Strain identifier

BacDive ID: 169285

Type strain: No

Species: Rhodococcus sp.

Strain Designation: X156

Strain history: <- G. Yan, CDC, Beijing, China; X156 <- X. Wang, CDC, Beijing, China; X156

NCBI tax ID(s): 194249 (species)

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General

@ref: 68538

BacDive-ID: 169285

DSM-Number: 106531

keywords: genome sequence, Bacteria, mesophilic

description: Rhodococcus sp. X156 is a mesophilic bacterium that was isolated from feces of the Tibetan antelope.

NCBI tax id

  • NCBI tax id: 194249
  • Matching level: species

strain history

  • @ref: 68538
  • history: <- G. Yan, CDC, Beijing, China; X156 <- X. Wang, CDC, Beijing, China; X156

doi: 10.13145/bacdive169285.20250331.9.3

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Mycobacteriales
  • family: Nocardiaceae
  • genus: Rhodococcus
  • species: Rhodococcus sp.
  • full scientific name: Rhodococcus Zopf 1891 (Approved Lists 1980)

  • synonyms

    @refsynonym
    20215Rhodococcoides
    20215Prescottella
    20215Prescottia

@ref: 68538

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Not assigned to order

family: Nocardiaceae

genus: Rhodococcus

species: Rhodococcus sp.

full scientific name: Rhodococcus sp.

strain designation: X156

type strain: no

Morphology

cell morphology

  • @ref: 125439
  • gram stain: positive
  • confidence: 98.6

Culture and growth conditions

culture medium

  • @ref: 68538
  • name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)
  • growth: yes
  • link: https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium92.pdf

culture temp

  • @ref: 68538
  • growth: positive
  • type: growth
  • temperature: 28

Physiology and metabolism

oxygen tolerance

  • @ref: 125439
  • oxygen tolerance: obligate aerobe
  • confidence: 99.1

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6837917992sucrose-fermentation
6837917716lactose-fermentation
6837965327D-xylose-fermentation
6837917634D-glucose-fermentation
6837916988D-ribose-fermentation
6837916199urea-hydrolysis
683795291gelatin-hydrolysis
6837917306maltose-fermentation
6837916899D-mannitol-fermentation
683794853esculin-hydrolysis
6837917632nitrate-reduction

enzymes

@refvalueactivityec
68379urease-3.5.1.5
68379beta-glucuronidase-3.2.1.31
68379alkaline phosphatase-3.1.3.1
68379gelatinase-
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
68379pyrrolidonyl arylamidase-3.4.19.3
68379pyrazinamidase-3.5.1.B15
68382alkaline phosphatase-3.1.3.1
68382esterase (C 4)-
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 coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELControlGLURIBXYLMANMALLACSAC
68538-------------------

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
68538---+/--+--------------

Isolation, sampling and environmental information

isolation

  • @ref: 68538
  • sample type: feces of the Tibetan antelope
  • geographic location: Kekexili in Qinghai Province (35° 21' 54'' N, 93° 26' 34.7'' E)
  • country: China
  • origin.country: CHN
  • continent: Asia
  • latitude: 35.365
  • longitude: 93.443

Sequence information

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Rhodococcus sp. X156GCA_004006015completencbi2499145
66792Rhodococcus sp. X1562499145.3completepatric2499145

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingyes89.856no
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no93.702no
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes82.771no
125438spore-formingspore-formingAbility to form endo- or exosporesno60.111no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno96yes
125438motile2+flagellatedAbility to perform flagellated movementno62.1no
125439BacteriaNetspore_formationAbility to form endo- or exosporesno72.3
125439BacteriaNetmotilityAbility to perform movementno59.4
125439BacteriaNetgram_stainReaction to gram-stainingpositive98.6
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthobligate aerobe99.1

External links

@ref: 68538

culture collection no.: DSM 106531

straininfo link

  • @ref: 115524
  • straininfo: 403405

Reference

@idauthorstitledoi/urlcatalogue
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
68538Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-106531Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 106531)
115524Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID403405.1
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg OvermannPredicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets10.1101/2024.08.12.607695
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardydeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1https://github.com/GenomeNet/deepG