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Structure and expression analysis of seven salt-related ERF genes of Populus
Ethylene response factors (ERFs) are plant-specific transcription factors (TFs) that play important roles in plant growth and stress defense and have received a great amount of attention in recent years. In this study, seven ERF genes related to abiotic stress tolerance and response were identified...
Autores principales: | , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
PeerJ Inc.
2020
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7583627/ https://www.ncbi.nlm.nih.gov/pubmed/33150090 http://dx.doi.org/10.7717/peerj.10206 |
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author | Huang, Juanjuan Wang, Shengji Wang, Xingdou Fan, Yan Han, Youzhi |
author_facet | Huang, Juanjuan Wang, Shengji Wang, Xingdou Fan, Yan Han, Youzhi |
author_sort | Huang, Juanjuan |
collection | PubMed |
description | Ethylene response factors (ERFs) are plant-specific transcription factors (TFs) that play important roles in plant growth and stress defense and have received a great amount of attention in recent years. In this study, seven ERF genes related to abiotic stress tolerance and response were identified in plants of the Populus genus. Systematic bioinformatics, including sequence phylogeny, genome organisation, gene structure, gene ontology (GO) annotation, etc. were detected. Expression-pattern of these seven ERF genes were analyzed using RT-qPCR and cross validated using RNA-Seq. Data from a phylogenetic tree and multiple alignment of protein sequences indicated that these seven ERF TFs belong to three subfamilies and contain AP2, YRG, and RAYD conserved domains, which may interact with downstream target genes to regulate the plant stress response. An analysis of the structure and promoter region of these seven ERF genes showed that they have multiple stress-related motifs and cis-elements, which may play roles in the plant stress-tolerance process through a transcriptional regulation mechanism; moreover, the cellular_component and molecular_function terms associated with these ERFs determined by GO annotation supported this hypothesis. In addition, the spatio-temporal expression pattern of these seven ERFs, as detected using RT-qPCR and RNA-seq, suggested that they play a critical role in mediating the salt response and tolerance in a dynamic and tissue-specific manner. The results of this study provide a solid basis to explore the functions of the stress-related ERF TFs in Populus abiotic stress tolerance and development process. |
format | Online Article Text |
id | pubmed-7583627 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | PeerJ Inc. |
record_format | MEDLINE/PubMed |
spelling | pubmed-75836272020-11-03 Structure and expression analysis of seven salt-related ERF genes of Populus Huang, Juanjuan Wang, Shengji Wang, Xingdou Fan, Yan Han, Youzhi PeerJ Bioinformatics Ethylene response factors (ERFs) are plant-specific transcription factors (TFs) that play important roles in plant growth and stress defense and have received a great amount of attention in recent years. In this study, seven ERF genes related to abiotic stress tolerance and response were identified in plants of the Populus genus. Systematic bioinformatics, including sequence phylogeny, genome organisation, gene structure, gene ontology (GO) annotation, etc. were detected. Expression-pattern of these seven ERF genes were analyzed using RT-qPCR and cross validated using RNA-Seq. Data from a phylogenetic tree and multiple alignment of protein sequences indicated that these seven ERF TFs belong to three subfamilies and contain AP2, YRG, and RAYD conserved domains, which may interact with downstream target genes to regulate the plant stress response. An analysis of the structure and promoter region of these seven ERF genes showed that they have multiple stress-related motifs and cis-elements, which may play roles in the plant stress-tolerance process through a transcriptional regulation mechanism; moreover, the cellular_component and molecular_function terms associated with these ERFs determined by GO annotation supported this hypothesis. In addition, the spatio-temporal expression pattern of these seven ERFs, as detected using RT-qPCR and RNA-seq, suggested that they play a critical role in mediating the salt response and tolerance in a dynamic and tissue-specific manner. The results of this study provide a solid basis to explore the functions of the stress-related ERF TFs in Populus abiotic stress tolerance and development process. PeerJ Inc. 2020-10-20 /pmc/articles/PMC7583627/ /pubmed/33150090 http://dx.doi.org/10.7717/peerj.10206 Text en ©2020 Huang et al. https://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, reproduction and adaptation in any medium and for any purpose provided that it is properly attributed. For attribution, the original author(s), title, publication source (PeerJ) and either DOI or URL of the article must be cited. |
spellingShingle | Bioinformatics Huang, Juanjuan Wang, Shengji Wang, Xingdou Fan, Yan Han, Youzhi Structure and expression analysis of seven salt-related ERF genes of Populus |
title | Structure and expression analysis of seven salt-related ERF genes of Populus |
title_full | Structure and expression analysis of seven salt-related ERF genes of Populus |
title_fullStr | Structure and expression analysis of seven salt-related ERF genes of Populus |
title_full_unstemmed | Structure and expression analysis of seven salt-related ERF genes of Populus |
title_short | Structure and expression analysis of seven salt-related ERF genes of Populus |
title_sort | structure and expression analysis of seven salt-related erf genes of populus |
topic | Bioinformatics |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7583627/ https://www.ncbi.nlm.nih.gov/pubmed/33150090 http://dx.doi.org/10.7717/peerj.10206 |
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