Strain identifier

BacDive ID: 7608

Type strain: Yes

Species: Arthrobacter tecti

Strain Designation: R-5369

Strain history: IAM 15323 <-- LMG 22282 <-- J. Heyrman R-5369.

NCBI tax ID(s): 271433 (species)

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General

@ref: 6436

BacDive-ID: 7608

DSM-Number: 16407

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

description: Arthrobacter tecti R-5369 is an aerobe, Gram-positive, coccus-shaped bacterium that was isolated from Biofilm covering the Servilia tomb, Roman necropolis of Carmona.

NCBI tax id

  • NCBI tax id: 271433
  • Matching level: species

strain history

@refhistory
6436<- J. Heyrman, R-5369
67770IAM 15323 <-- LMG 22282 <-- J. Heyrman R-5369.

doi: 10.13145/bacdive7608.20240510.9

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 tecti
  • full scientific name: Arthrobacter tecti Heyrman et al. 2005

@ref: 6436

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Micrococcaceae

genus: Arthrobacter

species: Arthrobacter tecti

full scientific name: Arthrobacter tecti Heyrman et al. 2005

strain designation: R-5369

type strain: yes

Morphology

cell morphology

  • @ref: 31342
  • gram stain: positive
  • cell width: 0.9 µm
  • cell shape: coccus-shaped
  • motility: no

colony morphology

@refcolony colorincubation periodmedium used
18403Rapeseed yellow (1021)10-14 daysISP 2
18403Lemon yellow (1012)10-14 daysISP 3
18403Lemon yellow (1012)10-14 daysISP 4
18403Lemon yellow (1012)10-14 daysISP 5
18403Lemon yellow (1012)10-14 daysISP 6
18403Lemon yellow (1012)10-14 daysISP 7

multicellular morphology

@refforms multicellular complexmedium name
18403noISP 2
18403noISP 3
18403noISP 4
18403noISP 5
18403noISP 6
18403noISP 7

pigmentation

  • @ref: 31342
  • production: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6436TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yeshttps://mediadive.dsmz.de/medium/92Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water
6436BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)yeshttps://mediadive.dsmz.de/medium/514Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water
18403ISP 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
18403ISP 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
18403ISP 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
18403ISP 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
18403ISP 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
18403ISP 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:

culture temp

@refgrowthtypetemperature
18403positiveoptimum28
6436positivegrowth28
31342positiveoptimum26
67770positivegrowth28

culture pH

@refabilitytypepHPH range
31342positivegrowth06-09alkaliphile
31342positiveoptimum8

Physiology and metabolism

oxygen tolerance

  • @ref: 31342
  • oxygen tolerance: aerobe

spore formation

  • @ref: 31342
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
31342NaClpositivegrowth05-15 %
31342NaClpositiveoptimum10 %

murein

  • @ref: 6436
  • murein short key: A11.28
  • type: A3alpha L-Lys-L-Thr-L-Ala3

observation

@refobservation
31342aggregates in clumps
67770quinones: MK-9(H2), MK-10(H2)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1840317234glucose+
1840322599arabinose+
1840317992sucrose+
1840318222xylose-
1840317268myo-inositol-
1840329864mannitol+/-
1840328757fructose+/-
1840326546rhamnose+
1840316634raffinose+
1840362968cellulose+
313425291gelatin+carbon source
683794853esculin-hydrolysis
6837916199urea+hydrolysis
683795291gelatin-hydrolysis
6837917992sucrose-fermentation

enzymes

@refvalueactivityec
31342acid phosphatase+3.1.3.2
31342alkaline phosphatase+3.1.3.1
31342catalase+1.11.1.6
31342gelatinase+
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

API coryne

@refPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELSAC
18403--+---+-+--

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
18403+++-++---++-----++-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
6436Biofilm covering the Servilia tomb, Roman necropolis of CarmonaCarmonaSpainESPEurope
67770Biofilm overgrowing the ceiling of the main room of the Servilia tombRoman necropolis of CarmonaSpainESPEurope

isolation source categories

Cat1Cat2
#Environmental#Biofilm
#Environmental#Terrestrial

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
184032
64361Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
31342Arthrobacter tecti partial 16S rRNA gene, strain LMG 22285AJ6398281480nuccore271433
6436Arthrobacter tecti partial 16S rRNA gene, type strain LMG 22282TAJ6398291476nuccore271433

GC content

@refGC-contentmethod
643663.7
6777063.7high performance liquid chromatography (HPLC)

External links

@ref: 6436

culture collection no.: DSM 16407, LMG 22282, JCM 21772, IAM 15323

straininfo link

  • @ref: 77052
  • straininfo: 19294

literature

  • topic: Phylogeny
  • Pubmed-ID: 16014466
  • title: Six novel Arthrobacter species isolated from deteriorated mural paintings.
  • authors: Heyrman J, Verbeeren J, Schumann P, Swings J, De Vos P
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.63358-0
  • year: 2005
  • mesh: Arthrobacter/chemistry/*classification/genetics/*isolation & purification, Austria, Bacterial Typing Techniques, Base Composition, Biofilms/*growth & development, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genes, rRNA, Molecular Sequence Data, Nucleic Acid Hybridization, *Paintings, Polymerase Chain Reaction, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Spain
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
6436Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16407)https://www.dsmz.de/collection/catalogue/details/culture/DSM-16407
18403Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM16407.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
31342Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2765628776041
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
77052Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID19294.1StrainInfo: A central database for resolving microbial strain identifiers