title: Global 3' UTR shortening has a limited effect on protein abundance in proliferating T cells.
abstract: Alternative polyadenylation is a cellular mechanism that generates mRNA isoforms differing in their 3' untranslated regions (3' UTRs). Changes in polyadenylation site usage have been described upon induction of proliferation in resting cells, but the underlying mechanism and functional significance of this phenomenon remain largely unknown. To understand the functional consequences of shortened 3' UTR isoforms in a physiological setting, we used 3' end sequencing and quantitative mass spectrometry to determine polyadenylation site usage, mRNA and protein levels in murine and human naive and activated T cells. Although 3' UTR shortening in proliferating cells is conserved between human and mouse, orthologous genes do not exhibit similar expression of alternative 3' UTR isoforms. We generally find that 3' UTR shortening is not accompanied by a corresponding change in mRNA and protein levels. This suggests that although 3' UTR shortening may lead to changes in the RNA-binding protein interactome, it has limited effects on protein output.
authors.affiliation: Computational and Systems Biology, Biozentrum, University of Basel and Swiss Institute of Bioinformatics, Basel CH-4056, Switzerland.
authors.forename: Andreas R
authors.initials: AR
authors.lastname: Gruber
authors.affiliation: Computational and Systems Biology, Biozentrum, University of Basel and Swiss Institute of Bioinformatics, Basel CH-4056, Switzerland.
authors.forename: Georges
authors.initials: G
authors.lastname: Martin
authors.affiliation: 1] Department of Biomedicine, University of Basel and University Hospital Basel, Hebelstrasse 20, Basel CH-4031, Switzerland [2] Infection Biology, Biozentrum, University of Basel, Basel CH-4056, Switzerland.
authors.forename: Philipp
authors.initials: P
authors.lastname: Müller
authors.affiliation: Proteomics Core Facility, Biozentrum, University of Basel, Basel CH-4056, Switzerland.
authors.forename: Alexander
authors.initials: A
authors.lastname: Schmidt
authors.affiliation: Computational and Systems Biology, Biozentrum, University of Basel and Swiss Institute of Bioinformatics, Basel CH-4056, Switzerland.
authors.forename: Andreas J
authors.initials: AJ
authors.lastname: Gruber
authors.affiliation: Computational and Systems Biology, Biozentrum, University of Basel and Swiss Institute of Bioinformatics, Basel CH-4056, Switzerland.
authors.forename: Rafal
authors.initials: R
authors.lastname: Gumienny
authors.affiliation: Computational and Systems Biology, Biozentrum, University of Basel and Swiss Institute of Bioinformatics, Basel CH-4056, Switzerland.
authors.forename: Nitish
authors.initials: N
authors.lastname: Mittal
authors.affiliation: Infection Biology, Biozentrum, University of Basel, Basel CH-4056, Switzerland.
authors.forename: Rajesh
authors.initials: R
authors.lastname: Jayachandran
authors.affiliation: Infection Biology, Biozentrum, University of Basel, Basel CH-4056, Switzerland.
authors.forename: Jean
authors.initials: J
authors.lastname: Pieters
authors.affiliation: Computational and Systems Biology, Biozentrum, University of Basel and Swiss Institute of Bioinformatics, Basel CH-4056, Switzerland.
authors.forename: Walter
authors.initials: W
authors.lastname: Keller
authors.affiliation: Computational and Systems Biology, Biozentrum, University of Basel and Swiss Institute of Bioinformatics, Basel CH-4056, Switzerland.
authors.forename: Erik
authors.initials: E
authors.lastname: van Nimwegen
authors.affiliation: Computational and Systems Biology, Biozentrum, University of Basel and Swiss Institute of Bioinformatics, Basel CH-4056, Switzerland.
authors.forename: Mihaela
authors.initials: M
authors.lastname: Zavolan
mesh_terms: D020413:3' Untranslated Regions; D000818:Animals; D002460:Cell Line; D049109:Cell Proliferation; D002478:Cells, Cultured; D005260:Female; D006801:Humans; D051379:Mice; D008810:Mice, Inbred C57BL; D026723:Polyadenylation; D011506:Proteins / Q000235:genetics / Q000378:metabolism*; D012333:RNA, Messenger / Q000235:genetics / Q000378:metabolism; D013601:T-Lymphocytes / Q000166:cytology* / Q000378:metabolism*
chemical_list: D020413:3' Untranslated Regions; D011506:Proteins; D012333:RNA, Messenger