Comparative transcriptome analysis of elite 'ROC' sugarcane parents for exploring genes involved in Sporisorium scitamineum infection by using Illumina-and SMRT-based RNA-seq

Sugarcane smut, caused by the fungus Sporisorium scitamineum, is the most challenging disease of sugarcane, causing significant losses in cane yield. There is a dearth of information on smut resistance mechanism in elite parents for the development of smut-resistant varieties. In the present study,...

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Bibliographic Details
Published inZuo wu xue bao Vol. 49; no. 9; p. 2412
Main Authors Hu, Xin, Luo, Zheng-Ying, Li, Chun-Jia, Wu, Zhuan-Di, Li, Xu-Juan, Liu, Xin-Long
Format Journal Article
LanguageChinese
Published Beijing Chinese Academy of Agricultural Sciences (CAAS) 01.01.2023
Subjects
Alternative splicing
Biosynthesis
Disease resistance
Exploitation
Gene expression
Genes
Infections
Isoforms
Linoleic acid
MAP kinase
Metabolism
Open reading frames
Parents & parenting
Plant diseases
Plant immunity
Resistance factors
Ribonucleic acid
RNA
Signal transduction
Simple sequence repeats
Smut
Sporisorium scitamineum
Sucrose
Sugarcane
Transcription factors
Transcriptomes
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Summary:Sugarcane smut, caused by the fungus Sporisorium scitamineum, is the most challenging disease of sugarcane, causing significant losses in cane yield. There is a dearth of information on smut resistance mechanism in elite parents for the development of smut-resistant varieties. In the present study, we adopted joint Illumina-and Single Molecule Real-Time（SMRT）-based RNA-seq analysis to identify transcript expression in an smut-resistant and-susceptible parents（ROC25 and ROC22） infected with S. scitamineum. A total of 79,885 high-quality transcripts was obtained, including 60,115 open reading frames, 3692 alternate splicing isoforms, 1799 long non-coding RNAs, 29,139 simple sequence repeats, and 7794 transcription factors. About 92.72% of the total transcripts were annotated, which should have increased the available data amount for transcriptome profile analysis.There were 2033 and 9716 differentially expressed transcripts（DETs） in ROC22 and ROC25, respectively. The analyses of GO and KEGG enrichment showed th
ISSN:0496-3490