Natural proteome diversity links aneuploidy tolerance to protein turnover

• 成果类型: Article
• 署名作者: Muenzner, Julia; Trebulle, Pauline; Agostini, Federica; Zauber, Henrik; Messner, Christoph B.; Steger, Martin; Kilian, Christiane; Lau, Kate; Barthel, Natalie; Lehmann, Andrea; Textoris-Taube, Kathrin; Caudal, Elodie; Egger, Anna-Sophia; Amari, Fatma; De Chiara, Matteo; Demichev, Vadim; Gossmann, Toni I.; Muelleder, Michael; Liti, Gianni; Schacherer, Joseph; Selbach, Matthias; Berman, Judith; Ralser, Markus
• 署名单位: Free University of Berlin; Humboldt University of Berlin; Charite Universitatsmedizin Berlin; Francis Crick Institute; University of Oxford; Wellcome Centre for Human Genetics; Helmholtz Association; Max Delbruck Center for Molecular Medicine; Swiss Institute of Allergy & Asthma Research; University of Zurich; Free University of Berlin; Humboldt University of Berlin; Charite Universitatsmedizin Berlin; Universites de Strasbourg Etablissements Associes; Universite de Strasbourg; Institut National de la Sante et de la Recherche Medicale (Inserm); Universite Cote d'Azur; Centre National de la Recherche Scientifique (CNRS); Dortmund University of Technology; Institut Universitaire de France; Tel Aviv University; Max Planck Society
• 刊物名称: Nature
• ISSN/ISSBN: 0028-5589
• DOI: 10.1038/s41586-024-07442-9
• 发表日期: 2024-06-06
• 页码: 149-+
• 关键词: stress; CONSEQUENCES

摘要

Accessing the natural genetic diversity of species unveils hidden genetic traits, clarifies gene functions and allows the generalizability of laboratory findings to be assessed. One notable discovery made in natural isolates of Saccharomyces cerevisiae is that aneuploidy-an imbalance in chromosome copy numbers-is frequent(1,2) (around 20%), which seems to contradict the substantial fitness costs and transient nature of aneuploidy when it is engineered in the laboratory(3-5). Here we generate a proteomic resource and merge it with genomic(1) and transcriptomic(6) data for 796 euploid and aneuploid natural isolates. We find that natural and lab-generated aneuploids differ specifically at the proteome. In lab-generated aneuploids, some proteins-especially subunits of protein complexes-show reduced expression, but the overall protein levels correspond to the aneuploid gene dosage. By contrast, in natural isolates, more than 70% of proteins encoded on aneuploid chromosomes are dosage compensated, and average protein levels are shifted towards the euploid state chromosome-wide. At the molecular level, we detect an induction of structural components of the proteasome, increased levels of ubiquitination, and reveal an interdependency of protein turnover rates and attenuation. Our study thus highlights the role of protein turnover in mediating aneuploidy tolerance, and shows the utility of exploiting the natural diversity of species to attain generalizable molecular insights into complex biological processes.