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Arabidopsis thaliana

ABSTRACT: Deep sequencing of uncapped RNA in rdr1/2/6 and wild-type Arabidopsis plants

PROVIDER: PRJNA169644 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR517917.fastq.gz	Fastqsanger.gz
	SRR517918.fastq.gz	Fastqsanger.gz
	SRR517919.fastq.gz	Fastqsanger.gz
	SRR517920.fastq.gz	Fastqsanger.gz

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Deep sequencing of small and uncapped RNA in rdr1/2/6 and wild-type Arabidopsis plants

Project description:Deep sequencing of small and uncapped RNA in rdr1/2/6 and wild-type Arabidopsis plants

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Project description:Our previous experiment on biogenesis mechanisim of stress-inducible antisense RNAs showed that accumulation of antisense RNA in a drought-inducible gene, RD29A locus was decreased in rdr1/2/6 triple mutant. The RD29A antisense RNA did not have CAP structure and poly(A) tail. We applied deep sequencing of uncapped RNA using SOLiD to identify RDR1/2/6-mediated antisense RNAs in genome-wide. We identified 1) 975 RDR1/2/6-mediated antisense RNA loci on which no. of sequence tags is decreased in rdr1/2/6 and makes peak and 2) 1,613 RDR1/2/6-mediated antisense RNA loci on which no. of the tags is decreased in rdr1/2/6 and enriched on antisense strand of exons. They were grouped into 1,959 non-redundant loci.

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Project description:To identify RDR1/2/6-dependent antisense RNA loci under 2hr drought stress and 2hr rehydration, expression profiles of Poly (A+) RNA between rdr1/2/6 and wild-type using the custom microarray (GPL19830) were analyzed. rdr1/2/6 and wild-type plants (Arabidopsis thaliana ecotype Columbia) were grown on MS medium for 2 weeks. Then, the plants were transferred to plastic dish and kept for 2hr. Poly (A+) RNA from 100Î¼g total RNA by treating with Ambion Poly A purist twice.5 ng of Poly (A+) RNA were used for the expresion profiling using the custom array (GPL19830).

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