Strain identifier

BacDive ID: 13382

Type strain: Yes

Species: Pseudonocardia antitumoralis

Strain history: <- S.-K. Tang, Yunnan Univ., Kunming; SCSIO 01299 <- X.-P. Tian et al.

NCBI tax ID(s): 1070982 (species)

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General

@ref: 16222

BacDive-ID: 13382

DSM-Number: 45322

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

description: Pseudonocardia antitumoralis DSM 45322 is an aerobe, spore-forming, mesophilic bacterium that builds an aerial mycelium and was isolated from deep-sea sediment.

NCBI tax id

  • NCBI tax id: 1070982
  • Matching level: species

strain history

  • @ref: 16222
  • history: <- S.-K. Tang, Yunnan Univ., Kunming; SCSIO 01299 <- X.-P. Tian et al.

doi: 10.13145/bacdive13382.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Pseudonocardiales
  • family: Pseudonocardiaceae
  • genus: Pseudonocardia
  • species: Pseudonocardia antitumoralis
  • full scientific name: Pseudonocardia antitumoralis corrig. Tian et al. 2013

  • synonyms

    • @ref: 20215
    • synonym: Pseudonocardia tumour

@ref: 16222

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Pseudonocardiaceae

genus: Pseudonocardia

species: Pseudonocardia antitumoralis

full scientific name: Pseudonocardia antitumoralis Tian et al. 2013

type strain: yes

Morphology

cell morphology

  • @ref: 30485
  • gram stain: positive
  • cell length: 1.9 µm
  • cell width: 0.45 µm
  • cell shape: rod-shaped

colony morphology

@refcolony colormedium used
69381Fawn brown (8007)ISP 4
69381Brown beige (1011)ISP 5
69381Brown beige (1011)ISP 6
69381Brown beige (1011)suter with tyrosine
69381Ivory (1014), brown beige (1011)suter without tyrosine
69381Ochre brown (8001)ISP 2
69381Ochre brown (8001)ISP 3
69381Ochre brown (8001)ISP 7

multicellular morphology

@refforms multicellular complexcomplex namecomplex colormedium name
69381yesAerial myceliumSilk grey (7044)ISP 2
69381yesAerial myceliumSignal white (9003)ISP 3
69381noAerial myceliumISP 4
69381yesAerial myceliumPure white (9010)ISP 5
69381yesAerial myceliumLight ivory (1015)ISP 6
69381yesAerial myceliumLight ivory (1015)ISP 7
69381noAerial myceliumsuter with tyrosine
69381noAerial myceliumsuter without tyrosine

pigmentation

@refproductionnamecolor
30485yes
69381noMelanin
69381yessoluble pigmentIvory (1014)

multimedia

@refmultimedia contentcaptionintellectual property rights
16222https://www.dsmz.de/microorganisms/photos/DSM_45322.jpgMedium 65 28°C© Leibniz-Institut DSMZ
69381DSM_45322_image3.jpegPlates (65, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH
69381DSM_45322_image4.jpegPlates (65, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
16222GYM 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
16222TRYPTICASE 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

culture temp

@refgrowthtypetemperaturerange
16222positivegrowth28mesophilic
30485positivegrowth04-40
30485positiveoptimum28mesophilic

culture pH

@refabilitytypepHPH range
30485positivegrowth6-8.5alkaliphile
30485positiveoptimum7.5

Physiology and metabolism

oxygen tolerance

  • @ref: 30485
  • oxygen tolerance: aerobe

spore formation

  • @ref: 30485
  • spore formation: yes

compound production

  • @ref: 16222
  • compound: deoxynyboquinone

halophily

@refsaltgrowthtested relationconcentration
30485NaClpositivegrowth0-15 %
30485NaClpositiveoptimum3 %
69381NaClpositivegrowth0-5 %

observation

  • @ref: 30485
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6938122599arabinose-growth
3048516947citrate+carbon source
3048517596inosine+carbon source
3048517716lactose+carbon source
3048529864mannitol+carbon source
3048537684mannose+carbon source
3048516634raffinose+carbon source
3048526546rhamnose+carbon source
3048533942ribose+carbon source
3048530911sorbitol+carbon source
3048517992sucrose+carbon source
3048517151xylitol+carbon source
6938162968cellulose+/-growth
6938128757fructose+growth
6938117234glucose+growth
6938117268inositol+growth
6938137684mannose+growth
6938116634raffinose+/-growth
6938126546rhamnose+growth
6938117992sucrose+growth
6938118222xylose-growth
6837917632nitrate-reduction
683794853esculin-hydrolysis
6837916199urea-hydrolysis
6837917634D-glucose-fermentation
6837916988D-ribose-fermentation
6837965327D-xylose-fermentation
6837916899D-mannitol-fermentation
6837917306maltose-fermentation
6837917716lactose-fermentation
6837917992sucrose-fermentation
6837928087glycogen-fermentation

enzymes

@refvalueactivityec
30485catalase+1.11.1.6
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
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
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

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
69381---+-++---+/---------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
69381++/---+++/--+/-++/--+-++---

Isolation, sampling and environmental information

isolation

  • @ref: 16222
  • sample type: deep-sea sediment
  • geographic location: Northern South China Sea (120° 0.975' E 19° 0.664' N) at a depth of 3258 m
  • country: China
  • origin.country: CHN
  • continent: Asia
  • latitude: 6.6667
  • longitude: 120.967

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_612.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_175;97_435;98_496;99_612&stattab=map
  • Last taxonomy: Pseudonocardia
  • 16S sequence: JN204514
  • Sequence Identity:
  • Total samples: 13706
  • soil counts: 6624
  • aquatic counts: 1601
  • animal counts: 3592
  • plant counts: 1889

Safety information

risk assessment

  • @ref: 16222
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 16222
  • description: Pseudonocardia antitumoralis strain SCSIO 01299 16S ribosomal RNA gene, partial sequence
  • accession: JN204514
  • length: 1435
  • database: ena
  • NCBI tax ID: 1070982

GC content

  • @ref: 16222
  • GC-content: 73.2

External links

@ref: 16222

culture collection no.: DSM 45322, CCTCC M2011255, SCSIO 01299

straininfo link

  • @ref: 82579
  • straininfo: 403451

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny22634702Pseudonocardia antitumoralis sp. nov., a deoxynyboquinone-producing actinomycete isolated from a deep-sea sediment.Tian XP, Long LJ, Li SM, Zhang J, Xu Y, He J, Li J, Wang FZ, Li WJ, Zhang CS, Zhang SInt J Syst Evol Microbiol10.1099/ijs.0.037135-02012Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, China, DNA, Bacterial/genetics, Fatty Acids/analysis, Geologic Sediments/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, Quinones/metabolism, RNA, Ribosomal, 16S/genetics, Seawater/microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/analysis, Water MicrobiologyGenetics
Enzymology27118550Functional Characterization of a Novel Marine Microbial Esterase and its Utilization in the Enantioselective Preparation of (R)-Methyl 2-Chloropropionate.Cao Y, Deng D, Sun A, Zhang Y, Hu YAppl Biochem Biotechnol10.1007/s12010-016-2094-82016Amino Acid Sequence, Bacteria/*enzymology, Buffers, Detergents/pharmacology, Enzyme Stability/drug effects, Esterases/chemistry/isolation & purification/*metabolism, Hydrogen-Ion Concentration, Hydrolysis, Ions, Kinetics, Metals/pharmacology, Propionates/*chemistry/*metabolism, Seawater/*microbiology, Sequence Alignment, Sequence Analysis, Protein, Sodium Chloride/pharmacology, Solvents/pharmacology, Stereoisomerism, Substrate Specificity/drug effects, Surface-Active Agents/pharmacology, Temperature, Time FactorsPathogenicity
Phylogeny30536164Pseudonocardia tritici sp. nov., a novel actinomycete isolated from rhizosphere soil of wheat (Triticum aestivum L.).Song J, Qiu S, Zhao J, Han C, Wang Y, Sun X, Jiang S, Wang X, Xiang WAntonie Van Leeuwenhoek10.1007/s10482-018-01210-22018Actinobacteria/classification/genetics/*isolation & purification/metabolism, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry/metabolism, Phylogeny, RNA, Ribosomal, 16S/genetics, Rhizosphere, Soil/chemistry, *Soil Microbiology, Triticum/growth & developmentMetabolism

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
16222Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45322)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45322
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
30485Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2681928776041
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
69381Wink, J.https://cdn.dsmz.de/wink/DSM%2045322.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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
82579Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID403451.1StrainInfo: A central database for resolving microbial strain identifiers