ArticleMolecular systems biology2011
Niche adaptation by expansion and reprogramming of general transcription factors.
Article in Molecular systems biology, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
27 citing papers in PubMed, 44 citations in OpenAlex.
- A critical role of a plant-specific TFIIB-related protein, BRP1, in salicylic acid-mediated immune response.Frontiers in plant science · 2024Article
- A comprehensive spectral assay library to quantify the Halobacterium salinarum NRC-1 proteome by DIA/SWATH-MS.Scientific data · 2023Article
- Evolutionary innovation through transcription factor rewiring in microbes is shaped by levels of transcription factor activity, expression, and existing connectivity.PLoS biology · 2023Article
- MtrA modulates Mycobacterium tuberculosis cell division in host microenvironments to mediate intrinsic resistance and drug tolerance.Cell reports · 2023Article
- Article
- Expansion and Functional Diversification of TFIIB-Like Factors in Plants.International journal of molecular sciences · 2021Review
- Article
- Genomic and phenotypic evolution ofeLife · 2020Article
- Effect of UV irradiation on Sulfolobus acidocaldarius and involvement of the general transcription factor TFB3 in the early UV response.Nucleic acids research · 2018Article
- Massive over-representation of solute-binding proteins (SBPs) from the tripartite tricarboxylate transporter (TTT) family in the genome of the α-proteobacterium Rhodoplanes sp. Z2-YC6860.Microbial genomics · 2018Article
- Extreme Deviations from Expected Evolutionary Rates in Archaeal Protein Families.Genome biology and evolution · 2017Article
- Mechanism for microbial population collapse in a fluctuating resource environment.Molecular systems biology · 2017Article
- Transcription Regulation in Archaea.Journal of bacteriology · 2016Review
- Haloarchaea and the formation of gas vesicles.Life (Basel, Switzerland) · 2015Review
- Genomic and proteomic characterization of "Candidatus Nitrosopelagicus brevis": an ammonia-oxidizing archaeon from the open ocean.Proceedings of the National Academy of Sciences of the United States of America · 2015Article
- Sense overlapping transcripts in IS1341-type transposase genes are functional non-coding RNAs in archaea.RNA biology · 2015Article
- Evolution of context dependent regulation by expansion of feast/famine regulatory proteins.BMC systems biology · 2014Article
- Phylogenetically driven sequencing of extremely halophilic archaea reveals strategies for static and dynamic osmo-response.PLoS genetics · 2014Article
- An evolutionarily conserved RNase-based mechanism for repression of transcriptional positive autoregulation.Molecular microbiology · 2014Article
- Model organisms retain an "ecological memory" of complex ecologically relevant environmental variation.Applied and environmental microbiology · 2014Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
8 authors at 1 institution in 1 country.
Funding
Abstract
Numerous lineage-specific expansions of the transcription factor B (TFB) family in archaea suggests an important role for expanded TFBs in encoding environment-specific gene regulatory programs. Given the characteristics of hypersaline lakes, the unusually large numbers of TFBs in halophilic archaea further suggests that they might be especially important in rapid adaptation to the challenges of a dynamically changing environment. Motivated by these observations, we have investigated the implications of TFB expansions by correlating sequence variations, regulation, and physical interactions of all seven TFBs in Halobacterium salinarum NRC-1 to their fitness landscapes, functional hierarchies, and genetic interactions across 2488 experiments covering combinatorial variations in salt, pH, temperature, and Cu stress. This systems analysis has revealed an elegant scheme in which completely novel fitness landscapes are generated by gene conversion events that introduce subtle changes to the regulation or physical interactions of duplicated TFBs. Based on these insights, we have introduced a synthetically redesigned TFB and altered the regulation of existing TFBs to illustrate how archaea can rapidly generate novel phenotypes by simply reprogramming their TFB regulatory network.
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Registered trials
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.