Strain identifier

BacDive ID: 169282

Type strain: No

Species: Rhodococcus rhodochrous

Strain Designation: G38GP

Strain history: <- J. Guzman, Fraunhofer IME; G38GP <- J. Guzman, Fraunhofer, IME branch Bioresources, Gießen; G38GP <- J. Guzman, Fraunhofer, IME branch Bioresources, Gießen; G38GP

NCBI tax ID(s): 1829 (species)

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General

@ref: 68535

BacDive-ID: 169282

DSM-Number: 111905

keywords: genome sequence, 16S sequence, Bacteria, mesophilic

description: Rhodococcus rhodochrous G38GP is a mesophilic bacterium that was isolated from Gromphadorhina portentosa cockroach.

NCBI tax id

  • NCBI tax id: 1829
  • Matching level: species

strain history

  • @ref: 68535
  • history: <- J. Guzman, Fraunhofer IME; G38GP <- J. Guzman, Fraunhofer, IME branch Bioresources, Gießen; G38GP <- J. Guzman, Fraunhofer, IME branch Bioresources, Gießen; G38GP

doi: 10.13145/bacdive169282.20250331.9.3

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 rhodochrous
  • full scientific name: Rhodococcus rhodochrous (Zopf 1891) Tsukamura 1974 (Approved Lists 1980)

  • synonyms

    @refsynonym
    20215Rhodococcus roseus
    20215Staphylococcus rhodochrous

@ref: 68535

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Not assigned to order

family: Nocardiaceae

genus: Rhodococcus

species: Rhodococcus rhodochrous

full scientific name: Rhodococcus rhodochrous (Zopf 1891) Tsukamura 1974 emend. Nouioui et al. 2018

strain designation: G38GP

type strain: no

Morphology

cell morphology

@refmotilityconfidencegram stain
125438no92
12543997.7positive

Culture and growth conditions

culture medium

  • @ref: 68535
  • name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)
  • growth: yes
  • link: https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium535.pdf

culture temp

  • @ref: 68535
  • growth: positive
  • type: growth
  • temperature: 28

Physiology and metabolism

oxygen tolerance

  • @ref: 125439
  • oxygen tolerance: obligate aerobe
  • confidence: 95.8

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836925115malate+assimilation
6836917128adipate+assimilation
6836927689decanoate-assimilation
6836916899D-mannitol+assimilation
6836917634D-glucose+assimilation
683695291gelatin-hydrolysis
683694853esculin+hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction

metabolite production

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

metabolite tests

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

enzymes

@refvalueactivityec
68369gelatinase-
68369beta-glucosidase+3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
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
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
68535--++-+-----+/-----+---

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPAC
68535-----+--++/-+/-++/-+/-+/--++++/-

Isolation, sampling and environmental information

isolation

  • @ref: 68535
  • sample type: Gromphadorhina portentosa cockroach
  • geographic location: Giessen
  • country: Germany
  • origin.country: DEU
  • continent: Europe
  • latitude: 50.573
  • longitude: 8.7273

Safety information

risk assessment

  • @ref: 68535
  • pathogenicity human: yes, in single cases
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 68535
  • description: Rhodococcus rhodochrous strain G38GP 16S ribosomal RNA gene, partial sequence
  • accession: MW167072
  • length: 1366
  • database: nuccore
  • NCBI tax ID: 1829

Genome sequences

  • @ref: 66792
  • description: Rhodococcus rhodochrous G38GP
  • accession: GCA_015351415
  • assembly level: scaffold
  • database: ncbi
  • NCBI tax ID: 1829

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingyes89.839no
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no97.469no
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes88.826no
125438spore-formingspore-formingAbility to form endo- or exosporesno59.034no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno95.5yes
125438motile2+flagellatedAbility to perform flagellated movementno92no
125439BacteriaNetspore_formationAbility to form endo- or exosporesno55.2
125439BacteriaNetmotilityAbility to perform movementno75.5
125439BacteriaNetgram_stainReaction to gram-stainingpositive97.7
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthobligate aerobe95.8

External links

@ref: 68535

culture collection no.: DSM 111905

straininfo link

  • @ref: 115521
  • straininfo: 396838

literature

  • topic: Genetics
  • Pubmed-ID: 34617793
  • title: Draft Genome Sequence of Rhodococcus rhodochrous Strain G38GP, Isolated from the Madagascar Hissing Cockroach.
  • authors: Guzman J, Vilcinskas A
  • journal: Microbiol Resour Announc
  • DOI: 10.1128/MRA.00777-21
  • year: 2021
  • topic2: Phylogeny

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
68369Automatically annotated from API 20NE
68382Automatically annotated from API zym
68535Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-111905Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 111905)
115521Reimer, 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-ID396838.1
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