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Multi-omics analysis of small RNA, transcriptome and degradome of RSV-infected Nicotiana benthamiana - the regulatory networks of Nicothiana benthamiana genes in response to RSV infection

ABSTRACT: Multi-omics analysis of small RNA, transcriptome and degradome of RSV-infected Nicotiana benthamiana - the regulatory networks of Nicothiana benthamiana genes in response to RSV infection

PROVIDER: PRJNA723580 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR14295181.fastq.gz	Fastqsanger.gz
	SRR14295182.fastq.gz	Fastqsanger.gz
	SRR14295183.fastq.gz	Fastqsanger.gz
	SRR14295184.fastq.gz	Fastqsanger.gz
	SRR14295185.fastq.gz	Fastqsanger.gz

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Multi-omics analysis of small RNA, transcriptome and degradome of RSV-infected Nicotiana benthamiana - the regulatory networks of Nicothiana benthamiana genes in response to RSV infection

Project description:Rice stripe virus (RSV) causes the general chlorosis symptom and influences expression of numberous chloropalst-related genes at transcriotional level in Nicotiana benthamiana plants, but the mechanism are not well understood. Small RNAs (sRNAs), including virus-derived siRNA (vsiRNA) play roles in modulating genes expression post-transcriptionally. This present work presents multi-omics analysis of the transcriptome, sRNAome and degradome in RSV-infected N.benthamiana plants. Transcriptome-seq profiled 4127 N. benthamiana genes, with differentially expressed genes (DEGs) enriched in functional categories such as metabolic process, protein phosphorylation, regulation of transcription, carotenoid biosynthetic process. We identified 400863, 203874 and 244713 reads of vsiRNA from 3 sRNA libraries of RSV-infected N.benthamiana plants respectively. The degradome-seq report discovered a significant number of N.benthamiana genes that might be regulated by vsiRNAs post-transcriptionally. Based on integrated analysis of the three omics, we provide a substantial amount of novel information on the transcriptional and post-transcriptional networks in RSV-infected N.benthamiana, which will extends our horizon about the interactions between virus and their hosts.

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Project description:In order to find the differentially expressed RNAs and signaling pathways related to the dwarf phenotype induced by NlCSP11, 35S-NlCSP11, 35S-XopQ and 35S-GFP control were infiltrated into Nicotiana benthamiana. We analyzed the differentially expressed RNAs in the infiltrated leaves (NlCSP11_Z/XopQ_Z) and the upper uninfiltrated leaves (NlCSP11_U/XopQ_U) of N. benthamiana. KEGG annotation revealed a large number of differentially expressed RNAs involved in plant-pathogen interactions, indicating that NlCSP11 resulted in a more strong systemic resistance in N. benthamiana.

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Project description:In order to find the miRNAs, target genes and signaling pathways related to the dwarf phenotype induced by NlCSP1, 35S-NlCSP1 and 35S-GFP control were infiltrated into Nicotiana benthamiana. We analyzed the differentially expressed miRNAs in the infiltrated leaves (NlCSP1_Z/GFP_Z) and the upper uninfiltrated leaves (NlCSP1_O/GFP_O) of N. benthamiana. A total of 106 and 97 differentially expressed miRNAs were identified in NlCSP1_Z/GFP_Z and NlCSP1_O/GFP_O, respectively. KEGG annotation revealed a large number of differentially expressed miRNAs involved in plant hormone signal transduction, indicating that NlCSP1 changed the hormone signal pathway in N. benthamiana.

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