Genome-wide characterization and analysis of WRKY transcription factors in Panax ginseng

Abstract Background Panax ginseng is a well-known medicinal plant worldwide. As an herbal medicine, ginseng is also known for its long lifecycle, which can reach several decades. WRKY proteins play regulatory roles in many aspects of biological processes in plants, such as responses to biotic or abi...

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Autores principales:	Peng Di, Ping Wang, Min Yan, Peng Han, Xinyi Huang, Le Yin, Yan Yan, Yonghua Xu, Yingping Wang
Formato:	article
Lenguaje:	EN
Publicado:	BMC 2021
Materias:	Transcription factors WRKY domain Panax ginseng Ginsenosides Biotechnology TP248.13-248.65 Genetics QH426-470
Acceso en línea:	https://doaj.org/article/c9f17be9f7964cbd8622c368d47f8421
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spelling	oai:doaj.org-article:c9f17be9f7964cbd8622c368d47f84212021-11-21T12:26:28ZGenome-wide characterization and analysis of WRKY transcription factors in Panax ginseng10.1186/s12864-021-08145-51471-2164https://doaj.org/article/c9f17be9f7964cbd8622c368d47f84212021-11-01T00:00:00Zhttps://doi.org/10.1186/s12864-021-08145-5https://doaj.org/toc/1471-2164Abstract Background Panax ginseng is a well-known medicinal plant worldwide. As an herbal medicine, ginseng is also known for its long lifecycle, which can reach several decades. WRKY proteins play regulatory roles in many aspects of biological processes in plants, such as responses to biotic or abiotic stress, plant development, and adaptation to environmental challenges. Genome-wide analyses of WRKY genes in P. ginseng have not been reported. Results In this study, 137 PgWRKY genes were identified from the ginseng genome. Phylogenetic analysis showed that the PgWRKYs could be clustered into three primary groups and five subgroups. Most of the PgWRKY gene promoters contained several kinds of hormone- and stress-related cis-regulatory elements. The expression patterns of PgWRKY genes in 14 different tissues were analyzed based on the available public RNA-seq data. The responses of the PgWRKY genes to heat, cold, salt and drought treatment were also investigated. Most of the PgWRKY genes were expressed differently after heat treatment, and expression trends changed significantly under drought and cold treatment but only slightly under salt treatment. The coexpression analysis of PgWRKY genes with the ginsenoside biosynthesis pathway genes identified 11 PgWRKYs that may have a potential regulatory role in the biosynthesis process of ginsenoside. Conclusions This work provides insights into the evolution, modulation and distribution of the WRKY gene family in ginseng and extends our knowledge of the molecular basis along with modulatory mechanisms of WRKY transcription factors in ginsenoside biosynthesis.Peng DiPing WangMin YanPeng HanXinyi HuangLe YinYan YanYonghua XuYingping WangBMCarticleTranscription factorsWRKY domainPanax ginsengGinsenosidesBiotechnologyTP248.13-248.65GeneticsQH426-470ENBMC Genomics, Vol 22, Iss 1, Pp 1-15 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Transcription factors WRKY domain Panax ginseng Ginsenosides Biotechnology TP248.13-248.65 Genetics QH426-470
spellingShingle	Transcription factors WRKY domain Panax ginseng Ginsenosides Biotechnology TP248.13-248.65 Genetics QH426-470 Peng Di Ping Wang Min Yan Peng Han Xinyi Huang Le Yin Yan Yan Yonghua Xu Yingping Wang Genome-wide characterization and analysis of WRKY transcription factors in Panax ginseng
description	Abstract Background Panax ginseng is a well-known medicinal plant worldwide. As an herbal medicine, ginseng is also known for its long lifecycle, which can reach several decades. WRKY proteins play regulatory roles in many aspects of biological processes in plants, such as responses to biotic or abiotic stress, plant development, and adaptation to environmental challenges. Genome-wide analyses of WRKY genes in P. ginseng have not been reported. Results In this study, 137 PgWRKY genes were identified from the ginseng genome. Phylogenetic analysis showed that the PgWRKYs could be clustered into three primary groups and five subgroups. Most of the PgWRKY gene promoters contained several kinds of hormone- and stress-related cis-regulatory elements. The expression patterns of PgWRKY genes in 14 different tissues were analyzed based on the available public RNA-seq data. The responses of the PgWRKY genes to heat, cold, salt and drought treatment were also investigated. Most of the PgWRKY genes were expressed differently after heat treatment, and expression trends changed significantly under drought and cold treatment but only slightly under salt treatment. The coexpression analysis of PgWRKY genes with the ginsenoside biosynthesis pathway genes identified 11 PgWRKYs that may have a potential regulatory role in the biosynthesis process of ginsenoside. Conclusions This work provides insights into the evolution, modulation and distribution of the WRKY gene family in ginseng and extends our knowledge of the molecular basis along with modulatory mechanisms of WRKY transcription factors in ginsenoside biosynthesis.
format	article
author	Peng Di Ping Wang Min Yan Peng Han Xinyi Huang Le Yin Yan Yan Yonghua Xu Yingping Wang
author_facet	Peng Di Ping Wang Min Yan Peng Han Xinyi Huang Le Yin Yan Yan Yonghua Xu Yingping Wang
author_sort	Peng Di
title	Genome-wide characterization and analysis of WRKY transcription factors in Panax ginseng
title_short	Genome-wide characterization and analysis of WRKY transcription factors in Panax ginseng
title_full	Genome-wide characterization and analysis of WRKY transcription factors in Panax ginseng
title_fullStr	Genome-wide characterization and analysis of WRKY transcription factors in Panax ginseng
title_full_unstemmed	Genome-wide characterization and analysis of WRKY transcription factors in Panax ginseng
title_sort	genome-wide characterization and analysis of wrky transcription factors in panax ginseng
publisher	BMC
publishDate	2021
url	https://doaj.org/article/c9f17be9f7964cbd8622c368d47f8421
work_keys_str_mv	AT pengdi genomewidecharacterizationandanalysisofwrkytranscriptionfactorsinpanaxginseng AT pingwang genomewidecharacterizationandanalysisofwrkytranscriptionfactorsinpanaxginseng AT minyan genomewidecharacterizationandanalysisofwrkytranscriptionfactorsinpanaxginseng AT penghan genomewidecharacterizationandanalysisofwrkytranscriptionfactorsinpanaxginseng AT xinyihuang genomewidecharacterizationandanalysisofwrkytranscriptionfactorsinpanaxginseng AT leyin genomewidecharacterizationandanalysisofwrkytranscriptionfactorsinpanaxginseng AT yanyan genomewidecharacterizationandanalysisofwrkytranscriptionfactorsinpanaxginseng AT yonghuaxu genomewidecharacterizationandanalysisofwrkytranscriptionfactorsinpanaxginseng AT yingpingwang genomewidecharacterizationandanalysisofwrkytranscriptionfactorsinpanaxginseng
_version_	1718419031580475392

Genome-wide characterization and analysis of WRKY transcription factors in Panax ginseng

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