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In-silico analysis of heat shock transcription factor (OsHSF) gene family in rice (Oryza sativa L.)

BACKGROUND: One of the most important cash crops worldwide is rice (Oryza sativa L.). Under varying climatic conditions, however, its yield is negatively affected. In order to create rice varieties that are resilient to abiotic stress, it is essential to explore the factors that control rice growth,...

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Autores principales: Shamshad, Areeqa, Rashid, Muhammad, Zaman, Qamar uz
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10433574/
https://www.ncbi.nlm.nih.gov/pubmed/37592226
http://dx.doi.org/10.1186/s12870-023-04399-1
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author Shamshad, Areeqa
Rashid, Muhammad
Zaman, Qamar uz
author_facet Shamshad, Areeqa
Rashid, Muhammad
Zaman, Qamar uz
author_sort Shamshad, Areeqa
collection PubMed
description BACKGROUND: One of the most important cash crops worldwide is rice (Oryza sativa L.). Under varying climatic conditions, however, its yield is negatively affected. In order to create rice varieties that are resilient to abiotic stress, it is essential to explore the factors that control rice growth, development, and are source of resistance. HSFs (heat shock transcription factors) control a variety of plant biological processes and responses to environmental stress. The in-silico analysis offers a platform for thorough genome-wide identification of OsHSF genes in the rice genome. RESULTS: In this study, 25 randomly dispersed HSF genes with significant DNA binding domains (DBD) were found in the rice genome. According to a gene structural analysis, all members of the OsHSF family share Gly-66, Phe-67, Lys-69, Trp-75, Glu-76, Phe-77, Ala-78, Phe-82, Ile-93, and Arg-96. Rice HSF family genes are widely distributed in the vegetative organs, first in the roots and then in the leaf and stem; in contrast, in reproductive tissues, the embryo and lemma exhibit the highest levels of gene expression. According to chromosomal localization, tandem duplication and repetition may have aided in the development of novel genes in the rice genome. OsHSFs have a significant role in the regulation of gene expression, regulation in primary metabolism and tolerance to environmental stress, according to gene networking analyses. CONCLUSION: Six genes viz; Os01g39020, Os01g53220, Os03g25080, Os01g54550, Os02g13800 and Os10g28340 were annotated as promising genes. This study provides novel insights for functional studies on the OsHSFs in rice breeding programs. With the ultimate goal of enhancing crops, the data collected in this survey will be valuable for performing genomic research to pinpoint the specific function of the HSF gene during stress responses. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12870-023-04399-1.
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spelling pubmed-104335742023-08-18 In-silico analysis of heat shock transcription factor (OsHSF) gene family in rice (Oryza sativa L.) Shamshad, Areeqa Rashid, Muhammad Zaman, Qamar uz BMC Plant Biol Research BACKGROUND: One of the most important cash crops worldwide is rice (Oryza sativa L.). Under varying climatic conditions, however, its yield is negatively affected. In order to create rice varieties that are resilient to abiotic stress, it is essential to explore the factors that control rice growth, development, and are source of resistance. HSFs (heat shock transcription factors) control a variety of plant biological processes and responses to environmental stress. The in-silico analysis offers a platform for thorough genome-wide identification of OsHSF genes in the rice genome. RESULTS: In this study, 25 randomly dispersed HSF genes with significant DNA binding domains (DBD) were found in the rice genome. According to a gene structural analysis, all members of the OsHSF family share Gly-66, Phe-67, Lys-69, Trp-75, Glu-76, Phe-77, Ala-78, Phe-82, Ile-93, and Arg-96. Rice HSF family genes are widely distributed in the vegetative organs, first in the roots and then in the leaf and stem; in contrast, in reproductive tissues, the embryo and lemma exhibit the highest levels of gene expression. According to chromosomal localization, tandem duplication and repetition may have aided in the development of novel genes in the rice genome. OsHSFs have a significant role in the regulation of gene expression, regulation in primary metabolism and tolerance to environmental stress, according to gene networking analyses. CONCLUSION: Six genes viz; Os01g39020, Os01g53220, Os03g25080, Os01g54550, Os02g13800 and Os10g28340 were annotated as promising genes. This study provides novel insights for functional studies on the OsHSFs in rice breeding programs. With the ultimate goal of enhancing crops, the data collected in this survey will be valuable for performing genomic research to pinpoint the specific function of the HSF gene during stress responses. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12870-023-04399-1. BioMed Central 2023-08-17 /pmc/articles/PMC10433574/ /pubmed/37592226 http://dx.doi.org/10.1186/s12870-023-04399-1 Text en © The Author(s) 2023 https://creativecommons.org/licenses/by/4.0/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 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
Shamshad, Areeqa
Rashid, Muhammad
Zaman, Qamar uz
In-silico analysis of heat shock transcription factor (OsHSF) gene family in rice (Oryza sativa L.)
title In-silico analysis of heat shock transcription factor (OsHSF) gene family in rice (Oryza sativa L.)
title_full In-silico analysis of heat shock transcription factor (OsHSF) gene family in rice (Oryza sativa L.)
title_fullStr In-silico analysis of heat shock transcription factor (OsHSF) gene family in rice (Oryza sativa L.)
title_full_unstemmed In-silico analysis of heat shock transcription factor (OsHSF) gene family in rice (Oryza sativa L.)
title_short In-silico analysis of heat shock transcription factor (OsHSF) gene family in rice (Oryza sativa L.)
title_sort in-silico analysis of heat shock transcription factor (oshsf) gene family in rice (oryza sativa l.)
topic Research
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10433574/
https://www.ncbi.nlm.nih.gov/pubmed/37592226
http://dx.doi.org/10.1186/s12870-023-04399-1
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