Cargando…

Genome-Wide Identification, Evolution, and Expression Analysis of LBD Transcription Factor Family in Bread Wheat (Triticum aestivum L.)

The lateral organ boundaries domain (LBD) genes, as the plant-specific transcription factor family, play a crucial role in controlling plant architecture and stress tolerance. Although it has been thoroughly characterized in many species, the LBD family was not well studied in wheat. Here, the wheat...

Descripción completa

Detalles Bibliográficos
Autores principales: Wang, Zhenyu, Zhang, Ruoyu, Cheng, Yue, Lei, Pengzheng, Song, Weining, Zheng, Weijun, Nie, Xiaojun
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8446603/
https://www.ncbi.nlm.nih.gov/pubmed/34539714
http://dx.doi.org/10.3389/fpls.2021.721253
_version_ 1784568915313033216
author Wang, Zhenyu
Zhang, Ruoyu
Cheng, Yue
Lei, Pengzheng
Song, Weining
Zheng, Weijun
Nie, Xiaojun
author_facet Wang, Zhenyu
Zhang, Ruoyu
Cheng, Yue
Lei, Pengzheng
Song, Weining
Zheng, Weijun
Nie, Xiaojun
author_sort Wang, Zhenyu
collection PubMed
description The lateral organ boundaries domain (LBD) genes, as the plant-specific transcription factor family, play a crucial role in controlling plant architecture and stress tolerance. Although it has been thoroughly characterized in many species, the LBD family was not well studied in wheat. Here, the wheat LBD family was systematically investigated through an in silico genome-wide search method. A total of 90 wheat LBD genes (TaLBDs) were identified, which were classified into class I containing seven subfamilies, and class II containing two subfamilies. Exon–intron structure, conserved protein motif, and cis-regulatory elements analysis showed that the members in the same subfamily shared similar gene structure organizations, supporting the classification. Furthermore, the expression patterns of these TaLBDs in different types of tissues and under diverse stresses were identified through public RNA-seq data analysis, and the regulation networks of TaLBDs involved were predicted. Finally, the expression levels of 12 TaLBDs were validated by quantitative PCR (qPCR) analysis and the homoeologous genes showed differential expression. Additionally, the genetic diversity of TaLBDs in the landrace population showed slightly higher than that of the genetically improved germplasm population while obvious asymmetry at the subgenome level. This study not only provided the potential targets for further functional analysis but also contributed to better understand the roles of LBD genes in regulating development and stress tolerance in wheat and beyond.
format Online
Article
Text
id pubmed-8446603
institution National Center for Biotechnology Information
language English
publishDate 2021
publisher Frontiers Media S.A.
record_format MEDLINE/PubMed
spelling pubmed-84466032021-09-18 Genome-Wide Identification, Evolution, and Expression Analysis of LBD Transcription Factor Family in Bread Wheat (Triticum aestivum L.) Wang, Zhenyu Zhang, Ruoyu Cheng, Yue Lei, Pengzheng Song, Weining Zheng, Weijun Nie, Xiaojun Front Plant Sci Plant Science The lateral organ boundaries domain (LBD) genes, as the plant-specific transcription factor family, play a crucial role in controlling plant architecture and stress tolerance. Although it has been thoroughly characterized in many species, the LBD family was not well studied in wheat. Here, the wheat LBD family was systematically investigated through an in silico genome-wide search method. A total of 90 wheat LBD genes (TaLBDs) were identified, which were classified into class I containing seven subfamilies, and class II containing two subfamilies. Exon–intron structure, conserved protein motif, and cis-regulatory elements analysis showed that the members in the same subfamily shared similar gene structure organizations, supporting the classification. Furthermore, the expression patterns of these TaLBDs in different types of tissues and under diverse stresses were identified through public RNA-seq data analysis, and the regulation networks of TaLBDs involved were predicted. Finally, the expression levels of 12 TaLBDs were validated by quantitative PCR (qPCR) analysis and the homoeologous genes showed differential expression. Additionally, the genetic diversity of TaLBDs in the landrace population showed slightly higher than that of the genetically improved germplasm population while obvious asymmetry at the subgenome level. This study not only provided the potential targets for further functional analysis but also contributed to better understand the roles of LBD genes in regulating development and stress tolerance in wheat and beyond. Frontiers Media S.A. 2021-09-03 /pmc/articles/PMC8446603/ /pubmed/34539714 http://dx.doi.org/10.3389/fpls.2021.721253 Text en Copyright © 2021 Wang, Zhang, Cheng, Lei, Song, Zheng and Nie. https://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
Wang, Zhenyu
Zhang, Ruoyu
Cheng, Yue
Lei, Pengzheng
Song, Weining
Zheng, Weijun
Nie, Xiaojun
Genome-Wide Identification, Evolution, and Expression Analysis of LBD Transcription Factor Family in Bread Wheat (Triticum aestivum L.)
title Genome-Wide Identification, Evolution, and Expression Analysis of LBD Transcription Factor Family in Bread Wheat (Triticum aestivum L.)
title_full Genome-Wide Identification, Evolution, and Expression Analysis of LBD Transcription Factor Family in Bread Wheat (Triticum aestivum L.)
title_fullStr Genome-Wide Identification, Evolution, and Expression Analysis of LBD Transcription Factor Family in Bread Wheat (Triticum aestivum L.)
title_full_unstemmed Genome-Wide Identification, Evolution, and Expression Analysis of LBD Transcription Factor Family in Bread Wheat (Triticum aestivum L.)
title_short Genome-Wide Identification, Evolution, and Expression Analysis of LBD Transcription Factor Family in Bread Wheat (Triticum aestivum L.)
title_sort genome-wide identification, evolution, and expression analysis of lbd transcription factor family in bread wheat (triticum aestivum l.)
topic Plant Science
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8446603/
https://www.ncbi.nlm.nih.gov/pubmed/34539714
http://dx.doi.org/10.3389/fpls.2021.721253
work_keys_str_mv AT wangzhenyu genomewideidentificationevolutionandexpressionanalysisoflbdtranscriptionfactorfamilyinbreadwheattriticumaestivuml
AT zhangruoyu genomewideidentificationevolutionandexpressionanalysisoflbdtranscriptionfactorfamilyinbreadwheattriticumaestivuml
AT chengyue genomewideidentificationevolutionandexpressionanalysisoflbdtranscriptionfactorfamilyinbreadwheattriticumaestivuml
AT leipengzheng genomewideidentificationevolutionandexpressionanalysisoflbdtranscriptionfactorfamilyinbreadwheattriticumaestivuml
AT songweining genomewideidentificationevolutionandexpressionanalysisoflbdtranscriptionfactorfamilyinbreadwheattriticumaestivuml
AT zhengweijun genomewideidentificationevolutionandexpressionanalysisoflbdtranscriptionfactorfamilyinbreadwheattriticumaestivuml
AT niexiaojun genomewideidentificationevolutionandexpressionanalysisoflbdtranscriptionfactorfamilyinbreadwheattriticumaestivuml