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Genome-wide characterization of MATE gene family and expression profiles in response to abiotic stresses in rice (Oryza sativa)
Multidrug and toxic compound extrusion (MATE) proteins are involved in many physiological functions of plant growth and development. Although an increasing number of MATE proteins have been identified, the understanding of MATE proteins is still very limited in rice. In this study, 46 MATE proteins...
Autores principales: | , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
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BioMed Central
2021
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8268253/ https://www.ncbi.nlm.nih.gov/pubmed/34243710 http://dx.doi.org/10.1186/s12862-021-01873-y |
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author | Du, Zhixuan Su, Qitao Wu, Zheng Huang, Zhou Bao, Jianzhong Li, Jianbin Tu, Hang Zeng, Chuihai Fu, Junru He, Haohua |
author_facet | Du, Zhixuan Su, Qitao Wu, Zheng Huang, Zhou Bao, Jianzhong Li, Jianbin Tu, Hang Zeng, Chuihai Fu, Junru He, Haohua |
author_sort | Du, Zhixuan |
collection | PubMed |
description | Multidrug and toxic compound extrusion (MATE) proteins are involved in many physiological functions of plant growth and development. Although an increasing number of MATE proteins have been identified, the understanding of MATE proteins is still very limited in rice. In this study, 46 MATE proteins were identified from the rice (Oryza sativa) genome by homology searches and domain prediction. The rice MATE family was divided into four subfamilies based on the phylogenetic tree. Tandem repeats and fragment replication contribute to the expansion of the rice MATE gene family. Gene structure and cis-regulatory elements reveal the potential functions of MATE genes. Analysis of gene expression showed that most of MATE genes were constitutively expressed and the expression patterns of genes in different tissues were analyzed using RNA-seq. Furthermore, qRT-PCR-based analysis showed differential expression patterns in response to salt and drought stress. The analysis results of this study provide comprehensive information on the MATE gene family in rice and will aid in understanding the functional divergence of MATE genes. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12862-021-01873-y. |
format | Online Article Text |
id | pubmed-8268253 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-82682532021-07-09 Genome-wide characterization of MATE gene family and expression profiles in response to abiotic stresses in rice (Oryza sativa) Du, Zhixuan Su, Qitao Wu, Zheng Huang, Zhou Bao, Jianzhong Li, Jianbin Tu, Hang Zeng, Chuihai Fu, Junru He, Haohua BMC Ecol Evol Research Multidrug and toxic compound extrusion (MATE) proteins are involved in many physiological functions of plant growth and development. Although an increasing number of MATE proteins have been identified, the understanding of MATE proteins is still very limited in rice. In this study, 46 MATE proteins were identified from the rice (Oryza sativa) genome by homology searches and domain prediction. The rice MATE family was divided into four subfamilies based on the phylogenetic tree. Tandem repeats and fragment replication contribute to the expansion of the rice MATE gene family. Gene structure and cis-regulatory elements reveal the potential functions of MATE genes. Analysis of gene expression showed that most of MATE genes were constitutively expressed and the expression patterns of genes in different tissues were analyzed using RNA-seq. Furthermore, qRT-PCR-based analysis showed differential expression patterns in response to salt and drought stress. The analysis results of this study provide comprehensive information on the MATE gene family in rice and will aid in understanding the functional divergence of MATE genes. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12862-021-01873-y. BioMed Central 2021-07-09 /pmc/articles/PMC8268253/ /pubmed/34243710 http://dx.doi.org/10.1186/s12862-021-01873-y Text en © The Author(s) 2021 https://creativecommons.org/licenses/by/4.0/Open AccessThis 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 licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence 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 licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/ (https://creativecommons.org/publicdomain/zero/1.0/) ) applies to the data made available in this article, unless otherwise stated in a credit line to the data. |
spellingShingle | Research Du, Zhixuan Su, Qitao Wu, Zheng Huang, Zhou Bao, Jianzhong Li, Jianbin Tu, Hang Zeng, Chuihai Fu, Junru He, Haohua Genome-wide characterization of MATE gene family and expression profiles in response to abiotic stresses in rice (Oryza sativa) |
title | Genome-wide characterization of MATE gene family and expression profiles in response to abiotic stresses in rice (Oryza sativa) |
title_full | Genome-wide characterization of MATE gene family and expression profiles in response to abiotic stresses in rice (Oryza sativa) |
title_fullStr | Genome-wide characterization of MATE gene family and expression profiles in response to abiotic stresses in rice (Oryza sativa) |
title_full_unstemmed | Genome-wide characterization of MATE gene family and expression profiles in response to abiotic stresses in rice (Oryza sativa) |
title_short | Genome-wide characterization of MATE gene family and expression profiles in response to abiotic stresses in rice (Oryza sativa) |
title_sort | genome-wide characterization of mate gene family and expression profiles in response to abiotic stresses in rice (oryza sativa) |
topic | Research |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8268253/ https://www.ncbi.nlm.nih.gov/pubmed/34243710 http://dx.doi.org/10.1186/s12862-021-01873-y |
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