Strain identifier

BacDive ID: 13825

Type strain: Yes

Species: Cereibacter johrii

Strain Designation: JA192

Strain history: Ch. Sasikala JA192.

NCBI tax ID(s): 445629 (species)

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

@ref: 7655

BacDive-ID: 13825

DSM-Number: 18678

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, mesophilic, Gram-negative, motile, ovoid-shaped

description: Cereibacter johrii JA192 is an anaerobe, spore-forming, mesophilic bacterium that was isolated from pasteurized rhizosphere soil of jowar collected from semi-arid tropical soil.

NCBI tax id

  • NCBI tax id: 445629
  • Matching level: species

strain history

  • @ref: 67770
  • history: Ch. Sasikala JA192.

doi: 10.13145/bacdive13825.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodobacterales
  • family: Paracoccaceae
  • genus: Cereibacter
  • species: Cereibacter johrii
  • full scientific name: Cereibacter johrii (Girija et al. 2010) Hördt et al. 2020
  • synonyms

    @refsynonym
    20215Luteovulum johrii
    20215Rhodobacter johrii

@ref: 7655

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodobacterales

family: Rhodobacteraceae

genus: Rhodobacter

species: Rhodobacter johrii

full scientific name: Rhodobacter johrii Girija et al. 2010

strain designation: JA192

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
29369negative1.5-1.9 µm0.8-0.9 µmovoid-shapedyes
69480negative99.994

pigmentation

  • @ref: 29369
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
29369positivegrowth25-35mesophilic
29369positiveoptimum30mesophilic
67770positivegrowth30mesophilic

culture pH

@refabilitytypepH
29369positivegrowth06-08
29369positiveoptimum6.5-7

Physiology and metabolism

oxygen tolerance

  • @ref: 29369
  • oxygen tolerance: anaerobe

spore formation

@refspore formationconfidence
29369yes
69480no99.909

halophily

  • @ref: 29369
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-3 %

observation

  • @ref: 29369
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2936930089acetate+carbon source
2936928757fructose+carbon source
2936917234glucose+carbon source
2936929987glutamate+carbon source
2936917754glycerol+carbon source
2936924996lactate+carbon source
2936925115malate+carbon source
2936929864mannitol+carbon source
2936915361pyruvate+carbon source
2936930911sorbitol+carbon source
2936930031succinate+carbon source
2936931011valerate+carbon source

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
7655pasteurized rhizosphere soil of jowar (sorghum) collected from semi-arid tropical soilAndhra Pradesh, Godumakunta village near Hyderabad, IndiaIndiaINDAsia
59990Rhizosphere soilIndiaINDAsia2003-01-23
67770Semi-arid soil of Godumakunta Village near HyderabadAndhra ParadeshIndiaINDAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Soil
#Host#Plants#Herbaceous plants (Grass,Crops)
#Host Body-Site#Plant#Rhizosphere
#Climate#Hot#Tropical

taxonmaps

  • @ref: 69479
  • File name: preview.99_1809.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_19;96_1024;97_1194;98_1430;99_1809&stattab=map
  • Last taxonomy: Luteovulum
  • 16S sequence: AM398152
  • Sequence Identity:
  • Total samples: 17229
  • soil counts: 1540
  • aquatic counts: 10335
  • animal counts: 4862
  • plant counts: 492

Safety information

risk assessment

  • @ref: 7655
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 7655
  • description: Rhodobacter johrii partial 16S rRNA gene, type strain JA192T
  • accession: AM398152
  • length: 1430
  • database: ena
  • NCBI tax ID: 445629

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Cereibacter johrii JA192GCA_003046325scaffoldncbi445629
66792Cereibacter johrii JA192GCA_001720585contigncbi445629
66792Rhodobacter johrii strain JA192445629.8wgspatric445629

GC content

@refGC-contentmethod
765565.7high performance liquid chromatography (HPLC)
2936965.7

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes70no
flagellatedno64.351no
gram-positiveno98.892yes
anaerobicyes51.318yes
halophileno88.581no
spore-formingno95.957no
thermophileno99.174yes
glucose-utilyes89.154yes
aerobicno53.511no
motileyes79.692yes
glucose-fermentno87.884no

External links

@ref: 7655

culture collection no.: DSM 18678, JCM 14543, MTCC 8172, CCUG 53723

straininfo link

  • @ref: 83001
  • straininfo: 370648

literature

  • topic: Phylogeny
  • Pubmed-ID: 35099369
  • title: Szabonella alba gen. nov., sp. nov., a motile alkaliphilic bacterium of the family Rhodobacteraceae isolated from a soda lake.
  • authors: Szuroczki S, Abbaszade G, Boka K, Schumann P, Neumann-Schaal M, Toth E
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.005219
  • year: 2022
  • mesh: *Alkalies, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Hungary, *Lakes/microbiology, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhodobacteraceae/classification/isolation & purification, Sequence Analysis, DNA, Ubiquinone/analogs & derivatives/chemistry
  • topic2: Transcriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
7655Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18678)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18678
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
29369Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2577828776041
59990Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 53723)https://www.ccug.se/strain?id=53723
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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)
83001Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID370648.1StrainInfo: A central database for resolving microbial strain identifiers