Schwich, Oliver Daniel ; Blümel, Nicole ; Keller, Mario ; Wegener, Marius ; Setty, Samarth Thonta ; Brunstein, Melinda Elaine ; Poser, Ina ; Mozos, Igor Ruiz De Los ; Suess, Beatrix ; Münch, Christian ; McNicoll, François ; Zarnack, Kathi ; Müller-McNicoll, Michaela (2021)
SRSF3 and SRSF7 modulate 3′UTR length through suppression or activation of proximal polyadenylation sites and regulation of CFIm levels.
In: Genome Biology, 22
doi: 10.1186/s13059-021-02298-y
Artikel, Bibliographie
Dies ist die neueste Version dieses Eintrags.
Kurzbeschreibung (Abstract)
Background: Alternative polyadenylation (APA) refers to the regulated selection of polyadenylation sites (PASs) in transcripts, which determines the length of their 3′ untranslated regions (3′UTRs). We have recently shown that SRSF3 and SRSF7, two closely related SR proteins, connect APA with mRNA export. The mechanism underlying APA regulation by SRSF3 and SRSF7 remained unknown.
Results: Here we combine iCLIP and 3′-end sequencing and find that SRSF3 and SRSF7 bind upstream of proximal PASs (pPASs), but they exert opposite effects on 3′UTR length. SRSF7 enhances pPAS usage in a concentration-dependent but splicing-independent manner by recruiting the cleavage factor FIP1, generating short 3′UTRs. Protein domains unique to SRSF7, which are absent from SRSF3, contribute to FIP1 recruitment. In contrast, SRSF3 promotes distal PAS (dPAS) usage and hence long 3′UTRs directly by counteracting SRSF7, but also indirectly by maintaining high levels of cleavage factor Im (CFIm) via alternative splicing. Upon SRSF3 depletion, CFIm levels decrease and 3′UTRs are shortened. The indirect SRSF3 targets are particularly sensitive to low CFIm levels, because here CFIm serves a dual function; it enhances dPAS and inhibits pPAS usage by binding immediately downstream and assembling unproductive cleavage complexes, which together promotes long 3′UTRs.
Conclusions: We demonstrate that SRSF3 and SRSF7 are direct modulators of pPAS usage and show how small differences in the domain architecture of SR proteins can confer opposite effects on pPAS regulation.
| Typ des Eintrags: | Artikel |
|---|---|
| Erschienen: | 2021 |
| Autor(en): | Schwich, Oliver Daniel ; Blümel, Nicole ; Keller, Mario ; Wegener, Marius ; Setty, Samarth Thonta ; Brunstein, Melinda Elaine ; Poser, Ina ; Mozos, Igor Ruiz De Los ; Suess, Beatrix ; Münch, Christian ; McNicoll, François ; Zarnack, Kathi ; Müller-McNicoll, Michaela |
| Art des Eintrags: | Bibliographie |
| Titel: | SRSF3 and SRSF7 modulate 3′UTR length through suppression or activation of proximal polyadenylation sites and regulation of CFIm levels |
| Sprache: | Englisch |
| Publikationsjahr: | 11 März 2021 |
| Ort: | London |
| Verlag: | BioMed Central |
| Titel der Zeitschrift, Zeitung oder Schriftenreihe: | Genome Biology |
| Jahrgang/Volume einer Zeitschrift: | 22 |
| Kollation: | 34 Seiten |
| DOI: | 10.1186/s13059-021-02298-y |
| Zugehörige Links: | |
| Kurzbeschreibung (Abstract): | Background: Alternative polyadenylation (APA) refers to the regulated selection of polyadenylation sites (PASs) in transcripts, which determines the length of their 3′ untranslated regions (3′UTRs). We have recently shown that SRSF3 and SRSF7, two closely related SR proteins, connect APA with mRNA export. The mechanism underlying APA regulation by SRSF3 and SRSF7 remained unknown. Results: Here we combine iCLIP and 3′-end sequencing and find that SRSF3 and SRSF7 bind upstream of proximal PASs (pPASs), but they exert opposite effects on 3′UTR length. SRSF7 enhances pPAS usage in a concentration-dependent but splicing-independent manner by recruiting the cleavage factor FIP1, generating short 3′UTRs. Protein domains unique to SRSF7, which are absent from SRSF3, contribute to FIP1 recruitment. In contrast, SRSF3 promotes distal PAS (dPAS) usage and hence long 3′UTRs directly by counteracting SRSF7, but also indirectly by maintaining high levels of cleavage factor Im (CFIm) via alternative splicing. Upon SRSF3 depletion, CFIm levels decrease and 3′UTRs are shortened. The indirect SRSF3 targets are particularly sensitive to low CFIm levels, because here CFIm serves a dual function; it enhances dPAS and inhibits pPAS usage by binding immediately downstream and assembling unproductive cleavage complexes, which together promotes long 3′UTRs. Conclusions: We demonstrate that SRSF3 and SRSF7 are direct modulators of pPAS usage and show how small differences in the domain architecture of SR proteins can confer opposite effects on pPAS regulation. |
| Freie Schlagworte: | SRSF3, SRSF7, APA, FIP1, CFIm, pPAS, dPAS, iCLIP, MACE-seq, 3′UTR length |
| ID-Nummer: | Artikel-ID: 82 |
| Zusätzliche Informationen: | Part of Springer Nature |
| Sachgruppe der Dewey Dezimalklassifikatin (DDC): | 500 Naturwissenschaften und Mathematik > 570 Biowissenschaften, Biologie |
| Fachbereich(e)/-gebiet(e): | 10 Fachbereich Biologie 10 Fachbereich Biologie > Synthetic RNA biology |
| Hinterlegungsdatum: | 25 Sep 2024 08:49 |
| Letzte Änderung: | 25 Sep 2024 08:49 |
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| Suche nach Titel in: | TUfind oder in Google |
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SRSF3 and SRSF7 modulate 3′UTR length through suppression or activation of proximal polyadenylation sites and regulation of CFIm levels. (deposited 24 Sep 2024 11:28)
- SRSF3 and SRSF7 modulate 3′UTR length through suppression or activation of proximal polyadenylation sites and regulation of CFIm levels. (deposited 25 Sep 2024 08:49) [Gegenwärtig angezeigt]
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