Strain identifier

BacDive ID: 11050

Type strain: Yes

Species: Rhodococcus nanhaiensis

Strain history: <- J. Li, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou, China; SCSIO 10187

NCBI tax ID(s): 1081097 (species)

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General

@ref: 17762

BacDive-ID: 11050

DSM-Number: 45608

keywords: 16S sequence, aerobe, mesophilic, Gram-positive

description: Rhodococcus nanhaiensis DSM 45608 is an aerobe, mesophilic, Gram-positive prokaryote that was isolated from marine sediment.

NCBI tax id

  • NCBI tax id: 1081097
  • Matching level: species

strain history

  • @ref: 17762
  • history: <- J. Li, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou, China; SCSIO 10187

doi: 10.13145/bacdive11050.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • genus: Rhodococcus
  • species: Rhodococcus nanhaiensis
  • full scientific name: Rhodococcus nanhaiensis Li et al. 2012

@ref: 17762

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Nocardiaceae

genus: Rhodococcus

species: Rhodococcus nanhaiensis

full scientific name: Rhodococcus nanhaiensis Li et al. 2012

type strain: yes

Morphology

cell morphology

  • @ref: 30525
  • gram stain: positive
  • motility: no

colony morphology

@refcolony colormedium used
69412Honey yellow (1005)suter without tyrosine
69412Maize yellow (1006)ISP 7
69412Sand yellow (1002)ISP 2
69412Sand yellow (1002)ISP 4
69412Sand yellow (1002)ISP 5
69412Sand yellow (1002), brown beige (1011)suter with tyrosine

multicellular morphology

@refforms multicellular complexcomplex namemedium name
69412noAerial myceliumISP 2
69412noAerial myceliumISP 3
69412noAerial myceliumISP 4
69412noAerial myceliumISP 5
69412noAerial myceliumISP 6
69412noAerial myceliumISP 7
69412noAerial myceliumsuter with tyrosine
69412noAerial myceliumsuter without tyrosine

pigmentation

@refproductionname
30525yes
69412nosoluble pigment

multimedia

@refmultimedia contentcaptionintellectual property rights
17762https://www.dsmz.de/microorganisms/photos/DSM_45608.jpgMedium 535 28°C© Leibniz-Institut DSMZ
69412DSM_45608_image3.jpegPlates (535, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH
69412DSM_45608_image4.jpegPlates (535, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH

Culture and growth conditions

culture medium

  • @ref: 17762
  • name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/535
  • composition: Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
17762positivegrowth28mesophilic
30525positivegrowth15-35
30525positiveoptimum28mesophilic

culture pH

@refabilitytypepH
30525positivegrowth05-08
30525positiveoptimum6

Physiology and metabolism

oxygen tolerance

  • @ref: 30525
  • oxygen tolerance: aerobe

halophily

@refsaltgrowthtested relationconcentration
30525NaClpositivegrowth0-10 %
30525NaClpositiveoptimum5 %
69412NaClpositivegrowth0-2.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6941222599arabinose-growth
3052528757fructose+carbon source
6941262968cellulose-growth
6941228757fructose+growth
6941217234glucose-growth
6941217268inositol+growth
6941237684mannose-growth
6941216634raffinose-growth
6941226546rhamnose-growth
6941217992sucrose-growth
6941218222xylose-growth
6837917632nitrate-reduction
683794853esculin-hydrolysis
6837916199urea-hydrolysis
683795291gelatin-hydrolysis
6837917634D-glucose-fermentation
6837916988D-ribose-fermentation
6837965327D-xylose-fermentation
6837916899D-mannitol-fermentation
6837917306maltose-fermentation
6837917716lactose-fermentation
6837917992sucrose-fermentation
6837928087glycogen-fermentation

enzymes

@refvalueactivityec
30525catalase+1.11.1.6
30525cytochrome oxidase+1.9.3.1
68379gelatinase-
68379urease-3.5.1.5
68379beta-glucosidase-3.2.1.21
68379N-acetyl-beta-glucosaminidase-3.2.1.52
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
68382alkaline phosphatase+3.1.3.1
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase+
68382trypsin-3.4.21.4
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
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
69412---+--+/-------------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
69412++/-+-+++/--+/-++---++/----

Isolation, sampling and environmental information

isolation

  • @ref: 17762
  • sample type: marine sediment
  • geographic location: South China Sea (20° 44.8951' N 114° 15.2932' E) at a depth of 84.5 m
  • country: China
  • origin.country: CHN
  • continent: Asia
  • latitude: 20.7483
  • longitude: 114.255

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Environmental#Aquatic#Sediment

Safety information

risk assessment

  • @ref: 17762
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 17762
  • description: Rhodococcus nanhaiensis strain SCSIO 10187 16S ribosomal RNA gene, partial sequence
  • accession: JN582175
  • length: 1400
  • database: ena
  • NCBI tax ID: 1081097

GC content

@refGC-contentmethod
1776263.7high performance liquid chromatography (HPLC)
3052563.7

External links

@ref: 17762

culture collection no.: DSM 45608, CCTCC AB 2011024, SCSIO 10187

straininfo link

  • @ref: 80300
  • straininfo: 405307

literature

  • topic: Phylogeny
  • Pubmed-ID: 22180608
  • title: Rhodococcus nanhaiensis sp. nov., an actinobacterium isolated from marine sediment.
  • authors: Li J, Zhao GZ, Long LJ, Wang FZ, Tian XP, Zhang S, Li WJ
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.038067-0
  • year: 2011
  • mesh: Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/analysis, Geologic Sediments/*microbiology, Molecular Sequence Data, Oceans and Seas, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodococcus/*classification/genetics/isolation & purification, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/analysis
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
17762Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45608)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45608
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
30525Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2685728776041
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
69412Wink, J.https://cdn.dsmz.de/wink/DSM%2045608.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
80300Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID405307.1StrainInfo: A central database for resolving microbial strain identifiers