Discovering conserved insect microRNAs from expressed sequence tags

Journal of Insect Physiology
Qidong JiaFei Li

Abstract

MicroRNAs (miRNA) participate in regulating diverse biological pathways by translational repression in animals. They have attracted increasing attention recently. However, little work has been done on the miRNA genes in agriculturally important pests. Because the transcripts of most miRNA genes are the products of type-II RNA polymerase, pri-miRNA has a poly(A) tail and appears in expressed sequence tags (EST). We developed a computational pipeline to identify miRNA genes from insect ESTs. First, 980,697 ESTs from 63 insects were collected and used to search the nr database. The ESTs which did not share significant similarities with any known protein-coding genes were treated as non-coding ESTs. Next, known mature miRNAs were used to align with non-coding ESTs. The ESTs which contain the sequence of mature miRNA were treated as candidate ESTs. Finally, putative precursors were extracted flanking the mature miRNA region in candidate ESTs and evaluated by the Triplet-SVM algorithm. As a result, 86 miRNAs from 30 insect species were found based on a strict criterion while 330 miRNAs from 51 species were found based on a loose criterion. Evolution analysis indicated that mir-467, mir-297 and mir-466 were the highest conserved miRNA...Continue Reading

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Citations

Oct 17, 2012·Molecular and Biochemical Parasitology·Raúl Manzano-Román, Mar Siles-Lucas
Mar 13, 2012·Insect Biochemistry and Molecular Biology·Xiufeng ZhangHaobo Jiang
Jun 28, 2021·Acta Parasitologica·Eylem Akdur Ozturk, Ayse Caner

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