Alcanivorax borkumensis SK2 is a mesophilic, Gram-negative, rod-shaped prokaryote that was isolated from seawater sediment sample.
Gram-negative rod-shaped mesophilic genome sequence 16S sequence| @ref 20215 |
|
|
| Domain Bacteria |
| Phylum Pseudomonadota |
| Class Gammaproteobacteria |
| Order Oceanospirillales |
| Family Alcanivoracaceae |
| Genus Alcanivorax |
| Species Alcanivorax borkumensis |
| Full scientific name Alcanivorax borkumensis Yakimov et al. 1998 |
| @ref | Name | Growth | Medium link | Composition | |
|---|---|---|---|---|---|
| 4326 | ALCANIVORAX BORKUMENSIS MEDIUM (DSMZ Medium 809) | Medium recipe at MediaDive | Name: ALCANIVORAX BORKUMENSIS MEDIUM (DSMZ Medium 809) Composition: NaCl 23.0 g/l Sodium pyruvate 10.0 g/l MgCl2 x 2 H2O 6.16 g/l MgSO4 x 7 H2O 5.8 g/l NaNO3 5.0 g/l CaCl2 x 2 H2O 1.47 g/l Na2HPO4 x 7 H2O 0.89 g/l FeSO4 x 7 H2O 0.03 g/l Distilled water | ||
| 4326 | BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) | Medium recipe at MediaDive | Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water | ||
| 4326 | ONR7a MEDIUM (DSMZ Medium 950) | Medium recipe at MediaDive | Name: ONR7a MEDIUM (DSMZ Medium 950) Composition: NaCl 22.79 g/l Agar 15.0 g/l Agarose 12.0 g/l MgCl2 x 6 H2O 11.18 g/l Na2SO4 3.98 g/l CaCl2 x 2 H2O 1.46 g/l TAPSO 1.3 g/l KCl 0.72 g/l NH4Cl 0.27 g/l Na2HPO4 x 7 H2O 0.089 g/l NaBr 0.083 g/l NaHCO3 0.031 g/l H3BO3 0.027 g/l SrCl2 x 6 H2O 0.024 g/l NaF 0.0026 g/l FeCl2 x 4 H2O 0.002 g/l Distilled water | ||
| 37215 | MEDIUM 325 - for Alcanivorax | Distilled water make up to (1000.000 ml);Sodium chloride (2.300 g);Sodium nitrate (5.000 g);Magnesium chloride hexahydrate (6.160 g);Magnesium sulphate heptahydrate(5.800 g);Calcium chloride dihydrate (1.470 g);Agar (15.000 g);Pyruvic acid (10.000 g) | |||
| 116897 | CIP Medium 325 | Medium recipe at CIP |
| @ref | Oxygen tolerance | Confidence | |
|---|---|---|---|
| 125439 | obligate aerobe | 96.5 |
| @ref | Chebi-ID | Metabolite | Utilization activity | Kind of utilization tested | |
|---|---|---|---|---|---|
| 68371 | 27613 ChEBI | amygdalin | - | builds acid from | from API 50CH acid |
| 68371 | 18305 ChEBI | arbutin | - | builds acid from | from API 50CH acid |
| 68371 | 17057 ChEBI | cellobiose | - | builds acid from | from API 50CH acid |
| 68371 | 17108 ChEBI | D-arabinose | - | builds acid from | from API 50CH acid |
| 68371 | 18333 ChEBI | D-arabitol | - | builds acid from | from API 50CH acid |
| 68371 | 15824 ChEBI | D-fructose | - | builds acid from | from API 50CH acid |
| 68371 | 28847 ChEBI | D-fucose | - | builds acid from | from API 50CH acid |
| 68371 | 12936 ChEBI | D-galactose | - | builds acid from | from API 50CH acid |
| 68371 | 17634 ChEBI | D-glucose | - | builds acid from | from API 50CH acid |
| 68371 | 62318 ChEBI | D-lyxose | - | builds acid from | from API 50CH acid |
| 68371 | 16899 ChEBI | D-mannitol | - | builds acid from | from API 50CH acid |
| 68371 | 16024 ChEBI | D-mannose | - | builds acid from | from API 50CH acid |
| 68371 | 16988 ChEBI | D-ribose | - | builds acid from | from API 50CH acid |
| 68371 | 17924 ChEBI | D-sorbitol | - | builds acid from | from API 50CH acid |
| 68371 | 16443 ChEBI | D-tagatose | - | builds acid from | from API 50CH acid |
| 68371 | 65327 ChEBI | D-xylose | - | builds acid from | from API 50CH acid |
| 68371 | 17113 ChEBI | erythritol | - | builds acid from | from API 50CH acid |
| 116897 | 4853 ChEBI | esculin | - | hydrolysis | |
| 68371 | 4853 ChEBI | esculin | - | builds acid from | from API 50CH acid |
| 68371 | 16813 ChEBI | galactitol | - | builds acid from | from API 50CH acid |
| 68371 | 28066 ChEBI | gentiobiose | - | builds acid from | from API 50CH acid |
| 68371 | 24265 ChEBI | gluconate | - | builds acid from | from API 50CH acid |
| 68371 | 17754 ChEBI | glycerol | - | builds acid from | from API 50CH acid |
| 68371 | 28087 ChEBI | glycogen | - | builds acid from | from API 50CH acid |
| 68371 | 15443 ChEBI | inulin | - | builds acid from | from API 50CH acid |
| 68371 | 30849 ChEBI | L-arabinose | - | builds acid from | from API 50CH acid |
| 68371 | 18403 ChEBI | L-arabitol | - | builds acid from | from API 50CH acid |
| 68371 | 18287 ChEBI | L-fucose | - | builds acid from | from API 50CH acid |
| 68371 | 62345 ChEBI | L-rhamnose | - | builds acid from | from API 50CH acid |
| 68371 | 17266 ChEBI | L-sorbose | - | builds acid from | from API 50CH acid |
| 68371 | 65328 ChEBI | L-xylose | - | builds acid from | from API 50CH acid |
| 68371 | 17716 ChEBI | lactose | - | builds acid from | from API 50CH acid |
| 68371 | 17306 ChEBI | maltose | - | builds acid from | from API 50CH acid |
| 68371 | 6731 ChEBI | melezitose | - | builds acid from | from API 50CH acid |
| 68371 | 28053 ChEBI | melibiose | - | builds acid from | from API 50CH acid |
| 68371 | 320061 ChEBI | methyl alpha-D-glucopyranoside | - | builds acid from | from API 50CH acid |
| 68371 | 43943 ChEBI | methyl alpha-D-mannoside | - | builds acid from | from API 50CH acid |
| 68371 | 74863 ChEBI | methyl beta-D-xylopyranoside | - | builds acid from | from API 50CH acid |
| 68371 | 17268 ChEBI | myo-inositol | - | builds acid from | from API 50CH acid |
| 68371 | 59640 ChEBI | N-acetylglucosamine | - | builds acid from | from API 50CH acid |
| 116897 | 17632 ChEBI | nitrate | + | reduction | |
| 116897 | 16301 ChEBI | nitrite | - | reduction | |
| 68371 | Potassium 2-ketogluconate | - | builds acid from | from API 50CH acid | |
| 68371 | Potassium 5-ketogluconate | - | builds acid from | from API 50CH acid | |
| 68371 | 16634 ChEBI | raffinose | - | builds acid from | from API 50CH acid |
| 68371 | 15963 ChEBI | ribitol | - | builds acid from | from API 50CH acid |
| 68371 | 17814 ChEBI | salicin | - | builds acid from | from API 50CH acid |
| 68371 | 28017 ChEBI | starch | - | builds acid from | from API 50CH acid |
| 68371 | 17992 ChEBI | sucrose | - | builds acid from | from API 50CH acid |
| 68371 | 27082 ChEBI | trehalose | - | builds acid from | from API 50CH acid |
| 68371 | 32528 ChEBI | turanose | - | builds acid from | from API 50CH acid |
| 68371 | 17151 ChEBI | xylitol | - | builds acid from | from API 50CH acid |
| @ref | Value | Activity | Ec | |
|---|---|---|---|---|
| 68382 | acid phosphatase | + | 3.1.3.2 | from API zym |
| 116897 | alcohol dehydrogenase | - | 1.1.1.1 | |
| 68382 | alkaline phosphatase | - | 3.1.3.1 | from API zym |
| 68382 | alpha-chymotrypsin | - | 3.4.21.1 | from API zym |
| 68382 | alpha-fucosidase | - | 3.2.1.51 | from API zym |
| 68382 | alpha-galactosidase | - | 3.2.1.22 | from API zym |
| 68382 | alpha-glucosidase | - | 3.2.1.20 | from API zym |
| 68382 | alpha-mannosidase | - | 3.2.1.24 | from API zym |
| 116897 | amylase | - | ||
| 68382 | beta-galactosidase | - | 3.2.1.23 | from API zym |
| 116897 | beta-galactosidase | - | 3.2.1.23 | |
| 68382 | beta-glucosidase | - | 3.2.1.21 | from API zym |
| 68382 | beta-glucuronidase | - | 3.2.1.31 | from API zym |
| 116897 | caseinase | - | 3.4.21.50 | |
| 116897 | catalase | + | 1.11.1.6 | |
| 68382 | cystine arylamidase | + | 3.4.11.3 | from API zym |
| 68382 | esterase (C 4) | - | from API zym | |
| 68382 | esterase lipase (C 8) | + | from API zym | |
| 116897 | gamma-glutamyltransferase | + | 2.3.2.2 | |
| 116897 | gelatinase | - | ||
| 116897 | lecithinase | - | ||
| 68382 | leucine arylamidase | + | 3.4.11.1 | from API zym |
| 116897 | lipase | - | ||
| 68382 | lipase (C 14) | - | from API zym | |
| 116897 | lysine decarboxylase | - | 4.1.1.18 | |
| 68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 | from API zym |
| 68382 | naphthol-AS-BI-phosphohydrolase | + | from API zym | |
| 116897 | ornithine decarboxylase | - | 4.1.1.17 | |
| 116897 | oxidase | + | ||
| 116897 | phenylalanine ammonia-lyase | - | 4.3.1.24 | |
| 116897 | protease | - | ||
| 68382 | trypsin | - | 3.4.21.4 | from API zym |
| 116897 | tryptophan deaminase | - | ||
| 116897 | tween esterase | + | ||
| 116897 | urease | + | 3.5.1.5 | |
| 68382 | valine arylamidase | - | from API zym |
| @ref | ControlQ | GLY | ERY | DARA | LARA | RIB | DXYL | LXYL | ADO | MDX | GAL | GLU | FRU | MNE | SBE | RHA | DUL | INO | MAN | SOR | MDM | MDG | NAG | AMY | ARB | ESC | SAL | CEL | MAL | LAC | MEL | SAC | TRE | INU | MLZ | RAF | AMD | GLYG | XLT | GEN | TUR | LYX | TAG | DFUC | LFUC | DARL | LARL | GNT | 2KG | 5KG | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 116897 | not determinedn.d. | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
Global distribution of 16S sequence Y12579 (>99% sequence identity) for Alcanivorax sp. from Microbeatlas ![]()
| @ref | Description | Assembly level | INSDC accession | BV-BRC accession | IMG accession | NCBI tax ID | Score | |
|---|---|---|---|---|---|---|---|---|
| 66792 | ASM936v1 assembly for Alcanivorax borkumensis SK2 | complete | 393595 | 99.38 |
| @ref | Description | Accession | Length | Database | NCBI tax ID | |
|---|---|---|---|---|---|---|
| 20218 | Alcanivorax borkumensis strain SK2 16S ribosomal RNA gene, partial sequence; internal transcribed spacer 1, complete sequence; tRNA-Ile and tRNA-Ala genes, complete sequence; and 23S ribosomal RNA gene, partial sequence | AF197571 | 584 | 393595 | ||
| 20218 | Alcanivorax borkumensis strain SK2 16S ribosomal RNA gene, partial sequence; tRNA-Ile and tRNA-Ala genes, complete sequence; and 23S ribosomal RNA gene, partial sequence | AF197901 | 1142 | 393595 | ||
| 20218 | Alcanivorax borkumensis strain SK2 16S ribosomal RNA and 23S ribosomal RNA genes, partial sequence | AF197903 | 949 | 393595 | ||
| 20218 | Alcanivorax borkumensis 16S rRNA gene | Y12579 | 1503 | 393595 |
| @ref | Trait | Model | Prediction | Confidence in % | In training data |
|---|---|---|---|---|---|
| 125439 | spore_formation | BacteriaNetⓘ | no | 99.70 | no |
| 125439 | motility | BacteriaNetⓘ | yes | 90.50 | no |
| 125439 | gram_stain | BacteriaNetⓘ | negative | 99.80 | no |
| 125439 | oxygen_tolerance | BacteriaNetⓘ | obligate aerobe | 96.50 | no |
| @ref | Trait | Model | Prediction | Confidence in % | In training data |
|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positiveⓘ | no | 97.50 | no |
| 125438 | anaerobic | anaerobicⓘ | no | 95.37 | no |
| 125438 | aerobic | aerobicⓘ | yes | 78.42 | no |
| 125438 | spore-forming | spore-formingⓘ | no | 94.56 | no |
| 125438 | thermophilic | thermophileⓘ | no | 97.48 | yes |
| 125438 | flagellated | motile2+ⓘ | yes | 54.42 | no |
| Topic | Title | Authors | Journal | DOI | Year | |
|---|---|---|---|---|---|---|
| High-quality physiology of Alcanivorax borkumensis SK2 producing glycolipids enables efficient stirred-tank bioreactor cultivation. | Karmainski T, Dielentheis-Frenken MRE, Lipa MK, Phan ANT, Blank LM, Tiso T. | Front Bioeng Biotechnol | 10.3389/fbioe.2023.1325019 | 2023 | ||
| New Biocalcifying Marine Bacterial Strains Isolated from Calcareous Deposits and Immediate Surroundings. | Vincent J, Colin B, Lanneluc I, Sabot R, Sopena V, Turcry P, Mahieux PY, Refait P, Jeannin M, Sable S. | Microorganisms | 10.3390/microorganisms10010076 | 2021 | ||
| Metabolism | Differential protein expression during growth on linear versus branched alkanes in the obligate marine hydrocarbon-degrading bacterium Alcanivorax borkumensis SK2T. | Gregson BH, Metodieva G, Metodiev MV, McKew BA. | Environ Microbiol | 10.1111/1462-2920.14620 | 2019 | |
| Enzymology | Organic-Solvent-Tolerant Carboxylic Ester Hydrolases for Organic Synthesis. | Bollinger A, Molitor R, Thies S, Koch R, Coscolin C, Ferrer M, Jaeger KE. | Appl Environ Microbiol | 10.1128/aem.00106-20 | 2020 | |
| Reliability of species detection in 16S microbiome analysis: Comparison of five widely used pipelines and recommendations for a more standardized approach. | Hiergeist A, Ruelle J, Emler S, Gessner A. | PLoS One | 10.1371/journal.pone.0280870 | 2023 | ||
| Genetics | Genome sequencing of bacteria: sequencing, de novo assembly and rapid analysis using open source tools. | Kisand V, Lettieri T. | BMC Genomics | 10.1186/1471-2164-14-211 | 2013 | |
| Metabolism | Novel characteristics of succinate coenzyme A (Succinate-CoA) ligases: conversion of malate to malyl-CoA and CoA-thioester formation of succinate analogues in vitro. | Nolte JC, Schurmann M, Schepers CL, Vogel E, Wubbeler JH, Steinbuchel A. | Appl Environ Microbiol | 10.1128/aem.03075-13 | 2014 | |
| Metabolism | Analysis of lipid export in hydrocarbonoclastic bacteria of the genus Alcanivorax: identification of lipid export-negative mutants of Alcanivorax borkumensis SK2 and Alcanivorax jadensis T9. | Manilla-Perez E, Reers C, Baumgart M, Hetzler S, Reichelt R, Malkus U, Kalscheuer R, Waltermann M, Steinbuchel A. | J Bacteriol | 10.1128/jb.00700-09 | 2010 | |
| Enzymology | Isolation and characterization of a mutant of the marine bacterium Alcanivorax borkumensis SK2 defective in lipid biosynthesis. | Manilla-Perez E, Lange AB, Hetzler S, Waltermann M, Kalscheuer R, Steinbuchel A. | Appl Environ Microbiol | 10.1128/aem.02832-09 | 2010 | |
| Metabolism | Mutation in a "tesB-like" hydroxyacyl-coenzyme A-specific thioesterase gene causes hyperproduction of extracellular polyhydroxyalkanoates by Alcanivorax borkumensis SK2. | Sabirova JS, Ferrer M, Lunsdorf H, Wray V, Kalscheuer R, Steinbuchel A, Timmis KN, Golyshin PN. | J Bacteriol | 10.1128/jb.01321-06 | 2006 | |
| Metabolism | Proteomic insights into metabolic adaptations in Alcanivorax borkumensis induced by alkane utilization. | Sabirova JS, Ferrer M, Regenhardt D, Timmis KN, Golyshin PN. | J Bacteriol | 10.1128/jb.00072-06 | 2006 | |
| Metabolism | Analysis of storage lipid accumulation in Alcanivorax borkumensis: Evidence for alternative triacylglycerol biosynthesis routes in bacteria. | Kalscheuer R, Stoveken T, Malkus U, Reichelt R, Golyshin PN, Sabirova JS, Ferrer M, Timmis KN, Steinbuchel A. | J Bacteriol | 10.1128/jb.01292-06 | 2007 | |
| Metabolism | Growth of Pseudomonas chloritidismutans AW-1(T) on n-alkanes with chlorate as electron acceptor. | Mehboob F, Junca H, Schraa G, Stams AJ. | Appl Microbiol Biotechnol | 10.1007/s00253-009-1985-9 | 2009 | |
| Metabolism | Bacterial community dynamics and hydrocarbon degradation during a field-scale evaluation of bioremediation on a mudflat beach contaminated with buried oil. | Roling WF, Milner MG, Jones DM, Fratepietro F, Swannell RP, Daniel F, Head IM. | Appl Environ Microbiol | 10.1128/aem.70.5.2603-2613.2004 | 2004 | |
| Metabolism | Integrated Analysis of Gene Expression, Protein Synthesis, and Epigenetic Modifications in Alcanivorax borkumensis SK2 Under Iron Limitation | Smedile F, Denaro R, Crisafi F, Giosa D, D'Auria G, Ferrer M, Rosselli R, Staege M, Yakimov M, Giuliano L, Reva O. | Environ Microbiol Rep | 2025 | ||
| Metabolism | Microbial Degradation of Plastic in Aqueous Solutions Demonstrated by CO2 Evolution and Quantification. | Rose RS, Richardson KH, Latvanen EJ, Hanson CA, Resmini M, Sanders IA. | Int J Mol Sci | 10.3390/ijms21041176 | 2020 | |
| A new ecology-on-a-chip microfluidic platform to study interactions of microbes with a rising oil droplet. | White AR, Jalali M, Sheng J. | Sci Rep | 10.1038/s41598-019-50153-9 | 2019 | ||
| Metabolism | Anaerobic production of medium-chain fatty alcohols via a beta-reduction pathway. | Mehrer CR, Incha MR, Politz MC, Pfleger BF. | Metab Eng | 10.1016/j.ymben.2018.05.011 | 2018 | |
| Metabolism | Functional screening and in vitro analysis reveal thioesterases with enhanced substrate specificity profiles that improve short-chain fatty acid production in Escherichia coli. | McMahon MD, Prather KL. | Appl Environ Microbiol | 10.1128/aem.03303-13 | 2014 |
| #4326 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 11573 |
| #20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.: List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 ) |
| #20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 ) |
| #37215 | ; Curators of the CIP; |
| #66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) . |
| #68371 | Automatically annotated from API 50CH acid . |
| #68382 | Automatically annotated from API zym . |
| #69479 | João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.: MicrobeAtlas 1.0 beta . |
| #116897 | Collection of Institut Pasteur ; Curators of the CIP; CIP 105606 |
| #125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 ) |
| #125439 | Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 . |
| #126262 | A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 ) |
You found an error in BacDive? Please tell us about it!
Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.
Successfully sent
If you want to cite this particular strain cite the following doi:
https://doi.org/10.13145/bacdive391.20251217.10
When using BacDive for research please cite the following paper
BacDive in 2025: the core database for prokaryotic strain data