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In some cases, the protein aggregation is also required for beneficial functions. Given the duality of this phenomenon, it remains a fundamental question how natural selection controls the aggregation. The exponential growth of genomic sequence data and recent progress with in silico predictors of the aggregation allows approaching this problem by a large-scale bioinformatics analysis. Most of the aggregation-prone regions are hidden within the 3D structure, rendering them inaccessible for the intermolecular interactions responsible for aggregation. Thus, the most realistic census of the aggregation-prone regions requires crossing aggregation prediction with information about the location of the natively unfolded regions. This allows us to detect so-called \u2018exposed aggregation-prone regions\u2019 (EARs). Here, we analyzed the occurrence and distribution of the EARs in 76 reference proteomes from the three kingdoms of life. For this purpose, we used a bioinformatics pipeline, which provides a consensual result based on several predictors of aggregation. Our analysis revealed a number of new statistically significant correlations about the presence of EARs in different organisms, their dependence on protein length, cellular localizations, co-occurrence with short linear motifs and the level of protein expression. We also obtained a list of proteins with the conserved aggregation-prone sequences for further experimental tests. Insights gained from this work led to a deeper understanding of the relationship between protein evolution and aggregation.<\/jats:p>","DOI":"10.1093\/bib\/bbad183","type":"journal-article","created":{"date-parts":[[2023,5,18]],"date-time":"2023-05-18T12:16:53Z","timestamp":1684412213000},"source":"Crossref","is-referenced-by-count":8,"title":["Census of exposed aggregation-prone regions in proteomes"],"prefix":"10.1093","volume":"24","author":[{"given":"Th\u00e9o","family":"Falgarone","sequence":"first","affiliation":[{"name":"Centre de Recherche en Biologie cellulaire de Montpellier , CNRS, , Montpellier, 34293 , France"},{"name":"Universit\u00e9 Montpellier , CNRS, , Montpellier, 34293 , France"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Etienne","family":"Villain","sequence":"additional","affiliation":[{"name":"Centre de Recherche en Biologie cellulaire de Montpellier , CNRS, , Montpellier, 34293 , France"},{"name":"Universit\u00e9 Montpellier , CNRS, , Montpellier, 34293 , France"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Francois","family":"Richard","sequence":"additional","affiliation":[{"name":"Centre de Recherche en Biologie cellulaire de Montpellier , CNRS, , Montpellier, 34293 , France"},{"name":"Universit\u00e9 Montpellier , CNRS, , Montpellier, 34293 , France"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Zarifa","family":"Osmanli","sequence":"additional","affiliation":[{"name":"Centre de Recherche en Biologie cellulaire de Montpellier , CNRS, , Montpellier, 34293 , France"},{"name":"Universit\u00e9 Montpellier , CNRS, , Montpellier, 34293 , France"},{"name":"Biophysics Institute, Ministry of Science and Education of Azerbaijan Republic , Az1141, Baku , Azerbaijan"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Andrey V","family":"Kajava","sequence":"additional","affiliation":[{"name":"Centre de Recherche en Biologie cellulaire de Montpellier , CNRS, , Montpellier, 34293 , France"},{"name":"Universit\u00e9 Montpellier , CNRS, , Montpellier, 34293 , France"},{"name":"Institut de Biologie Computationnelle, Universit\u00e9 Montpellier , 34095 Montpellier , France"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2023,5,17]]},"reference":[{"key":"2023072020023368800_ref1","first-page":"5","article-title":"Molecular biology of assemblies and machines","volume":"1","author":"Steven","year":"2016","journal-title":"Garl Sci"},{"key":"2023072020023368800_ref2","doi-asserted-by":"crossref","first-page":"217","DOI":"10.1080\/13506129.2020.1835263","article-title":"Amyloid nomenclature 2020: update and recommendations by the International Society of Amyloidosis (ISA) nomenclature 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