High-resolution profiling of novel transcribed regions during rat spermatogenesis

Frédéric Chalmel 1 Aurélie Lardenois 2 Bertrand Evrard 1 Antoine D. Rolland 1 Olivier Sallou 3, 4 Marie-Charlotte Dumargne 1 Isabelle Coiffec 1 Olivier Collin 3, 4 Michael Primig 2 Bernard Jégou 1, 5
2 Transcriptional networks in gametogenesis and cancer
Irset - Institut de recherche, santé, environnement et travail
4 Plateforme bioinformatique GenOuest [Rennes]
IRISA - Institut de Recherche en Informatique et Systèmes Aléatoires, UR1 - Université de Rennes 1, Plateforme Génomique Santé Biogenouest®, Inria Rennes – Bretagne Atlantique
Abstract : Mammalian spermatogenesis is a complex and highly orchestrated combination of processes in which male germline proliferation and differentiation result in the production of mature spermatozoa. If recent genome-wide studies have contributed to the in-depth analysis of the male germline protein-encoding transcriptome, little effort has yet been devoted to the systematic identification of novel unannotated transcribed regions expressed during mammalian spermatogenesis. We report high-resolution expression profiling of male germ cells in rat, using next-generation sequencing technology and highly enriched testicular cell populations. Among 20 424 high-confidence transcripts reconstructed, we defined a stringent set of 1419 long multi-exonic unannotated transcripts expressed in the testis (testis-expressed unannotated transcripts [TUTs]). TUTs were divided into 7 groups with different expression patterns. Most TUTs share many of the characteristics of vertebrate long noncoding RNAs (lncRNAs). We also markedly reinforced the finding that TUTs and known lncRNAs accumulate during the meiotic and postmeiotic stages of spermatogenesis in mammals and that X-linked meiotic TUTs do not escape the silencing effects of meiotic sex chromosome inactivation. Importantly, we discovered that TUTs and known lncRNAs with a peak expression during meiosis define a distinct class of noncoding transcripts that exhibit exons twice as long as those of other transcripts. Our study provides new insights in transcriptional profiling of the male germline and represents a high-quality resource for novel loci expressed during spermatogenesis that significantly contributes to rat genome annotation.
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Submitted on : Monday, September 15, 2014 - 10:07:31 AM
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Frédéric Chalmel, Aurélie Lardenois, Bertrand Evrard, Antoine D. Rolland, Olivier Sallou, et al.. High-resolution profiling of novel transcribed regions during rat spermatogenesis. Biology of Reproduction, Society for the Study of Reproduction, 2014, 91 (1), pp.5. ⟨10.1095/biolreprod.114.118166⟩. ⟨hal-01063924⟩



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