Strain identifier
BacDive ID: 13825
Type strain:
Species: Cereibacter johrii
Strain Designation: JA192
Strain history: Ch. Sasikala JA192.
NCBI tax ID(s): 445629 (species)
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
@ref synonym 20215 Luteovulum johrii 20215 Rhodobacter 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
@ref | gram stain | cell length | cell width | cell shape | motility | confidence |
---|---|---|---|---|---|---|
29369 | negative | 1.5-1.9 µm | 0.8-0.9 µm | ovoid-shaped | yes | |
69480 | negative | 99.994 |
pigmentation
- @ref: 29369
- production: yes
Culture and growth conditions
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
29369 | positive | growth | 25-35 | mesophilic |
29369 | positive | optimum | 30 | mesophilic |
67770 | positive | growth | 30 | mesophilic |
culture pH
@ref | ability | type | pH |
---|---|---|---|
29369 | positive | growth | 06-08 |
29369 | positive | optimum | 6.5-7 |
Physiology and metabolism
oxygen tolerance
- @ref: 29369
- oxygen tolerance: anaerobe
spore formation
@ref | spore formation | confidence |
---|---|---|
29369 | yes | |
69480 | no | 99.909 |
halophily
- @ref: 29369
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 0-3 %
observation
- @ref: 29369
- observation: aggregates in chains
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
29369 | 30089 | acetate | + | carbon source |
29369 | 28757 | fructose | + | carbon source |
29369 | 17234 | glucose | + | carbon source |
29369 | 29987 | glutamate | + | carbon source |
29369 | 17754 | glycerol | + | carbon source |
29369 | 24996 | lactate | + | carbon source |
29369 | 25115 | malate | + | carbon source |
29369 | 29864 | mannitol | + | carbon source |
29369 | 15361 | pyruvate | + | carbon source |
29369 | 30911 | sorbitol | + | carbon source |
29369 | 30031 | succinate | + | carbon source |
29369 | 31011 | valerate | + | carbon source |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | sampling date |
---|---|---|---|---|---|---|
7655 | pasteurized rhizosphere soil of jowar (sorghum) collected from semi-arid tropical soil | Andhra Pradesh, Godumakunta village near Hyderabad, India | India | IND | Asia | |
59990 | Rhizosphere soil | India | IND | Asia | 2003-01-23 | |
67770 | Semi-arid soil of Godumakunta Village near Hyderabad | Andhra Paradesh | India | IND | Asia |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#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
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Cereibacter johrii JA192 | GCA_003046325 | scaffold | ncbi | 445629 |
66792 | Cereibacter johrii JA192 | GCA_001720585 | contig | ncbi | 445629 |
66792 | Rhodobacter johrii strain JA192 | 445629.8 | wgs | patric | 445629 |
GC content
@ref | GC-content | method |
---|---|---|
7655 | 65.7 | high performance liquid chromatography (HPLC) |
29369 | 65.7 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | yes | 70 | no |
flagellated | no | 64.351 | no |
gram-positive | no | 98.892 | yes |
anaerobic | yes | 51.318 | yes |
halophile | no | 88.581 | no |
spore-forming | no | 95.957 | no |
thermophile | no | 99.174 | yes |
glucose-util | yes | 89.154 | yes |
aerobic | no | 53.511 | no |
motile | yes | 79.692 | yes |
glucose-ferment | no | 87.884 | no |
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
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
---|---|---|---|---|---|---|
7655 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18678) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-18678 | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
29369 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 25778 | 28776041 | |
59990 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 53723) | https://www.ccug.se/strain?id=53723 | |||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
69479 | João 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 | |||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
83001 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID370648.1 | StrainInfo: A central database for resolving microbial strain identifiers |