NDLI: Extremely complex populations of small RNAs in the mouse retina and RPE/choroid.

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Extremely complex populations of small RNAs in the mouse retina and RPE/choroid.

Content Provider	World Health Organization (WHO)-Global Index Medicus
Author	Soundara Pandi, Sudha Priya Xu, Heping Guduric-Fuchs, Jasenka Chen, Mei Simpson, David Arthur
Description	Country affiliation: United kingdom Author Affiliation: Soundara Pandi SP ( Centre for Vision and Vascular Science, Queen's University Belfast, Belfast, Northern Ireland, United Kingdom.)
Abstract	PURPOSE: MicroRNAs (miRNAs) are small noncoding RNAs of approximately 18 to 22 nucleotides in length that regulate gene expression. They are widely expressed in the retina, being both required for its normal development and perturbed in disease. The aim of this study was to apply new high-throughput sequencing techniques to more fully characterize the miRNAs and other small RNAs expressed in the retina and retinal pigment epithelium (RPE)/choroid of the mouse. METHODS: Retina and RPE/choroid were dissected from eyes of 3-month-old C57BL/6J mice. Small RNA libraries were prepared and deep sequencing performed on a genome analyzer. Reads were annotated by alignment to miRBase, other noncoding RNA databases, and the mouse genome. RESULTS: Annotation of 9 million reads to 320 miRNAs in retina and 340 in RPE/choroid provides the most comprehensive profiling of miRNAs to date. Two novel miRNAs were identified in retina. Members of the sensory organ-specific miR-183, -182, -96 cluster were among the most highly expressed, retina-enriched miRNAs. Remarkably, miRNA 'isomiRs,' which vary slightly in length and are differentially detected by Taqman RT-qPCR assays, existed for all the microRNAs identified in both tissues. More variation occurred at the 3' ends, including nontemplated additions of T and A. Drosha-independent mirtron miRNAs and other small RNAs derived from snoRNAs were also detected. CONCLUSIONS: Deep sequencing has revealed the complexity of small RNA expression in the mouse retina and RPE/choroid. This knowledge will improve the design and interpretation of future functional studies of the role of miRNAs and other small RNAs in retinal disease.
ISSN	01460404
e-ISSN	15525783
Journal	Investigative Opthalmology & Visual Science
Issue Number	13
Volume Number	54
Language	English
Publisher	Association for Research in Vision and Ophthalmology
Publisher Date	2013-12-17
Publisher Place	United States
Access Restriction	Open
Subject Keyword	Choroid Metabolism Gene Expression Regulation Micrornas Genetics Retinal Diseases Retinal Pigment Epithelium Animals Pathology Disease Models, Animal Mice Mice, Inbred C57bl Reverse Transcriptase Polymerase Chain Reaction Sequence Analysis, Rna Comparative Study Research Support, Non-u.s. Gov't Discipline Ophthalmology
Content Type	Text
Resource Type	Article
Subject	Ophthalmology Sensory Systems Cellular and Molecular Neuroscience

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