ArticleProceedings of the National Academy of Sciences of the United States of America2013
Coupling mutagenesis and parallel deep sequencing to probe essential residues in a genome or gene.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers.
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Who cites it
34 citing papers in PubMed, 46 citations in OpenAlex.
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- Scanning the horizon: deep mutational scanning approaches in virology.Journal of virology · 2026Review
- Functional interplay between (p)ppGpp and RNAP in Acinetobacter baumannii.PLoS pathogens · 2025Article
- Systematic, high-throughput characterization of bacteriophage gene essentiality on diverse hosts.Cell host & microbe · 2025Article
- Point mutations in functionally diverse genes are associated with increased natural DNA transformation in multidrug resistant Streptococcus pneumoniae.Nucleic acids research · 2025Article
- A long-context language model for deciphering and generating bacteriophage genomes.Nature communications · 2024Article
- DdmABC-dependent death triggered by viral palindromic DNA sequences.Cell reports · 2024Article
- Delving in folate metabolism in the parasite Leishmania major through a chemogenomic screen and methotrexate selection.PLoS neglected tropical diseases · 2023Article
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- The bacterial tyrosine kinase system CpsBCD governs the length of capsule polymers.Proceedings of the National Academy of Sciences of the United States of America · 2021Article
- HIV-1 capsid variability: viral exploitation and evasion of capsid-binding molecules.Retrovirology · 2021Review
- Inferring Protein Sequence-Function Relationships with Large-Scale Positive-Unlabeled Learning.Cell systems · 2021Article
- Recent Advances in Carbon and Nitrogen Metabolism in C3 Plants.International journal of molecular sciences · 2020Review
- Bacterial lyso-form lipoproteins are synthesized via an intramolecular acyl chain migration.The Journal of biological chemistry · 2020Article
- Bacterial genetics and molecular pathogenesis in the age of high throughput DNA sequencing.Current opinion in microbiology · 2020Review
- Coupling chemical mutagenesis to next generation sequencing for the identification of drug resistance mutations in Leishmania.Nature communications · 2019Article
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- Gain- and Loss-of-Function Screens Coupled to Next-Generation Sequencing for Antibiotic Mode of Action and Resistance Studies inAntimicrobial agents and chemotherapy · 2019Article
- Structure and mutagenic analysis of the lipid II flippase MurJ fromProceedings of the National Academy of Sciences of the United States of America · 2018Article
Corrections and comments
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Authors and funding
3 authors at 2 institutions in 2 countries.
Funding
Abstract
The sequence of a protein determines its function by influencing its folding, structure, and activity. Similarly, the most conserved residues of orthologous and paralogous proteins likely define those most important. The detection of important or essential residues is not always apparent via sequence alignments because these are limited by the depth of any given gene's phylogeny, as well as specificities that relate to each protein's unique biological origin. Thus, there is a need for robust and comprehensive ways of evaluating the importance of specific amino acid residues of proteins of known or unknown function. Here we describe an approach called Mut-seq, which allows the identification of virtually all of the essential residues present in a whole genome through the application of limited chemical mutagenesis, selection for function, and deep parallel genomic sequencing. Here we have applied this method to T7 bacteriophage and T7-like virus JSF7 of Vibrio cholerae.
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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.