Strain identifier

BacDive ID: 11865

Type strain: Yes

Species: Aquamicrobium lusatiense

Strain Designation: S1

Strain history: CIP <- 2000, U. Lechner, Martin Luther Univ., Halle, Germany: strain S1

NCBI tax ID(s): 89772 (species)

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

@ref: 4200

BacDive-ID: 11865

DSM-Number: 11099

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

description: Aquamicrobium lusatiense S1 is an obligate aerobe, mesophilic, Gram-negative bacterium that was isolated from activated sludge.

NCBI tax id

  • NCBI tax id: 89772
  • Matching level: species

strain history

@refhistory
4200<- U. Lechner; S1
120678CIP <- 2000, U. Lechner, Martin Luther Univ., Halle, Germany: strain S1

doi: 10.13145/bacdive11865.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Hyphomicrobiales
  • family: Phyllobacteriaceae
  • genus: Aquamicrobium
  • species: Aquamicrobium lusatiense
  • full scientific name: Aquamicrobium lusatiense (Fritsche et al. 1999) Kämpfer et al. 2009
  • synonyms

    @refsynonym
    20215Defluvibacter lusatiensis
    20215Defluvibacter lusatiae

@ref: 4200

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Phyllobacteriaceae

genus: Aquamicrobium

species: Aquamicrobium lusatiense

full scientific name: Aquamicrobium lusatiense (Fritsche et al. 1999) Kämpfer et al. 2009

strain designation: S1

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480negative99.941
120678negativerod-shapedyes

pigmentation

  • @ref: 120678
  • production: no
  • name: Pyocyanin

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
4200MINERAL 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 (NH4)2SO4 0.5 g/l MgCl2 x 6 H2O 0.1 g/l None 0.05 g/l Ca(NO3)2 x 4 H2O 0.05 g/l Yeast extract 0.05 g/l Na2-EDTA 0.0005 g/l H3BO3 0.0003 g/l CoCl2 x 6 H2O 0.0002 g/l FeSO4 x 7 H2O 0.0002 g/l ZnSO4 x 7 H2O 0.0001 g/l Na2MoO4 x 2 H2O 3e-05 g/l MnCl2 x 4 H2O 3e-05 g/l NiCl2 x 6 H2O 2e-05 g/l CuCl2 x 2 H2O 1e-05 g/l Distilled water
4200CASO 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
40260MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
120678CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
4200positivegrowth30mesophilic
40260positivegrowth30mesophilic
120678positivegrowth25-41
120678nogrowth5psychrophilic
120678nogrowth10psychrophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 120678
  • oxygen tolerance: obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.97

halophily

@refsaltgrowthtested relationconcentration
120678NaClpositivegrowth0-4 %
120678NaClnogrowth6 %
120678NaClnogrowth8 %
120678NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836925115malate+assimilation
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836924265gluconate+assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine+assimilation
6836916899D-mannitol-assimilation
6836916024D-mannose+assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose+assimilation
683695291gelatin-hydrolysis
683694853esculin-hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction
1206784853esculin-hydrolysis
12067817632nitrate-reduction
12067816301nitrite-reduction
12067817632nitrate-respiration

antibiotic resistance

  • @ref: 120678
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
12067835581indoleno

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
68369cytochrome oxidase+1.9.3.1
68369gelatinase-
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
120678oxidase+
120678beta-galactosidase-3.2.1.23
120678alcohol dehydrogenase-1.1.1.1
120678gelatinase-
120678amylase-
120678DNase-
120678caseinase-3.4.21.50
120678catalase+1.11.1.6
120678tween esterase-
120678lecithinase-
120678lipase-
120678lysine decarboxylase-4.1.1.18
120678ornithine decarboxylase-4.1.1.17
120678protease-
120678tryptophan deaminase-
120678urease-3.5.1.5

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
4200--------+-+-+-+--+--+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
120678----------------------------------------------------------------------------------------+----------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
4200activated sludgeSchwarzheideGermanyDEUEurope
120678Environment, Activated sludge, industrial waste water treatment plantGermanyDEUEurope1988

isolation source categories

  • Cat1: #Engineered
  • Cat2: #Waste
  • Cat3: #Activated sludge

taxonmaps

  • @ref: 69479
  • File name: preview.99_31812.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5;96_3245;97_3983;98_23615;99_31812&stattab=map
  • Last taxonomy: Aquamicrobium lusatiense subclade
  • 16S sequence: AJ132378
  • Sequence Identity:
  • Total samples: 2524
  • soil counts: 479
  • aquatic counts: 765
  • animal counts: 1097
  • plant counts: 183

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
42001Risk group (German classification)
1206781Risk group (French classification)

Sequence information

16S sequences

  • @ref: 4200
  • description: Defluvibacter lusatiae 16S rRNA gene, partial, strain DSM11099T
  • accession: AJ132378
  • length: 1409
  • database: ena
  • NCBI tax ID: 89772

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Aquamicrobium lusatiense DSM 11099GCA_014201615scaffoldncbi89772
66792Aquamicrobium lusatiense strain DSM 1109989772.3wgspatric89772
66792Aquamicrobium lusatiense DSM 110992861229971draftimg89772

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno80.687no
gram-positiveno97.518no
anaerobicno97.877no
aerobicyes94.231no
halophileno85.726no
spore-formingno95.181no
glucose-utilyes79.115no
thermophileno96.68yes
motileyes74.761no
glucose-fermentno91.753yes

External links

@ref: 4200

culture collection no.: DSM 11099, CIP 106844

straininfo link

  • @ref: 81082
  • straininfo: 49030

literature

  • topic: Phylogeny
  • Pubmed-ID: 19622662
  • title: Transfer of Defluvibacter lusatiensis to the genus Aquamicrobium as Aquamicrobium lusatiense comb. nov. and description of Aquamicrobium aerolatum sp. nov.
  • authors: Kampfer P, Martin E, Lodders N, Jackel U
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.008730-0
  • year: 2009
  • mesh: Alphaproteobacteria/*classification/genetics/isolation & purification/metabolism, Animals, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Ducks, Fatty Acids/chemistry/metabolism, Feces/*microbiology, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics
  • topic2: Metabolism

Reference

@idauthorscataloguedoi/urltitle
4200Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 11099)https://www.dsmz.de/collection/catalogue/details/culture/DSM-11099
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
40260Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/19019
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)
68369Automatically annotated from API 20NE
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
81082Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID49030.1StrainInfo: A central database for resolving microbial strain identifiers
120678Curators of the CIPCollection of Institut Pasteur (CIP 106844)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106844