Cargando…
Genome-wide characterization and analysis of WRKY transcription factors in Panax ginseng
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 str...
Autores principales: | , , , , , , , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
BioMed Central
2021
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8600734/ https://www.ncbi.nlm.nih.gov/pubmed/34794386 http://dx.doi.org/10.1186/s12864-021-08145-5 |
_version_ | 1784601211298643968 |
---|---|
author | Di, Peng Wang, Ping Yan, Min Han, Peng Huang, Xinyi Yin, Le Yan, Yan Xu, Yonghua Wang, Yingping |
author_facet | Di, Peng Wang, Ping Yan, Min Han, Peng Huang, Xinyi Yin, Le Yan, Yan Xu, Yonghua Wang, Yingping |
author_sort | Di, Peng |
collection | PubMed |
description | 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. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12864-021-08145-5. |
format | Online Article Text |
id | pubmed-8600734 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-86007342021-11-19 Genome-wide characterization and analysis of WRKY transcription factors in Panax ginseng Di, Peng Wang, Ping Yan, Min Han, Peng Huang, Xinyi Yin, Le Yan, Yan Xu, Yonghua Wang, Yingping BMC Genomics Research Article 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. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12864-021-08145-5. BioMed Central 2021-11-18 /pmc/articles/PMC8600734/ /pubmed/34794386 http://dx.doi.org/10.1186/s12864-021-08145-5 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 Article Di, Peng Wang, Ping Yan, Min Han, Peng Huang, Xinyi Yin, Le Yan, Yan Xu, Yonghua Wang, Yingping Genome-wide characterization and analysis of WRKY transcription factors in Panax ginseng |
title | 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_short | 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 |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8600734/ https://www.ncbi.nlm.nih.gov/pubmed/34794386 http://dx.doi.org/10.1186/s12864-021-08145-5 |
work_keys_str_mv | AT dipeng genomewidecharacterizationandanalysisofwrkytranscriptionfactorsinpanaxginseng AT wangping genomewidecharacterizationandanalysisofwrkytranscriptionfactorsinpanaxginseng AT yanmin genomewidecharacterizationandanalysisofwrkytranscriptionfactorsinpanaxginseng AT hanpeng genomewidecharacterizationandanalysisofwrkytranscriptionfactorsinpanaxginseng AT huangxinyi genomewidecharacterizationandanalysisofwrkytranscriptionfactorsinpanaxginseng AT yinle genomewidecharacterizationandanalysisofwrkytranscriptionfactorsinpanaxginseng AT yanyan genomewidecharacterizationandanalysisofwrkytranscriptionfactorsinpanaxginseng AT xuyonghua genomewidecharacterizationandanalysisofwrkytranscriptionfactorsinpanaxginseng AT wangyingping genomewidecharacterizationandanalysisofwrkytranscriptionfactorsinpanaxginseng |