Evidence map›Paper›PMID 39416098›Full record

ArticlebioRxiv : the preprint server for biology2024

An ancient competition for the conserved branchpoint sequence influences physiological and evolutionary outcomes in splicing.

Karen Larissa Pereira de Castro, Jose M Abril, Kuo-Chieh Liao, Haiping Hao, John Paul Donohue, William K Russell, W Samuel Fagg

Abstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in bioRxiv : the preprint server for biology, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

7 authors.

Karen Larissa Pereira de CastroTransplant Division, Department of Surgery, University of Texas Medical Branch, Galveston, TX, USA.
Jose M AbrilTransplant Division, Department of Surgery, University of Texas Medical Branch, Galveston, TX, USA.
Kuo-Chieh LiaoRNA Genomics and Structure, Genome Institute of Singapore, Agency for Science, Technology, and Research (A*STAR) Singapore.
Haiping HaoDepartment of Biochemistry and Molecular Biology, University of Texas Medical Branch, Galveston, Texas, USA.
John Paul DonohueSinsheimer Labs, RNA Center for Molecular Biology, Department of Molecular, Cell and Developmental Biology, University of California, Santa Cruz, Santa Cruz, CA, USA.
William K RussellDepartment of Biochemistry and Molecular Biology, University of Texas Medical Branch, Galveston, Texas, USA.
W Samuel FaggTransplant Division, Department of Surgery, University of Texas Medical Branch, Galveston, TX, USA.ORCID 0000-0003-2909-1666

Funding

Dissecting the Mechanisms of Quaking-Regulated RNA ProcessingR35GM151324 · NIGMS · UNIVERSITY OF TEXAS MED BR GALVESTON · PI William Samuel Fagg · 2023 to 2026
$1.6M
NIGMS NIH HHS R35 GM151324
6 · The paper itself

Abstract

Recognition of the intron branchpoint during spliceosome assembly is a multistep process that defines both mRNA structure and amount. A branchpoint sequence motif UACUAAC is variably conserved in eukaryotic genomes, but in some organisms more than one protein can recognize it. Here we show that SF1 and Quaking (QKI) compete for a subset of intron branchpoints with the sequence ACUAA. SF1 activates exon inclusion through this sequence, but QKI represses the inclusion of alternatively spliced exons with this intron branchpoint sequence. Using mutant reporters derived from a natural intron with two branchpoint-like sequences, we find that when either branchpoint sequence is mutated, the other is used as a branchpoint, but when both are present, neither is used due to high affinity binding and strong splicing repression by QKI. QKI occupancy at the dual branchpoint site directly prevents SF1 binding and subsequent recruitment of spliceosome-associated factors. Finally, the ectopic expression of QKI in budding yeast (which lacks

Indexed as

alternative splicingbranchpointQuakingRNA binding proteinsplicingSplicing Factor 1 (SF1)

Identifiers

PMID39416098
PMCPMC11483029

What Socratic holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the Socratic graph.