Por favor, use este identificador para citar o enlazar este documento: https://hdl.handle.net/2445/220511
Título: Data-driven identification of inherent features of eukaryotic stress-responsive genes
Autor: Latorre Domenech, Pablo
Böttcher, René
Nadal Ribelles, Mariona
Li, Constance H.
Solé Serra, Carme
Martínez Cebrián, Gerard
Boutros, Paul C.
Posas, Francesc
Nadal Clanchet, Eulàlia De
Materia: Cèl·lules eucariotes
Estrès (Fisiologia)
Expressió gènica
Eukaryotic cells
Stress (Physiology)
Gene expression
Fecha de publicación: 13-ene-2022
Publicado por: Oxford University Press
Resumen: Living organisms are continuously challenged by changes in their environment that can propagate to stresses at the cellular level, such as rapid changes in osmolarity or oxygen tension. To survive these sudden changes, cells have developed stress-responsive mechanisms that tune cellular processes. The response of Saccharomyces cerevisiae to osmostress includes a massive reprogramming of gene expression. Identifying the inherent features of stress-responsive genes is of significant interest for understanding the basic principles underlying the rewiring of gene expression upon stress. Here, we generated a comprehensive catalog of osmostress-responsive genes from 5 independent RNA-seq experiments. We explored 30 features of yeast genes and found that 25 (83%) were distinct in osmostress-responsive genes. We then identified 13 non-redundant minimal osmostress gene traits and used statistical modeling to rank the most stress-predictive features. Intriguingly, the most relevant features of osmostress-responsive genes are the number of transcription factors targeting them and gene conservation. Using data on HeLa samples, we showed that the same features that define yeast osmostress-responsive genes can predict osmostress-responsive genes in humans, but with changes in the rank-ordering of feature-importance. Our study provides a holistic understanding of the basic principles of the regulation of stress-responsive gene expression across eukaryotes.
Nota: Reproducció del document publicat a: https://doi.org/10.1093/nargab/lqac018
Es parte de: Nar Genom Bioinform, 2022, vol. 4, num. 1
URI: https://hdl.handle.net/2445/220511
Recurso relacionado: https://doi.org/10.1093/nargab/lqac018
ISSN: 2631-9268
Aparece en las colecciones:Articles publicats en revistes (Institut de Recerca Biomèdica (IRB Barcelona))

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