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Article Dans Une Revue NAR Genomics and Bioinformatics Année : 2024

Protein homeostasis imprinting across evolution

Résumé

Protein homeostasis (a.k.a. proteostasis) is associated with the primary functions of life, and therefore with evolution. However, it is unclear how cellular proteostasis machines have evolved to adjust protein biogenesis needs to environmental constraints. Herein, we describe a novel computational approach, based on semantic network analysis, to evaluate proteostasis plasticity during evolution. We show that the molecular components of the proteostasis network (PN) are reliable metrics to deconvolute the life forms into Archaea, Bacteria and Eukarya and to assess the evolution rates among species. Semantic graphs were used as new criteria to evaluate PN complexity in 93 Eukarya, 250 Bacteria and 62 Archaea, thus representing a novel strategy for taxonomic classification, which provided information about species divergence. Kingdom-specific PN components were identified, suggesting that PN complexity may correlate with evolution. We found that the gains that occurred throughout PN evolution revealed a dichotomy within both the PN conserved modules and within kingdom-specific modules. Additionally, many of these components contribute to the evolutionary imprinting of other conserved mechanisms. Finally, the current study suggests a new way to exploit the genomic annotation of biomedical ontologies, deriving new knowledge from the semantic comparison of different biological systems.
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Dates et versions

hal-04479772 , version 1 (27-02-2024)

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Citer

Thodoris Koutsandreas, Brice Felden, Eric Chevet, Aristotelis Chatziioannou. Protein homeostasis imprinting across evolution. NAR Genomics and Bioinformatics, 2024, Nar Genomics and Bioinformatics, 6 (1), pp.lqae014. ⟨10.1093/nargab/lqae014⟩. ⟨hal-04479772⟩
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