Experimental Determination and System Level Analysis of Essential Genes in Escherichia coli MG1655

By S. Gerdes, M. Scholle, J. W. Campbell, G. Balázsi, E. Ravasz, M. Daugherty, A. Somera, Nikos Kyrpides, I. Anderson, Mikhail S. Gelfand and 11 more. Journal of Bacteriology, 2003

777 citations recorded by the source corpus.

Subfields: Genetics, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/3a28aa46fe0fc35c2ba60bb58a1298be9aacad6f

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Citations in the corpus

Comparative genomics, minimal gene-sets and the last universal common ancestor (2003, background): “It is only meaningful when associated with a defined set of environmental condition”
Global organization of metabolic fluxes in the bacterium Escherichia coli (2004, background): “coli K12 MG1655 and its functional organization, we focus on the global features of potentially achievable flux states in this model organism with a fully sequenced and annotated genom”
Genomic-scale prioritization of drug targets: the TDR Targets database (2008, background): “…for Saccharomyces cerevisiae (in the form of genetic lesions 12–14 ) and Caenorhabditis elegans (in the form of RNA interference knockdowns 15 ), and essentiality data on orthologues in bacteria 16 may be relevant especially for bacterial pathogens and endosymbiotic organelles in eukaryotes.”
DEG 10, an update of the database of essential genes that includes both protein-coding genes and noncoding genomic elements (2013, methodology): “Bacteria Acinetobacter baylyi 499 Single-gene knockout Yes (50) Bacillus subtilis 261 2 Single-gene knockout Yes (6,51) Bacteroides thetaiotaomicron 325 INSeq Yes (14) Burkholderia thailandensis 406 Tn-seq Yes (52) Campylobacter jejuni 233 Transposon mutagenesis Yes (53) Caulobacter crescentus 480 5”
Predicting Functionally Informative Mutations in Escherichia coli BamA Using Evolutionary Covariance Analysis (2013, background): “Subtlety is particularly important in the case of bamAD , since these genes are essential (Gerdes et al. 2003; Onufryk et al. 2005; Wu et al. 2005).”
Determination of the Core of a Minimal Bacterial Gene Set (2004, methodology): “…inactivation (45) and with the proposed essential genes for E. coli based on the genome-scale genetic footprinting performed by Gerdes et al. (25), the information found at the PEC (for “Proﬁling E. coli Chromosome”) website (http://www.shigen .nig.ac.jp/ecoli/pec), and the results obtained…”
Identification of a multicomponent complex required for outer membrane biogenesis in Escherichia coli. (2005, background): “However, conflicting reports have appeared regarding the essential nature of the yaeT gene in this organism (Gerdes et al., 2003; b tDartigalongue et al., 2001). sHistorically, attempts to identify factors involved in bthe OM biogenesis in E. coli have been met with limited asuccess due in part to…”
DEG 5.0, a database of essential genes in both prokaryotes and eukaryotes (2008, methodology): “…coli , were collected from literature searches, but in DEG 5.0 these records were replaced by those determined by genome-wide studies using the genetic footprinting technique (11) but DEG 5.0 also has those in humans, mice, worms, fruit ﬂies, zebraﬁsh and the plant Arabidopsis thaliana .”
Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection (2006, background): “coli gene essentiality studies Genetic footprinting”
Programmable repression and activation of bacterial gene expression using an engineered CRISPR-Cas system (2013, background): “We later found that this spacer showed a 12 nt perfect match next to a good PAM in the essential murC gene (43) (Supplementary Figure S3).”