Strain identifier

BacDive ID: 13284

Type strain: Yes

Species: Amycolatopsis bartoniae

Strain Designation: SF26

Strain history: <- J. Swezey, NRRL; NRRL B-24846 <- S. Frank

NCBI tax ID(s): 941986 (species)

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General

@ref: 18257

BacDive-ID: 13284

DSM-Number: 45807

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

description: Amycolatopsis bartoniae SF26 is a mesophilic bacterium that was isolated from dry sandy soil.

NCBI tax id

  • NCBI tax id: 941986
  • Matching level: species

strain history

  • @ref: 18257
  • history: <- J. Swezey, NRRL; NRRL B-24846 <- S. Frank

doi: 10.13145/bacdive13284.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Pseudonocardiales
  • family: Pseudonocardiaceae
  • genus: Amycolatopsis
  • species: Amycolatopsis bartoniae
  • full scientific name: Amycolatopsis bartoniae Zucchi et al. 2012

@ref: 18257

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Pseudonocardiaceae

genus: Amycolatopsis

species: Amycolatopsis bartoniae

full scientific name: Amycolatopsis bartoniae Zucchi et al. 2012

strain designation: SF26

type strain: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
18257GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)yeshttps://mediadive.dsmz.de/medium/65Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water
18257BENNETT'S AGAR (DSMZ Medium 548)yeshttps://mediadive.dsmz.de/medium/548Name: BENNETT'S AGAR (DSMZ Medium 548) Composition: Agar 15.0 g/l Glucose 10.0 g/l N-Z amine 2.0 g/l Yeast extract 1.0 g/l Beef extract 1.0 g/l Distilled water

culture temp

  • @ref: 18257
  • growth: positive
  • type: growth
  • temperature: 28
  • range: mesophilic

Physiology and metabolism

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836925115malate+assimilation
6836927689decanoate-assimilation
6836924265gluconate+assimilation
6836959640N-acetylglucosamine+assimilation
6836916024D-mannose+assimilation
6836917634D-glucose+assimilation
683695291gelatin+hydrolysis
683694853esculin+hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction

metabolite production

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

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

enzymes

@refvalueactivityec
68369gelatinase+
68369beta-glucosidase+3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
68382alkaline phosphatase-3.1.3.1
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
68382acid phosphatase-3.1.3.2
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
18257--+/---+---+/--+/-----+++-

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPAC
18257-----+++++/-++/-++/-+-+/-++/-+

Isolation, sampling and environmental information

isolation

  • @ref: 18257
  • sample type: dry sandy soil
  • geographic location: Kings Canyon
  • country: Australia
  • origin.country: AUS
  • continent: Australia and Oceania

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Sandy
#Environmental#Terrestrial#Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_97344.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_13899;97_16937;98_66693;99_97344&stattab=map
  • Last taxonomy: Amycolatopsis
  • 16S sequence: HQ651729
  • Sequence Identity:
  • Total samples: 119
  • soil counts: 97
  • aquatic counts: 7
  • animal counts: 14
  • plant counts: 1

Safety information

risk assessment

  • @ref: 18257
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 18257
  • description: Amycolatopsis bartoniae strain SF26 16S ribosomal RNA gene, partial sequence
  • accession: HQ651729
  • length: 1429
  • database: ena
  • NCBI tax ID: 941986

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Amycolatopsis bartoniae DSM 45807GCA_014191255contigncbi941986
66792Amycolatopsis bartoniae DSM 45807GCA_007713755contigncbi941986
66792Amycolatopsis bartoniae strain DSM 45807941986.4wgspatric941986
66792Amycolatopsis bartoniae strain DSM 45807941986.5wgspatric941986
66792Amycolatopsis bartoniae DSM 458072824178761draftimg941986

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno93.327no
flagellatedno97.868no
gram-positiveyes91.483no
anaerobicno99.249no
halophileno88.48no
spore-formingyes88.229no
glucose-utilyes90.439yes
aerobicyes91.578no
glucose-fermentno89.437yes
thermophileno93.823no

External links

@ref: 18257

culture collection no.: DSM 45807, NCIMB 14706, NRRL B-24846

straininfo link

  • @ref: 82485
  • straininfo: 403278

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny22434348Amycolatopsis bartoniae sp. nov. and Amycolatopsis bullii sp. nov., mesophilic actinomycetes isolated from arid Australian soils.Zucchi TD, Bonda AN, Frank S, Kim BY, Kshetrimayum JD, Goodfellow MAntonie Van Leeuwenhoek10.1007/s10482-012-9716-02012Actinomycetales/*classification/genetics/*isolation & purification, Australia, Bacterial Typing Techniques, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil MicrobiologyGenetics
Phylogeny31851605Amycolatopsis acidicola sp. nov., isolated from peat swamp forest soil.Teo WFA, Srisuk N, Duangmal KInt J Syst Evol Microbiol10.1099/ijsem.0.0039332020Actinobacteria/*classification/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Forests, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Thailand, Vitamin K 2/analogs & derivatives/chemistry, *WetlandsTranscriptome
Phylogeny33128034Amycolatopsis acididurans sp. nov., isolated from peat swamp forest soil in Thailand.Teo WFA, Lipun K, Srisuk N, Duangmal KJ Antibiot (Tokyo)10.1038/s41429-020-00382-22020Amycolatopsis/classification/genetics/*isolation & purification, Base Composition, Fatty Acids/*chemistry, Lipids/*chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Soil, *Soil Microbiology, Thailand, WetlandsEnzymology

Reference

@idauthorscataloguedoi/urltitle
18257Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45807)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45807
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
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
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
82485Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID403278.1StrainInfo: A central database for resolving microbial strain identifiers