Strain identifier

BacDive ID: 7613

Type strain: Yes

Species: Glutamicibacter ardleyensis

Strain Designation: An25

Strain history: CIP <- 2006, F. Wang, Res. State Ocean. Admin., Xiamen, China: strain An25

NCBI tax ID(s): 225894 (species)

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

@ref: 6983

BacDive-ID: 7613

DSM-Number: 17432

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

description: Glutamicibacter ardleyensis An25 is an obligate aerobe, mesophilic, Gram-positive bacterium that was isolated from lake sediment.

NCBI tax id

  • NCBI tax id: 225894
  • Matching level: species

strain history

@refhistory
6983<- JCM <- M.Chen An25 <- P.Wang
419082006, F. Wang, Res. State Ocean. Admin., Xiamen, China: strain An25
67770M. Chen An25 <-- P. Wang.
116481CIP <- 2006, F. Wang, Res. State Ocean. Admin., Xiamen, China: strain An25

doi: 10.13145/bacdive7613.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micrococcales
  • family: Micrococcaceae
  • genus: Glutamicibacter
  • species: Glutamicibacter ardleyensis
  • full scientific name: Glutamicibacter ardleyensis (Chen et al. 2005) Busse 2016
  • synonyms

    • @ref: 20215
    • synonym: Arthrobacter ardleyensis

@ref: 6983

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Micrococcaceae

genus: Glutamicibacter

species: Glutamicibacter ardleyensis

full scientific name: Glutamicibacter ardleyensis (Chen et al. 2005) Busse 2016

strain designation: An25

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480positive100
116481positiverod-shapedyes

colony morphology

  • @ref: 116481

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6983TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yeshttps://mediadive.dsmz.de/medium/92Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water
41908MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
116481CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
116481CIP Medium 368yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=368

culture temp

@refgrowthtypetemperaturerange
6983positivegrowth25mesophilic
41908positivegrowth30mesophilic
67770positivegrowth25mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 116481
  • oxygen tolerance: obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.997

observation

  • @ref: 67770
  • observation: quinones: MK-8, MK-9

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
11648117632nitrate+reduction
11648116301nitrite-reduction

metabolite production

  • @ref: 116481
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
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
116481oxidase-
116481alcohol dehydrogenase-1.1.1.1
116481catalase+1.11.1.6
116481lysine decarboxylase-4.1.1.18
116481ornithine decarboxylase-4.1.1.17
116481urease-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
116481-+++++++--++---+--+-

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentisolation date
6983lake sedimentAntarcticaATAAustralia and Oceania
67770Antarctic Ardley lake sediment
116481Environment, Antarctic lake sedimentAntarcticaATAAntarctica1998

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Lake (large)
#Environmental#Aquatic#Sediment

taxonmaps

  • @ref: 69479
  • File name: preview.99_16201.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9;96_1446;97_1726;98_2111;99_16201&stattab=map
  • Last taxonomy: Glutamicibacter
  • 16S sequence: AJ551163
  • Sequence Identity:
  • Total samples: 1486
  • soil counts: 175
  • aquatic counts: 119
  • animal counts: 1072
  • plant counts: 120

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
69831Risk group (German classification)
1164811Risk group (French classification)

Sequence information

16S sequences

  • @ref: 6983
  • description: Arthrobacter ardleyensis partial 16S rRNA gene, type strain An25
  • accession: AJ551163
  • length: 1488
  • database: ena
  • NCBI tax ID: 225894

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Glutamicibacter ardleyensis CGMCC 1.3685GCA_014644555scaffoldncbi225894
66792Glutamicibacter ardleyensis strain CGMCC 1.3685225894.3wgspatric225894

GC content

  • @ref: 6983
  • GC-content: 55

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno86.774no
gram-positiveyes92.383no
anaerobicno99.262no
aerobicyes95.308no
halophileno74.232no
spore-formingno88.273no
thermophileno99.084no
glucose-utilyes86.86no
motileno55.154no
glucose-fermentno87.893no

External links

@ref: 6983

culture collection no.: DSM 17432, CGMCC 1.3685, JCM 12921, CIP 109137

straininfo link

  • @ref: 77057
  • straininfo: 231846

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny15834596Arthrobacter ardleyensis sp. nov., isolated from Antarctic lake sediment and deep-sea sediment.Chen M, Xiao X, Wang P, Zeng X, Wang FArch Microbiol10.1007/s00203-005-0772-y2005Aerobiosis, Antarctic Regions, Arthrobacter/*classification/*isolation & purification, Bacterial Typing Techniques, Base Composition, Base Sequence, Cell Wall/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Fresh Water/microbiology, Genes, rRNA, Geologic Sediments/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/microbiology, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Water MicrobiologyGenetics
Phylogeny25858247Arthrobacter endophyticus sp. nov., an endophytic actinobacterium isolated from root of Salsola affinis C. A. Mey.Wang HF, Li L, Zhang YG, Hozzein WN, Zhou XK, Liu WH, Duan YQ, Li WJInt J Syst Evol Microbiol10.1099/ijs.0.0002352015Arthrobacter/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Salsola/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryGenetics

Reference

@idauthorscataloguedoi/urltitle
6983Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17432)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17432
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
41908Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/6845
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
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
77057Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID231846.1StrainInfo: A central database for resolving microbial strain identifiers
116481Curators of the CIPCollection of Institut Pasteur (CIP 109137)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109137