دورية أكاديمية
أعرض في EDS

Conserved and divergent signals in 5' splice site sequences across fungi, metazoa and plants.

التفاصيل البيبلوغرافية
العنوان: Conserved and divergent signals in 5' splice site sequences across fungi, metazoa and plants.
المؤلفون: Beckel MS; Fundación Instituto Leloir, Buenos Aires, Argentina.; Instituto de Investigaciones Bioquímicas de Buenos Aires, Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Buenos Aires, Argentina., Kaufman B; Fundación Instituto Leloir, Buenos Aires, Argentina.; Instituto de Investigaciones Bioquímicas de Buenos Aires, Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Buenos Aires, Argentina., Yanovsky M; Fundación Instituto Leloir, Buenos Aires, Argentina.; Instituto de Investigaciones Bioquímicas de Buenos Aires, Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Buenos Aires, Argentina., Chernomoretz A; Fundación Instituto Leloir, Buenos Aires, Argentina.; Departamento de Física, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Instituto de Física Interdisciplinaria y Aplicada (INFINA), Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Buenos Aires, Argentina.
المصدر: PLoS computational biology [PLoS Comput Biol] 2023 Oct 13; Vol. 19 (10), pp. e1011540. Date of Electronic Publication: 2023 Oct 13 (Print Publication: 2023).
نوع المنشور: Journal Article; Research Support, Non-U.S. Gov't
اللغة: English
بيانات الدورية: Publisher: Public Library of Science Country of Publication: United States NLM ID: 101238922 Publication Model: eCollection Cited Medium: Internet ISSN: 1553-7358 (Electronic) Linking ISSN: 1553734X NLM ISO Abbreviation: PLoS Comput Biol Subsets: MEDLINE
أسماء مطبوعة: Original Publication: San Francisco, CA : Public Library of Science, [2005]-
مواضيع طبية MeSH: RNA Splice Sites*/genetics , RNA Splicing*/genetics, Animals ; Base Sequence ; Plants/genetics ; Fungi/genetics ; Eukaryota ; Nucleotides ; Introns
مستخلص: In eukaryotic organisms the ensemble of 5' splice site sequences reflects the balance between natural nucleotide variability and minimal molecular constraints necessary to ensure splicing fidelity. This compromise shapes the underlying statistical patterns in the composition of donor splice site sequences. The scope of this study was to mine conserved and divergent signals in the composition of 5' splice site sequences. Because 5' donor sequences are a major cue for proper recognition of splice sites, we reasoned that statistical regularities in their composition could reflect the biological functionality and evolutionary history associated with splicing mechanisms. Results: We considered a regularized maximum entropy modeling framework to mine for non-trivial two-site correlations in donor sequence datasets corresponding to 30 different eukaryotes. For each analyzed species, we identified minimal sets of two-site coupling patterns that were able to replicate, at a given regularization level, the observed one-site and two-site frequencies in donor sequences. By performing a systematic and comparative analysis of 5'splice sites we showed that lineage information could be traced from joint di-nucleotide probabilities. We were able to identify characteristic two-site coupling patterns for plants and animals, and propose that they may echo differences in splicing regulation previously reported between these groups.
Competing Interests: None.
(Copyright: © 2023 Beckel et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.)
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المشرفين على المادة: 0 (RNA Splice Sites)
0 (Nucleotides)
تواريخ الأحداث: Date Created: 20231013 Date Completed: 20231027 Latest Revision: 20231112
رمز التحديث: 20240628
مُعرف محوري في PubMed: PMC10599564
DOI: 10.1371/journal.pcbi.1011540
PMID: 37831726
قاعدة البيانات: MEDLINE
الوصف
تدمد:1553-7358
DOI:10.1371/journal.pcbi.1011540