Database Authors
Johannes Zimmermann1, Tobias Goris1, Julian Gebauer, Gabriele Diekert1, Christoph Kaleta2
1Department of Applied and Ecological Microbiology, 2Research Group Medical Systems Biology
Summary Sulfurospirillum multivorans is an organohalide-respiring Epsilonproteobacterium.

This Pathway/Genome Database (PGDB) was created from the annotated genome of Sulfurospirillum multivorans by a team from the Institut of Microbiology at Friedrich Schiller University, Jena, Germany and the Institute of Experimental Medicine at Christan Albrechts University and University Hospital Schleswig-Holstein at Kiel, Germany.

The PGDB was generated 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 and reconstruction of a genome-wide metabolic model.

Genome
RepliconTotal GenesProtein GenesRNA GenesPseudogenesSize (bp)NCBI Link
GEN-EL2089673,2683,2165203,166,386
Ortholog data available?Yes
Database Contents
Genes3,268
Pathways226
Enzymatic Reactions1,056
Transport Reactions75
Polypeptides3,216
Protein Complexes17
Enzymes827
Transporters278
Compounds763
Transcription Units1,584
tRNAs45
Protein Features3,838
Database Version29.0
Taxonomic Lineage cellular organisms
Bacteria <bacteria>
Campylobacterota
Epsilonproteobacteria
Campylobacterales
Sulfurospirillaceae
Sulfurospirillum
Sulfurospirillum multivorans
Genetic Code Number 11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
NCBI-Taxonomy66821

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

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