An integrative piRNA analysis of mouse gametes and zygotes reveals new potential origins and gene regulatory roles

Abstract Piwi-interacting RNAs (piRNAs) are a subclass of the small non-coding RNAs (sncRNAs). Their main reported function was to exert control over transposable elements (TEs) in mammalian germline. In this study undertaking a deeper bioinformatics analysis of piRNAs present in mouse oocytes, sper...

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Autores principales:	Eduardo Larriba, Jesús del Mazo
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2018
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/e1dc6fe584824318925899431f07c4f6
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spelling	oai:doaj.org-article:e1dc6fe584824318925899431f07c4f62021-12-02T15:08:15ZAn integrative piRNA analysis of mouse gametes and zygotes reveals new potential origins and gene regulatory roles10.1038/s41598-018-31032-12045-2322https://doaj.org/article/e1dc6fe584824318925899431f07c4f62018-08-01T00:00:00Zhttps://doi.org/10.1038/s41598-018-31032-1https://doaj.org/toc/2045-2322Abstract Piwi-interacting RNAs (piRNAs) are a subclass of the small non-coding RNAs (sncRNAs). Their main reported function was to exert control over transposable elements (TEs) in mammalian germline. In this study undertaking a deeper bioinformatics analysis of piRNAs present in mouse oocytes, sperm cells and zygotes, we first elaborated a new piRNA database based on sequences identified as piRNAs by immunoprecipitation with PIWI proteins. Our bioinformatics analysis revealed that, at least in gametes and zygotes, piRNAs could encompass multifunctional cell-dependent regulatory molecules. Indeed, genome analysis of the piRNA mapping density (reads/kb) evidenced in all samples an enrichment of intron-derived piRNAs. Further, piRNA population was classified into sequences not associated to TEs or repeats (NRapiRNAs) and associated to repetitive genome elements (RapiRNAs). In oocytes most of the NRapiRNAs mapped to the 5′UTRs of coding mRNAs, while higher proportion of NRapiRNAs was detected in sperm cells associated to the 3′UTRs of mRNAs. This piRNA complementarity to mRNA UTRs suggests key post-transcriptional regulatory roles over mRNAs such as those encoding MHC genes. In addition, a striking association of RapiRNA with long non-coding RNAs (lncRNAs) was identified. piRNAs associated with relevant lncRNAs such as: Rab26os and GAS5 and key mRNAs, were particularly assessed.Eduardo LarribaJesús del MazoNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 8, Iss 1, Pp 1-13 (2018)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Eduardo Larriba Jesús del Mazo An integrative piRNA analysis of mouse gametes and zygotes reveals new potential origins and gene regulatory roles
description	Abstract Piwi-interacting RNAs (piRNAs) are a subclass of the small non-coding RNAs (sncRNAs). Their main reported function was to exert control over transposable elements (TEs) in mammalian germline. In this study undertaking a deeper bioinformatics analysis of piRNAs present in mouse oocytes, sperm cells and zygotes, we first elaborated a new piRNA database based on sequences identified as piRNAs by immunoprecipitation with PIWI proteins. Our bioinformatics analysis revealed that, at least in gametes and zygotes, piRNAs could encompass multifunctional cell-dependent regulatory molecules. Indeed, genome analysis of the piRNA mapping density (reads/kb) evidenced in all samples an enrichment of intron-derived piRNAs. Further, piRNA population was classified into sequences not associated to TEs or repeats (NRapiRNAs) and associated to repetitive genome elements (RapiRNAs). In oocytes most of the NRapiRNAs mapped to the 5′UTRs of coding mRNAs, while higher proportion of NRapiRNAs was detected in sperm cells associated to the 3′UTRs of mRNAs. This piRNA complementarity to mRNA UTRs suggests key post-transcriptional regulatory roles over mRNAs such as those encoding MHC genes. In addition, a striking association of RapiRNA with long non-coding RNAs (lncRNAs) was identified. piRNAs associated with relevant lncRNAs such as: Rab26os and GAS5 and key mRNAs, were particularly assessed.
format	article
author	Eduardo Larriba Jesús del Mazo
author_facet	Eduardo Larriba Jesús del Mazo
author_sort	Eduardo Larriba
title	An integrative piRNA analysis of mouse gametes and zygotes reveals new potential origins and gene regulatory roles
title_short	An integrative piRNA analysis of mouse gametes and zygotes reveals new potential origins and gene regulatory roles
title_full	An integrative piRNA analysis of mouse gametes and zygotes reveals new potential origins and gene regulatory roles
title_fullStr	An integrative piRNA analysis of mouse gametes and zygotes reveals new potential origins and gene regulatory roles
title_full_unstemmed	An integrative piRNA analysis of mouse gametes and zygotes reveals new potential origins and gene regulatory roles
title_sort	integrative pirna analysis of mouse gametes and zygotes reveals new potential origins and gene regulatory roles
publisher	Nature Portfolio
publishDate	2018
url	https://doaj.org/article/e1dc6fe584824318925899431f07c4f6
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An integrative piRNA analysis of mouse gametes and zygotes reveals new potential origins and gene regulatory roles

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