Strain identifier

BacDive ID: 7522

Type strain: Yes

Species: Arthrobacter globiformis

Strain Designation: 168

Strain history: CIP <- 1981, ATCC <- N.R. Smith: strain 168 <- H.J. Conn

NCBI tax ID(s): 1077972 (strain), 1665 (species)

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General

@ref: 8549

BacDive-ID: 7522

DSM-Number: 20124

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

description: Arthrobacter globiformis 168 is an obligate aerobe, mesophilic bacterium of the family Micrococcaceae.

NCBI tax id

NCBI tax idMatching level
1665species
1077972strain

strain history

@refhistory
8549<- ATCC <- N.R. Smith, 168 (Achromobacter globiformis) <- H.J. Conn (Bacterium globiforme)
67770K. Suzuki CNF 022 <-- AJ 1422 <-- ATCC 8010 <-- N. R. Smith 168 <-- H. J. Conn.
119645CIP <- 1981, ATCC <- N.R. Smith: strain 168 <- H.J. Conn

doi: 10.13145/bacdive7522.20230509.8.1

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 globiformis
  • full scientific name: Arthrobacter globiformis corrig. (Conn 1928) Conn and Dimmick 1947 (Approved Lists 1980)

  • synonyms

    @refsynonym
    20215Bacterium globiforme
    20215Arthrobacter globiforme

@ref: 8549

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Micrococcaceae

genus: Arthrobacter

species: Arthrobacter globiformis

full scientific name: Arthrobacter globiformis (Conn 1928) Conn and Dimmick 1947 emend. Nouioui et al. 2018

strain designation: 168

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no90.934
69480100positive
119645nopositiverod-shaped

colony morphology

@refcolony colorincubation periodmedium used
18305Ochre yellow (1024)10-14 daysISP 2
18305Colorless10-14 daysISP 3
18305Colorless10-14 daysISP 4
18305Colorless10-14 daysISP 5
18305Colorless10-14 daysISP 6
18305Colorless10-14 daysISP 7
119645

multicellular morphology

@refforms multicellular complexmedium name
18305noISP 2
18305noISP 3
18305noISP 4
18305noISP 5
18305noISP 6
18305noISP 7

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
18305ISP 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
18305ISP 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:
18305ISP 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
18305ISP 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
18305ISP 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
18305ISP 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
38388MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
8549CORYNEBACTERIUM 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
119645CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
18305positiveoptimum28mesophilic
8549positivegrowth30mesophilic
38388positivegrowth22psychrophilic
67770positivegrowth28mesophilic
119645positivegrowth25-41
119645nogrowth10psychrophilic
119645nogrowth15psychrophilic
119645nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 119645
  • oxygen tolerance: obligate aerobe

spore formation

@refspore formationconfidence
69481no98
69480no99.963

halophily

@refsaltgrowthtested relationconcentration
119645NaClpositivegrowth0-4 %
119645NaClnogrowth6 %
119645NaClnogrowth8 %
119645NaClnogrowth10 %

murein

  • @ref: 8549
  • murein short key: A11.06
  • type: A3alpha L-Lys-L-Ala3

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
11964516947citrate-carbon source
1196454853esculin-hydrolysis
119645606565hippurate-hydrolysis
11964517632nitrate-reduction
11964516301nitrite-reduction
11964517632nitrate-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

metabolite production

  • @ref: 119645
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11964515688acetoin-
11964517234glucose-

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+
68382alpha-chymotrypsin-3.4.21.1
68382trypsin+3.4.21.4
68382valine arylamidase+
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
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
119645oxidase-
119645beta-galactosidase+3.2.1.23
119645alcohol dehydrogenase-1.1.1.1
119645gelatinase-
119645amylase-
119645DNase-
119645caseinase-3.4.21.50
119645catalase+1.11.1.6
119645tween esterase-
119645gamma-glutamyltransferase-2.3.2.2
119645lecithinase-
119645lipase-
119645lysine decarboxylase-4.1.1.18
119645ornithine decarboxylase-4.1.1.17
119645phenylalanine ammonia-lyase-4.3.1.24
119645protease-
119645urease-3.5.1.5

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
18305------+-++---------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
18305+-+-++++-++++-++-+-
119645-+--++-+--+++-++-+--

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
119645+++++-+++++--+++++++++++-+--++-++++++----+-+-+---+++-+--++-++++-+++-++-+++++-++++-+++-+++++++++++++

Isolation, sampling and environmental information

taxonmaps

  • @ref: 69479
  • File name: preview.99_467.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9;96_99;97_106;98_386;99_467&stattab=map
  • Last taxonomy: Arthrobacter
  • 16S sequence: X80736
  • Sequence Identity:
  • Total samples: 1266
  • soil counts: 798
  • aquatic counts: 84
  • animal counts: 35
  • plant counts: 349

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
183051Risk group (German classification)
85491Risk group (German classification)
1196451Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218A.globiformis small subunit ribosomal RNAM234111531ena1665
20218A.globiformis 16S rDNAX807361464ena1665
20218Arthrobacter globiformis gene for 16S rRNAAB0898411476ena1665

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Arthrobacter globiformis NBRC 121371077972.3wgspatric1077972
66792Arthrobacter globiformis NBRC 121372519899568draftimg1077972
67770Arthrobacter globiformis NBRC 12137GCA_000238915contigncbi1077972

GC content

@refGC-contentmethod
854962.0
6777065.9high performance liquid chromatography (HPLC)
6777066.2genome sequence analysis
6777062thermal denaturation, midpoint method (Tm)
6777065.5Buoyant density centrifugation (BD)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno98no
motileno90.594no
flagellatedno97.265no
gram-positiveyes91.311no
anaerobicno99.483no
aerobicyes96.008no
halophileno78.281no
spore-formingno88.233no
thermophileno99.285yes
glucose-utilyes86.283no
glucose-fermentno90.71yes

External links

@ref: 8549

culture collection no.: DSM 20124, ATCC 8010, NCIB 8907, JCM 1332, BCRC 10598, CCUG 12157, CCUG 28997, CCUG 51088, CCUG 581, CECT 388, CGMCC 1.1894, CIP 81.84, HAMBI 1863, HAMBI 88, IAM 12438, ICPB 3434, IFO 12137, IFO 12608, IMET 11240, IMSNU 20063, KCCM 40800, KCTC 9101, LMG 3813, MTCC 4446, NBIMCC 2369, NBRC 12137, NBRC 12608, NCIMB 8907, NRIC 0151, NRRL B-2979, PCM 2134, VKM Ac-1112

straininfo link

  • @ref: 76967
  • straininfo: 1001

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Enzymology4128824Isolation and characterization of a bacteriophage of Arthrobacter globiformis.Einck KH, Pattee PA, Holt JG, Hagedorn C, Miller JA, Berryhill DLJ Virol10.1128/JVI.12.5.1031-1033.19731973*Arthrobacter, Bacteriophages/analysis/*isolation & purification, Centrifugation, Density Gradient, Cesium, DNA, Viral/isolation & purification, Dialysis, Kinetics, Microscopy, Electron, Soil Microbiology, Staining and Labeling, Viral Plaque AssayPhylogeny
Cultivation6254945Myceloid growth of Arthrobacter globiformis and other Arthrobacter species.Germida JJ, Casida LE JrJ Bacteriol10.1128/jb.144.3.1152-1158.19801980Arthrobacter/cytology/*growth & development, Chelating Agents/pharmacology, Citrates/pharmacology, Culture Media, Diphosphates/pharmacology, Egtazic Acid/pharmacology, Manganese/pharmacology
Phylogeny12508874Citricoccus muralis gen. nov., sp. nov., a novel actinobacterium isolated from a medieval wall painting.Altenburger P, Kampfer P, Schumann P, Steiner R, Lubitz W, Busse HJInt J Syst Evol Microbiol10.1099/00207713-52-6-20952002Austria, Base Composition, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/genetics, Environmental Microbiology, Lipids/analysis, Micrococcaceae/*classification/genetics/*isolation & purification/metabolism, Molecular Sequence Data, Paintings, Phenotype, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Terminology as TopicGenetics
Enzymology14678796Cloning, sequence analysis, and purification of choline oxidase from Arthrobacter globiformis: a bacterial enzyme involved in osmotic stress tolerance.Fan F, Ghanem M, Gadda GArch Biochem Biophys10.1016/j.abb.2003.10.0032004Adaptation, Physiological, Alcohol Oxidoreductases/chemistry/*genetics/isolation & purification/*metabolism, Amino Acid Sequence, Arthrobacter/*enzymology, Bacterial Proteins/chemistry/genetics/isolation & purification/metabolism, Cloning, Molecular, DNA Primers/genetics, Escherichia coli/metabolism, Molecular Sequence Data, Osmotic Pressure, Recombinant Proteins/chemistry/genetics/isolation & purification/metabolism, Sequence Alignment, Sequence Analysis, Protein, Sequence Homology, Amino Acid, Spectrometry, Fluorescence, Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization/methodsMetabolism
16233600A thermostable histamine oxidase from Arthrobacter crystallopoietes KAIT-B-007.Sekiguchi Y, Makita H, Yamamura A, Matsumoto KJ Biosci Bioeng10.1016/S1389-1723(04)70176-02004
Phylogeny26963092Arthrobacter pokkalii sp nov, a Novel Plant Associated Actinobacterium with Plant Beneficial Properties, Isolated from Saline Tolerant Pokkali Rice, Kerala, India.Krishnan R, Menon RR, Tanaka N, Busse HJ, Krishnamurthi S, Rameshkumar NPLoS One10.1371/journal.pone.01503222016*Arthrobacter/classification/genetics/isolation & purification, India, Oryza/*microbiology, RNA, Bacterial/*genetics, RNA, Ribosomal, 16S/*genetics, *Rhizosphere, *Soil MicrobiologyEnzymology
Phylogeny28324343Arthrobacter nitrophenolicus sp. nov. a new 2-chloro-4-nitrophenol degrading bacterium isolated from contaminated soil.Arora PK, Jain RK3 Biotech10.1007/s13205-012-0066-42012
Phylogeny30990394Specibacter cremeus gen. nov., sp. nov., a new member of the family Micrococcaceae isolated from a natural cave.Lee SD, Schumann PInt J Syst Evol Microbiol10.1099/ijsem.0.0033922019Bacterial Typing Techniques, Base Composition, Caves/*microbiology, Cell Wall/chemistry, DNA, Bacterial/genetics, Fatty Acids/chemistry, Glycolipids/chemistry, Micrococcaceae/*classification/isolation & purification, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny32661667Arthrobacter sedimenti sp. nov., isolated from river sediment in Yuantouzhu park, China.Lin P, Yan ZF, Li CTArch Microbiol10.1007/s00203-020-01968-y2020Arthrobacter/chemistry/*classification/genetics/isolation & purification, Base Composition, China, DNA, Bacterial/genetics, Geologic Sediments/*microbiology, Nucleic Acid Hybridization, Peptidoglycan/chemistry, RNA, Ribosomal, 16S/genetics, Rivers/microbiology, *Soil Microbiology, Species SpecificityEnzymology
Genetics34761957Closed Genome Sequence of Yavru, a Novel Arthrobacter globiformis Phage.Ulker M, Siddiqui FA, Gerton TJ, Anastasi RE, Conroy DJ, Edwards EG, Laizure IE, Reynolds JD, Duggan K, Johnson KC, MacLea KSMicrobiol Resour Announc10.1128/MRA.00986-212021
Phylogeny35932431Arthrobacter rhizosphaerae sp. nov., isolated from wheat rhizosphere.Li X, Li S, Wu Y, Li J, Xing P, Wei G, Shi PArch Microbiol10.1007/s00203-022-03150-y2022*Arthrobacter, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, Soil Microbiology, TriticumTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
8549Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20124)https://www.dsmz.de/collection/catalogue/details/culture/DSM-20124
18305Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM20124.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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
38388Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/11250
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
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
76967Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID1001.1StrainInfo: A central database for resolving microbial strain identifiers
119645Curators of the CIPCollection of Institut Pasteur (CIP 81.84)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2081.84