Strain identifier

BacDive ID: 7589

Type strain: Yes

Species: Arthrobacter russicus

Strain Designation: A 1-3, A1-3

Strain history: CIP <- 2004, JCM <- 2001, T. Ezaki: strain A1-3

NCBI tax ID(s): 172040 (species)

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General

@ref: 5296

BacDive-ID: 7589

DSM-Number: 14555

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

description: Arthrobacter russicus A 1-3 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from air in the russian space laboratory Mir.

NCBI tax id

  • NCBI tax id: 172040
  • Matching level: species

strain history

@refhistory
5296<- T. Ezaki, GTC, Gifu University, Japan; A 1-3
67770T. Ezaki A1-3.
122319CIP <- 2004, JCM <- 2001, T. Ezaki: strain A1-3

doi: 10.13145/bacdive7589.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micrococcales
  • family: Micrococcaceae
  • genus: Arthrobacter
  • species: Arthrobacter russicus
  • full scientific name: Arthrobacter russicus Li et al. 2004

@ref: 5296

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Micrococcaceae

genus: Arthrobacter

species: Arthrobacter russicus

full scientific name: Arthrobacter russicus Li et al. 2004

strain designation: A 1-3, A1-3

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
30012positive2.45 µm0.7 µmrod-shapedno
122319positiverod-shapedno

colony morphology

@refcolony colorincubation periodmedium used
18384Beige (1001)10-14 daysISP 2
18384Beige (1001)10-14 daysISP 3
18384Beige (1001)10-14 daysISP 4
18384Beige (1001)10-14 daysISP 5
18384Beige (1001)10-14 daysISP 6
18384Beige (1001)10-14 daysISP 7
122319

multicellular morphology

@refforms multicellular complexmedium name
18384noISP 2
18384noISP 3
18384noISP 4
18384noISP 5
18384noISP 6
18384noISP 7

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5296TRYPTICASE 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
18384ISP 2yesName: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
18384ISP 3yesName: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
18384ISP 4yesName: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
18384ISP 5yesName: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
18384ISP 6yesName: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
18384ISP 7yesName: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes
37387MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
122319CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
122319CIP Medium 112yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=112

culture temp

@refgrowthtypetemperaturerange
18384positiveoptimum28mesophilic
5296positivegrowth28mesophilic
30012positiveoptimum30mesophilic
37387positivegrowth30mesophilic
67770positivegrowth28mesophilic
122319positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
30012aerobe
122319obligate aerobe

halophily

  • @ref: 122319
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-10 %

observation

  • @ref: 67770
  • observation: quinones: MK-9(H2)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1838417234glucose+
1838422599arabinose-
1838417992sucrose+
1838418222xylose-
1838417268myo-inositol+
1838429864mannitol+
1838428757fructose+
1838426546rhamnose-
1838416634raffinose-
1838462968cellulose+
3001217234glucose+carbon source
3001253426tween 80+carbon source
12231916947citrate+carbon source
1223194853esculin+hydrolysis
122319606565hippurate+hydrolysis
12231917632nitrate-reduction
12231916301nitrite-reduction
12231917632nitrate-respiration
6837916199urea+hydrolysis
683795291gelatin+hydrolysis
6837917992sucrose-fermentation

antibiotic resistance

  • @ref: 122319
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 122319
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
12231915688acetoin-
12231917234glucose-

enzymes

@refvalueactivityec
68382alpha-mannosidase+3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-glucosidase-3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382naphthol-AS-BI-phosphohydrolase-
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
68379gelatinase+
68379urease+3.5.1.5
68379N-acetyl-beta-glucosaminidase-3.2.1.52
68379alpha-glucosidase-3.2.1.20
68379beta-galactosidase+3.2.1.23
68379beta-glucuronidase-3.2.1.31
68379alkaline phosphatase+3.1.3.1
68379pyrrolidonyl arylamidase+3.4.19.3
68379pyrazinamidase+3.5.1.B15
122319oxidase-
122319beta-galactosidase+3.2.1.23
122319alcohol dehydrogenase-1.1.1.1
122319gelatinase+
122319amylase-
122319DNase+
122319caseinase+3.4.21.50
122319catalase+1.11.1.6
122319tween esterase-
122319gamma-glutamyltransferase+2.3.2.2
122319lecithinase-
122319lipase-
122319lysine decarboxylase-4.1.1.18
122319ornithine decarboxylase-4.1.1.17
122319phenylalanine ammonia-lyase-4.3.1.24
122319protease+
122319tryptophan deaminase-
122319urease-3.5.1.5

API coryne

@refPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELSAC
18384+++-+--+/-++-

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
18384+++++--+-+-++--+-++
122319+++-+----+-------+--

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
5296air in the russian space laboratory MirSpace
67770Air in the Russian space station Mir
122319Environment, Air in the Russian space station MirRussian FederationRUSEurope

isolation source categories

Cat1Cat2Cat3
#Engineered#Laboratory
#Environmental#Air#Indoor Air

taxonmaps

  • @ref: 69479
  • File name: preview.99_36422.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9;96_1451;97_2366;98_26846;99_36422&stattab=map
  • Last taxonomy: Micrococcaceae
  • 16S sequence: AB071950
  • Sequence Identity:
  • Total samples: 546
  • soil counts: 28
  • aquatic counts: 265
  • animal counts: 252
  • plant counts: 1

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
183842
52961Risk group (German classification)
1223191Risk group (French classification)

Sequence information

16S sequences

  • @ref: 5296
  • description: Arthrobacter russicus gene for 16S rRNA, partial sequence
  • accession: AB071950
  • length: 1341
  • database: ena
  • NCBI tax ID: 172040

Genome sequences

  • @ref: 66792
  • description: Arthrobacter russicus DSM 14555
  • accession: 2893550850
  • assembly level: draft
  • database: img
  • NCBI tax ID: 172040

GC content

@refGC-contentmethod
529665.5
6777065.5high performance liquid chromatography (HPLC)

External links

@ref: 5296

culture collection no.: DSM 14555, GTC 863, JCM 11414, CIP 108438, NCIMB 14260

straininfo link

  • @ref: 77033
  • straininfo: 131534

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny15143031Rothia aeria sp. nov., Rhodococcus baikonurensis sp. nov. and Arthrobacter russicus sp. nov., isolated from air in the Russian space laboratory Mir.Li Y, Kawamura Y, Fujiwara N, Naka T, Liu H, Huang X, Kobayashi K, Ezaki TInt J Syst Evol Microbiol10.1099/ijs.0.02828-02004Air Microbiology, Arthrobacter/*classification/genetics/*isolation & purification/metabolism, Base Composition, Carbon/metabolism, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/genetics, Fatty Acids/analysis, Humans, Micrococcaceae/*classification/genetics/*isolation & purification/metabolism, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Rhodococcus/*classification/genetics/*isolation & purification/metabolism, Russia, Space Flight, *SpacecraftMetabolism
Phylogeny30204584Psychromicrobium lacuslunae sp. nov., isolated from a high altitude lake.Kiran S, Schumann P, Busse HJ, Sproer C, Rana A, Pal M, Korpole S, Tewari R, Gulati AInt J Syst Evol Microbiol10.1099/ijsem.0.0029972018*Altitude, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Glycolipids/chemistry, India, Lakes/*microbiology, Micrococcaceae/*classification/genetics/isolation & purification, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/chemistry, *Water MicrobiologyTranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
5296Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 14555)https://www.dsmz.de/collection/catalogue/details/culture/DSM-14555
18384Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM14555.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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
30012Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2637628776041
37387Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/6060
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/
68379Automatically annotated from API Coryne
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
77033Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID131534.1StrainInfo: A central database for resolving microbial strain identifiers
122319Curators of the CIPCollection of Institut Pasteur (CIP 108438)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108438