ArticlePLoS biology2008
The evolution of combinatorial gene regulation in fungi.
Article in PLoS biology, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 158 papers.
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Who cites it
158 citing papers in PubMed, 230 citations in OpenAlex.
- Mitochondrial retrograde control of transcription evolves with respiratory stress, metabolic adaptation, and virulence in budding yeasts.Molecular biology and evolution · 2026Article
- Divergence in a eukaryotic transcription factor's co-TF dependence involves multiple intrinsically disordered regions.Nature communications · 2025Article
- Divergence in a Eukaryotic Transcription Factor's co-TF Dependence Involves Multiple Intrinsically Disordered Regions.bioRxiv : the preprint server for biology · 2025Article
- Protein moonlighting by a target gene dominates phenotypic divergence of the Sef1 transcriptional regulatory network in yeasts.Nucleic acids research · 2024Article
- Con7 is a key transcription regulator for conidiogenesis in the plant pathogenic fungusmSphere · 2024Article
- Gene loss and cis-regulatory novelty shaped core histone gene evolution in the apiculate yeast Hanseniaspora uvarum.Genetics · 2024Article
- Transcriptional Divergence Underpinning Sexual Development in the Fungal Class Sordariomycetes.mBio · 2022Article
- Enabling Studies of Genome-Scale Regulatory Network Evolution in Large Phylogenies with MRTLE.Methods in molecular biology (Clifton, N.J.) · 2022Article
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- Asexual reproduction and vegetative growth ofEcology and evolution · 2021Article
- The master regulator MAT1-1-1 of fungal mating binds to its targets via a conserved motif in the human pathogen Aspergillus fumigatus.G3 (Bethesda, Md.) · 2021Article
- Transcriptional Control of Hypoxic Hyphal Growth in the Fungal PathogenFrontiers in cellular and infection microbiology · 2021Article
- Review
- Expandable and reversible copy number amplification drives rapid adaptation to antifungal drugs.eLife · 2020Article
- Functional Conservation of Divergent p63-BoundFrontiers in genetics · 2020Article
- Protein-Protein Interactions inFrontiers in microbiology · 2019Review
- Diversification of DNA binding specificities enabled SREBP transcription regulators to expand the repertoire of cellular functions that they govern in fungi.PLoS genetics · 2018Article
- Systematic gene overexpression in Candida albicans identifies a regulator of early adaptation to the mammalian gut.Cellular microbiology · 2018Article
- Intrinsic cooperativity potentiates paralleleLife · 2018Article
- Patterns of Conservation and Diversification in the Fungal Polarization Network.Genome biology and evolution · 2018Article
98 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
It is widely suspected that gene regulatory networks are highly plastic. The rapid turnover of transcription factor binding sites has been predicted on theoretical grounds and has been experimentally demonstrated in closely related species. We combined experimental approaches with comparative genomics to focus on the role of combinatorial control in the evolution of a large transcriptional circuit in the fungal lineage. Our study centers on Mcm1, a transcriptional regulator that, in combination with five cofactors, binds roughly 4% of the genes in Saccharomyces cerevisiae and regulates processes ranging from the cell-cycle to mating. In Kluyveromyces lactis and Candida albicans, two other hemiascomycetes, we find that the Mcm1 combinatorial circuits are substantially different. This massive rewiring of the Mcm1 circuitry has involved both substantial gain and loss of targets in ancient combinatorial circuits as well as the formation of new combinatorial interactions. We have dissected the gains and losses on the global level into subsets of functionally and temporally related changes. One particularly dramatic change is the acquisition of Mcm1 binding sites in close proximity to Rap1 binding sites at 70 ribosomal protein genes in the K. lactis lineage. Another intriguing and very recent gain occurs in the C. albicans lineage, where Mcm1 is found to bind in combination with the regulator Wor1 at many genes that function in processes associated with adaptation to the human host, including the white-opaque epigenetic switch. The large turnover of Mcm1 binding sites and the evolution of new Mcm1-cofactor interactions illuminate in sharp detail the rapid evolution of combinatorial transcription networks.
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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.