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Differential expression profiling of the early response to Ustilaginoidea virens between false smut resistant and susceptible rice varieties
BACKGROUND: Rice false smut caused by Ustilaginoidea virens has recently become one of the most devastating rice diseases worldwide. Breeding and deployment of resistant varieties is considered as the most effective strategy to control this disease. However, little is known about the genes and molec...
Autores principales: | , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
BioMed Central
2015
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4647755/ https://www.ncbi.nlm.nih.gov/pubmed/26573512 http://dx.doi.org/10.1186/s12864-015-2193-x |
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author | Han, Yanqing Zhang, Kang Yang, Jun Zhang, Nan Fang, Anfei Zhang, Yong Liu, Yongfeng Chen, Zhiyi Hsiang, Tom Sun, Wenxian |
author_facet | Han, Yanqing Zhang, Kang Yang, Jun Zhang, Nan Fang, Anfei Zhang, Yong Liu, Yongfeng Chen, Zhiyi Hsiang, Tom Sun, Wenxian |
author_sort | Han, Yanqing |
collection | PubMed |
description | BACKGROUND: Rice false smut caused by Ustilaginoidea virens has recently become one of the most devastating rice diseases worldwide. Breeding and deployment of resistant varieties is considered as the most effective strategy to control this disease. However, little is known about the genes and molecular mechanisms underlying rice resistance against U. virens. RESULTS: To explore genetic basis of rice resistance to U. virens, differential expression profiles in resistant ‘IR28’ and susceptible ‘LYP9’ cultivars during early stages of U. virens infection were compared using RNA-Seq data. The analyses revealed that 748 genes were up-regulated only in the resistant variety and 438 genes showed opposite expression patterns between the two genotypes. The genes encoding receptor-like kinases and cytoplasmic kinases were highly enriched in this pool of oppositely expressed genes. Many pathogenesis-related (PR) and diterpene phytoalexin biosynthetic genes were specifically induced in the resistant variety. Interestingly, the RY repeat motif was significantly more abundant in the 5’-regulatory regions of these differentially regulated PR genes. Several WRKY transcription factors were also differentially regulated in the two genotypes, which is consistent with our finding that the cis-regulatory W-boxes were abundant in the promoter regions of up-regulated genes in IR28. Furthermore, U. virens genes that are relevant to fungal reproduction and pathogenicity were found to be suppressed in the resistant cultivar. CONCLUSION: Our results indicate that rice resistance to false smut may be attributable to plant perception of pathogen-associated molecular patterns, activation of resistance signaling pathways, induced production of PR proteins and diterpene phytoalexins, and suppression of pathogenicity genes in U. virens as well. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s12864-015-2193-x) contains supplementary material, which is available to authorized users. |
format | Online Article Text |
id | pubmed-4647755 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2015 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-46477552015-11-18 Differential expression profiling of the early response to Ustilaginoidea virens between false smut resistant and susceptible rice varieties Han, Yanqing Zhang, Kang Yang, Jun Zhang, Nan Fang, Anfei Zhang, Yong Liu, Yongfeng Chen, Zhiyi Hsiang, Tom Sun, Wenxian BMC Genomics Research Article BACKGROUND: Rice false smut caused by Ustilaginoidea virens has recently become one of the most devastating rice diseases worldwide. Breeding and deployment of resistant varieties is considered as the most effective strategy to control this disease. However, little is known about the genes and molecular mechanisms underlying rice resistance against U. virens. RESULTS: To explore genetic basis of rice resistance to U. virens, differential expression profiles in resistant ‘IR28’ and susceptible ‘LYP9’ cultivars during early stages of U. virens infection were compared using RNA-Seq data. The analyses revealed that 748 genes were up-regulated only in the resistant variety and 438 genes showed opposite expression patterns between the two genotypes. The genes encoding receptor-like kinases and cytoplasmic kinases were highly enriched in this pool of oppositely expressed genes. Many pathogenesis-related (PR) and diterpene phytoalexin biosynthetic genes were specifically induced in the resistant variety. Interestingly, the RY repeat motif was significantly more abundant in the 5’-regulatory regions of these differentially regulated PR genes. Several WRKY transcription factors were also differentially regulated in the two genotypes, which is consistent with our finding that the cis-regulatory W-boxes were abundant in the promoter regions of up-regulated genes in IR28. Furthermore, U. virens genes that are relevant to fungal reproduction and pathogenicity were found to be suppressed in the resistant cultivar. CONCLUSION: Our results indicate that rice resistance to false smut may be attributable to plant perception of pathogen-associated molecular patterns, activation of resistance signaling pathways, induced production of PR proteins and diterpene phytoalexins, and suppression of pathogenicity genes in U. virens as well. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s12864-015-2193-x) contains supplementary material, which is available to authorized users. BioMed Central 2015-11-16 /pmc/articles/PMC4647755/ /pubmed/26573512 http://dx.doi.org/10.1186/s12864-015-2193-x Text en © Han et al. 2015 Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated. |
spellingShingle | Research Article Han, Yanqing Zhang, Kang Yang, Jun Zhang, Nan Fang, Anfei Zhang, Yong Liu, Yongfeng Chen, Zhiyi Hsiang, Tom Sun, Wenxian Differential expression profiling of the early response to Ustilaginoidea virens between false smut resistant and susceptible rice varieties |
title | Differential expression profiling of the early response to Ustilaginoidea virens between false smut resistant and susceptible rice varieties |
title_full | Differential expression profiling of the early response to Ustilaginoidea virens between false smut resistant and susceptible rice varieties |
title_fullStr | Differential expression profiling of the early response to Ustilaginoidea virens between false smut resistant and susceptible rice varieties |
title_full_unstemmed | Differential expression profiling of the early response to Ustilaginoidea virens between false smut resistant and susceptible rice varieties |
title_short | Differential expression profiling of the early response to Ustilaginoidea virens between false smut resistant and susceptible rice varieties |
title_sort | differential expression profiling of the early response to ustilaginoidea virens between false smut resistant and susceptible rice varieties |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4647755/ https://www.ncbi.nlm.nih.gov/pubmed/26573512 http://dx.doi.org/10.1186/s12864-015-2193-x |
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