5526864/
https://www.ncbi.nlm.nih.gov/pubmed/28743951
http://dx.doi.org/10.1038/s41598-017-06935-0
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