ArticleProceedings of the National Academy of Sciences of the United States of America2019
Defining the core essential genome of
Article in Proceedings of the National Academy of Sciences of the United States of America, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 136 papers.
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Who cites it
136 citing papers in PubMed, 212 citations in OpenAlex.
- Predicting resistance evolution to guide antibiotic development.Nature reviews. Microbiology · 2026Review
- Distinctive Lacritin Cleavage-Potentiated Bactericidal Alteration of thebioRxiv : the preprint server for biology · 2026Article
- Transposon insertion sequencing of Pseudomonas aeruginosa identifies multiple intersecting pathways essential for extreme colistin resistance.PLoS pathogens · 2026Article
- Comparative essentialome analysis of sixMicrobial genomics · 2026Article
- Applications of transposon-insertion sequencing for understanding bacterial physiology.Microbial genomics · 2026Review
- Intracellular barriers and receptor masking limit success of abioRxiv : the preprint server for biology · 2026Article
- Non-canonical double-stranded DNA break repair in Pseudomonas aeruginosa includes LigD-independent non-homologous end joining.Nucleic acids research · 2026Article
- Integrated analysis of transposon insertion sequencing and pangenome reveals core and lineage-specific essential genes inMicrobial genomics · 2026Article
- Oligonucleotide genetics forbioRxiv : the preprint server for biology · 2026Article
- Comparative analysis of gene importance inmSystems · 2026Article
- Defining thebioRxiv : the preprint server for biology · 2026Article
- Pseudomonas aeruginosa: associated pathogenesis, epidemiology, resistance mechanisms, host response and emerging treatment strategies.Archives of microbiology · 2026Review
- Functional organization and regulatory logic of theApplied and environmental microbiology · 2026Review
- Article
- ConNIS and labeling instability: New statistical methods for improving the detection of essential genes in TraDIS libraries.PLoS computational biology · 2026Article
- Stress testing reveals selective vulnerabilities in protein homeostasis.Cell reports · 2026Article
- Introducing gold-standard essential gene datasets for Pseudomonas aeruginosa to enhance Tn-Seq analyses.PLoS computational biology · 2026Article
- Gempipe: a tool for drafting, curating, and analyzing pan and multi-strain genome-scale metabolic models.mSystems · 2026Article
- Activation of the envelope stress-responsive two-component system AmgRS compensates for depletion of the essential lipoprotein signal peptidase LspA inCurrent research in microbial sciences · 2026Article
- Identification of key targets driving biofilm formation and virtual screening of potential inhibitors inFrontiers in microbiology · 2026Article
76 more citing papers are in PubMed but not listed here.
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Authors and funding
10 authors at 3 institutions in 1 country.
Funding
Abstract
Genomics offered the promise of transforming antibiotic discovery by revealing many new essential genes as good targets, but the results fell short of the promise. While numerous factors contributed to the disappointing yield, one factor was that essential genes for a bacterial species were often defined based on a single or limited number of strains grown under a single or limited number of in vitro laboratory conditions. In fact, the essentiality of a gene can depend on both the genetic background and growth condition. We thus developed a strategy for more rigorously defining the core essential genome of a bacterial species by studying many pathogen strains and growth conditions. We assessed how many strains must be examined to converge on a set of core essential genes for a species. We used transposon insertion sequencing (Tn-Seq) to define essential genes in nine strains of
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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.