Strain identifier

BacDive ID: 11057

Type strain: Yes

Species: Aeromicrobium marinum

Strain Designation: T2

Strain history: CIP <- 2003, T. Brinkhoff, Oldenburg Univ., Oldenburg, Germany: strain T2

NCBI tax ID(s): 585531 (strain), 219314 (species)

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General

@ref: 5788

BacDive-ID: 11057

DSM-Number: 15272

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

description: Aeromicrobium marinum T2 is an obligate aerobe, Gram-positive bacterium that was isolated from surface water.

NCBI tax id

NCBI tax idMatching level
585531strain
219314species

strain history

@refhistory
5788<- T. Brinkhoff; T2
374182003, T. Brinkhoff, Oldenburg Univ., Oldenburg, Germany: strain T2
67770LMG 21768 <-- T. Brinkhoff T2.
120808CIP <- 2003, T. Brinkhoff, Oldenburg Univ., Oldenburg, Germany: strain T2

doi: 10.13145/bacdive11057.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Propionibacteriales
  • family: Nocardioidaceae
  • genus: Aeromicrobium
  • species: Aeromicrobium marinum
  • full scientific name: Aeromicrobium marinum Bruns et al. 2003

@ref: 5788

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Nocardioidaceae

genus: Aeromicrobium

species: Aeromicrobium marinum

full scientific name: Aeromicrobium marinum Bruns et al. 2003

strain designation: T2

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
120808positiverod-shapedno
69480no95
69480positive92.694

colony morphology

  • @ref: 120808

multimedia

  • @ref: 5788
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_15272.jpg
  • caption: Medium 514 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5788BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)yeshttps://mediadive.dsmz.de/medium/514Name: 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
37418Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
120808CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperature
5788positivegrowth28
37418positivegrowth22
67770positivegrowth28
120808positivegrowth15-30
120808nogrowth10
120808nogrowth37
120808nogrowth41
120808nogrowth45

Physiology and metabolism

oxygen tolerance

  • @ref: 120808
  • oxygen tolerance: obligate aerobe

spore formation

  • @ref: 69481
  • spore formation: no
  • confidence: 100

halophily

@refsaltgrowthtested relationconcentration
120808NaClnogrowth0 %
120808NaClnogrowth2 %
120808NaClnogrowth4 %
120808NaClnogrowth6 %
120808NaClnogrowth8 %
120808NaClnogrowth10 %

observation

  • @ref: 67770
  • observation: quinones: MK-9(H4)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12080816947citrate-carbon source
1208084853esculin-hydrolysis
120808606565hippurate-hydrolysis
12080817632nitrate-reduction
12080816301nitrite-reduction

metabolite production

  • @ref: 120808
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
12080815688acetoin-
12080817234glucose-

enzymes

@refvalueactivityec
120808oxidase-
120808beta-galactosidase-3.2.1.23
120808alcohol dehydrogenase-1.1.1.1
120808gelatinase-
120808amylase-
120808caseinase-3.4.21.50
120808catalase+1.11.1.6
120808tween esterase+
120808gamma-glutamyltransferase-2.3.2.2
120808lecithinase+
120808lipase-
120808lysine decarboxylase-4.1.1.18
120808ornithine decarboxylase-4.1.1.17
120808phenylalanine ammonia-lyase-4.3.1.24
120808tryptophan deaminase-
120808urease-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
120808-+++-+-----+--------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
5788surface waterWadden SeaGermanyDEUEurope
67770Surface water of the German Wadden Sea
120808Environment, Surface waterWadden SeaGermanyDEUEurope1999

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #Surface water

taxonmaps

  • @ref: 69479
  • File name: preview.99_7797.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_142;96_1793;97_2145;98_4103;99_7797&stattab=map
  • Last taxonomy: Aeromicrobium marinum
  • 16S sequence: AY166703
  • Sequence Identity:
  • Total samples: 141
  • soil counts: 101
  • aquatic counts: 2
  • animal counts: 13
  • plant counts: 25

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
57881Risk group (German classification)
1208081Risk group (French classification)

Sequence information

16S sequences

  • @ref: 5788
  • description: Aeromicrobium marinum DSM 15272 strain T2 16S ribosomal RNA gene, partial sequence
  • accession: AY166703
  • length: 1357
  • database: nuccore
  • NCBI tax ID: 585531

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Aeromicrobium marinum DSM 15272GCA_000160775chromosomencbi585531
66792Aeromicrobium marinum DSM 15272585531.4wgspatric585531
66792Aeromicrobium marinum DSM 15272645951844draftimg585531

GC content

@refGC-contentmethod
578870.6
6777070.6high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesno100no
69480gram-positivegram-positivePositive reaction to Gram-stainingyes92.694no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no97.231no
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes84.646yes
69480spore-formingspore-formingAbility to form endo- or exosporesno72.101no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno97yes
69480flagellatedmotile2+Ability to perform flagellated movementno95no

External links

@ref: 5788

culture collection no.: DSM 15272, LMG 21768, JCM 13314, CIP 108216

straininfo link

  • @ref: 80306
  • straininfo: 89322

literature

  • topic: Phylogeny
  • Pubmed-ID: 14657123
  • title: Aeromicrobium marinum sp. nov., an abundant pelagic bacterium isolated from the German Wadden Sea.
  • authors: Bruns A, Philipp H, Cypionka H, Brinkhoff T
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.02735-0
  • year: 2003
  • mesh: DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Germany, Microscopy, Electron, Molecular Sequence Data, Nocardiaceae/*classification/*genetics/growth & development/isolation & purification, Nucleic Acid Hybridization, *Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
5788Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15272)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15272
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
37418Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5814
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
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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
80306Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID89322.1StrainInfo: A central database for resolving microbial strain identifiers
120808Curators of the CIPCollection of Institut Pasteur (CIP 108216)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108216