Strain identifier

BacDive ID: 11118

Type strain: Yes

Species: Nocardioides aquiterrae

Strain Designation: GW-9

Strain history: CIP <- 2004, JCM <- 2002, J.H. Yoon: strain GW-9

NCBI tax ID(s): 203799 (species)

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General

@ref: 6880

BacDive-ID: 11118

DSM-Number: 17295

keywords: 16S sequence, Bacteria, aerobe, mesophilic, Gram-positive, motile, rod-shaped

description: Nocardioides aquiterrae GW-9 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from groundwater.

NCBI tax id

  • NCBI tax id: 203799
  • Matching level: species

strain history

@refhistory
6880<- JCM <- J.-H.Yoon, GW-9
67770J.-H. Yoon GW-9.
116463CIP <- 2004, JCM <- 2002, J.H. Yoon: strain GW-9

doi: 10.13145/bacdive11118.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Propionibacteriales
  • family: Nocardioidaceae
  • genus: Nocardioides
  • species: Nocardioides aquiterrae
  • full scientific name: Nocardioides aquiterrae Yoon et al. 2004

@ref: 6880

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Nocardioidaceae

genus: Nocardioides

species: Nocardioides aquiterrae

full scientific name: Nocardioides aquiterrae Yoon et al. 2004

strain designation: GW-9

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
29907positive1.7-2.0 µm0.8-1 µmrod-shapedyes
116463positiverod-shapedno

pigmentation

  • @ref: 29907
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6880R2A MEDIUM (DSMZ Medium 830)yeshttps://mediadive.dsmz.de/medium/830Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
33953MEDIUM 116 - for Streptomyces, Nocardia, Streptosporangium and Mycobacterium chlorophenolicumyesDistilled water make up to (1000.000 ml);Agar (20.000 g);Glucose (4.000g);Yeast extract (4.000 g);Malt extract (10.000 g)
116463CIP Medium 116yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=116

culture temp

@refgrowthtypetemperaturerange
6880positivegrowth28mesophilic
29907positivegrowth15-42
29907positiveoptimum30mesophilic
33953positivegrowth30mesophilic
67770positivegrowth28mesophilic
116463positivegrowth25-37mesophilic
116463nogrowth10psychrophilic
116463nogrowth41thermophilic
116463nogrowth45thermophilic

culture pH

@refabilitytypepH
29907positivegrowth6.0-7.0
29907positiveoptimum6.5

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
29907aerobe
116463obligate aerobe

spore formation

  • @ref: 29907
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
116463NaClpositivegrowth0-2 %
116463NaClnogrowth4 %
116463NaClnogrowth6 %
116463NaClnogrowth8 %
116463NaClnogrowth10 %

observation

@refobservation
29907aggregates in clumps
67770quinones: MK-8(H4)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2990726546rhamnose+carbon source
2990733942ribose+carbon source
2990753426tween 80+carbon source
11646316947citrate-carbon source
1164634853esculin+hydrolysis
116463606565hippurate-hydrolysis
11646317632nitrate+reduction
11646316301nitrite-reduction
11646317632nitrate-respiration

metabolite production

  • @ref: 116463
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11646315688acetoin-
11646317234glucose-

enzymes

@refvalueactivityec
29907cytochrome oxidase+1.9.3.1
116463oxidase+
116463beta-galactosidase+3.2.1.23
116463alcohol dehydrogenase-1.1.1.1
116463gelatinase+/-
116463amylase-
116463DNase+
116463catalase+1.11.1.6
116463gamma-glutamyltransferase+2.3.2.2
116463lysine decarboxylase-4.1.1.18
116463ornithine decarboxylase-4.1.1.17
116463phenylalanine ammonia-lyase+4.3.1.24
116463tryptophan deaminase-
116463urease-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
116463-+++-++++-++---++---

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
116463++-+---+-++----++-+--+-----------+++-------------+---------++-----------++-----++--+----++++---++--

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
6880groundwaterRepublic of KoreaKORAsia
67770GroundwaterRepublic of KoreaKORAsia
116463Environment, GroundwaterRepublic of KoreaKORAsia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #Groundwater

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
68801Risk group (German classification)
1164631Risk group (French classification)

Sequence information

16S sequences

  • @ref: 6880
  • description: Nocardioides aquiterrae strain GW-9 16S ribosomal RNA gene, partial sequence
  • accession: AF529063
  • length: 1484
  • database: ena
  • NCBI tax ID: 203799

GC content

@refGC-contentmethod
688073
6777073high performance liquid chromatography (HPLC)

External links

@ref: 6880

culture collection no.: DSM 17295, CIP 108375, JCM 11813, KCCM 41647

straininfo link

  • @ref: 80367
  • straininfo: 130848

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny14742461Nocardioides aquiterrae sp. nov., isolated from groundwater in Korea.Yoon JH, Kim IG, Kang KH, Oh TK, Park YHInt J Syst Evol Microbiol10.1099/ijs.0.02585-02004DNA, Ribosomal/genetics, Fatty Acids/metabolism, Fresh Water/*microbiology, Korea, Molecular Sequence Data, Nocardiaceae/*classification/genetics/isolation & purification, Phenotype, Phylogeny, RNA, Ribosomal, 16S/geneticsGenetics
Phylogeny15280305Nocardioides ganghwensis sp. nov., isolated from tidal flat sediment.Yi H, Chun JInt J Syst Evol Microbiol10.1099/ijs.0.03040-02004Actinomycetales/*classification/genetics/*isolation & purification/physiology, Aerobiosis, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/chemistry, DNA, Ribosomal/chemistry, Fatty Acids/analysis, Genes, rRNA, Geologic Sediments/*microbiology, Korea, Molecular Sequence Data, Movement, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Stearic Acids/analysis, Vitamin K 2/analysis, Water MicrobiologyGenetics
Phylogeny18676470Nocardioides fonticola sp. nov., a novel actinomycete isolated from spring water.Chou JH, Cho NT, Arun AB, Young CC, Chen WMInt J Syst Evol Microbiol10.1099/ijs.0.65810-02008Actinomycetales/*classification/genetics/isolation & purification/physiology, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Fresh Water/*microbiology, Genes, rRNA, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species Specificity, TaiwanGenetics
Phylogeny18842843Nocardioides koreensis sp. nov., Nocardioides bigeumensis sp. nov. and Nocardioides agariphilus sp. nov., isolated from soil from Bigeum Island, Korea.Dastager SG, Lee JC, Ju YJ, Park DJ, Kim CJInt J Syst Evol Microbiol10.1099/ijs.0.65566-02008Actinomycetales/chemistry/*classification/*genetics/isolation & purification, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Genes, rRNA, Korea, Molecular Sequence Data, Peptidoglycan/chemistry, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistryGenetics
Phylogeny19651712Nocardioides panacisoli sp. nov., isolated from the soil of a ginseng field.Cho CH, Lee JS, An DS, Whon TW, Kim SGInt J Syst Evol Microbiol10.1099/ijs.0.012690-02009Actinomycetales/*classification/genetics/physiology, Base Composition, Base Sequence, DNA, Bacterial/chemistry, Molecular Sequence Data, Panax/*microbiology, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Homology, Nucleic Acid, *Soil MicrobiologyGenetics
Phylogeny20173009Nocardioides caricicola sp. nov., an endophytic bacterium isolated from a halophyte, Carex scabrifolia Steud.Song GC, Yasir M, Bibi F, Chung EJ, Jeon CO, Chung YRInt J Syst Evol Microbiol10.1099/ijs.0.019919-02010Actinomycetales/*classification/genetics/*isolation & purification/physiology, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, Cluster Analysis, Cyperaceae/*microbiology, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Hydrogen-Ion Concentration, Korea, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Salt-Tolerant Plants/microbiology, Sequence Analysis, DNA, TemperatureGenetics
Phylogeny20382790Nocardioides hungaricus sp. nov., isolated from a drinking water supply system.Toth EM, Keki Z, Makk J, Homonnay ZG, Marialigeti K, Schumann PInt J Syst Evol Microbiol10.1099/ijs.0.022939-02010Actinomycetales/chemistry/*classification/genetics/*isolation & purification, Bacterial Typing Techniques, Base Composition, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid, Fatty Acids, Hungary, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2, *Water Microbiology, Water SupplyGenetics
Phylogeny23553363Nocardioides panaciterrulae sp. nov., isolated from soil of a ginseng field, with ginsenoside converting activity.Kim JK, Liu QM, Park HY, Kang MS, Kim SC, Im WT, Yoon MHAntonie Van Leeuwenhoek10.1007/s10482-013-9919-z2013Bacterial Typing Techniques, Base Composition, Base Sequence, DNA, Bacterial/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Ginsenosides/*metabolism, Molecular Sequence Data, Panax/*microbiology, Phylogeny, Propionibacteriaceae/classification/genetics/*isolation & purification/*metabolism, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analysis, beta-Glucosidase/metabolismMetabolism
Phylogeny24651303Nocardioides soli sp. nov., a carbendazim-degrading bacterium isolated from soil under the long-term application of carbendazim.Sun LN, Zhang J, Gong FF, Wang X, Hu G, Li SP, Hong QInt J Syst Evol Microbiol10.1099/ijs.0.057935-02014Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Benzimidazoles/*metabolism, Carbamates/*metabolism, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Fungicides, Industrial/metabolism, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Soil Pollutants/metabolism, Vitamin K 2/analogs & derivatives/chemistryMetabolism
Phylogeny26902329Nocardioides ginkgobilobae sp. nov., an endophytic actinobacterium isolated from the root of the living fossil Ginkgo biloba L.Xu H, Zhang S, Cheng J, Asem MD, Zhang MY, Manikprabhu D, Zhang TY, Wu YY, Li WJ, Zhang YXInt J Syst Evol Microbiol10.1099/ijsem.0.0009832016Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Ginkgo biloba/*microbiology, Nucleic Acid Hybridization, Peptidoglycan/chemistry, *Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny27381405Nocardioides intraradicalis sp. nov., isolated from the roots of Psammosilene tunicoides W. C. Wu et C. Y. Wu.Huang MJ, Huang HQ, Salam N, Xiao M, Duan YQ, Kim CJ, Li QQ, Chen W, Li WJInt J Syst Evol Microbiol10.1099/ijsem.0.0012742016Actinomycetales/*classification/genetics/isolation & purification, Base Composition, Caryophyllaceae/*microbiology, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, Plant Roots/microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/chemistryTranscriptome
Phylogeny30547859Nocardioides gansuensis sp. nov., isolated from geopark soil.Wu S, Xia X, Zhou Z, Wang D, Wang GInt J Syst Evol Microbiol10.1099/ijsem.0.0031572018Actinobacteria/*classification/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny35333153Nocardioides mangrovi sp. nov., a novel endophytic actinobacterium isolated from root of Kandelia candel.Chen MS, Chen F, Chen XH, Zheng ZQ, Ma X, Tuo LInt J Syst Evol Microbiol10.1099/ijsem.0.0052952022Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nocardioides, Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizophoraceae/microbiology, Sequence Analysis, DNATranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
6880Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17295)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17295
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
29907Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2627928776041
33953Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5990
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68382Automatically annotated from API zym
80367Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID130848.1StrainInfo: A central database for resolving microbial strain identifiers
116463Curators of the CIPCollection of Institut Pasteur (CIP 108375)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108375