Analysis of Drosophila melanogaster testis transcriptome 06 Biological Sciences 0604 Genetics

Viktor Vedelek, L. Bodai, Gábor Grézal, Bence Kovács, I. Boros, Barbara Laurinyecz, Rita Sinka

Research output: Contribution to journalArticle

2 Citations (Scopus)

Abstract

Background: The formation of matured and individual sperm involves a series of molecular and spectacular morphological changes of the developing cysts in Drosophila melanogaster testis. Recent advances in RNA Sequencing (RNA-Seq) technology help us to understand the complexity of eukaryotic transcriptomes by dissecting different tissues and developmental stages of organisms. To gain a better understanding of cellular differentiation of spermatogenesis, we applied RNA-Seq to analyse the testis-specific transcriptome, including coding and non-coding genes. Results: We isolated three different parts of the wild-type testis by dissecting and cutting the different regions: 1.) the apical region, which contains stem cells and developing spermatocytes 2.) the middle region, with enrichment of meiotic cysts 3.) the basal region, which contains elongated post-meiotic cysts with spermatids. Total RNA was isolated from each region and analysed by next-generation sequencing. We collected data from the annotated 17412 Drosophila genes and identified 5381 genes with significant transcript accumulation differences between the regions, representing the main stages of spermatogenesis. We demonstrated for the first time the presence and region specific distribution of 2061 lncRNAs in testis, with 203 significant differences. Using the available modENCODE RNA-Seq data, we determined the tissue specificity indices of Drosophila genes. Combining the indices with our results, we identified genes with region-specific enrichment in testis. Conclusion: By multiple analyses of our results and integrating existing knowledge about Drosophila melanogaster spermatogenesis to our dataset, we were able to describe transcript composition of different regions of Drosophila testis, including several stage-specific transcripts. We present searchable visualizations that can facilitate the identification of new components that play role in the organisation and composition of different stages of spermatogenesis, including the less known, but complex regulation of post-meiotic stages.

Original languageEnglish
Article number697
JournalBMC Genomics
Volume19
Issue number1
DOIs
Publication statusPublished - Sep 24 2018

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Biological Science Disciplines
Drosophila melanogaster
Transcriptome
Testis
Spermatogenesis
RNA Sequence Analysis
Drosophila
Cysts
Genes
Long Noncoding RNA
Organ Specificity
Spermatocytes
Spermatids
Spermatozoa
Stem Cells
RNA
Technology

Keywords

  • Drosophila
  • RNA sequencing
  • Spermatogenesis
  • Testis
  • Transcriptome

ASJC Scopus subject areas

  • Biotechnology
  • Genetics

Cite this

Analysis of Drosophila melanogaster testis transcriptome 06 Biological Sciences 0604 Genetics. / Vedelek, Viktor; Bodai, L.; Grézal, Gábor; Kovács, Bence; Boros, I.; Laurinyecz, Barbara; Sinka, Rita.

In: BMC Genomics, Vol. 19, No. 1, 697, 24.09.2018.

Research output: Contribution to journalArticle

Vedelek, Viktor ; Bodai, L. ; Grézal, Gábor ; Kovács, Bence ; Boros, I. ; Laurinyecz, Barbara ; Sinka, Rita. / Analysis of Drosophila melanogaster testis transcriptome 06 Biological Sciences 0604 Genetics. In: BMC Genomics. 2018 ; Vol. 19, No. 1.
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