Strain identifier

BacDive ID: 11877

Type strain: Yes

Species: Pseudaminobacter salicylatoxidans

Strain Designation: BN12, BN12D

Strain history: CIP <- 2001, A. Stolz, Stuttgart Univ., Stuttgart, Germany: strain BN12 <- B. Nörtemann

NCBI tax ID(s): 93369 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 2938

BacDive-ID: 11877

DSM-Number: 6986

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, Gram-negative

description: Pseudaminobacter salicylatoxidans BN12 is an obligate aerobe, mesophilic, Gram-negative bacterium that was isolated from river water.

NCBI tax id

  • NCBI tax id: 93369
  • Matching level: species

strain history

@refhistory
2938<- B. Nörtemann; BN12
122376CIP <- 2001, A. Stolz, Stuttgart Univ., Stuttgart, Germany: strain BN12 <- B. Nörtemann

doi: 10.13145/bacdive11877.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Hyphomicrobiales
  • family: Phyllobacteriaceae
  • genus: Pseudaminobacter
  • species: Pseudaminobacter salicylatoxidans
  • full scientific name: Pseudaminobacter salicylatoxidans Kämpfer et al. 1999

@ref: 2938

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Phyllobacteriaceae

genus: Pseudaminobacter

species: Pseudaminobacter salicylatoxidans

full scientific name: Pseudaminobacter salicylatoxidans Kämpfer et al. 1999

strain designation: BN12, BN12D

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480negative99.962
122376negativerod-shapedyes

pigmentation

  • @ref: 122376
  • production: no
  • name: Pyocyanin

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
2938CASO AGAR (MERCK 105458) (DSMZ Medium 220)yeshttps://mediadive.dsmz.de/medium/220Name: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled water
2938MINERAL MEDIUM PH 7.25 (DSMZ Medium 465)yeshttps://mediadive.dsmz.de/medium/465Name: MINERAL MEDIUM PH 7.25 (DSMZ Medium 465; with strain-specific modifications) Composition: Na2HPO4 x 2 H2O 3.5 g/l KH2PO4 1.0 g/l Naphthalene sulfonic acid 0.5 g/l (NH4)2SO4 0.5 g/l Yeast extract 0.1 g/l MgCl2 x 6 H2O 0.1 g/l Ca(NO3)2 x 4 H2O 0.05 g/l Na2-EDTA 0.0005 g/l H3BO3 0.0003 g/l FeSO4 x 7 H2O 0.0002 g/l CoCl2 x 6 H2O 0.0002 g/l ZnSO4 x 7 H2O 0.0001 g/l MnCl2 x 4 H2O 3e-05 g/l Na2MoO4 x 2 H2O 3e-05 g/l NiCl2 x 6 H2O 2e-05 g/l CuCl2 x 2 H2O 1e-05 g/l Distilled water
39625MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
122376CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
2938positivegrowth28mesophilic
39625positivegrowth30mesophilic
122376positivegrowth25-41
122376nogrowth5psychrophilic
122376nogrowth10psychrophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 122376
  • oxygen tolerance: obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.996

halophily

  • @ref: 122376
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12237616947citrate-carbon source
1223764853esculin-hydrolysis
12237617632nitrate-reduction
12237616301nitrite-reduction
12237617632nitrate-respiration

antibiotic resistance

  • @ref: 122376
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 122376
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
122376oxidase+
122376beta-galactosidase-3.2.1.23
122376alcohol dehydrogenase-1.1.1.1
122376gelatinase-
122376amylase-
122376DNase-
122376caseinase-3.4.21.50
122376catalase+1.11.1.6
122376tween esterase-
122376lecithinase-
122376lipase-
122376lysine decarboxylase-4.1.1.18
122376ornithine decarboxylase-4.1.1.17
122376protease-
122376tryptophan deaminase+
122376urease+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
122376-++--+--+-++--------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
122376++--+--------------+-+--+-+----+-+--++--------------------++--++-+-----+-+-+--+--+-+--+-++++++-++++

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
2938river waterElbe riverGermanyDEUEurope
122376Environment, Water, riverGermanyDEUEurope1987

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #River (Creek)

taxonmaps

  • @ref: 69479
  • File name: preview.99_50150.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5;96_220;97_1977;98_36055;99_50150&stattab=map
  • Last taxonomy: Mesorhizobium
  • 16S sequence: AF072542
  • Sequence Identity:
  • Total samples: 456
  • soil counts: 105
  • aquatic counts: 135
  • animal counts: 90
  • plant counts: 126

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
29381Risk group (German classification)
1223761Risk group (French classification)

Sequence information

16S sequences

  • @ref: 20218
  • description: Pseudaminobacter salicylatoxidans 16S ribosomal RNA, partial sequence
  • accession: AF072542
  • length: 1460
  • database: ena
  • NCBI tax ID: 93369

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudaminobacter salicylatoxidans DSM 6986GCA_003148475scaffoldncbi93369
66792Pseudaminobacter salicylatoxidans strain DSM 698693369.5wgspatric93369
66792Pseudaminobacter salicylatoxidans DSM 69862756170245draftimg93369

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno79.031no
gram-positiveno98.3no
anaerobicno98.429no
halophileno82.122no
spore-formingno96.06no
glucose-utilyes90.741no
aerobicyes94.044no
thermophileno95.771yes
motileyes82.668no
glucose-fermentno91.543no

External links

@ref: 2938

culture collection no.: DSM 6986, CIP 106963

straininfo link

  • @ref: 81094
  • straininfo: 48345

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny10319515Description of Pseudaminobacter gen. nov. with two new species, Pseudaminobacter salicylatoxidans sp. nov. and Pseudaminobacter defluvii sp. nov.Kampfer P, Muller C, Mau M, Neef A, Auling G, Busse HJ, Osborn AM, Stolz AInt J Syst Bacteriol10.1099/00207713-49-2-8871999Bacterial Typing Techniques, Base Composition, Biodegradation, Environmental, DNA, Bacterial/analysis/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Genes, rRNA, Gram-Negative Aerobic Bacteria/*classification/cytology/isolation & purification/metabolism, Molecular Sequence Data, Naphthalenesulfonates/*metabolism, Nucleic Acid Hybridization, RNA, Ribosomal, 16S/genetics, Sewage/microbiology, Water MicrobiologyMetabolism
Phylogeny28036252Pseudaminobacter manganicus sp. nov., isolated from sludge of a manganese mine.Li J, Huang J, Liao S, Wang GInt J Syst Evol Microbiol10.1099/ijsem.0.0017652017Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Manganese, *Mining, Nucleic Acid Hybridization, Phospholipids/chemistry, Phyllobacteriaceae/*classification/genetics/isolation & purification, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sewage/*microbiology, Spermidine/analogs & derivatives/chemistry, Ubiquinone/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
2938Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 6986)https://www.dsmz.de/collection/catalogue/details/culture/DSM-6986
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
39625Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/19151
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
81094Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID48345.1StrainInfo: A central database for resolving microbial strain identifiers
122376Curators of the CIPCollection of Institut Pasteur (CIP 106963)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106963