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Differential expression profiling of the early response to Ustilaginoidea virens between false smut resistant and susceptible rice varieties.

Han Y, Zhang K, Yang J, Zhang N, Fang A, Zhang Y, Liu Y, Chen Z, Hsiang T, Sun W - BMC Genomics (2015)

Bottom Line: Interestingly, the RY repeat motif was significantly more abundant in the 5'-regulatory regions of these differentially regulated PR genes.Furthermore, U. virens genes that are relevant to fungal reproduction and pathogenicity were found to be suppressed in the resistant cultivar.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.

View Article: PubMed Central - PubMed

Affiliation: Department of Plant Pathology, China Agricultural University, 2 West Yuanmingyuan Rd., Haidian District, Beijing, 100193, China. yanqinghan125@126.com.

ABSTRACT

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.

No MeSH data available.


Related in: MedlinePlus

Heat maps showing expression patterns of pathogenesis-related and PAL genes that were identified to be differentially regulated in IR28 and LYP9. The technical details and the colour scale are the same as those in Fig. 2
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Fig4: Heat maps showing expression patterns of pathogenesis-related and PAL genes that were identified to be differentially regulated in IR28 and LYP9. The technical details and the colour scale are the same as those in Fig. 2

Mentions: To identify other important genes that might be involved in biosynthetic or signaling pathways critical for RFS resistance in IR28, pathway enrichment analyses were performed using KEGG (Additional file 8: Table S5). Only a few defense-associated biosynthetic pathways involving diterpenoid, cutin, suberine or wax were enriched in the transcriptome of the resistant cultivar, while more pathways, such as phenylalanine metabolism and secondary metabolite biosynthesis, were significantly enriched in both rice genotypes after inoculation. Comparisons of expression levels of DEGs in these enriched pathways revealed that many genes were up-regulated in the resistant cultivar, while down-regulated in the susceptible LYP9. Among them, multiple gene families encoding PR proteins were greatly up-regulated after P1 inoculation in IR28 (Fig. 4).Fig. 4


Differential expression profiling of the early response to Ustilaginoidea virens between false smut resistant and susceptible rice varieties.

Han Y, Zhang K, Yang J, Zhang N, Fang A, Zhang Y, Liu Y, Chen Z, Hsiang T, Sun W - BMC Genomics (2015)

Heat maps showing expression patterns of pathogenesis-related and PAL genes that were identified to be differentially regulated in IR28 and LYP9. The technical details and the colour scale are the same as those in Fig. 2
© Copyright Policy - OpenAccess
Related In: Results  -  Collection

License 1 - License 2
Show All Figures
getmorefigures.php?uid=PMC4647755&req=5

Fig4: Heat maps showing expression patterns of pathogenesis-related and PAL genes that were identified to be differentially regulated in IR28 and LYP9. The technical details and the colour scale are the same as those in Fig. 2
Mentions: To identify other important genes that might be involved in biosynthetic or signaling pathways critical for RFS resistance in IR28, pathway enrichment analyses were performed using KEGG (Additional file 8: Table S5). Only a few defense-associated biosynthetic pathways involving diterpenoid, cutin, suberine or wax were enriched in the transcriptome of the resistant cultivar, while more pathways, such as phenylalanine metabolism and secondary metabolite biosynthesis, were significantly enriched in both rice genotypes after inoculation. Comparisons of expression levels of DEGs in these enriched pathways revealed that many genes were up-regulated in the resistant cultivar, while down-regulated in the susceptible LYP9. Among them, multiple gene families encoding PR proteins were greatly up-regulated after P1 inoculation in IR28 (Fig. 4).Fig. 4

Bottom Line: Interestingly, the RY repeat motif was significantly more abundant in the 5'-regulatory regions of these differentially regulated PR genes.Furthermore, U. virens genes that are relevant to fungal reproduction and pathogenicity were found to be suppressed in the resistant cultivar.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.

View Article: PubMed Central - PubMed

Affiliation: Department of Plant Pathology, China Agricultural University, 2 West Yuanmingyuan Rd., Haidian District, Beijing, 100193, China. yanqinghan125@126.com.

ABSTRACT

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.

No MeSH data available.


Related in: MedlinePlus