In plants, microRNAs (miRNAs) comprise one of two classes of small RNAs that function primarily as negative regulators at the posttranscriptional level. Several MIRNA genes in the plant kingdom are ancient, with conservation extending between angiosperms and the mosses, whereas many others are more recently evolved. Here, we use deep...
Eukaryotes contain a diversified set of small RNA-guided pathways that control genes, repeated sequences, and viruses at the transcriptional and posttranscriptional levels. Genome-wide profiles and analyses of small RNAs, particularly the large class of 24-nucleotide (nt) short interfering RNAs (siRNAs), were done for wild-type Arabidopsis thaliana and silencing pathway mutants...
Background: Short RNAs, and in particular microRNAs, are important regulators of gene
expression both within defined regulatory pathways and at the epigenetic scale. We investigated
the short RNA (sRNA) population (18-24 nt) of the transcriptome of green leaves from the
sequenced Populus trichocarpa using a concatenation strategy in combination with...
Endogenous small RNAs (endo-siRNAs) interact with Argonaute (AGO) proteins to mediate
sequence-specific regulation of diverse biological processes. Here, we combine deep-sequencing and
genetic approaches to explore the biogenesis and function of endo-siRNAs in C. elegans. We describe
conditional alleles of the dicer-related helicase, drh-3, that abrogate both RNA interference and...
The advent of high-throughput sequencing (HTS) methods has enabled direct approaches to quantitatively profile small RNA
populations. However, these methods have been limited by several factors, including representational artifacts and lack of
established statistical methods of analysis. Furthermore, massive HTS data sets present new problems related to data processing
and...
Transacting siRNA (tasiRNA) biogenesis in Arabidopsis is initiated
by microRNA (miRNA) –guided cleavage of primary transcripts. In
the case of TAS3 tasiRNA formation, ARGONAUTE7 (AGO7)–
miR390 complexes interact with primary transcripts at two sites,
resulting in recruitment of RNA-DEPENDENT RNA POLYMERASE6
for dsRNA biosynthesis. An extensive screen for Arabidopsis mutants...
Eukaryotic small RNA (~20-30 nucleotides) are diverse regulatory molecules that repress gene expression at the transcriptional and post-transcriptional levels, defend hosts against invading viruses and defend genomes against selfish DNA elements. Small RNA populations are studied by high-throughput sequencing of the total small RNA fraction isolated from cells, however, the...