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Rice stripe virus-derived siRNAs play different regulatory roles in host plant and vector insect [sRNA-Seq]

ABSTRACT: Rice stripe virus-derived siRNAs play different regulatory roles in host plant and vector insect [sRNA-Seq]

PROVIDER: PRJNA451503 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR7058100.fastq.gz	Fastqsanger.gz
	SRR7058101.fastq.gz	Fastqsanger.gz
	SRR7058102.fastq.gz	Fastqsanger.gz
	SRR7058103.fastq.gz	Fastqsanger.gz
	SRR7058104.fastq.gz	Fastqsanger.gz

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Rice stripe virus-derived siRNAs play different regulatory roles in host plant and vector insect

Project description:Rice stripe virus-derived siRNAs play different regulatory roles in host plant and vector insect

| PRJNA451502 | ENA

Rice stripe virus-derived siRNAs play different regulatory roles in host plant and vector insect [RNA-Seq]

Project description:Rice stripe virus-derived siRNAs play different regulatory roles in host plant and vector insect [RNA-Seq]

| PRJNA451497 | ENA

Rice stripe virus-derived siRNAs play different regulatory roles in host plant and vector insect [sRNA-Seq]

Project description:research was focus on the virus-derived sRNAs expression pattern in rice host or planthopper vector and host/vector gene expression pattern when infected with RSV

2018-12-26 | GSE113554 | GEO

Rice stripe virus-derived siRNAs play different regulatory roles in host plant and vector insect [RNA-Seq]

Project description:research was focus on the virus-derived sRNAs expression pattern in rice host or planthopper vector and host/vector gene expression pattern when infected with RSV

2018-12-26 | GSE113553 | GEO

Rice stripe virus-derived siRNAs play different regulatory roles in rice and in the insect vector Laodelphax striatellus.

Project description:BACKGROUND:Most plant viruses depend on vector insects for transmission. Upon viral infection, virus-derived small interfering RNAs (vsiRNAs) can target both viral and host transcripts. Rice stripe virus (RSV) is a persistent-propagative virus transmitted by the small brown planthopper (Laodelphax striatellus, Fallen) and can cause a severe disease on rice. RESULTS:To investigate how vsiRNAs regulate gene expressions in the host plant and the insect vector, we analyzed the expression profiles of small RNAs (sRNAs) and mRNAs in RSV-infected rice and RSV-infected planthopper. We obtained 88,247 vsiRNAs in rice that were predominantly derived from the terminal regions of the RSV RNA segments, and 351,655 vsiRNAs in planthopper that displayed relatively even distributions on RSV RNA segments. 38,112 and 80,698 unique vsiRNAs were found only in rice and planthopper, respectively, while 14,006 unique vsiRNAs were found in both of them. Compared to mock-inoculated rice, 273 genes were significantly down-regulated genes (DRGs) in RSV-infected rice, among which 192 (70.3%) were potential targets of vsiRNAs based on sequence complementarity. Gene ontology (GO) analysis revealed that these 192 DRGs were enriched in genes involved in kinase activity, carbohydrate binding and protein binding. Similarly, 265 DRGs were identified in RSV-infected planthoppers, among which 126 (47.5%) were potential targets of vsiRNAs. These planthopper target genes were enriched in genes that are involved in structural constituent of cuticle, serine-type endopeptidase activity, and oxidoreductase activity. CONCLUSIONS:Taken together, our results reveal that infection by the same virus can generate distinct vsiRNAs in different hosts to potentially regulate different biological processes, thus reflecting distinct virus-host interactions.

| S-EPMC6172784 | biostudies-literature

Rice stripe virus-derived siRNAs play different regulatory roles in host plant and vector insect

Project description:This SuperSeries is composed of the SubSeries listed below.

2018-12-26 | GSE113555 | GEO

Characterize the regulon of 6C sRNA in Mycobacteria smegmatis

Project description:Purpose: The goals of this study are to identify the putative mRNA targets that are regulated by the 6C sRNA. We constuct an inducible vector to transiently overexpressed the 6C sRNA in M. smegmatis, and then we perform RNA-Seq to look for genes that are differicently expressed upon the over-expression of 6C sRNA, which we think these genes are the potential targets of the 6C sRNA.

2018-09-02 | GSE119364 | GEO

The rise and fall of billionaire siRNAs during reproductive development in rice [sRNA-seq]

Project description:RNA polymerase IV-dependent siRNAs, usually 24 nt in length, function in the RNAdirected DNA methylation that is responsible for de novo methylation in plants. We analyzed 24 nt siRNAs in inflorescences and found that among the 20,200 24 nt siRNA clusters, the top 0.81% highly expressed clusters accounted for more than 68% of the 24 nt siRNA reads in inflorescences. We named the highly expressed siRNAs as billionaire siRNAs (bill-siRNAs) and the less-expressed siRNAs as pauper siRNAs (pau-siRNAs). The bill-siRNAs in inflorescences are mainly derived from the ovary. Female gametes produced more bill-siRNAs than male gametes. In embryos and seedlings developed from fertilized egg cells, the bill-siRNAs from gametes disappeared. The endosperm, which develops from the fertilized central cell, also contained no bill-siRNAs from gametes but did contain newly and highly expressed siRNAs produced in different regions. In contrast, bill-siRNAs from the ovaries were maintained in the seed coat. The biosynthesis of bill-siRNAs in various tissues and cells is dependent on OsRDR2 (RNA-dependent RNA polymerase 2) and Pol IV (DNA-dependent RNA polymerase IV). Similar to the pau-siRNAs, the first base of bill-siRNAs is enriched at adenine, and bill-siRNAs can direct DNA methylation in various tissues.

2023-01-02 | GSE186406 | GEO

miRNAs trigger widespread epigenetically-activated siRNAs from transposons in Arabidopsis (small RNA-seq)

Project description:Utilizing whole-genome sRNA-seq to analyze transposon derived siRNAs in DNA methylation mutants, and RNAi mutants, compared to wildtype.

2014-03-18 | GSE52951 | GEO

The rise and fall of billionaire siRNAs during reproductive development in rice [sRNA-seq]

Project description:The rise and fall of billionaire siRNAs during reproductive development in rice [sRNA-seq]

| PRJNA773748 | ENA