+ Site Statistics
+ Search Articles
+ PDF Full Text Service
How our service works
Request PDF Full Text
+ Follow Us
Follow on Facebook
Follow on Twitter
Follow on LinkedIn
+ Subscribe to Site Feeds
Most Shared
PDF Full Text
+ Translate
+ Recently Requested

Comprehensive analysis of microRNA genomic loci identifies pervasive repetitive-element origins

Comprehensive analysis of microRNA genomic loci identifies pervasive repetitive-element origins

Mobile Genetic Elements 1(1): 8-17

MicroRNAs (miRs) are small non-coding RNAs that generally function as negative regulators of target messenger RNAs (mRNAs) at the posttranscriptional level. MiRs bind to the 3'UTR of target mRNAs through complementary base pairing, resulting in target mRNA cleavage or translation repression. To date, over 15,000 distinct miRs have been identified in organisms ranging from viruses to man and interest in miR research continues to intensify. Of note, the most enlightening aspect of miR function-the mRNAs they target-continues to be elusive. Descriptions of the molecular origins of independent miR molecules currently support the hypothesis that miR hairpin generation is based on the adjacent insertion of two related transposable elements (TEs) at one genomic locus. Thus transcription across such TE interfaces establishes many, if not the majority of functional miRs. The implications of these findings are substantial for understanding how TEs confer increased genomic fitness, describing miR transcriptional regulations and making accurate miR target predictions. In this work, we have performed a comprehensive analysis of the genomic events responsible for the formation of all currently annotated miR loci. We find that the connection between miRs and transposable elements is more significant than previously appreciated, and more broadly, supports an important role for repetitive elements in miR origin, expression and regulatory network formation. Further, we demonstrate the utility of these findings in miR target prediction. Our results greatly expand the existing repertoire of defined miR origins, detailing the formation of 2,392 of 15,176 currently recognized miR genomic loci and supporting a mobile genetic element model for the genomic establishment of functional miRs.

Please choose payment method:

(PDF emailed within 0-6 h: $19.90)

Accession: 052269829

Download citation: RISBibTeXText

PMID: 22016841

DOI: 10.4161/mge.1.1.15766

Related references

Comprehensive microRNA analysis identifies miR-24 and miR-125a-5p as plasma biomarkers for rheumatoid arthritis. Plos One 8(7): E69118-E69118, 2014

Comprehensive and integrative analysis identifies microRNA-106 as a novel non-invasive biomarker for detection of gastric cancer. Journal of Translational Medicine 16(1): 127-127, 2018

Copy number analysis identifies novel interactions between genomic loci in ovarian cancer. Plos One 5(9): -, 2011

Comprehensive biomarker and genomic analysis identifies p53 status as lymphocytic leukemia. 2007

Genomic microarray analysis identifies candidate loci in patients with corpus callosum anomalies. Neurology 65(9): 1496-1498, 2005

Comprehensive microRNA analysis in bleomycin-induced pulmonary fibrosis identifies multiple sites of molecular regulation. Physiological Genomics 43(9): 479-487, 2011

Comprehensive Computational Analysis of GWAS Loci Identifies CCR2 as a Candidate Gene for Celiac Disease Pathogenesis. Journal of Cellular Biochemistry 118(8): 2193-2207, 2017

Comprehensive genomic analysis identifies MDM2 and AURKA as novel amplified genes in juvenile angiofibromas. Head & Neck 29(5): 479-487, 2006

Comprehensive genomic analysis identifies novel subtypes and targets of triple-negative breast cancer. Clinical Cancer Research 21(7): 1688-1698, 2016

Comprehensive analysis of the functional microRNA-mRNA regulatory network identifies miRNA signatures associated with glioma malignant progression. Nucleic Acids Research 41(22): E203-E203, 2014

Continuing analysis of microRNA origins: Formation from transposable element insertions and noncoding RNA mutations. Mobile Genetic Elements 3(6): E27755-E27755, 2014

Genomic association analysis identifies multiple loci influencing antihypertensive response to an angiotensin II receptor blocker. Hypertension 61(1): E5-E5, 2013

A comprehensive genomic meta-analysis identifies confirmatory role of OBSCN gene in breast tumorigenesis. Oncotarget 8(60): 102263-102276, 2017

Comprehensive genomic analysis identifies SOX2 as a frequently amplified gene in small-cell lung cancer. Nature Genetics 44(10): 1111-1116, 2012

Comprehensive Genomic Profiling of Central Giant Cell Lesions Identifies Clinically Relevant Genomic Alterations. Journal of Oral and Maxillofacial Surgery, 2016