Strain identifier

BacDive ID: 10666

Type strain: No

Species: Nocardia farcinica

Strain Designation: S738, Schering 257, A-0002

Strain history: CIP <- 1996, JCM, Nocardia farcinica <- KCC: strain A-0002 <- T. Yamaguchi <- ATCC <- S.A. Walksman <- J. Orskov

NCBI tax ID(s): 37329 (species)

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General

@ref: 10931

BacDive-ID: 10666

DSM-Number: 43289

keywords: 16S sequence, Bacteria, obligate aerobe, mesophilic, Gram-positive, rod-shaped, human pathogen

description: Nocardia farcinica S738 is an obligate aerobe, mesophilic, Gram-positive human pathogen of the family Nocardiaceae.

NCBI tax id

  • NCBI tax id: 37329
  • Matching level: species

strain history

@refhistory
10931<- K. Kieslich; Schering 257 <- ATCC <- S.A. Waksman
67770KCC A-0002 <-- T. Yamaguchi <-- ATCC 3308 <-- S. A. Waksman <-- J. Ørskov.
119284CIP <- 1996, JCM, Nocardia farcinica <- KCC: strain A-0002 <- T. Yamaguchi <- ATCC <- S.A. Walksman <- J. Orskov

doi: 10.13145/bacdive10666.20250331.9.3

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Mycobacteriales
  • family: Nocardiaceae
  • genus: Nocardia
  • species: Nocardia farcinica
  • full scientific name: Nocardia farcinica Trevisan 1889 (Approved Lists 1980)

@ref: 10931

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Nocardiaceae

genus: Nocardia

species: Nocardia farcinica

full scientific name: Nocardia farcinica Trevisan 1889 emend. Nouioui et al. 2018

strain designation: S738, Schering 257, A-0002

type strain: no

Morphology

cell morphology

  • @ref: 119284
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 119284

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
10931GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)yeshttps://mediadive.dsmz.de/medium/65Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water
35736MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
119284CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperature
10931positivegrowth28
35736positivegrowth30
67770positivegrowth37
119284positivegrowth30-45
119284nogrowth10
119284nogrowth25

Physiology and metabolism

oxygen tolerance

  • @ref: 119284
  • oxygen tolerance: obligate aerobe

halophily

@refsaltgrowthtested relationconcentration
119284NaClpositivegrowth0-4 %
119284NaClnogrowth6 %
119284NaClnogrowth8 %
119284NaClnogrowth10 %

observation

  • @ref: 67770
  • observation: quinones: MK-8(H4)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
11928416947citrate-carbon source
1192844853esculin+hydrolysis
119284606565hippurate+hydrolysis
11928417632nitrate-reduction
11928416301nitrite-reduction
11928417632nitrate-respiration
68371Potassium 5-ketogluconate-builds acid from
6837118305arbutin-builds acid from
6837127613amygdalin-builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837132528turanose-builds acid from
6837128066gentiobiose-builds acid from
6837117151xylitol-builds acid from
6837128087glycogen-builds acid from
6837128017starch-builds acid from
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837127082trehalose-builds acid from
6837117992sucrose-builds acid from
6837128053melibiose-builds acid from
6837117716lactose-builds acid from
6837117306maltose-builds acid from
6837117057cellobiose-builds acid from
6837117814salicin-builds acid from
683714853esculin-builds acid from
6837159640N-acetylglucosamine-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837116899D-mannitol-builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose-builds acid from
6837115824D-fructose-builds acid from
6837117634D-glucose-builds acid from
6837112936D-galactose-builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose-builds acid from
6837116988D-ribose-builds acid from
6837130849L-arabinose-builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
6837117754glycerol-builds acid from

antibiotic resistance

  • @ref: 119284
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

  • @ref: 119284
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11928415688acetoin-
11928417234glucose-

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
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382alkaline phosphatase-3.1.3.1
119284oxidase-
119284beta-galactosidase+3.2.1.23
119284alcohol dehydrogenase-1.1.1.1
119284gelatinase+
119284amylase+
119284caseinase-3.4.21.50
119284catalase+1.11.1.6
119284tween esterase-
119284gamma-glutamyltransferase-2.3.2.2
119284lecithinase-
119284lipase-
119284lysine decarboxylase-4.1.1.18
119284ornithine decarboxylase-4.1.1.17
119284phenylalanine ammonia-lyase-4.3.1.24
119284tryptophan deaminase-
119284urease-3.5.1.5
68382alpha-chymotrypsin-3.4.21.1

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
119284--++-+----++---++---

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
119284-------------------------------------------------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
119284++-++----+++---+--++---+------+++-----++---------+---------++++---+--------+--+++---+++-+-----+-+-+

Safety information

risk assessment

@refpathogenicity humanpathogenicity animalbiosafety levelbiosafety level comment
10931yesyes2Risk group (German classification)
1192842Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Nocardia farcinica strain DSM 43289 note copy 1 rrnC operon, partial sequence; and 16S-23S ribosomal RNA intergenic spacer, complete sequenceAF536441345nuccore37329
20218Nocardia farcinica strain DSM 43289 note copy 2 16S-23S ribosomal RNA intergenic spacer, complete sequenceAF536442334nuccore37329
20218Nocardia farcinica strain DSM 43289 note copy 3 rrnA operon, partial sequence; and 16S-23S ribosomal RNA intergenic spacer, complete sequenceAF536443327nuccore37329
20218Nocardia farcinica strain ATCC 3308 clone 2 16S ribosomal RNA gene, partial sequence; 16S-23S ribosomal RNA intergenic spacer, complete sequence; and 23S ribosomal RNA gene, partial sequenceGU236391640nuccore37329
20218Nocardia farcinica strain ATCC 3308 clone 1 16S ribosomal RNA gene, partial sequence; 16S-23S ribosomal RNA intergenic spacer, complete sequence; and 23S ribosomal RNA gene, partial sequenceGU236392640nuccore37329
20218Nocardia farcinica strain ATCC 3308 clone 3 16S ribosomal RNA gene, partial sequence; 16S-23S ribosomal RNA intergenic spacer, complete sequence; and 23S ribosomal RNA gene, partial sequenceGU236393640nuccore37329
20218Nocardia farcinica strain ATCC 3308 clone 4 16S ribosomal RNA gene, partial sequence; 16S-23S ribosomal RNA intergenic spacer, complete sequence; and 23S ribosomal RNA gene, partial sequenceGU236394640nuccore37329
20218Nocardia farcinica strain DSM 43289 16S ribosomal RNA gene, partial sequenceJN041681462nuccore37329

GC content

@refGC-contentmethod
6777070.2high performance liquid chromatography (HPLC)
6777068fluorimetric

External links

@ref: 10931

culture collection no.: DSM 43289, ATCC 3308, IFO 3384, IMET 7020, NBRC 3384, NCTC 4526, JCM 3002, BCRC 13364, BCRC 16268, CIP 104821, IID 1646, LMG 4062

straininfo link

  • @ref: 79936
  • straininfo: 13732

phages

  • @ref: 124042
  • name: Nocardia phage N24
  • strain number: DSM 43289
  • link: https://phagedive.dsmz.de/strain/734

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
10931Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 43289)https://www.dsmz.de/collection/catalogue/details/culture/DSM-43289
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
35736Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/16772
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
79936Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID13732.1StrainInfo: A central database for resolving microbial strain identifiers
119284Curators of the CIPCollection of Institut Pasteur (CIP 104821)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104821
124042Johannes Wittmann, Clara Rolland, Lorenz Reimer, Joaquim Sardàhttps://phagedive.dsmz.de/PhageDive