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Genome-wide analysis of Alternaria stress-responsive transcriptome in tomato

ABSTRACT: Gene expression cascade in a plant is altered in times of stress. Reprogramming of the expression profiles of genes is required for a robust and specific response. Until now, tomato transcriptomic alteration in response to Alternaria fungal stress were not known. This study presents the profile of genes that are differentially expressed during Alternaria stress in local tomato cultivar (Pusa Ruby). At least 2944 genes expression was varied and pathways that are altered during this compatible interaction have been identified. Supported by DBT, Govt. of India.

ORGANISM(S): Solanum lycopersicum

PROVIDER: GSE75923 | GEO | 2016/05/20

SECONDARY ACCESSION(S): PRJNA305724

REPOSITORIES: GEO

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Genome-wide analysis of Alternaria stress-responsive microRNAs in tomato

Project description:MicroRNAs are crucial regulator of reprogramming of gene expression cascade during plant-pathogen interaction. We have used tomato (Pusa Ruby) plant and early blight pathogen, Alternaria for the analysis of tomato miRNA expression profiles in a compatible interaction. Illumina next generation sequencing (NGS) technique based whole transcriptome analysis revealed that, (i) about 188 known miRNAs, ranging from 18nt to 24nt expressed in tomato, which belonged to 124 miRNA families and (ii) both conserved and Solanaceae specific miRNAs were differentially expressed. Most of the miRNAs were down-regulated, and around 7 miRNAs were highly differentially regulated (log2FC ≥ ±3). Furthermore, using stringent selection criteria we could detect approximately 74 putative novel miRNAs. GO terms enrichment and KEGG pathway analyses of predicted targets of differentially expressed miRNAs have been performed to identify the pathways that were perturbed during the infection. Supported by DBT, Govt. of India.

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