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Identification of Hundreds of Conserved and Non-conserved Human MicroRNAs

ABSTRACT: Determining the expression of known and computationally predicted microRNAs by microRNA microarray in several tissues (placenta, testis, thymus, brain and prostate) Keywords: parallel sample

ORGANISM(S): Homo sapiens

PROVIDER: GSE2708 | GEO | 2005/06/19

SECONDARY ACCESSION(S): PRJNA92359

REPOSITORIES: GEO

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Identification of Hundreds of Conserved and Non-conserved Human MicroRNAs

Project description:Determining the expression of known and computationally predicted microRNAs by microRNA microarray in several tissues (placenta, testis, thymus, brain and prostate) Keywords: parallel sample microRNAs expression profile

2010-07-01 | E-GEOD-2708 | biostudies-arrayexpress

Computational evidence for hundreds of non-conserved plant microRNAs.

Project description:BackgroundMicroRNAs (miRNA) are small (20-25 nt) non-coding RNA molecules that regulate gene expression through interaction with mRNA in plants and metazoans. A few hundred miRNAs are known or predicted, and most of those are evolutionarily conserved. In general plant miRNA are different from their animal counterpart: most plant miRNAs show near perfect complementarity to their targets. Exploiting this complementarity we have developed a method for identification plant miRNAs that does not rely on phylogenetic conservation.ResultsUsing the presumed targets for the known miRNA as positive controls, we list and filter all segments of the genome of length approximately 20 that are complementary to a target mRNA-transcript. From the positive control we recover 41 (of 92 possible) of the already known miRNA-genes (representing 14 of 16 families) with only four false positives. Applying the procedure to find possible new miRNAs targeting any annotated mRNA, we predict of 592 new miRNA genes, many of which are not conserved in other plant genomes. A subset of our predicted miRNAs is additionally supported by having more than one target that are not homologues.ConclusionThese results indicate that it is possible to reliably predict miRNA-genes without using genome comparisons. Furthermore it suggests that the number of plant miRNAs have been underestimated and points to the existence of recently evolved miRNAs in Arabidopsis.

| S-EPMC1249568 | biostudies-literature

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