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- W4362507330 abstract "Article3 April 2023 Transparent process Rapid evolutionary repair by secondary perturbation of a primary disrupted transcriptional network Po-Chen Hsu Corresponding Author Po-Chen Hsu [email protected] orcid.org/0000-0002-9425-8154 Institute of Molecular Biology, Academia Sinica, Taipei, Taiwan Contribution: Conceptualization, Data curation, Formal analysis, Validation, Investigation, Visualization, Methodology, Writing - original draft, Writing - review & editing Search for more papers by this author Yu-Hsuan Cheng Yu-Hsuan Cheng orcid.org/0000-0003-1624-2154 Institute of Molecular Biology, Academia Sinica, Taipei, Taiwan Contribution: Data curation, Formal analysis, Methodology, Writing - original draft Search for more papers by this author Chia-Wei Liao Chia-Wei Liao orcid.org/0000-0002-5256-3839 Institute of Molecular Biology, Academia Sinica, Taipei, Taiwan Contribution: Data curation, Formal analysis, Methodology, Writing - original draft Search for more papers by this author Richard Ron R Litan Richard Ron R Litan Institute of Molecular Biology, Academia Sinica, Taipei, Taiwan Contribution: Data curation, Formal analysis, Investigation, Visualization Search for more papers by this author Yu-Ting Jhou Yu-Ting Jhou Institute of Molecular Biology, Academia Sinica, Taipei, Taiwan Contribution: Formal analysis, Investigation, Visualization Search for more papers by this author Florica Jean Ganaden Opoc Florica Jean Ganaden Opoc orcid.org/0000-0002-3056-2309 Institute of Molecular Biology, Academia Sinica, Taipei, Taiwan Contribution: Investigation, Visualization Search for more papers by this author Ahmed A A Amine Ahmed A A Amine Institute of Molecular Biology, Academia Sinica, Taipei, Taiwan Contribution: Investigation Search for more papers by this author Jun-Yi Leu Jun-Yi Leu orcid.org/0000-0001-5445-2799 Institute of Molecular Biology, Academia Sinica, Taipei, Taiwan Contribution: Conceptualization, Resources, Supervision, Funding acquisition, Investigation, Writing - original draft, Project administration, Writing - review & editing Search for more papers by this author Po-Chen Hsu Corresponding Author Po-Chen Hsu [email protected] orcid.org/0000-0002-9425-8154 Institute of Molecular Biology, Academia Sinica, Taipei, Taiwan Contribution: Conceptualization, Data curation, Formal analysis, Validation, Investigation, Visualization, Methodology, Writing - original draft, Writing - review & editing Search for more papers by this author Yu-Hsuan Cheng Yu-Hsuan Cheng orcid.org/0000-0003-1624-2154 Institute of Molecular Biology, Academia Sinica, Taipei, Taiwan Contribution: Data curation, Formal analysis, Methodology, Writing - original draft Search for more papers by this author Chia-Wei Liao Chia-Wei Liao orcid.org/0000-0002-5256-3839 Institute of Molecular Biology, Academia Sinica, Taipei, Taiwan Contribution: Data curation, Formal analysis, Methodology, Writing - original draft Search for more papers by this author Richard Ron R Litan Richard Ron R Litan Institute of Molecular Biology, Academia Sinica, Taipei, Taiwan Contribution: Data curation, Formal analysis, Investigation, Visualization Search for more papers by this author Yu-Ting Jhou Yu-Ting Jhou Institute of Molecular Biology, Academia Sinica, Taipei, Taiwan Contribution: Formal analysis, Investigation, Visualization Search for more papers by this author Florica Jean Ganaden Opoc Florica Jean Ganaden Opoc orcid.org/0000-0002-3056-2309 Institute of Molecular Biology, Academia Sinica, Taipei, Taiwan Contribution: Investigation, Visualization Search for more papers by this author Ahmed A A Amine Ahmed A A Amine Institute of Molecular Biology, Academia Sinica, Taipei, Taiwan Contribution: Investigation Search for more papers by this author Jun-Yi Leu Jun-Yi Leu orcid.org/0000-0001-5445-2799 Institute of Molecular Biology, Academia Sinica, Taipei, Taiwan Contribution: Conceptualization, Resources, Supervision, Funding acquisition, Investigation, Writing - original draft, Project administration, Writing - review & editing Search for more papers by this author Author Information Po-Chen Hsu *,1, Yu-Hsuan Cheng1,2,3, Chia-Wei Liao1, Richard Ron R Litan1, Yu-Ting Jhou1, Florica Jean Ganaden Opoc1, Ahmed A A Amine1 and Jun-Yi Leu1 1Institute of Molecular Biology, Academia Sinica, Taipei, Taiwan 2Present address: Morgridge Institute for Research, Madison, WI, USA 3Present address: Howard Hughes Medical Institute, University of Wisconsin-Madison, Madison, WI, USA *Corresponding author. Tel: +886 2 27899216; E-mail: [email protected] EMBO Reports (2023)e56019https://doi.org/10.15252/embr.202256019 Full textView the full text of the articlePDFDownload PDF of article text and main figures.PDF PLUSDownload PDF of article text, main figures, expanded view figures and appendix. Peer ReviewDownload a summary of the editorial decision process including editorial decision letters, reviewer comments and author responses to feedback. ToolsAdd to favoritesDownload CitationsTrack CitationsPermissions ShareFacebookTwitterLinked InMendeleyWechatReddit Figures & Info Abstract The discrete steps of transcriptional rewiring have been proposed to occur neutrally to ensure steady gene expression under stabilizing selection. A conflict-free switch of a regulon between regulators may require an immediate compensatory evolution to minimize deleterious effects. Here, we perform an evolutionary repair experiment on the Lachancea kluyveri yeast sef1Δ mutant using a suppressor development strategy. Complete loss of SEF1 forces cells to initiate a compensatory process for the pleiotropic defects arising from misexpression of TCA cycle genes. Using different selective conditions, we identify two adaptive loss-of-function mutations of IRA1 and AZF1. Subsequent analyses show that Azf1 is a weak transcriptional activator regulated by the Ras1-PKA pathway. Azf1 loss-of-function triggers extensive gene expression changes responsible for compensatory, beneficial, and trade-off phenotypes. The trade-offs can be alleviated by higher cell density. Our results not only indicate that secondary transcriptional perturbation provides rapid and adaptive mechanisms potentially stabilizing the initial stage of transcriptional rewiring but also suggest how genetic polymorphisms of pleiotropic mutations could be maintained in the population. Synopsis Evolutionary repair in sef1Δ mutant cells of the yeast Lachancea kluyveri highlights the rapid adaptive strategies to handle growth defects and to compensate for gene misexpression. Adaptive clones evolve rapidly in populations of sef1Δ cells under different selective conditions. Loss-of-function or hypomorphic mutations pervasively hit two genes, IRA1 and AZF1, which are responsible for the adaptive phenotypes. The pleiotropy of loss-of-function azf1 mutations has beneficial fitness and compensatory effects under favorable conditions but results in growth trade-offs when encountering unfavorable conditions. The growth trade-offs of azf1 genotypes can be alleviated by increasing the cell density in unfavorable conditions. Previous ArticleNext Article Read MoreAbout the coverClose modalView large imageVolume 0,Issue 0,This month's cover highlights the article Ubiquitylation of BBSome is required for ciliary assembly and signaling by Francesco Chiuso, Rossella Delle Donne, Ivan Conte, Antonio Feliciello and colleagues. The images show the expression of the BBSome component BBS1 (green), wt (left panels) and an ubiquitylation‐defective BBS1 mutant (right panels), namely BBS1K143R, in differentiating rods (immunostained for Rhodopsin, red). DAPI staining is shown in blue. Expression of the mutant impairs ciliogenesis and photoreceptor morphogenesis, thus recapitulating Bardet Biedl Syndrome (BBS) phenotypes in a medaka fish model.(Scientific image by Giuliana Giamundo and Daniela Intartaglia, University of Naples Federico II.) Latest OnlineView all RelatedDetailsLoading ..." @default.
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- W4362507330 date "2023-04-03" @default.
- W4362507330 modified "2023-10-16" @default.
- W4362507330 title "Rapid evolutionary repair by secondary perturbation of a primary disrupted transcriptional network" @default.
- W4362507330 cites W107238186 @default.
- W4362507330 cites W1504546656 @default.
- W4362507330 cites W1513656100 @default.
- W4362507330 cites W1532345272 @default.
- W4362507330 cites W1963670229 @default.
- W4362507330 cites W1966985102 @default.
- W4362507330 cites W1967598681 @default.
- W4362507330 cites W1970900633 @default.
- W4362507330 cites W1970940691 @default.
- W4362507330 cites W1972363014 @default.
- W4362507330 cites W1977436069 @default.
- W4362507330 cites W1979317140 @default.
- W4362507330 cites W1981723163 @default.
- W4362507330 cites W1985561503 @default.
- W4362507330 cites W1990474165 @default.
- W4362507330 cites W1997478924 @default.
- W4362507330 cites W1997902769 @default.
- W4362507330 cites W1999888715 @default.
- W4362507330 cites W2001157929 @default.
- W4362507330 cites W2001610972 @default.
- W4362507330 cites W2001765573 @default.
- W4362507330 cites W2002604364 @default.
- W4362507330 cites W2006492816 @default.
- W4362507330 cites W2006560356 @default.
- W4362507330 cites W2008014792 @default.
- W4362507330 cites W2015612505 @default.
- W4362507330 cites W2017017064 @default.
- W4362507330 cites W2037336381 @default.
- W4362507330 cites W2041767749 @default.
- W4362507330 cites W2053371703 @default.
- W4362507330 cites W2057857646 @default.
- W4362507330 cites W2058333934 @default.
- W4362507330 cites W2059382856 @default.
- W4362507330 cites W2064164434 @default.
- W4362507330 cites W2068535614 @default.
- W4362507330 cites W2070085379 @default.
- W4362507330 cites W2072290177 @default.
- W4362507330 cites W2073881372 @default.
- W4362507330 cites W2085896397 @default.
- W4362507330 cites W2088246177 @default.
- W4362507330 cites W2090853729 @default.
- W4362507330 cites W2094743060 @default.
- W4362507330 cites W2095295625 @default.
- W4362507330 cites W2095722471 @default.
- W4362507330 cites W2099540110 @default.
- W4362507330 cites W2099661865 @default.
- W4362507330 cites W2100123796 @default.
- W4362507330 cites W2103142966 @default.
- W4362507330 cites W2103441770 @default.
- W4362507330 cites W2106578986 @default.
- W4362507330 cites W2107861779 @default.
- W4362507330 cites W2108234281 @default.
- W4362507330 cites W2117737648 @default.
- W4362507330 cites W2119180969 @default.
- W4362507330 cites W2119456700 @default.
- W4362507330 cites W2131271579 @default.
- W4362507330 cites W2135998024 @default.
- W4362507330 cites W2137683543 @default.
- W4362507330 cites W2140729594 @default.
- W4362507330 cites W2143492752 @default.
- W4362507330 cites W2145810513 @default.
- W4362507330 cites W2145954956 @default.
- W4362507330 cites W2146920262 @default.
- W4362507330 cites W2151233592 @default.
- W4362507330 cites W2162461100 @default.
- W4362507330 cites W2168316093 @default.
- W4362507330 cites W2171679524 @default.
- W4362507330 cites W2172088896 @default.
- W4362507330 cites W2179438025 @default.
- W4362507330 cites W2180414983 @default.
- W4362507330 cites W2197124664 @default.
- W4362507330 cites W2291316821 @default.
- W4362507330 cites W2316062533 @default.
- W4362507330 cites W2420903908 @default.
- W4362507330 cites W2432815617 @default.
- W4362507330 cites W2471681276 @default.
- W4362507330 cites W2518349977 @default.
- W4362507330 cites W2546667113 @default.
- W4362507330 cites W2548427835 @default.
- W4362507330 cites W2559186674 @default.
- W4362507330 cites W2592811885 @default.
- W4362507330 cites W2593832103 @default.
- W4362507330 cites W2605177874 @default.
- W4362507330 cites W2742732223 @default.
- W4362507330 cites W2750931399 @default.
- W4362507330 cites W2767222135 @default.
- W4362507330 cites W2787639678 @default.