ArticleNature2015
Intersecting transcription networks constrain gene regulatory evolution.
Article in Nature, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 44 papers.
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Who cites it
44 citing papers in PubMed.
- The Origin and Early Evolution of Fungi: Challenges, Inferences, and Principles.Annual review of cell and developmental biology · 2026Review
- Signatures of Innovation and Selection in the Extremotolerant Yeast Kluyveromyces marxianus.Genome biology and evolution · 2026Article
- Genomic signatures of innovation and selection in the extremotolerant yeastbioRxiv : the preprint server for biology · 2025Article
- Synthetic Forms Most Beautiful: Engineering Insights into Self-Organization.Physiology (Bethesda, Md.) · 2025Review
- DNA sequence and chromatin differentiate sequence-specific transcription factor binding in the human malaria parasite Plasmodium falciparum.Nucleic acids research · 2024Article
- Prevalence of and gene regulatory constraints on transcriptional adaptation in single cells.Genome biology · 2024Article
- The transcription factor STE12 influences growth on several carbon sources and production of dehydroacetic acid (DHAA) in Trichoderma reesei.Scientific reports · 2024Article
- Prevalence of and gene regulatory constraints on transcriptional adaptation in single cells.bioRxiv : the preprint server for biology · 2023Article
- Evolutionary adaptation to juvenile malnutrition impacts adult metabolism and impairs adult fitness ineLife · 2023Article
- Extending the reach of homology by using successive computational filters to find yeast pheromone genes.Current biology : CB · 2023Article
- Cooperative assembly confers regulatory specificity and long-term genetic circuit stability.Cell · 2023Article
- Evolution of a new form of haploid-specific gene regulation appearing in a limited clade of ascomycete yeast species.Genetics · 2023Article
- Robustness and innovation in synthetic genotype networks.Nature communications · 2023Article
- Phase separation in fungi.Nature microbiology · 2023Review
- Haploinsufficiency of the sex-determining genes atiScience · 2022Article
- What makes Komagataella phaffii non-conventional?FEMS yeast research · 2021Review
- Insights on life cycle and cell identity regulatory circuits for unlocking genetic improvement in Zygosaccharomyces and Kluyveromyces yeasts.FEMS yeast research · 2021Article
- Differences in evolutionary accessibility determine which equally effective regulatory motif evolves to generate pulses.Genetics · 2021Article
- Lineage-specific selection and the evolution of virulence in theProceedings of the National Academy of Sciences of the United States of America · 2021Article
- Crossbreeding of Yeasts Domesticated for Fermentation: Infertility Challenges.International journal of molecular sciences · 2020Review
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4 authors.
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Abstract
Epistasis-the non-additive interactions between different genetic loci-constrains evolutionary pathways, blocking some and permitting others. For biological networks such as transcription circuits, the nature of these constraints and their consequences are largely unknown. Here we describe the evolutionary pathways of a transcription network that controls the response to mating pheromone in yeast. A component of this network, the transcription regulator Ste12, has evolved two different modes of binding to a set of its target genes. In one group of species, Ste12 binds to specific DNA binding sites, while in another lineage it occupies DNA indirectly, relying on a second transcription regulator to recognize DNA. We show, through the construction of various possible evolutionary intermediates, that evolution of the direct mode of DNA binding was not directly accessible to the ancestor. Instead, it was contingent on a lineage-specific change to an overlapping transcription network with a different function, the specification of cell type. These results show that analysing and predicting the evolution of cis-regulatory regions requires an understanding of their positions in overlapping networks, as this placement constrains the available evolutionary pathways.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.