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In silico identification of conserved microRNAs and their target transcripts from expressed sequence tags of three earthworm species

Paper ID Volume ID Publish Year Pages File Format Full-Text
15287 1400 2010 7 PDF Available
Title
In silico identification of conserved microRNAs and their target transcripts from expressed sequence tags of three earthworm species
Abstract

MicroRNAs are a recently identified class of small regulatory RNAs that target more than 30% protein-coding genes. Elevating evidence shows that miRNAs play a critical role in many biological processes, including developmental timing, tissue differentiation, and response to chemical exposure. In this study, we applied a computational approach to analyze expressed sequence tags, and identified 32 miRNAs belonging to 22 miRNA families, in three earthworm species Eisenia fetida, Eisenia andrei, and Lumbricus rubellus. These newly identified earthworm miRNAs possess a difference of 2–4 nucleotides from their homologous counterparts in Caenorhabditis elegans. They also share similar features with other known animal miRNAs, for instance, the nucleotide U being dominant in both mature and pre-miRNA sequences, particularly in the first position of mature miRNA sequences at the 5′ end. The newly identified earthworm miRNAs putatively regulate mRNA genes that are involved in many important biological processes and pathways related to development, growth, locomotion, and reproduction as well as response to stresses, particularly oxidative stress. Future efforts will focus on experimental validation of their presence and target mRNA genes to further elucidate their biological functions in earthworms.

Graphical abstractFigure optionsDownload full-size imageDownload as PowerPoint slideResearch highlights▶ We identified 32 miRNAs belonging to 22 miRNA families, in three earthworm species Eisenia fetida, Eisenia andrei, and Lumbricus rubellus. ▶ These newly identified earthworm miRNAs possess a difference of 2–4 nucleotides from their homologous counterparts in Caenorhabditis elegans. ▶ These earthworm miRNAs putatively regulate mRNA genes that are involved in many important biological processes and pathways related to development, growth, locomotion, and reproduction as well as response to stresses, particularly oxidative stress.

Keywords
MicroRNA; Expressed sequence tag (EST); Earthworm; Algorithm; Target prediction; Gene ontology; KEGG pathway
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In silico identification of conserved microRNAs and their target transcripts from expressed sequence tags of three earthworm species
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Publisher
Database: Elsevier - ScienceDirect
Journal: Computational Biology and Chemistry - Volume 34, Issues 5–6, December 2010, Pages 313–319
Authors
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Subjects
Physical Sciences and Engineering Chemical Engineering Bioengineering
Get Full-Text Now
Don't Miss Today's Special Offer
Price was $35.95
You save - $31
Price after discount Only $4.95
100% Money Back Guarantee
Full-text PDF Download
Online Support
Any Questions? feel free to contact us