Strain identifier

BacDive ID: 11030

Type strain: Yes

Species: Rhodococcus erythropolis

Strain Designation: A1-22

Strain history: CIP <- 2004, JCM <- 2001, T. Ezaki: strain A1-22

NCBI tax ID(s): 1219010 (strain), 172041 (species)

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General

@ref: 11902

BacDive-ID: 11030

DSM-Number: 44587

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

description: Rhodococcus erythropolis A1-22 is an obligate aerobe, mesophilic, Gram-positive prokaryote that was isolated from air in Russian space station MIR.

NCBI tax id

NCBI tax idMatching level
1219010strain
172041species

strain history

@refhistory
11902<- T. Ezaki, GIFU; GTC 1041
67770T. Ezaki A1-22.
116711CIP <- 2004, JCM <- 2001, T. Ezaki: strain A1-22

doi: 10.13145/bacdive11030.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • genus: Rhodococcus
  • species: Rhodococcus erythropolis
  • full scientific name: Rhodococcus erythropolis (Gray and Thornton 1928) Goodfellow and Alderson 1979 (Approved Lists 1980)

  • synonyms

    @refsynonym
    20215Mycobacterium erythropolis
    20215Rhodococcus qingshengii
    20215Rhodococcus baikonurensis
    20215Rhodococcus jialingiae
    20215Rhodococcus enclensis
    20215Rhodococcus degradans

@ref: 11902

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Nocardiaceae

genus: Rhodococcus

species: Rhodococcus baikonurensis

full scientific name: Rhodococcus baikonurensis Li et al. 2004

strain designation: A1-22

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotility
30012positivecoccus-shaped
116711positiverod-shapedno

colony morphology

@refcolony colorincubation periodmedium used
20076Beige red (3012)10-14 daysISP 2
20076Ivory (1014)10-14 daysISP 3
20076Beige (1001)10-14 daysISP 4
20076Ivory (1014)10-14 daysISP 5
20076Ivory (1014)10-14 daysISP 6
20076Beige red (3012)10-14 daysISP 7
116711

multicellular morphology

@refforms multicellular complexmedium name
20076noISP 2
20076noISP 3
20076noISP 4
20076noISP 5
20076noISP 6
20076noISP 7

pigmentation

  • @ref: 30012
  • production: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
11902TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://mediadive.dsmz.de/medium/535Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
20076ISP 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
20076ISP 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:
20076ISP 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
20076ISP 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
20076ISP 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
20076ISP 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
34000MEDIUM 29- Brain heart agaryesDistilled water make up to (1000.000 ml);Brain heart infusion agar (52.000 g)
116711CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
116711CIP Medium 29yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=29

culture temp

@refgrowthtypetemperaturerange
20076positiveoptimum28mesophilic
11902positivegrowth28mesophilic
30012positiveoptimum30mesophilic
34000positivegrowth30mesophilic
67770positivegrowth28mesophilic
116711positivegrowth10-30
116711nogrowth37mesophilic
116711nogrowth41thermophilic
116711nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 116711
  • oxygen tolerance: obligate aerobe

halophily

@refsaltgrowthtested relationconcentration
116711NaClpositivegrowth0-6 %
116711NaClnogrowth8 %
116711NaClnogrowth10 %

observation

  • @ref: 67770
  • observation: quinones: MK-8(H2)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2007617234glucose+
2007622599arabinose-
2007617992sucrose+
2007618222xylose-
2007617268myo-inositol+
2007629864mannitol+
2007628757fructose+
2007626546rhamnose-
2007616634raffinose-
2007662968cellulose-
3001230089acetate+carbon source
3001221217L-alaninamide+carbon source
30012286442-oxopentanoate+carbon source
3001222653asparagine+carbon source
3001228757fructose+carbon source
3001224265gluconate+carbon source
3001229987glutamate+carbon source
3001224996lactate+carbon source
3001225115malate+carbon source
3001237684mannose+carbon source
3001251850methyl pyruvate+carbon source
3001217272propionate+carbon source
3001217148putrescine+carbon source
3001215361pyruvate+carbon source
3001233942ribose+carbon source
3001230031succinate+carbon source
3001253423tween 40+carbon source
3001253426tween 80+carbon source
300124853esculin+hydrolysis
11671116947citrate-carbon source
1167114853esculin-hydrolysis
116711606565hippurate-hydrolysis
11671117632nitrate-reduction
11671116301nitrite-reduction
11671117632nitrate-respiration
683794853esculin+hydrolysis
6837916199urea+hydrolysis
683795291gelatin-hydrolysis
6837917992sucrose-fermentation

antibiotic resistance

  • @ref: 116711
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 116711
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11671115688acetoin-
11671117234glucose-

enzymes

@refvalueactivityec
30012catalase+1.11.1.6
30012urease+3.5.1.5
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
68379pyrazinamidase-3.5.1.B15
116711oxidase-
116711beta-galactosidase-3.2.1.23
116711alcohol dehydrogenase-1.1.1.1
116711gelatinase+/-
116711amylase-
116711DNase-
116711caseinase-3.4.21.50
116711catalase+1.11.1.6
116711tween esterase-
116711gamma-glutamyltransferase-2.3.2.2
116711lecithinase-
116711lipase-
116711lysine decarboxylase-4.1.1.18
116711ornithine decarboxylase-4.1.1.17
116711phenylalanine ammonia-lyase-4.3.1.24
116711tryptophan deaminase-
116711urease+3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase+
68382cystine arylamidase+3.4.11.3
68382alpha-chymotrypsin-3.4.21.1
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382beta-glucosidase+3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API coryne

@refPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELSAC
20076-+/----+-++--

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
20076+-+-++++------++---
116711+++-+++--++---++----

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
116711++++++-+-----------+------+-+--++++++------------++--+---+-++++++--++---++-+---++--++-+-+-+-+++-+++

Isolation, sampling and environmental information

isolation

@refsample type
11902air in Russian space station MIR
67770Air in the Russian space station Mir
116711Environment, Air in the Russian station Mir

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Air
  • Cat3: #Indoor Air

taxonmaps

  • @ref: 69479
  • File name: preview.99_1118.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_181;97_585;98_672;99_1118&stattab=map
  • Last taxonomy: Nocardiaceae
  • 16S sequence: AB071951
  • Sequence Identity:
  • Total samples: 28787
  • soil counts: 7777
  • aquatic counts: 6494
  • animal counts: 11681
  • plant counts: 2835

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
119021Risk group (German classification)
200761German classification
1167111Risk group (French classification)

Sequence information

16S sequences

  • @ref: 11902
  • description: Rhodococcus baikonurensis gene for 16S rRNA, partial sequence
  • accession: AB071951
  • length: 1348
  • database: ena
  • NCBI tax ID: 172041

GC content

@refGC-contentmethod
3001255.5
6777055.5high performance liquid chromatography (HPLC)

External links

@ref: 11902

culture collection no.: DSM 44587, JCM 11411, GTC 1041, BCRC 16819, CCM 8450, CIP 108436, IAM 15238, NBRC 100611, NCIMB 14262

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny15143031Rothia aeria sp. nov., Rhodococcus baikonurensis sp. nov. and Arthrobacter russicus sp. nov., isolated from air in the Russian space laboratory Mir.Li Y, Kawamura Y, Fujiwara N, Naka T, Liu H, Huang X, Kobayashi K, Ezaki TInt J Syst Evol Microbiol10.1099/ijs.0.02828-02004Air Microbiology, Arthrobacter/*classification/genetics/*isolation & purification/metabolism, Base Composition, Carbon/metabolism, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/genetics, Fatty Acids/analysis, Humans, Micrococcaceae/*classification/genetics/*isolation & purification/metabolism, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Rhodococcus/*classification/genetics/*isolation & purification/metabolism, Russia, Space Flight, *SpacecraftMetabolism
Metabolism16430509Enhanced biodegradation of diesel oil by a newly identified Rhodococcus baikonurensis EN3 in the presence of mycolic acid.Lee M, Kim MK, Singleton I, Goodfellow M, Lee STJ Appl Microbiol10.1111/j.1365-2672.2005.02756.x2006Biodegradation, Environmental/drug effects, Culture Media, *Gasoline, Genes, Bacterial/genetics, Mycolic Acids/*pharmacology, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodococcus/genetics/*metabolism, Soil Microbiology, Soil Pollutants/*metabolism, Surface-Active Agents/*pharmacologyPhylogeny
Phylogeny18048720Rhodococcus qingshengii sp. nov., a carbendazim-degrading bacterium.Xu JL, He J, Wang ZC, Wang K, Li WJ, Tang SK, Li SPInt J Syst Evol Microbiol10.1099/ijs.0.65095-02007Aerobiosis/physiology, Bacterial Typing Techniques, Benzimidazoles/*metabolism, Carbamates/*metabolism, Carbohydrates/analysis, China, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Genes, rRNA, Locomotion/physiology, Molecular Sequence Data, Mycolic Acids/analysis, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Rhodococcus/chemistry/*classification/genetics/*isolation & purification, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, *Soil Microbiology, Temperature, Vitamin K 2/analysisMetabolism
Phylogeny19651732Rhodococcus jialingiae sp. nov., an actinobacterium isolated from sludge of a carbendazim wastewater treatment facility.Wang Z, Xu J, Li Y, Wang K, Wang Y, Hong Q, Li WJ, Li SPInt J Syst Evol Microbiol10.1099/ijs.0.013219-02009Base Sequence, Benzimidazoles/*metabolism, Carbamates/*metabolism, China, Molecular Sequence Data, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Rhodococcus/*classification/genetics/metabolism, Sequence Homology, Nucleic Acid, Sewage/*microbiology, *Water MicrobiologyMetabolism

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
11902Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44587)https://www.dsmz.de/collection/catalogue/details/culture/DSM-44587
20076Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM44587.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
30012Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2637628776041
34000Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/6058
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
116711Curators of the CIPCollection of Institut Pasteur (CIP 108436)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108436