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Strain identifier

BacDive ID: 1976

Type strain: Yes

Species: Mycetohabitans rhizoxinica

Strain history: <- L. P. Partida-Martinez; HKI 454

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 7825

BacDive-ID: 1976

DSM-Number: 19002

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, ovoid-shaped

description: Mycetohabitans rhizoxinica DSM 19002 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from fungus Rhizopus microsporus van Tieghem var. chinensis .

NCBI tax id

NCBI tax idMatching level
412963species
882378strain

strain history: <- L. P. Partida-Martinez; HKI 454

doi: 10.13145/bacdive1976.20221219.7.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Burkholderiales
  • family: Burkholderiaceae
  • genus: Mycetohabitans
  • species: Mycetohabitans rhizoxinica
  • full scientific name: Mycetohabitans rhizoxinica (Partida-Martinez et al. 2007) Estrada-de Los Santos et al. 2018
  • synonyms

    @refsynonym
    20215Burkholderia rhizoxina
    20215Burkholderia rhizoxinica
    20215Paraburkholderia rhizoxinica

@ref: 7825

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Burkholderiaceae

genus: Mycetohabitans

species: Mycetohabitans rhizoxinica

full scientific name: Mycetohabitans rhizoxinica (Partida-Martinez et al. 2007) Estrada-de Los Santos et al. 2018

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
31924negative1.6 µm0.9 µmovoid-shapedyes
69480negative98.186

colony morphology

  • @ref: 7825
  • incubation period: 3-7 days

pigmentation

  • @ref: 31924
  • production: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7825R2A MEDIUM (DSMZ Medium 830)yeshttps://mediadive.dsmz.de/medium/830Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
37309MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)

culture temp

@refgrowthtypetemperaturerange
7825positivegrowth28mesophilic
31924positivegrowth16-45
31924positiveoptimum30.5mesophilic
37309positivegrowth30mesophilic

culture pH

@refabilitytypepH
31924positivegrowth5.0-7.4
31924positiveoptimum6.25

Physiology and metabolism

oxygen tolerance

  • @ref: 31924
  • oxygen tolerance: aerobe

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 96.322

compound production

  • @ref: 7825
  • compound: rhizoxin

halophily

@refsaltgrowthtested relationconcentrationhalophily levelconfidence
31924NaClpositivegrowth0-3 %
31924NaClpositiveoptimum1 %
69480non-halophilic97.041

observation

  • @ref: 31924
  • observation: aggregates in clumps

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3192417754glycerol+carbon source
3192437684mannose+carbon source
6836925115malate+assimilation
6836927689decanoate-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

metabolite production

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

metabolite tests

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

enzymes

@refvalueactivityec
7825catalase+1.11.1.6
7825cytochrome-c oxidase+1.9.3.1
31924catalase+1.11.1.6
31924cytochrome oxidase+1.9.3.1
68369cytochrome oxidase+1.9.3.1
68369gelatinase-
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
7825--------------+-++--+
7825-----------------+--
7825-----------------+--

Isolation, sampling and environmental information

isolation

  • @ref: 7825
  • sample type: fungus Rhizopus microsporus van Tieghem var. chinensis (ATCC 62417)
  • host species: Rhizopus microsporus van Tieghem var. chinensis
  • country: Germany
  • origin.country: DEU
  • continent: Europe

isolation source categories

  • Cat1: #Host
  • Cat2: #Fungi

taxonmaps

  • @ref: 69479
  • File name: preview.99_2541.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_12;96_18;97_1623;98_1974;99_2541&stattab=map
  • Last taxonomy: Burkholderia
  • 16S sequence: AJ938142
  • Sequence Identity:
  • Total samples: 11924
  • soil counts: 4868
  • aquatic counts: 1257
  • animal counts: 2903
  • plant counts: 2896

Safety information

risk assessment

  • @ref: 7825
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 7825
  • description: Burkholderia rhizoxinica 16S rRNA gene, type strain HKI 454T
  • accession: AJ938142
  • length: 1525
  • database: ena
  • NCBI tax ID: 882378

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Mycetohabitans rhizoxinica HKI 454 HKI 454GCA_000198775completencbi882378
66792Burkholderia rhizoxinica HKI 454882378.3completepatric882378
66792Paraburkholderia rhizoxinica HKI 454882378.20plasmidpatric882378
66792Paraburkholderia rhizoxinica HKI 454882378.19plasmidpatric882378
66792Mycetohabitans rhizoxinica HKI 454650716014completeimg882378
66792Listeria monocytogenes CFSAN044789GCA_002524605scaffoldpatric1639
66792Enterobacter mori ECC143GCA_019457965scaffoldpatric539813
66792Pseudomonas aeruginosa M0193GCA_020639575contigpatric287

External links

@ref: 7825

culture collection no.: DSM 19002, CIP 109453, HKI 454

straininfo link

@refpassport
20218http://www.straininfo.net/strains/756754
20218http://www.straininfo.net/strains/756753

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17978222Burkholderia rhizoxinica sp. nov. and Burkholderia endofungorum sp. nov., bacterial endosymbionts of the plant-pathogenic fungus Rhizopus microsporus.Partida-Martinez LP, Groth I, Schmitt I, Richter W, Roth M, Hertweck CInt J Syst Evol Microbiol10.1099/ijs.0.64660-02007Bacterial Typing Techniques, Burkholderia/chemistry/*classification/genetics/*growth & development, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Freeze Fracturing, Genes, rRNA, Microscopy, Electron, Molecular Sequence Data, Nucleic Acid Hybridization, Oryza/microbiology, Phylogeny, Plant Diseases/*microbiology, RNA, Ribosomal, 16S/genetics, *Rhizopus/growth & development/pathogenicity/ultrastructure, Sequence Analysis, DNA, Species Specificity, *SymbiosisGenetics
Genetics29540638Comparative Genomic Insights into Endofungal Lifestyles of Two Bacterial Endosymbionts, Mycoavidus cysteinexigens and Burkholderia rhizoxinica.Sharmin D, Guo Y, Nishizawa T, Ohshima S, Sato Y, Takashima Y, Narisawa K, Ohta HMicrobes Environ10.1264/jsme2.ME171382018Burkholderia/*genetics/physiology, Burkholderiaceae/*genetics/physiology, Comparative Genomic Hybridization, Fungi/*physiology, Genome, Bacterial, Metagenome, Phylogeny, Sequence Analysis, DNA, *SymbiosisPhylogeny

Reference

@idauthorscataloguedoi/urltitlejournalpubmedID_cross_reference
7825Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19002)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19002
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
2818110.1099/ijs.0.64660-017978222
31924Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2877604128181
37309Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7198
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
68369Automatically annotated from API 20NE
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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)