Computational Analysis of Mouse piRNA Sequence and Biogenesis

by: Doron Betel, Robert Sheridan, Debora S Marks, Chris Sander

PLoS Computational Biology, Vol. 3, No. 11. (1 November 2007), e222.

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Abstract

The recent discovery of a new class of 30-nucleotide long RNAs in mammalian testes, called PIWI-interacting RNA (piRNA), with similarities to microRNAs and repeat-associated small interfering RNAs (rasiRNAs), has raised puzzling questions regarding their biogenesis and function. We report a comparative analysis of currently available piRNA sequence data from the pachytene stage of mouse spermatogenesis that sheds light on their sequence diversity and mechanism of biogenesis. We conclude that (i) there are at least four times as many piRNAs in mouse testes than currently known; (ii) piRNAs, which originate from long precursor transcripts, are generated by quasi-random enzymatic processing that is guided by a weak sequence signature at the piRNA 5′ends resulting in a large number of distinct sequences; and (iii) many of the piRNA clusters contain inverted repeats segments capable of forming double-strand RNA fold-back segments that may initiate piRNA processing analogous to transposon silencing.

@article{citeulike:1892857, abstract = {The recent discovery of a new class of 30-nucleotide long RNAs in mammalian testes, called PIWI-interacting RNA (piRNA), with similarities to microRNAs and repeat-associated small interfering RNAs (rasiRNAs), has raised puzzling questions regarding their biogenesis and function. We report a comparative analysis of currently available piRNA sequence data from the pachytene stage of mouse spermatogenesis that sheds light on their sequence diversity and mechanism of biogenesis. We conclude that (i) there are at least four times as many piRNAs in mouse testes than currently known; (ii) piRNAs, which originate from long precursor transcripts, are generated by quasi-random enzymatic processing that is guided by a weak sequence signature at the piRNA 5\&\#8242;ends resulting in a large number of distinct sequences; and (iii) many of the piRNA clusters contain inverted repeats segments capable of forming double-strand RNA fold-back segments that may initiate piRNA processing analogous to transposon silencing.}, author = {Betel, Doron and Sheridan, Robert and Marks, Debora S. and Sander, Chris }, citeulike-article-id = {1892857}, doi = {http://dx.doi.org/10.1371/journal.pcbi.0030222}, journal = {PLoS Computational Biology}, keywords = {mirna, pirna, rna}, month = {November}, number = {11}, pages = {e222+}, posted-at = {2007-12-03 13:54:20}, priority = {2}, title = {Computational Analysis of Mouse piRNA Sequence and Biogenesis}, url = {http://dx.doi.org/10.1371/journal.pcbi.0030222}, volume = {3}, year = {2007} }

RIS record

TY - JOUR ID - citeulike:1892857 L3 - citeulike-article-id:1892857 TI - Computational Analysis of Mouse piRNA Sequence and Biogenesis JF - PLoS Computational Biology VL - 3 IS - 11 SP - e222 N2 - The recent discovery of a new class of 30-nucleotide long RNAs in mammalian testes, called PIWI-interacting RNA (piRNA), with similarities to microRNAs and repeat-associated small interfering RNAs (rasiRNAs), has raised puzzling questions regarding their biogenesis and function. We report a comparative analysis of currently available piRNA sequence data from the pachytene stage of mouse spermatogenesis that sheds light on their sequence diversity and mechanism of biogenesis. We conclude that (i) there are at least four times as many piRNAs in mouse testes than currently known; (ii) piRNAs, which originate from long precursor transcripts, are generated by quasi-random enzymatic processing that is guided by a weak sequence signature at the piRNA 5′ends resulting in a large number of distinct sequences; and (iii) many of the piRNA clusters contain inverted repeats segments capable of forming double-strand RNA fold-back segments that may initiate piRNA processing analogous to transposon silencing. KW - mirna KW - pirna KW - rna AU - Betel, Doron AU - Sheridan, Robert AU - Marks, Debora AU - Sander, Chris PY - 2007/11/01/ UR - http://dx.doi.org/10.1371/journal.pcbi.0030222 ER -

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