Universität zu Köln

Clement-Ziza, Mathieu ORCID: 0000-0003-2763-249X, Marsellach, Francesc X., Codlin, Sandra, Papadakis, Manos A., Reinhardt, Susanne, Rodriguez-Lopez, Maria ORCID: 0000-0002-2066-0589, Martin, Stuart, Marguerat, Samuel ORCID: 0000-0002-2402-3165, Schmidt, Alexander, Lee, Eunhye, Workman, Christopher T., Baehler, Juerg and Beyer, Andreas ORCID: 0000-0002-3891-2123 (2014). Natural genetic variation impacts expression levels of coding, non-coding, and antisense transcripts in fission yeast. Mol. Syst. Biol., 10 (11). HOBOKEN: WILEY. ISSN 1744-4292

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Abstract

Our current understanding of how natural genetic variation affects gene expression beyond well-annotated coding genes is still limited. The use of deep sequencing technologies for the study of expression quantitative trait loci (eQTLs) has the potential to close this gap. Here, we generated the first recombinant strain library for fission yeast and conducted an RNA-seq-based QTL study of the coding, non- coding, and antisense transcriptomes. We show that the frequency of distal effects (trans-eQTLs) greatly exceeds the number of local effects (cis-eQTLs) and that non-coding RNAs are as likely to be affected by eQTLs as protein-coding RNAs. We identified a genetic variation of swc5 that modifies the levels of 871 RNAs, with effects on both sense and antisense transcription, and show that this effect most likely goes through a compromised deposition of the histone variant H2A.Z. The strains, methods, and datasets generated here provide a rich resource for future studies.

Item Type:	Journal Article
Creators:	Creators Email ORCID ORCID Put Code Clement-Ziza, Mathieu UNSPECIFIED orcid.org/0000-0003-2763-249X UNSPECIFIED Marsellach, Francesc X. UNSPECIFIED UNSPECIFIED UNSPECIFIED Codlin, Sandra UNSPECIFIED UNSPECIFIED UNSPECIFIED Papadakis, Manos A. UNSPECIFIED UNSPECIFIED UNSPECIFIED Reinhardt, Susanne UNSPECIFIED UNSPECIFIED UNSPECIFIED Rodriguez-Lopez, Maria UNSPECIFIED orcid.org/0000-0002-2066-0589 UNSPECIFIED Martin, Stuart UNSPECIFIED UNSPECIFIED UNSPECIFIED Marguerat, Samuel UNSPECIFIED orcid.org/0000-0002-2402-3165 UNSPECIFIED Schmidt, Alexander UNSPECIFIED UNSPECIFIED UNSPECIFIED Lee, Eunhye UNSPECIFIED UNSPECIFIED UNSPECIFIED Workman, Christopher T. UNSPECIFIED UNSPECIFIED UNSPECIFIED Baehler, Juerg UNSPECIFIED UNSPECIFIED UNSPECIFIED Beyer, Andreas UNSPECIFIED orcid.org/0000-0002-3891-2123 UNSPECIFIED
URN:	urn:nbn:de:hbz:38-425244
DOI:	10.15252/msb.20145123
Journal or Publication Title:	Mol. Syst. Biol.
Volume:	10
Number:	11
Date:	2014
Publisher:	WILEY
Place of Publication:	HOBOKEN
ISSN:	1744-4292
Language:	English
Faculty:	Unspecified
Divisions:	Unspecified
Subjects:	no entry
Uncontrolled Keywords:	Keywords Language RNA-SEQ DATA; QUANTITATIVE TRAIT LOCI; GENOME-WIDE ASSOCIATION; ALLELE-SPECIFIC EXPRESSION; SCHIZOSACCHAROMYCES-POMBE; OUTBREEDING DEPRESSION; MICROARRAY EXPERIMENTS; REVERSE TRANSCRIPTION; POPULATION-STRUCTURE; SEQUENCING DATA Multiple languages Biochemistry & Molecular Biology Multiple languages
URI:	http://kups.ub.uni-koeln.de/id/eprint/42524