Strain identifier

BacDive ID: 7533

Type strain: Yes

Species: Pseudarthrobacter polychromogenes

Strain Designation: 2568

Strain history: CIP <- 2001, JCM <- DSMZ <- ATCC <- M.P. Starr: strain 2568 <- A.F. Schippers-Lammertse

NCBI tax ID(s): 1676 (species)

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General

@ref: 8561

BacDive-ID: 7533

DSM-Number: 20136

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

description: Pseudarthrobacter polychromogenes 2568 is an obligate aerobe, mesophilic, Gram-positive bacterium that was isolated from air.

NCBI tax id

  • NCBI tax id: 1676
  • Matching level: species

strain history

@refhistory
8561<- ATCC <- M.P. Starr, 2568 <- A.F. Schippers-Lammertse
67770DSM 20136 <-- ATCC 15216 <-- M. P. Starr 2568 <-- A. F. Schippers-Lammertse.
121927CIP <- 2001, JCM <- DSMZ <- ATCC <- M.P. Starr: strain 2568 <- A.F. Schippers-Lammertse

doi: 10.13145/bacdive7533.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micrococcales
  • family: Micrococcaceae
  • genus: Pseudarthrobacter
  • species: Pseudarthrobacter polychromogenes
  • full scientific name: Pseudarthrobacter polychromogenes (Schippers-Lammertse et al. 1963) Busse 2016

  • synonyms

    • @ref: 20215
    • synonym: Arthrobacter polychromogenes

@ref: 8561

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Micrococcaceae

genus: Pseudarthrobacter

species: Pseudarthrobacter polychromogenes

full scientific name: Pseudarthrobacter polychromogenes (Schippers-Lammertse et al. 1963) Busse 2016

strain designation: 2568

type strain: yes

Morphology

cell morphology

  • @ref: 121927
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: no

colony morphology

@refcolony colorincubation periodmedium used
18627Concrete grey (7023)10-14 daysISP 2
18627Pebble grey (7032)10-14 daysISP 3
18627Slate grey (7015)10-14 daysISP 4
18627Light ivory (1015)10-14 daysISP 5
18627Sand yellow (1002)10-14 daysISP 6
18627Olive grey (7002)10-14 daysISP 7
121927

multicellular morphology

@refforms multicellular complexmedium name
18627noISP 2
18627noISP 3
18627noISP 4
18627noISP 5
18627noISP 6
18627noISP 7

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
18627ISP 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
18627ISP 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:
18627ISP 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
18627ISP 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
18627ISP 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
18627ISP 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
41905MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
8561CORYNEBACTERIUM AGAR (DSMZ Medium 53)yesName: CORYNEBACTERIUM AGAR (DSMZ Medium 53) Composition: Agar 15.0 g/l Casein peptone 10.0 g/l NaCl 5.0 g/l Glucose 5.0 g/l Yeast extract 5.0 g/l Distilled waterhttps://mediadive.dsmz.de/medium/53
121927CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
18627positiveoptimum28mesophilic
8561positivegrowth30mesophilic
41905positivegrowth30mesophilic
67770positivegrowth30mesophilic
121927positivegrowth10-37
121927nogrowth41thermophilic
121927nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 121927
  • oxygen tolerance: obligate aerobe

compound production

  • @ref: 8561
  • compound: indochrom

halophily

@refsaltgrowthtested relationconcentration
18627NaClpositivemaximum7.5 %
121927NaClpositivegrowth0-10 %

murein

  • @ref: 8561
  • murein short key: A11.23
  • type: A3alpha L-Lys-L-Ser-L-Thr-L-Ala

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1862762968cellulose+
1862716634raffinose+
1862726546rhamnose+
1862728757fructose-
1862729864mannitol-
1862717268myo-inositol+
1862718222xylose+
1862717992sucrose+
1862722599arabinose+
1862717234glucose+
683685291gelatin-hydrolysis
6836827897tryptophan-energy source
6836816199urea-hydrolysis
6836816947citrate-assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis
12192716947citrate-carbon source
1219274853esculin+hydrolysis
121927606565hippurate-hydrolysis
12192717632nitrate+reduction
12192716301nitrite-reduction
12192717632nitrate-respiration
6837917632nitrate+reduction
683794853esculin-hydrolysis
6837916199urea+hydrolysis
683795291gelatin+hydrolysis
6837917634D-glucose+fermentation
6837916988D-ribose+fermentation
6837965327D-xylose-fermentation
6837916899D-mannitol+fermentation
6837917306maltose+fermentation
6837917716lactose-fermentation
6837917992sucrose+fermentation
6837928087glycogen-fermentation

antibiotic resistance

  • @ref: 121927
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

@refChebi-IDmetaboliteproduction
6836835581indoleno
6836816136hydrogen sulfideno
12192735581indoleno

metabolite tests

@refChebi-IDmetaboliteindole testvoges-proskauer-testmethylred-test
6836835581indole-
12192715688acetoin-
12192717234glucose-

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
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
68379gelatinase+
68379urease+3.5.1.5
68379beta-glucosidase-3.2.1.21
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
68368gelatinase-
68368tryptophan deaminase-4.1.99.1
68368urease-3.5.1.5
68368ornithine decarboxylase-4.1.1.17
68368lysine decarboxylase-4.1.1.18
68368arginine dihydrolase-3.5.3.6
68368beta-galactosidase+3.2.1.23
121927oxidase-
121927beta-galactosidase+3.2.1.23
121927alcohol dehydrogenase-1.1.1.1
121927gelatinase+/-
121927amylase+
121927DNase+
121927caseinase+3.4.21.50
121927catalase+1.11.1.6
121927tween esterase-
121927gamma-glutamyltransferase-2.3.2.2
121927lecithinase-
121927lipase-
121927lysine decarboxylase-4.1.1.18
121927ornithine decarboxylase-4.1.1.17
121927phenylalanine ammonia-lyase-4.3.1.24
121927protease+
121927tryptophan deaminase-
121927urease-3.5.1.5

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
18627+++-++++-++++-++-+-

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
18627+++-++++-++++-++-+-
121927+++-+--+-++++-++-+--

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDGEL
18627+---------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
121927+++++-++++++++-+++++++++-+--+--++++++------------+---+--++-++-++++++-----+-+---++-----+-++++--+-++-

Isolation, sampling and environmental information

isolation

@refsample type
8561air
67770Air
121927Environment, Air

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Air

taxonmaps

  • @ref: 69479
  • File name: preview.99_130.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9;96_99;97_106;98_115;99_130&stattab=map
  • Last taxonomy: Pseudarthrobacter
  • 16S sequence: X80741
  • Sequence Identity:
  • Total samples: 1526
  • soil counts: 822
  • aquatic counts: 109
  • animal counts: 156
  • plant counts: 439

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
186271Hazard group
85611Risk group (German classification)
1219271Risk group (French classification)

Sequence information

16S sequences

  • @ref: 8561
  • description: A.polychromogenes 16S rDNA
  • accession: X80741
  • length: 1472
  • database: ena
  • NCBI tax ID: 1676

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudarthrobacter polychromogenes CGMCC 1.1927GCA_014644495scaffoldncbi1676
66792Pseudarthrobacter polychromogenes strain CGMCC 1.19271676.6wgspatric1676

GC content

  • @ref: 67770
  • GC-content: 62.9
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedno96.775no
gram-positiveyes92.978no
anaerobicno99.7no
aerobicyes95.973no
halophileno81.565no
spore-formingno86.866no
thermophileno99.175yes
glucose-utilyes85.188no
motileno88.836no
glucose-fermentno81.825yes

External links

@ref: 8561

culture collection no.: DSM 20136, ATCC 15216, NCIB 10267, JCM 2523, BCRC 12114, CCUG 23891, CGMCC 1.1927, CIP 106989, IAM 14590, IFO 15512, KCTC 3384, LMG 16679, LMG 3821, NBRC 15512, NCIMB 10267, NRIC 0155, VKM Ac-1955, CCRC 12114

straininfo link

  • @ref: 76978
  • straininfo: 1005

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny12054218Arthrobacter roseus sp. nov., a psychrophilic bacterium isolated from an antarctic cyanobacterial mat sample.Reddy GSN, Prakash JSS, Matsumoto GI, Stackebrandt E, Shivaji SInt J Syst Evol Microbiol10.1099/00207713-52-3-10172002Antarctic Regions, Arthrobacter/*chemistry/*classification/genetics, Bacterial Typing Techniques, Biomass, DNA, Ribosomal/analysis, Fresh Water/*microbiology, Molecular Sequence Data, Peptidoglycan/analysis, Phenotype, Phylogeny, Pigments, Biological/metabolism, RNA, Ribosomal, 16S/*genetics, Sequence Analysis, DNA, *TemperatureGenetics
Phylogeny33048040Pseudarthrobacter psychrotolerans sp. nov., a cold-adapted bacterium isolated from Antarctic soil.Shin Y, Lee BH, Lee KE, Park WInt J Syst Evol Microbiol10.1099/ijsem.0.0045052020Antarctic Regions, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Glycolipids/chemistry, Micrococcaceae/*classification/isolation & purification, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivativesTranscriptome

Reference

@idauthorscataloguedoi/urltitle
8561Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20136)https://www.dsmz.de/collection/catalogue/details/culture/DSM-20136
18627Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM20136.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
41905Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/19180
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/
68368Automatically annotated from API 20E
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
76978Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID1005.1StrainInfo: A central database for resolving microbial strain identifiers
121927Curators of the CIPCollection of Institut Pasteur (CIP 106989)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106989