Arabidopsis thaliana
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA291944 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Genome-wide profiling of small RNAs in Arabidopsis under abiotic stresses
| PRJNA136741 | ENA
Project description:The Arabidopsis genome contains a highly complex and abundant population of small RNAs, and many of the endogenous siRNAs are dependent on RNA-DEPENDENT RNA POLYMERASE 2 (RDR2) for their biogenesis. By analyzing an rdr2 loss-of-function mutant using two different parallel sequencing technologies, MPSS and 454, we characterized the complement of miRNAs expressed in Arabidopsis inflorescence to considerable depth. Nearly all known miRNAs were enriched in this mutant and we identified 13 new miRNAs, all of which were relatively low abundance and constitute new families. Trans-acting siRNAs (ta-siRNAs) were even more highly enriched. Computational and gel blot analyses suggested that the minimal number of miRNAs in Arabidopsis is approximately 155. The size profile of small RNAs in rdr2 reflected enrichment of 21-nt miRNAs and other classes of siRNAs like ta-siRNAs, and a significant reduction in 24-nt heterochromatic siRNAs. Other classes of small RNAs were found to be RDR2-independent, particularly those derived from long inverted repeats and a subset of tandem repeats. The small RNA populations in other Arabidopsis small RNA biogenesis mutants were also examined; a dcl2/3/4 triple mutant showed a similar pattern to rdr2, whereas dcl1-7 and rdr6 showed reductions in miRNAs and ta-siRNAs consistent with their activities in the biogenesis of these types of small RNAs. Deep sequencing of mutants provides a genetic approach for the dissection and characterization of diverse small RNA populations and the identification of low abundance miRNAs. Keywords: small RNA sequences generated by 454 sequencing
2006-09-08 | GSE5343 | GEO
Project description:Transcriptome-wide identification of Arabidopsis messenger RNAs transported between tissues
| PRJNA271927 | ENA
Project description:Small RNAs in Arabidopsis hybrid siliques
| PRJNA116579 | ENA
Project description:Thermoresponive small RNAs in Arabidopsis thalinana
| PRJNA407271 | ENA
Project description:Genome-wide profiling of small RNAs in Arabidopsis seedlings under salt and cold stresses
| PRJNA148671 | ENA
Project description:Genome-Wide Expression Profiling of the Arabidopsis Female Gametophyte Identifies Families of Small, Secreted Proteins
| PRJNA101435 | ENA
Project description:Small RNAs play important regulatory roles in most eukaryotes but only a small proportion of these molecules have been identified. We sequenced more than two million small RNAs from seedlings and the inflorescence of the model plant Arabidopsis thaliana. Known and new miRNAs were among the most abundant of the non-redundant set of more than 75,000 sequences, whereas more than half represented lower abundance small-interfering RNAs (siRNAs) that match repetitive sequences, intergenic regions, and genes. Individual or clusters of highly-regulated small RNAs were readily observed. Targets of antisense RNA or miRNA did not appear to be preferentially associated with siRNAs. Many genomic regions previously considered featureless were found to be sites of numerous small RNAs. Keywords: small RNA identification , modified MPSS
2005-09-02 | GSE3008 | GEO
Project description:Arabidopsis thaliana Col-0 inflorescence small RNAs
| PRJNA314979 | ENA
Project description:Low oxygen responsive small RNAs in Arabidopsis
| PRJNA117263 | ENA