title: The essential genome of a bacterium.
abstract: Caulobacter crescentus is a model organism for the integrated circuitry that runs a bacterial cell cycle. Full discovery of its essential genome, including non-coding, regulatory and coding elements, is a prerequisite for understanding the complete regulatory network of a bacterial cell. Using hyper-saturated transposon mutagenesis coupled with high-throughput sequencing, we determined the essential Caulobacter genome at 8 bp resolution, including 1012 essential genome features: 480 ORFs, 402 regulatory sequences and 130 non-coding elements, including 90 intergenic segments of unknown function. The essential transcriptional circuitry for growth on rich media includes 10 transcription factors, 2 RNA polymerase sigma factors and 1 anti-sigma factor. We identified all essential promoter elements for the cell cycle-regulated genes. The essential elements are preferentially positioned near the origin and terminus of the chromosome. The high-resolution strategy used here is applicable to high-throughput, full genome essentiality studies and large-scale genetic perturbation experiments in a broad class of bacterial species.
authors: Department of Developmental Biology, Stanford University, Stanford, CA, USA.
authors: Beat
authors: B
authors: Christen
authors: Eduardo
authors: E
authors: Abeliuk
authors: John M
authors: JM
authors: Collier
authors: Virginia S
authors: VS
authors: Kalogeraki
authors: Ben
authors: B
authors: Passarelli
authors: John A
authors: JA
authors: Coller
authors: Michael J
authors: MJ
authors: Fero
authors: Harley H
authors: HH
authors: McAdams
authors: Lucy
authors: L
authors: Shapiro
mesh_terms: D001426:Bacterial Proteins / Q000235:genetics* / Q000378:metabolism; D016935:Caulobacter crescentus / Q000235:genetics / Q000378:metabolism; D002453:Cell Cycle / Q000235:genetics; D002874:Chromosome Mapping / Q000379:methods*; D004251:DNA Transposable Elements; D021901:DNA, Intergenic; D012321:DNA-Directed RNA Polymerases / Q000235:genetics* / Q000378:metabolism; D015964:Gene Expression Regulation, Bacterial; D016680:Genome, Bacterial; D059014:High-Throughput Nucleotide Sequencing; D016254:Mutagenesis, Insertional; D016366:Open Reading Frames; D016133:Polymerase Chain Reaction; D011401:Promoter Regions, Genetic; D014157:Transcription Factors / Q000235:genetics* / Q000378:metabolism; D014158:Transcription, Genetic
chemical_list: D001426:Bacterial Proteins; D004251:DNA Transposable Elements; D021901:DNA, Intergenic; D014157:Transcription Factors; D012321:DNA-Directed RNA Polymerases