Database Authors
Summary Caulobacter vibrioides is an important model organism for studying the regulation of the cell cycle, asymmetric cell division, and cellular differentiation.

Upon division, Caulobacter cells produce two very different daughter cells.One daughter cell is a mobile "swarmer" cell that has a single flagellum at one cell pole that provides swimming motility for chemotaxis. The other daughter cell, called the "stalked" cell, has a tubular stalk structure protruding from one pole that has an adhesive holdfast material on its end, with which the stalked cell can adhere to surfaces. Swarmer cells differentiate into stalked cells after a short period of motility. Chromosome replication and cell division only occurs in the stalked cell stage.

The Caulobacter genus was historically divided into several types, one of which was called Caulobacter crescentus, based on its crescent shape, which is caused by the protein crescentin. However, Caulobacter crescentus strains were eventually re-classidied as Caulobacter vibrioides strains.

Caulobacter vibrioides CB15 was isolated in 1962 from pond water [POINDEXTER64]. Strain Caulobacter vibrioides NA1000, which was derived from CB15 in the 1970s, is preferred by scientisits since it allows physical separation of the stalked and predivisional cells from each other.

The PGDB was created from the annotated genome by a team from Stanford University and SRI International using the PathoLogic component of the Pathway Tools software [Karp11, Karp19] and the MetaCyc reference database [Caspi20]. The PGDB, which integrates the biochemical reaction network and metabolic pathways of the organism with its genome, was improved by limited manual curation, including an overview of transcriptional regulation.

Genome
RepliconTotal GenesProtein GenesRNA GenesPseudogenesSize (bp)NCBI Link
Chromosome3,9683,8779104,042,929RefSeq:CP001340
Genes without a physical map position:1
Ortholog data available?Yes
Database Contents
Genes3,969
Pathways349
Enzymatic Reactions1,540
Transport Reactions83
Polypeptides3,880
Protein Complexes46
Enzymes1,083
Transporters248
Compounds1,182
Transcription Units2,826
tRNAs51
Growth Media1
Transcriptional Regulation111
Protein Features4,737
GO Terms5,396
Gene Essentiality Datasets1
Database Version29.0
Synonyms Caulobacter crescentus NA1000
Taxonomic Lineage cellular organisms
Bacteria <bacteria>
Pseudomonadota
Alphaproteobacteria
Caulobacterales
Caulobacteraceae
Caulobacter
Caulobacter vibrioides
Caulobacter vibrioides NA1000
Genetic Code Number 11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
GOLD0040420
NCBI-Taxonomy565050
Relationship to Oxygenobligate-aerobe
Trophic Leveloligotroph
Temperature Rangemesophile
Biotic Relationshipfree-living


References

Caspi20: Caspi R, Billington R, Keseler IM, Kothari A, Krummenacker M, Midford PE, Ong WK, Paley S, Subhraveti P, Karp PD (2020). "The MetaCyc database of metabolic pathways and enzymes - a 2019 update." Nucleic Acids Res 48(D1);D445-D453. PMID: 31586394

Karp11: Karp PD, Latendresse M, Caspi R (2011). "The pathway tools pathway prediction algorithm." Stand Genomic Sci 5(3);424-9. PMID: 22675592

Karp19: Karp PD, Midford PE, Billington R, Kothari A, Krummenacker M, Latendresse M, Ong WK, Subhraveti P, Caspi R, Fulcher C, Keseler IM, Paley SM (2019). "Pathway Tools version 23.0 update: software for pathway/genome informatics and systems biology." Brief Bioinform. PMID: 31813964

POINDEXTER64: POINDEXTER JS (1964). "BIOLOGICAL PROPERTIES AND CLASSIFICATION OF THE CAULOBACTER GROUP." Bacteriol Rev 28;231-95. PMID: 14220656


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