Strain identifier

BacDive ID: 7523

Type strain: Yes

Species: Paenarthrobacter histidinolovorans

Strain history: CIP <- 2001, JCM <- ATCC <- E. Adams

NCBI tax ID(s): 43664 (species)

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General

@ref: 8540

BacDive-ID: 7523

DSM-Number: 20115

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

description: Paenarthrobacter histidinolovorans DSM 20115 is an aerobe, mesophilic bacterium that was isolated from soil.

NCBI tax id

  • NCBI tax id: 43664
  • Matching level: species

strain history

@refhistory
8540<- ATCC <- E. Adams
67770ATCC 11442 <-- E. Adams.
119924CIP <- 2001, JCM <- ATCC <- E. Adams

doi: 10.13145/bacdive7523.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micrococcales
  • family: Micrococcaceae
  • genus: Paenarthrobacter
  • species: Paenarthrobacter histidinolovorans
  • full scientific name: Paenarthrobacter histidinolovorans (Adams 1954) Busse 2016

  • synonyms

    • @ref: 20215
    • synonym: Arthrobacter histidinolovorans

@ref: 8540

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Micrococcaceae

genus: Paenarthrobacter

species: Paenarthrobacter histidinolovorans

full scientific name: Paenarthrobacter histidinolovorans (Adams 1954) Busse 2016

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no93.174
69480100positive
119924nopositive

colony morphology

@refcolony colorincubation periodmedium used
18419Sand yellow (1002)10-14 daysISP 2
18419Traffic yellow (1023)10-14 daysISP 3
18419Colorless10-14 daysISP 6
119924

multicellular morphology

@refforms multicellular complexmedium name
18419noISP 2
18419noISP 3
18419noISP 6

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
18419ISP 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
18419ISP 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:
18419ISP 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
41903MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
8540CORYNEBACTERIUM 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
119924CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
18419positiveoptimum28mesophilic
8540positivegrowth30mesophilic
41903positivegrowth30mesophilic
47869positivegrowth22-37
67770positivegrowth30mesophilic
119924positivegrowth10-37
119924nogrowth41thermophilic
119924nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
47869aerobe
119924obligate aerobe

spore formation

@refspore formationconfidence
69481no96
69480no99.897

halophily

@refsaltgrowthtested relationconcentration
18419NaClpositivegrowth0 %
119924NaClpositivegrowth0-4 %
119924NaClnogrowth8 %
119924NaClnogrowth10 %

murein

  • @ref: 8540
  • murein short key: A11.17
  • type: A3alpha L-Lys-L-Ala-L-Thr-L-Ala

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1841917234glucose+
1841922599arabinose+
1841917992sucrose+
1841918222xylose+
1841917268myo-inositol+
1841929864mannitol+
1841928757fructose+
1841926546rhamnose+
1841916634raffinose+
1841962968cellulose-
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea+hydrolysis
6836816947citrate+assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis
11992416947citrate+carbon source
1199244853esculin+hydrolysis
119924606565hippurate+hydrolysis
11992417632nitrate-reduction
11992416301nitrite-reduction
11992417632nitrate-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: 119924
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinno
6836835581indoleno
6836816136hydrogen sulfideno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole testmethylred-test
6836815688acetoin-
6836835581indole-
11992415688acetoin-
11992417234glucose-

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
68382acid phosphatase+3.1.3.2
68382trypsin+3.4.21.4
68382valine arylamidase+
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
119924oxidase-
119924beta-galactosidase+3.2.1.23
119924alcohol dehydrogenase-1.1.1.1
119924gelatinase+
119924amylase+
119924DNase-
119924caseinase+3.4.21.50
119924catalase+1.11.1.6
119924tween esterase-
119924gamma-glutamyltransferase+2.3.2.2
119924lecithinase-
119924lipase-
119924lysine decarboxylase-4.1.1.18
119924ornithine decarboxylase-4.1.1.17
119924phenylalanine ammonia-lyase-4.3.1.24
119924protease+
119924tryptophan deaminase-
119924urease-3.5.1.5

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
18419+++-+++++++++-+++++

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
18419+++-+++++++++-+++++
119924+++-++-+-+-++-+++++-

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
18419+---+-+---+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
119924+++++-+++++++++++++-+++--+-----++-++-----+---+--++++-++-+--++++++-+-++-+++-+-+-++-----+-+++++++-+++

Isolation, sampling and environmental information

isolation

@refsample type
8540soil
47869Soil
67770Soil
119924Environment, Soil

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_1652.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9;96_99;97_106;98_115;99_1652&stattab=map
  • Last taxonomy: Paenarthrobacter
  • 16S sequence: X83406
  • Sequence Identity:
  • Total samples: 570
  • soil counts: 296
  • aquatic counts: 27
  • animal counts: 173
  • plant counts: 74

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
184191
85401Risk group (German classification)
1199241Risk group (French classification)

Sequence information

16S sequences

  • @ref: 8540
  • description: A.histidinolovorans 16S rRNA gene
  • accession: X83406
  • length: 1480
  • database: ena
  • NCBI tax ID: 43664

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Paenarthrobacter histidinolovorans JCM 2520GCA_014647595contigncbi43664
66792Paenarthrobacter histidinolovorans strain JCM 252043664.3wgspatric43664

GC content

  • @ref: 67770
  • GC-content: 62.6
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno96no
gram-positiveyes93.047no
anaerobicno99.64yes
halophileno93.615yes
spore-formingno83.49no
glucose-utilyes85.715no
aerobicyes96.091yes
flagellatedno97.302no
thermophileno98.822no
motileno91.39no
glucose-fermentno83.366yes

External links

@ref: 8540

culture collection no.: DSM 20115, ATCC 11442, CCUG 23888, NCIB 9541, LMG 3822, JCM 2520, BCRC 12111, CGMCC 1.1924, CIP 106988, IAM 14585, IFO 15510, KCTC 3380, NBRC 15510, NCIMB 9541, NRIC 0152, VKM Ac-1978, CCRC 12111

straininfo link

  • @ref: 76968
  • straininfo: 125626

Reference

@idauthorscataloguedoi/urltitle
8540Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20115)https://www.dsmz.de/collection/catalogue/details/culture/DSM-20115
18419Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM20115.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
41903Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/19179
47869Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 23888)https://www.ccug.se/strain?id=23888
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
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
76968Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID125626.1StrainInfo: A central database for resolving microbial strain identifiers
119924Curators of the CIPCollection of Institut Pasteur (CIP 106988)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106988