Strain identifier

BacDive ID: 7519

Type strain: Yes

Species: Paenarthrobacter aurescens

Strain Designation: 579

Strain history: CIP <- 1986, DSM <- ATCC <- A.G. Lochhead: strain 579 <- H.J. Conn

NCBI tax ID(s): 43663 (species)

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General

@ref: 8541

BacDive-ID: 7519

DSM-Number: 20116

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

description: Paenarthrobacter aurescens 579 is a mesophilic bacterium of the family Micrococcaceae.

NCBI tax id

  • NCBI tax id: 43663
  • Matching level: species

strain history

@refhistory
8541<- ATCC <- A.G. Lochhead, 579 <- H.J. Conn
67770IAM 12340 <-- CCM 1649 <-- MRI <-- H. J. Conn.
116570CIP <- 1986, DSM <- ATCC <- A.G. Lochhead: strain 579 <- H.J. Conn

doi: 10.13145/bacdive7519.20230509.8.1

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 aurescens
  • full scientific name: Paenarthrobacter aurescens (Phillips 1953) Busse 2016

  • synonyms

    • @ref: 20215
    • synonym: Arthrobacter aurescens

@ref: 8541

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Micrococcaceae

genus: Paenarthrobacter

species: Paenarthrobacter aurescens

full scientific name: Paenarthrobacter aurescens (Phillips 1953) Busse 2016

strain designation: 579

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no94.032
69480100positive

colony morphology

@refcolony colorincubation periodmedium used
18420Beige (1001)10-14 daysISP 2
18420Lemon yellow (1012)10-14 daysISP 3
18420Pastel yellow (1034)10-14 daysISP 4
18420Ivory (1014)10-14 daysISP 5
18420Colorless10-14 daysISP 6
18420Ivory (1014)10-14 daysISP 7

multicellular morphology

@refforms multicellular complexmedium name
18420noISP 2
18420noISP 3
18420noISP 4
18420noISP 5
18420noISP 6
18420noISP 7

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
18420ISP 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
18420ISP 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:
18420ISP 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
18420ISP 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
18420ISP 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
18420ISP 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
41901MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
8541CORYNEBACTERIUM 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
116570CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperaturerange
18420positiveoptimum28mesophilic
8541positivegrowth30mesophilic
41901positivegrowth30mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no100
69480no99.812

halophily

  • @ref: 18420
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0 %

murein

  • @ref: 8541
  • 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
1842017234glucose+
1842022599arabinose+
1842017992sucrose+
1842018222xylose+
1842017268myo-inositol+
1842029864mannitol+
1842028757fructose+
1842026546rhamnose+
1842016634raffinose+
1842062968cellulose-
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea+hydrolysis
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis
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

@refChebi-IDmetaboliteproduction
6836815688acetoinyes
6836835581indoleno
6836816136hydrogen sulfideno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
6836815688acetoin+
6836835581indole-

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
68382cystine arylamidase+3.4.11.3
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

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
18420+-+-++++-++++-++++-

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
18420+-+-++++-++++-++++-

API 20E

@refONPGADH ArgLDC LysODCH2SURETDA TrpINDVPGEL
18420+----+--++

Isolation, sampling and environmental information

taxonmaps

  • @ref: 69479
  • File name: preview.99_3469.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9;96_99;97_138;98_2663;99_3469&stattab=map
  • Last taxonomy: Paenarthrobacter
  • 16S sequence: X83405
  • Sequence Identity:
  • Total samples: 10568
  • soil counts: 3607
  • aquatic counts: 855
  • animal counts: 3936
  • plant counts: 2170

Safety information

risk assessment

@refbiosafety levelpathogenicity humanbiosafety level comment
184201
85411yes, in single casesRisk group (German classification)
1165701Risk group (French classification)

Sequence information

16S sequences

  • @ref: 8541
  • description: Arthrobacter aurescens 16S rRNA gene, strain DSM 20116
  • accession: X83405
  • length: 1515
  • database: ena
  • NCBI tax ID: 43663

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Paenarthrobacter aurescens strain NBRC 1213643663.10wgspatric43663
67770Paenarthrobacter aurescens NBRC 12136GCA_006538985contigncbi43663

GC content

@refGC-contentmethod
854161.5
6777059.1Buoyant density centrifugation (BD)
6777061.5thermal denaturation, midpoint method (Tm)
6777066.2thermal denaturation, midpoint method (Tm)
6777061.9high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
gram-positiveyes93.013no
anaerobicno99.408no
halophileno92.053yes
spore-formingno82.56no
glucose-utilyes87.079yes
aerobicyes96.375no
flagellatedno96.844no
thermophileno99.149yes
motileno91.117no
glucose-fermentno83.247no

External links

@ref: 8541

culture collection no.: DSM 20116, ATCC 13344, CCM 1649, NCIB 8912, JCM 1330, BCRC 12110, CCUG 23839, CCUG 23885, CDA 579, CGMCC 1.1892, CIP 102364, HAMBI 1850, IAM 12340, IFO 12136, IMSNU 21002, KCCM 41109, KCTC 3378, LMG 3815, NBIMCC 2010, NBRC 12136, NCCB 72018, NCIMB 8912, NRIC 0150, NRRL B-2879, VKM Ac-1105

straininfo link

  • @ref: 76964
  • straininfo: 107676

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Enzymology19172263Gene cloning, expression, and characterization of a novel trehalose synthase from Arthrobacter aurescens.Xiuli W, Hongbiao D, Ming Y, Yu QAppl Microbiol Biotechnol10.1007/s00253-009-1863-52009Arthrobacter/chemistry/*enzymology/genetics, Bacterial Proteins/*chemistry/*genetics/metabolism, *Cloning, Molecular, Enzyme Stability, Escherichia coli/genetics/metabolism, *Gene Expression, Glucosyltransferases/*chemistry/*genetics/metabolism, Molecular Sequence Data, Molecular Weight, Substrate SpecificityMetabolism
Phylogeny24925596Arthrobacter bambusae sp. nov., isolated from soil of a bamboo grove.Park Y, Kook M, Ngo HTT, Kim KY, Park SY, Mavlonov GT, Yi THInt J Syst Evol Microbiol10.1099/ijs.0.064550-02014Arthrobacter/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Bambusa/*microbiology, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistryGenetics

Reference

@idauthorscataloguedoi/urltitle
8541Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20116)https://www.dsmz.de/collection/catalogue/details/culture/DSM-20116
18420Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM20116.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
41901Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/14042
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
76964Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID107676.1StrainInfo: A central database for resolving microbial strain identifiers
116570Curators of the CIPCollection of Institut Pasteur (CIP 102364)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20102364