Strain identifier

BacDive ID: 7282

Type strain: Yes

Species: Agromyces bauzanensis

Strain Designation: BZ41

Strain history: CIP <- 2010, R. Margesin, Innsbruck Univ., Innsbruck, Austria: strain BZ41

NCBI tax ID(s): 1308924 (species)

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General

@ref: 16171

BacDive-ID: 7282

DSM-Number: 22275

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-positive, rod-shaped

description: Agromyces bauzanensis BZ41 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from hydrocarbon-contaminated soil.

NCBI tax id

  • NCBI tax id: 1308924
  • Matching level: species

strain history

@refhistory
406502010, R. Margesin, Innsbruck Univ., Innsbruck, Austria: strain BZ41
16171<- R. Margesin, Inst. Microbiology, Univ. Innsbruck, Austria; BZ41
67770CGMCC 1.8984 <-- R. Margesin BZ41.
122028CIP <- 2010, R. Margesin, Innsbruck Univ., Innsbruck, Austria: strain BZ41

doi: 10.13145/bacdive7282.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micrococcales
  • family: Microbacteriaceae
  • genus: Agromyces
  • species: Agromyces bauzanensis
  • full scientific name: Agromyces bauzanensis Zhang et al. 2010

@ref: 16171

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Microbacteriaceae

genus: Agromyces

species: Agromyces bauzanensis

full scientific name: Agromyces bauzanensis Zhang et al. 2010

strain designation: BZ41

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell shapemotilityconfidence
29622positive0.3-0.5 µmrod-shapedno
69480no92.384
69480positive100
122028negativerod-shapedno

pigmentation

  • @ref: 29622
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
16171R2A MEDIUM (DSMZ Medium 830)yeshttps://mediadive.dsmz.de/medium/830Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
40650MEDIUM 566- Reasoner's 2A agar for Flavobacterium micromatiyesDistilled water make up to (1000.000 ml);R2A agar (18.200 g)
122028CIP Medium 566yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=566

culture temp

@refgrowthtypetemperaturerange
16171positivegrowth28mesophilic
29622positivegrowth25-37mesophilic
29622positiveoptimum25-30mesophilic
40650positivegrowth25mesophilic
67770positivegrowth28mesophilic

culture pH

@refabilitytypepH
29622positivegrowth07-08
29622positiveoptimum07-08

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
29622aerobe
122028obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.999

halophily

@refsaltgrowthtested relationconcentration
29622NaClpositivegrowth0-2 %
29622NaClpositiveoptimum0-2 %

murein

  • @ref: 16171
  • murein short key: B07
  • type: B2gamma {Gly} [L-Dab] D-Glu-D-Dab

observation

@refobservation
29622aggregates in chains
67770quinones: MK-12, MK-11, MK-13

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
29622581435-dehydro-D-gluconate+carbon source
2962217057cellobiose+carbon source
2962228260galactose+carbon source
2962217234glucose+carbon source
2962217754glycerol+carbon source
2962228087glycogen+carbon source
2962217306maltose+carbon source
2962237684mannose+carbon source
2962226546rhamnose+carbon source
2962217814salicin+carbon source
296224853esculin+hydrolysis
12202817632nitrate-reduction
12202816301nitrite-reduction

metabolite production

  • @ref: 122028
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
29622catalase+1.11.1.6
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase+3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase-3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase+3.4.11.3
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase-3.1.3.1
122028oxidase-
122028catalase+1.11.1.6
122028urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
122028--++-+-+---+---+----

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
16171hydrocarbon-contaminated soilSouth Tyrol, BozenItalyITAEurope
67770Hydrocarbon-contaminated soilBozen, South TyrolItalyITAEurope
122028Environment, SoilTyrolItalyITAEurope2008

isolation source categories

Cat1Cat2Cat3
#Engineered#Contamination
#Environmental#Terrestrial#Soil

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
161711Risk group (German classification)
1220281Risk group (French classification)

Sequence information

16S sequences

  • @ref: 16171
  • description: Agromyces sp. BZ41 16S ribosomal RNA gene, partial sequence
  • accession: FJ972171
  • length: 1528
  • database: ena
  • NCBI tax ID: 1308924

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Agromyces bauzanensis CGMCC 1.8984GCA_014645655contigncbi1308924
66792Agromyces bauzanensis strain CGMCC 1.89841308924.3wgspatric1308924

GC content

@refGC-contentmethod
1617169.7thermal denaturation, midpoint method (Tm)
2962269.7

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno91.169yes
gram-positiveyes92.743yes
anaerobicno99.571yes
halophileno92.467no
spore-formingno92.554no
thermophileno99.151no
glucose-utilyes81.973no
aerobicyes91.975yes
flagellatedno98.079yes
glucose-fermentno90.06no

External links

@ref: 16171

culture collection no.: DSM 22275, CGMCC 1.8984, JCM 17735, CIP 110128

straininfo link

  • @ref: 76733
  • straininfo: 371004

literature

  • topic: Phylogeny
  • Pubmed-ID: 19933590
  • title: Agromyces bauzanensis sp. nov., isolated from soil.
  • authors: Zhang DC, Schumann P, Liu HC, Xin YH, Zhou YG, Schinner F, Margesin R
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.017186-0
  • year: 2009
  • mesh: Actinomycetales/chemistry/*classification/genetics/*isolation & purification, Aerobiosis, Amino Acids/analysis, Bacterial Typing Techniques, Base Composition, Carbohydrates/analysis, Cell Wall/chemistry, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Molecular Sequence Data, Peptidoglycan/analysis, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
16171Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22275)https://www.dsmz.de/collection/catalogue/details/culture/DSM-22275
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
29622Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2601228776041
40650Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7952
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68382Automatically annotated from API zym
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
76733Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID371004.1StrainInfo: A central database for resolving microbial strain identifiers
122028Curators of the CIPCollection of Institut Pasteur (CIP 110128)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110128