Strain identifier

BacDive ID: 10825

Type strain: Yes

Species: Nocardia callitridis

Strain history: DSM 45353 <-- C. Franco CAP 290 <-- O. Kaewkla.

NCBI tax ID(s): 648753 (species)

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General

@ref: 16308

BacDive-ID: 10825

DSM-Number: 45353

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

description: Nocardia callitridis DSM 45353 is an aerobe, spore-forming, Gram-positive bacterium that builds an aerial mycelium and was isolated from Australian native pine tree, Callitris preissii.

NCBI tax id

  • NCBI tax id: 648753
  • Matching level: species

strain history

@refhistory
16308<- C. Franco; CAP 290 <- O. Kaewkla
67770DSM 45353 <-- C. Franco CAP 290 <-- O. Kaewkla.

doi: 10.13145/bacdive10825.20240510.9

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 callitridis
  • full scientific name: Nocardia callitridis Kaewkla and Franco 2010

@ref: 16308

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Nocardiaceae

genus: Nocardia

species: Nocardia callitridis

full scientific name: Nocardia callitridis Kaewkla and Franco 2010

type strain: yes

Morphology

cell morphology

  • @ref: 29582
  • gram stain: positive
  • cell length: 0.8 µm
  • cell width: 0.7 µm
  • cell shape: ovoid-shaped
  • motility: no

colony morphology

@refcolony colormedium used
69384Cream (9001)ISP 4
69384ColourlessISP 3
69384ColourlessISP 6
69384Light ivory (1015)ISP 2
69384Light ivory (1015)ISP 5
69384Light ivory (1015)ISP 7
69384Light ivory (1015)suter with tyrosine
69384Light ivory (1015)suter without tyrosine

multicellular morphology

@refforms multicellular complexcomplex namecomplex colormedium name
69384yesAerial myceliumPure white (9010)ISP 2
69384yesAerial myceliumPure white (9010)ISP 3
69384noAerial myceliumISP 4
69384yesAerial myceliumCream (9001)ISP 5
69384yesAerial myceliumCream (9001)ISP 6
69384yesAerial myceliumCream (9001)ISP 7
69384noAerial myceliumsuter with tyrosine
69384noAerial myceliumsuter without tyrosine

pigmentation

@refproductionname
29582yes
69384noMelanin
69384nosoluble pigment

multimedia

@refmultimedia contentcaptionintellectual property rights
16308https://www.dsmz.de/microorganisms/photos/DSM_45353.jpgMedium 65 28°C© Leibniz-Institut DSMZ
69384DSM_45353_image3.jpegPlates (535, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH
69384DSM_45353_image4.jpegPlates (535, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
16308GYM 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
16308TRYPTICASE 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

@refgrowthtypetemperature
16308positivegrowth28
29582positivegrowth15-27
29582positiveoptimum27
67770positivegrowth28

culture pH

@refabilitytypepHPH range
29582positivegrowth05-10alkaliphile
29582positiveoptimum8

Physiology and metabolism

oxygen tolerance

  • @ref: 29582
  • oxygen tolerance: aerobe

spore formation

  • @ref: 29582
  • spore formation: yes

halophily

@refsaltgrowthtested relationconcentration
29582NaClpositivegrowth0-15 %
29582NaClpositiveoptimum0-5 %
69384NaClpositivegrowth0-5 %

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2958228757fructose+carbon source
2958228260galactose+carbon source
2958216634raffinose+carbon source
2958233942ribose+carbon source
2958230911sorbitol+carbon source
2958227082trehalose+carbon source
2958218222xylose+carbon source
6836925115malate-assimilation
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836924265gluconate-assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine-assimilation
6836916899D-mannitol-assimilation
6836916024D-mannose-assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose-assimilation
683695291gelatin-hydrolysis
683694853esculin+hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction
6938422599arabinose-growth
6938462968cellulose-growth
6938428757fructose-growth
6938417234glucose+growth
6938417268inositol-growth
6938437684mannose-growth
6938416634raffinose-growth
6938426546rhamnose-growth
6938417992sucrose-growth
6938418222xylose-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

metabolite production

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
29582catalase+1.11.1.6
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
68369gelatinase-
68369beta-glucosidase+3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382alpha-galactosidase-3.2.1.22
68382beta-glucuronidase-3.2.1.31
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
69384------+/-------------

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
16308--++/--+----+/------+---
69384+/-+/-+-++/----++/--+/--++---

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPAC
16308-----+-------------

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
16308Australian native pine tree, Callitris preissiiCallitris preissiiAdelaide, Flinders University campusAustraliaAUSAustralia and Oceania
67770Surface-sterilized root of a native pine tree (Callitris preissii) on the Flinders University campusCallitris preissiiAdelaide, South AustraliaAustraliaAUSAustralia and Oceania

isolation source categories

  • Cat1: #Host
  • Cat2: #Plants
  • Cat3: #Tree

Safety information

risk assessment

  • @ref: 16308
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 16308
  • description: Nocardia callitridis strain CAP 290 16S ribosomal RNA gene, partial sequence
  • accession: FJ805428
  • length: 1386
  • database: nuccore
  • NCBI tax ID: 648753

GC content

@refGC-contentmethod
1630868.7high performance liquid chromatography (HPLC)
2958268.7

External links

@ref: 16308

culture collection no.: DSM 45353, ACM 5287, JCM 18298, CAP 290

straininfo link

  • @ref: 80086
  • straininfo: 397068

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19684327Nocardia callitridis sp. nov., an endophytic actinobacterium isolated from a surface-sterilized root of an Australian native pine tree.Kaewkla O, Franco CMMInt J Syst Evol Microbiol10.1099/ijs.0.016337-02009Australia, Base Sequence, Fatty Acids/analysis, Molecular Sequence Data, Nocardia/*classification/genetics/isolation & purification/physiology, Pinus/*microbiology, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, SterilizationGenetics
Phylogeny20817835Nocardia endophytica sp. nov., an endophytic actinomycete isolated from the oil-seed plant Jatropha curcas L.Xing K, Qin S, Fei SM, Lin Q, Bian GK, Miao Q, Wang Y, Cao CL, Tang SK, Jiang JH, Li WJInt J Syst Evol Microbiol10.1099/ijs.0.027391-02010DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Jatropha/*microbiology/physiology, Molecular Sequence Data, Nocardia/*classification/genetics/*isolation & purification/physiology, Phylogeny, RNA, Ribosomal, 16S/genetics, SymbiosisGenetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
16308Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45353)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45353
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
29582Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2597428776041
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68369Automatically annotated from API 20NE
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
69384Wink, J.https://cdn.dsmz.de/wink/DSM%2045353.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
80086Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID397068.1StrainInfo: A central database for resolving microbial strain identifiers