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BMC Genomics

, 14:325

Human and rodent genomics

Abstract

BackgroundAlus are primate-specific retrotransposons which account for 10.6% of the human genome. A large number of protein-coding mRNAs are encoded with sense or antisense Alus in the un-translated regions.

ResultsWe postulated that mRNAs carrying Alus in the two opposite directions can generate double stranded RNAs, capable of regulating the levels of other Alu-carrying mRNAs post-transcriptionally. A gene expression profiling assay showed that the levels of antisense and sense Alus-carrying mRNAs were suppressed in a reversible manner by over-expression of exogenous sense and antisense Alus derived from mRNAs Family-wise error rate P= 0.0483 and P < 0.0001 respectively. Screening through human mRNAs on the NCBI-RefSeq database, it was found that sense and antisense Alu-carrying transcripts were enriched in distinct cellular functions. Antisense Alu-carrying genes were particularly enriched in neurological and developmental processes, while sense Alu-carrying genes were enriched in immunological functions.

ConclusionsTaken together, we proposed a novel Alu-mediated regulation network capable of stabilizing Alu-carrying mRNA levels in different cell types and restricting the activated expression levels of protein-coding, Alu-carrying mRNAs.

KeywordsAntisense Alu Gene expression restriction Double-stranded Alu Alu-carrying protein-coding RNA AbbreviationsAnt-AluAntisense Alu-carrying messenger RNA

Sens-AluSense Alu-carrying messenger RNA

L1Long interspersed nucleotide element 1

UTRUntranslated regions

GSEAGene Set Enrichment Analysis

FDRFalse discovery rate

FWERFamily-wise error rate

RMARobust multiarray analysis.

Electronic supplementary materialThe online version of this article doi:10.1186-1471-2164-14-325 contains supplementary material, which is available to authorized users.

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Autor: Kung-Hao Liang - Chau-Ting Yeh

Fuente: https://link.springer.com/







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