Strain identifier

BacDive ID: 17926

Type strain: Yes

Species: Aquabacterium commune

Strain Designation: B8

Strain history: CIP <- 2001, W. Manz, Technische Univ. Berlin, Berlin, Germany: strain B8 <- S. Kalmbach

NCBI tax ID(s): 70586 (species)

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General

@ref: 4533

BacDive-ID: 17926

DSM-Number: 11901

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, motile

description: Aquabacterium commune B8 is an aerobe, mesophilic, motile bacterium that was isolated from biofilm in a drinking water pipe.

NCBI tax id

  • NCBI tax id: 70586
  • Matching level: species

strain history

@refhistory
4533<- S. Kalmbach; B8
118712CIP <- 2001, W. Manz, Technische Univ. Berlin, Berlin, Germany: strain B8 <- S. Kalmbach

doi: 10.13145/bacdive17926.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Burkholderiales
  • family: Comamonadaceae
  • genus: Aquabacterium
  • species: Aquabacterium commune
  • full scientific name: Aquabacterium commune Kalmbach et al. 1999

@ref: 4533

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Comamonadaceae

genus: Aquabacterium

species: Aquabacterium commune

full scientific name: Aquabacterium commune Kalmbach et al. 1999

strain designation: B8

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes96.424
6948099.999negative
118712yesnegativerod-shaped

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
4533REACTIVATION WITH LIQUID MEDIUM 464 (DSMZ Medium 464a)yeshttps://mediadive.dsmz.de/medium/464aName: REACTIVATION WITH LIQUID MEDIUM 464 (DSMZ Medium 464a) Composition: Agar 15.0 g/l Tryptone 5.0 g/l Yeast extract 2.5 g/l Dextrose 1.0 g/l Distilled water
4533MEDIUM R2A MODIFIED (DSMZ Medium 830a)yeshttps://mediadive.dsmz.de/medium/830aName: MEDIUM R2A MODIFIED (DSMZ Medium 830a) Composition: Agar 15.0 g/l Yeast extract 0.5 g/l Proteose peptone 0.5 g/l Casamino acids 0.5 g/l Glucose 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Tween 80 Distilled water
39628MEDIUM 372 - for AquabacteriumyesDistilled water make up to (1000.000 ml);Magnesium sulphate heptahydrate (0.050 g);Agar (15.000 g);Glucose (0.500 g);Yeast extract (0.500 g);Pyruvic acid (0.300g);Tween 80 (1.000 ml);Casamino acids (0.500 g);Proteose Peptone N°3 (0.500 g);Di Potassium mon
118712CIP Medium 372yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=372

culture temp

@refgrowthtypetemperaturerange
4533positivegrowth28mesophilic
39628positivegrowth30mesophilic
58081positivegrowth30mesophilic
118712positivegrowth15-37
118712nogrowth5psychrophilic
118712nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 58081
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.999

halophily

@refsaltgrowthtested relationconcentration
118712NaClpositivegrowth0 %
118712NaClnogrowth2 %
118712NaClnogrowth4 %
118712NaClnogrowth6 %
118712NaClnogrowth8 %
118712NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1187124853esculin-hydrolysis
11871217632nitrate-reduction
11871216301nitrite-reduction
11871217234glucose-degradation

antibiotic resistance

  • @ref: 118712
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 118712
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11871215688acetoin-
11871217234glucose-

enzymes

@refvalueactivityec
118712oxidase+
118712beta-galactosidase-3.2.1.23
118712alcohol dehydrogenase-1.1.1.1
118712gelatinase-
118712catalase-1.11.1.6
118712gamma-glutamyltransferase-2.3.2.2
118712lysine decarboxylase-4.1.1.18
118712ornithine decarboxylase-4.1.1.17
118712phenylalanine ammonia-lyase-4.3.1.24
118712tryptophan deaminase-
118712urease-3.5.1.5
68382alkaline phosphatase-3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase-3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
118712--++-+----++--------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
118712-+----------+-------------------------------------------------------------++++-------------+-------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling dateisolation date
4533biofilm in a drinking water pipeBerlinGermanyDEUEurope
58081Drinking water biofilmsGermanyDEUEurope1996
118712Environment, Drinking water biofilmsGermanyDEUEurope1996

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Freshwater
#Environmental#Biofilm

taxonmaps

  • @ref: 69479
  • File name: preview.99_13950.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_1;96_2647;97_3245;98_4079;99_13950&stattab=map
  • Last taxonomy: Aquabacterium commune
  • 16S sequence: AF035054
  • Sequence Identity:
  • Total samples: 29
  • aquatic counts: 23
  • animal counts: 6

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
45331Risk group (German classification)
1187121Risk group (French classification)

Sequence information

16S sequences

  • @ref: 4533
  • description: Beta proteobacterium B8 16S ribosomal RNA gene, partial sequence
  • accession: AF035054
  • length: 1416
  • database: ena
  • NCBI tax ID: 70586

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Aquabacterium commune DSM 11901GCA_004362855scaffoldncbi70586
66792Aquabacterium commune strain DSM 1190170586.3wgspatric70586
66792Aquabacterium commune DSM 119012795385467draftimg70586

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes87.14no
flagellatedyes67.111no
gram-positiveno97.999no
anaerobicno97.485yes
aerobicyes82.352yes
halophileno97.417no
spore-formingno94.808no
glucose-utilno64.846no
thermophileno98.878yes
glucose-fermentno90.722no

External links

@ref: 4533

culture collection no.: DSM 11901, CCM 4957, CCUG 48318, CIP 106984, ATCC BAA 209

straininfo link

  • @ref: 86915
  • straininfo: 49205

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny10319501Aquabacterium gen. nov., with description of Aquabacterium citratiphilum sp. nov., Aquabacterium parvum sp. nov. and Aquabacterium commune sp. nov., three in situ dominant bacterial species from the Berlin drinking water system.Kalmbach S, Manz W, Wecke J, Szewzyk UInt J Syst Bacteriol10.1099/00207713-49-2-7691999Bacterial Proteins/chemistry, Bacterial Typing Techniques, Base Composition, Berlin, *Biofilms, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Genes, rRNA, Gram-Negative Bacteria/*classification/genetics/isolation & purification/physiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, *Water Microbiology, *Water SupplyGenetics
Phylogeny34582329Aquabacterium soli sp. nov., a novel bacterium isolated from soil under the long-term application of bifenthrin.Sun L, Chen W, Huang K, Lyu W, Gao XInt J Syst Evol Microbiol10.1099/ijsem.0.0047682021Bacterial Typing Techniques, Base Composition, Burkholderiales, China, DNA, Bacterial/genetics, *Fatty Acids/chemistry, Phospholipids/analysis, Phylogeny, Pyrethrins, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *SoilTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
4533Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 11901)https://www.dsmz.de/collection/catalogue/details/culture/DSM-11901
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
39628Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/19174
58081Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 48318)https://www.ccug.se/strain?id=48318
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
68382Automatically annotated from API zym
69479João 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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
86915Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID49205.1StrainInfo: A central database for resolving microbial strain identifiers
118712Curators of the CIPCollection of Institut Pasteur (CIP 106984)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106984