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TranscriptomicsSmall RNAs in Chlamydomonas reinhardtii
RNA populations in Chlamydomonas reinhardtii Keywords: Highly parallel pyrosequencing Small RNAs were prepared from Chlamydomonas reinhardtii total extracts,ligated to a 3' adaptor and a 5' acceptor sequentially, and then RT-PCR amplified. PCR products were reamplified using a pair of 454 cloning pr...
ORGANISM(S): Chlamydomonas reinhardtii 
2007-05-15 | E-GEOD-7308 | biostudies-arrayexpress
TranscriptomicsDNA Methylation Mediated by a MicroRNA Pathway
In plants, the known microRNAs (miRNAs) are produced as ~21 nucleotide (nt) duplexes from their precursors by Dicer like 1 (DCL1). They are incorporated into Argonaute 1 (AGO1) protein to regulate target gene expression primarily through mRNA cleavage. We report here the discovery of a new class of ...
ORGANISM(S): Oryza sativa 
2010-03-12 | E-GEOD-20748 | biostudies-arrayexpress
TranscriptomicsIdentification of small RNAs in rice AGO1 complexes and their targets
This SuperSeries is composed of the following subset Series: GSE18248: Sequencing of rice degradome GSE18250: Profiling of small RNA populations in rice total extract and purified AGO1 complexes Refer to individual Series
ORGANISM(S): Oryza sativa 
2009-11-23 | E-GEOD-18251 | biostudies-arrayexpress
TranscriptomicsA Role for the RNA-Binding Protein MOS2 in MicroRNA Maturation in Arabidopsis
microRNAs (miRNAs) play important roles in the regulation of gene expression. In Arabidopsis, mature miRNAs are processed from primary miRNA transcripts (pri-miRNAs) by nuclear HYL1/SE/DCL1 complexes that form Dicing bodies (D-bodies). Here we report that a RNA-binding protein MOS2 bound to pri-miRN...
ORGANISM(S): Arabidopsis thaliana 
2012-10-27 | E-GEOD-41843 | biostudies-arrayexpress
TranscriptomicsMicroRNAs in a multicellular green alga Volvox carteri
We identified 174 miRNAs expressed in Volvox carteri. Some of Volvox miRNAs are highly enriched in gonidia or somatic cells. Subsequently, we predicted the targets of Volvox miRNAs and found many of target genes were regulated through mRNA degradation. Conservation analysis suggests the common origi...
ORGANISM(S): Volvox carteri 
2014-02-08 | E-GEOD-52345 | biostudies-arrayexpress
TranscriptomicsCytoplasmic Assembly and Selective Nuclear Import of Arabidopsis ARGONAUTE4/siRNA Complexes
Here we profiled small RNAs from whole cell, cytoplasmic and nuclear extracts from three-week-old Arabidopsis seedlings. We unexpectedly found that nuclear functional hc-siRNAs are predominantly present in the cytoplasm. Samples from Arabidopsis thaliana whole cell, cytoplasmic and nuclear extract...
ORGANISM(S): Arabidopsis thaliana 
2012-07-12 | E-GEOD-36500 | biostudies-arrayexpress
TranscriptomicsA Role for Small RNAs in DNA Double-Strand Break Repair
Here we identify a novel class of small RNAs that are ~21-nucleotide in length and are produced from the sequences in the vicinity of DNA double strand break (DSB) sites in Arabidopsis and humans. We named them diRNAs for DSB-induced small RNAs. In Arabidopsis, the biogenesis of diRNAs requires the ...
ORGANISM(S): Arabidopsis thaliana 
2012-03-26 | E-GEOD-36338 | biostudies-arrayexpress
TranscriptomicsSequencing of rice degradome
miRNAs can regulate target gene expression by mRNA cleavage. Rice degradome sequencing was employed to validate mRNA targets of rice miRNAs. Two rice samples, 3-week-old seedling and young panicles were included in the study.
ORGANISM(S): Oryza sativa 
2009-11-23 | E-GEOD-18248 | biostudies-arrayexpress
TranscriptomicsProfiling of small RNA populations in rice total extract and purified AGO1 complexes
microRNAs (miRNAs) are a class of small silencing RNAs that have regulatory roles in gene expression. miRNAs interact with Argonaute (AGO) proteins to form effector complexes that can cleave target mRNAs or repress their translation. Rice encodes four AGO1 homologs (AGO1a, AGO1b, AGO1c, and AGO1d). ...
ORGANISM(S): Oryza sativa 
2009-11-23 | E-GEOD-18250 | biostudies-arrayexpress
TranscriptomicsGenome-wide maps of AGO1-bound small RNA in Arabidopsis leaves
We report flg22 regulate the accumulation of AGO1-bound small RNA in arabidopsis. We find that a number of miRNAs are up- or down-regulated by flg22, a well-studied PAMP. Examination of AGO1-bound small RNAs with or without flg22 treatment.
ORGANISM(S): Arabidopsis thaliana 
2010-02-25 | E-GEOD-20448 | biostudies-arrayexpress
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