Strain identifier

BacDive ID: 10608

Type strain: Yes

Species: Gordonia sinesedis

Strain Designation: J72

Strain history: CIP <- 2003, NCIMB <- M. Goodfellow, Newcastle Univ., Newcastle, UK: strain J72

NCBI tax ID(s): 161153 (species)

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General

@ref: 11782

BacDive-ID: 10608

DSM-Number: 44455

keywords: 16S sequence, Bacteria, obligate aerobe, mesophilic, Gram-negative, rod-shaped

description: Gordonia sinesedis J72 is an obligate aerobe, mesophilic, Gram-negative bacterium that was isolated from soil.

NCBI tax id

  • NCBI tax id: 161153
  • Matching level: species

strain history

@refhistory
11782<- M. Goodfellow, Univ. Newcastle; J72
67770L. A. Maldonado J72.
122630CIP <- 2003, NCIMB <- M. Goodfellow, Newcastle Univ., Newcastle, UK: strain J72

doi: 10.13145/bacdive10608.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Mycobacteriales
  • family: Gordoniaceae
  • genus: Gordonia
  • species: Gordonia sinesedis
  • full scientific name: Gordonia sinesedis Maldonado et al. 2003

@ref: 11782

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Gordoniaceae

genus: Gordonia

species: Gordonia sinesedis

full scientific name: Gordonia sinesedis Maldonado et al. 2003

strain designation: J72

type strain: yes

Morphology

cell morphology

  • @ref: 122630
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 122630

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
11782TRYPTICASE 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
34316MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
122630CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
11782positivegrowth28mesophilic
34316positivegrowth30mesophilic
67770positivegrowth28mesophilic
122630positivegrowth25-37mesophilic
122630nogrowth10psychrophilic
122630nogrowth41thermophilic
122630nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 122630
  • oxygen tolerance: obligate aerobe

halophily

@refsaltgrowthtested relationconcentration
122630NaClpositivegrowth0-4 %
122630NaClnogrowth6 %
122630NaClnogrowth8 %
122630NaClnogrowth10 %

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12263016947citrate-carbon source
1226304853esculin-hydrolysis
122630606565hippurate+hydrolysis
12263017632nitrate-reduction
12263016301nitrite-reduction
12263017632nitrate-respiration

antibiotic resistance

  • @ref: 122630
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

  • @ref: 122630
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
12263015688acetoin-
12263017234glucose-

enzymes

@refvalueactivityec
122630oxidase-
122630beta-galactosidase-3.2.1.23
122630alcohol dehydrogenase-1.1.1.1
122630gelatinase-
122630amylase-
122630DNase-
122630caseinase-3.4.21.50
122630catalase+1.11.1.6
122630tween esterase-
122630gamma-glutamyltransferase+2.3.2.2
122630lecithinase-
122630lipase-
122630lysine decarboxylase-4.1.1.18
122630ornithine decarboxylase-4.1.1.17
122630phenylalanine ammonia-lyase-4.3.1.24
122630protease-
122630tryptophan deaminase-
122630urease+3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)+
68382leucine arylamidase+3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
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 zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
122630-+++++----++---+----

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
122630-+-+---+-++-----------+--+------+--+-----------------+-----+-----+-+------------------+-+--------+-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
11782soilnear the river Thames
67770Soil near the River ThamesUnited KingdomGBREurope
122630Environment, Soil

isolation source categories

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

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
117821Risk group (German classification)
1226301Risk group (French classification)

Sequence information

16S sequences

  • @ref: 11782
  • description: Gordonia sinesedis 16S ribosomal RNA gene, partial sequence
  • accession: AF380834
  • length: 1474
  • database: ena
  • NCBI tax ID: 161153

External links

@ref: 11782

culture collection no.: DSM 44455, NCIMB 13802, JCM 12126, CIP 108187, NBRC 110696

straininfo link

  • @ref: 79882
  • straininfo: 60986

literature

  • topic: Phylogeny
  • Pubmed-ID: 12755483
  • title: Gordonia sinesedis sp. nov., a novel soil isolate.
  • authors: Maldonado LA, Stainsby FM, Ward AC, Goodfellow M
  • journal: Antonie Van Leeuwenhoek
  • DOI: 10.1023/a:1022918102948
  • year: 2003
  • mesh: *Bacterial Typing Techniques, DNA, Ribosomal/analysis, Genotype, Gordonia Bacterium/*classification/genetics/isolation & purification, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitle
11782Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44455)https://www.dsmz.de/collection/catalogue/details/culture/DSM-44455
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
34316Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5781
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68382Automatically annotated from API zym
79882Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID60986.1StrainInfo: A central database for resolving microbial strain identifiers
122630Curators of the CIPCollection of Institut Pasteur (CIP 108187)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108187