Strain identifier

BacDive ID: 7629

Type strain: Yes

Species: Arthrobacter cryoconiti

Strain Designation: Cr6-08

Strain history: CIP <- 2013, DSMZ <- R. Margesin, Innsbruck Univ., Innsbruck, Austria: strain Cr6-08

NCBI tax ID(s): 748907 (species)

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General

@ref: 16555

BacDive-ID: 7629

DSM-Number: 23324

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

description: Arthrobacter cryoconiti Cr6-08 is an aerobe, Gram-positive, ovoid-shaped bacterium that was isolated from alpine glacier cryoconite.

NCBI tax id

  • NCBI tax id: 748907
  • Matching level: species

strain history

@refhistory
16555<- R. Margesin, Inst. Microbiology, Univ. Innsbruck, Austria; Cr6-08
67770LMG 26052 <-- R. Margesin Cr6-08.
118796CIP <- 2013, DSMZ <- R. Margesin, Innsbruck Univ., Innsbruck, Austria: strain Cr6-08

doi: 10.13145/bacdive7629.20240916.9.1

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 cryoconiti
  • full scientific name: Arthrobacter cryoconiti Margesin et al. 2012

@ref: 16555

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Micrococcaceae

genus: Arthrobacter

species: Arthrobacter cryoconiti

full scientific name: Arthrobacter cryoconiti Margesin et al. 2012

strain designation: Cr6-08

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
30223positive0.8-1.8 µm0.5-0.7 µmovoid-shapedno
118796positiverod-shapedyes
69480positive91.4

colony morphology

@refcolony colormedium used
69303Lemon yellow (1012)ISP 7
69303Lemon yellow (1012)suter with tyrosine
69303Lemon yellow (1012)suter without tyrosine
69303Traffic yellow (1023)ISP 3
69303Zinc yellow (1018)ISP 2
69303Zinc yellow (1018)ISP 5
69303Zinc yellow (1018)ISP 6

multicellular morphology

@refforms multicellular complexcomplex namemedium name
69303noAerial myceliumISP 2
69303noAerial myceliumISP 3
69303noAerial myceliumISP 5
69303noAerial myceliumISP 6
69303noAerial myceliumISP 7
69303noAerial myceliumsuter with tyrosine
69303noAerial myceliumsuter without tyrosine

pigmentation

@refproductionname
30223yes
69303noMelanin
69303nosoluble pigment

multimedia

@refmultimedia contentcaptionintellectual property rights
69303DSM_23324_image3.jpegPlates (830, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH
69303DSM_23324_image4.jpegPlates (830, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
16555R2A 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
36194MEDIUM 566- Reasoner's 2A agar for Flavobacterium micromatiyesDistilled water make up to (1000.000 ml);R2A agar (18.200 g)
118796CIP Medium 566yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=566

culture temp

@refgrowthtypetemperature
16555positivegrowth20
30223positivegrowth1-25
36194positivegrowth20
67770positivegrowth22

culture pH

  • @ref: 30223
  • ability: positive
  • type: growth
  • pH: 06-08

Physiology and metabolism

oxygen tolerance

  • @ref: 30223
  • oxygen tolerance: aerobe

halophily

@refsaltgrowthtested relationconcentration
30223NaClpositivegrowth0-3 %
69303NaClpositivegrowth0-2.5 %

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6930322599arabinose+/-growth
3022317234glucose+carbon source
3022317716lactose+carbon source
3022325115malate+carbon source
3022317306maltose+carbon source
3022329864mannitol+carbon source
3022337684mannose+carbon source
3022318401phenylacetate+carbon source
3022353258sodium citrate+carbon source
302234853esculin+hydrolysis
3022317632nitrate+reduction
6930362968cellulose+/-growth
6930328757fructose+growth
6930317234glucose+growth
6930317268inositol-growth
6930337684mannose+growth
6930316634raffinose+growth
6930326546rhamnose+growth
6930317992sucrose+growth
6930318222xylose-growth
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

enzymes

@refvalueactivityec
30223acid phosphatase+3.1.3.2
30223alpha-galactosidase+3.2.1.22
30223catalase+1.11.1.6
68382alpha-fucosidase-3.2.1.51
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
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
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
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

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
69303+----++------------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
69303-+++/-+++/---+/-+/-++-+-+/-+/--

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
16555alpine glacier cryoconiteÖtztaler Alps, Banker glacier, 2820 m above sea levelAustriaAUTEurope
67770Banker glacier at an altitude of 2,820 mÖtztal AlpsAustriaAUTEurope
118796Alpine glacier cryoconite, Banker glacierÖtzlaler Alps, AustriaAustriaAUTEurope

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Glacier
#Condition#Psychrophilic (<10°C)
#Climate#Cold#Alpine
#Environmental#Terrestrial#Geologic

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
165551Risk group (German classification)
1187961Risk group (French classification)

Sequence information

16S sequences

  • @ref: 16555
  • description: Arthrobacter cryoconiti strain Cr6-08 16S ribosomal RNA gene, partial sequence
  • accession: GU784867
  • length: 1526
  • database: nuccore
  • NCBI tax ID: 748907

Genome sequences

  • @ref: 66792
  • description: Arthrobacter cryoconiti Cr6-08
  • accession: GCA_020905375
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 748907

GC content

@refGC-contentmethod
1655557.3thermal denaturation, midpoint method (Tm)
3022357.3

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69480gram-positivegram-positivePositive reaction to Gram-stainingyes91.4yes
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no99.297no
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes84.999yes
69480spore-formingspore-formingAbility to form endo- or exosporesno69.432no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno96.25no
69480flagellatedmotile2+Ability to perform flagellated movementno76no

External links

@ref: 16555

culture collection no.: DSM 23324, CGMCC 1.10698, CIP 110638, LMG 26052, JCM 18953

straininfo link

  • @ref: 77073
  • straininfo: 370921

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny21441372Arthrobacter cryoconiti sp. nov., a psychrophilic bacterium isolated from alpine glacier cryoconite.Margesin R, Schumann P, Zhang DC, Redzic M, Zhou YG, Liu HC, Schinner FInt J Syst Evol Microbiol10.1099/ijs.0.031138-02011*Altitude, Arthrobacter/chemistry/*classification/genetics/*isolation & purification, Austria, Bacterial Typing Techniques, Base Composition, *Cold Temperature, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Genes, rRNA, Ice Cover/*microbiology, Lipids/analysis, Molecular Sequence Data, Phenotype, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species SpecificityGenetics
Phylogeny31079331Arthrobacter dokdonellae sp. nov., isolated from a plant of the genus Campanula.Koh HW, Kang MS, Lee KE, Lee EY, Kim H, Park SJJ Microbiol10.1007/s12275-019-8540-x2019Arthrobacter/classification/genetics/*isolation & purification/metabolism, Base Composition, Campanulaceae/*microbiology, Cell Wall/genetics/metabolism, DNA, Bacterial/genetics, Fatty Acids/chemistry/metabolism, Peptidoglycan/chemistry/metabolism, Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of KoreaMetabolism

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
16555Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23324)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23324
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
30223Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2656628776041
36194Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/30442
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
69303Wink, J.https://cdn.dsmz.de/wink/DSM%2023324.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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)
77073Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID370921.1StrainInfo: A central database for resolving microbial strain identifiers
118796Curators of the CIPCollection of Institut Pasteur (CIP 110638)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110638