Strain identifier
BacDive ID: 1375
Type strain:
Species: Oceanobacillus chironomi
Strain Designation: T3944 D, T3944D
Strain history: CIP <- 2007, DSMZ <- M. Halpern, Haifa Univ., Tivon, Israel: strain T3944D
NCBI tax ID(s): 381706 (species)
General
@ref: 7464
BacDive-ID: 1375
DSM-Number: 18262
keywords: 16S sequence, Bacteria, obligate aerobe, halotolerant, spore-forming, mesophilic, Gram-positive, motile, rod-shaped, colony-forming
description: Oceanobacillus chironomi T3944 D is an obligate aerobe, halotolerant, spore-forming bacterium that forms circular colonies and was isolated from chironomid egg mass from a waste-stabilization pond.
NCBI tax id
- NCBI tax id: 381706
- Matching level: species
strain history
@ref | history |
---|---|
7464 | <- M. Halpern; T3944 D |
118234 | CIP <- 2007, DSMZ <- M. Halpern, Haifa Univ., Tivon, Israel: strain T3944D |
doi: 10.13145/bacdive1375.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Bacilli
- order: Caryophanales
- family: Bacillaceae
- genus: Oceanobacillus
- species: Oceanobacillus chironomi
- full scientific name: Oceanobacillus chironomi Raats and Halpern 2007
@ref: 7464
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Bacillales
family: Bacillaceae
genus: Oceanobacillus
species: Oceanobacillus chironomi
full scientific name: Oceanobacillus chironomi Raats and Halpern 2007
strain designation: T3944 D, T3944D
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell width | cell shape | motility | flagellum arrangement |
---|---|---|---|---|---|---|
23009 | positive | 1.3-3.0 µm | 0.8-1.0 µm | rod-shaped | yes | peritrichous |
118234 | positive | rod-shaped | yes |
colony morphology
- @ref: 23009
- colony color: cream-beige
- colony shape: circular
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
7464 | BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) | yes | https://mediadive.dsmz.de/medium/514 | Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water |
33306 | Marine agar (MA) | yes | Distilled water make up to (1000.000 ml);Marine agar (55.100 g) | |
118234 | CIP Medium 13 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
7464 | positive | growth | 30 | mesophilic |
23009 | positive | growth | 12.0-46.0 | |
23009 | positive | optimum | 37.0 | mesophilic |
33306 | positive | growth | 37 | mesophilic |
culture pH
- @ref: 23009
- ability: positive
- type: optimum
- pH: 8.5
- PH range: alkaliphile
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
23009 | obligate aerobe |
118234 | obligate aerobe |
spore formation
- @ref: 23009
- spore description: ellipsoidal,terminal or subterminal,in swollen sporangia
- type of spore: endospore
- spore formation: yes
halophily
@ref | halophily level | salt | growth | tested relation | concentration |
---|---|---|---|---|---|
23009 | halotolerant | ||||
23009 | NaCl | positive | growth | 0.0-11.0 % | |
23009 | NaCl | optimum | 1.0-3.0 % |
metabolite utilization
@ref | metabolite | utilization activity | kind of utilization tested | Chebi-ID |
---|---|---|---|---|
23009 | casein | - | hydrolysis | |
23009 | tween 60 | - | hydrolysis | 53425 |
23009 | gelatin | + | hydrolysis | 5291 |
23009 | nitrite | + | reduction | 16301 |
23009 | 2-oxoglutarate | + | respiration | 30916 |
23009 | 2-oxopentanoate | + | respiration | 28644 |
23009 | 2,3-butanediol | + | respiration | 62064 |
23009 | adenosine | + | respiration | 16335 |
23009 | alpha-D-glucose | + | respiration | 17925 |
23009 | alpha-lactose | + | respiration | 36219 |
23009 | D-fructose | + | respiration | 15824 |
23009 | D-galactose | + | respiration | 12936 |
23009 | D-mannose | + | respiration | 16024 |
23009 | melibiose | + | respiration | 28053 |
23009 | D-ribose | + | respiration | 16988 |
23009 | dextrin | + | respiration | 23652 |
23009 | glycerol | + | respiration | 17754 |
23009 | L-alaninamide | + | respiration | 21217 |
23009 | maltose | + | respiration | 17306 |
23009 | maltotriose | + | respiration | 61993 |
23009 | N-acetylglucosamine | + | respiration | 506227 |
68371 | Potassium 5-ketogluconate | - | builds acid from | |
68371 | Potassium 2-ketogluconate | - | builds acid from | |
68371 | gluconate | - | builds acid from | 24265 |
68371 | L-arabitol | - | builds acid from | 18403 |
68371 | D-arabitol | - | builds acid from | 18333 |
68371 | L-fucose | - | builds acid from | 18287 |
68371 | D-fucose | - | builds acid from | 28847 |
68371 | D-tagatose | - | builds acid from | 16443 |
68371 | D-lyxose | - | builds acid from | 62318 |
68371 | turanose | + | builds acid from | 32528 |
68371 | gentiobiose | - | builds acid from | 28066 |
68371 | xylitol | - | builds acid from | 17151 |
68371 | glycogen | - | builds acid from | 28087 |
68371 | starch | - | builds acid from | 28017 |
68371 | raffinose | + | builds acid from | 16634 |
68371 | melezitose | - | builds acid from | 6731 |
68371 | inulin | - | builds acid from | 15443 |
68371 | trehalose | + | builds acid from | 27082 |
68371 | sucrose | + | builds acid from | 17992 |
68371 | melibiose | + | builds acid from | 28053 |
68371 | lactose | + | builds acid from | 17716 |
68371 | maltose | + | builds acid from | 17306 |
68371 | cellobiose | - | builds acid from | 17057 |
68371 | salicin | - | builds acid from | 17814 |
68371 | esculin | - | builds acid from | 4853 |
68371 | arbutin | - | builds acid from | 18305 |
68371 | amygdalin | - | builds acid from | 27613 |
68371 | N-acetylglucosamine | + | builds acid from | 59640 |
68371 | methyl alpha-D-glucopyranoside | - | builds acid from | 320061 |
68371 | methyl alpha-D-mannoside | - | builds acid from | 43943 |
68371 | D-sorbitol | - | builds acid from | 17924 |
68371 | D-mannitol | + | builds acid from | 16899 |
68371 | myo-inositol | - | builds acid from | 17268 |
68371 | galactitol | - | builds acid from | 16813 |
68371 | L-rhamnose | - | builds acid from | 62345 |
68371 | L-sorbose | - | builds acid from | 17266 |
68371 | D-mannose | + | builds acid from | 16024 |
68371 | D-fructose | + | builds acid from | 15824 |
68371 | D-glucose | + | builds acid from | 17634 |
68371 | D-galactose | + | builds acid from | 12936 |
68371 | methyl beta-D-xylopyranoside | - | builds acid from | 74863 |
68371 | ribitol | - | builds acid from | 15963 |
68371 | L-xylose | - | builds acid from | 65328 |
68371 | D-xylose | - | builds acid from | 65327 |
68371 | D-ribose | - | builds acid from | 16988 |
68371 | L-arabinose | - | builds acid from | 30849 |
68371 | D-arabinose | - | builds acid from | 17108 |
68371 | erythritol | - | builds acid from | 17113 |
118234 | nitrate | + | reduction | 17632 |
118234 | nitrite | + | reduction | 16301 |
antibiotic resistance
@ref | ChEBI | metabolite | is antibiotic | is resistant | is sensitive |
---|---|---|---|---|---|
23009 | 27902 | tetracycline | yes | yes | |
23009 | 28971 | ampicillin | yes | yes | |
23009 | 28669 | bacitracin | yes | yes | |
23009 | 17698 | chloramphenicol | yes | yes | |
23009 | 17833 | gentamicin | yes | yes | |
23009 | 6104 | kanamycin | yes | yes | |
23009 | 7507 | neomycin | yes | yes | |
23009 | 28368 | novobiocin | yes | yes | |
23009 | 18208 | penicillin g | yes | yes | |
23009 | 17076 | streptomycin | yes | yes | |
23009 | 28001 | vancomycin | yes | yes |
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
23009 | 35581 | indole | no |
118234 | 35581 | indole | no |
enzymes
@ref | value | activity | ec |
---|---|---|---|
23009 | catalase | + | 1.11.1.6 |
23009 | cytochrome oxidase | + | 1.9.3.1 |
68382 | alpha-fucosidase | - | 3.2.1.51 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | beta-glucosidase | - | 3.2.1.21 |
68382 | alpha-glucosidase | - | 3.2.1.20 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | beta-galactosidase | - | 3.2.1.23 |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | naphthol-AS-BI-phosphohydrolase | + | |
68382 | acid phosphatase | + | 3.1.3.2 |
68382 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | trypsin | - | 3.4.21.4 |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | valine arylamidase | - | |
68382 | leucine arylamidase | - | 3.4.11.1 |
68382 | lipase (C 14) | - | |
68382 | esterase lipase (C 8) | + | |
68382 | esterase (C 4) | + | |
68382 | alkaline phosphatase | + | 3.1.3.1 |
118234 | oxidase | + | |
118234 | catalase | + | 1.11.1.6 |
118234 | urease | - | 3.5.1.5 |
API zym
@ref | Control | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- Fucosidase |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
118234 | - | + | + | + | - | - | - | - | - | - | + | + | - | - | - | - | - | - | - | - |
API 50CHac
@ref | GLY | ERY | DARA | LARA | RIB | DXYL | LXYL | ADO | MDX | GAL | GLU | FRU | MNE | SBE | RHA | DUL | INO | MAN | SOR | MDM | MDG | NAG | AMY | ARB | ESC | SAL | CEL | MAL | LAC | MEL | SAC | TRE | INU | MLZ | RAF | AMD | GLYG | XLT | GEN | TUR | LYX | TAG | DFUC | LFUC | DARL | LARL | GNT | 2KG | 5KG |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
118234 | +/- | - | - | - | - | - | - | - | - | + | + | + | + | - | - | - | - | + | - | - | - | + | - | - | - | - | - | + | + | + | + | + | - | - | + | - | - | - | - | + | - | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | enrichment culture |
---|---|---|---|---|---|---|
23009 | chironomid egg mass from a waste-stabilization pond | near Haifa | Israel | ISR | Asia | LB agar |
7464 | chironomid egg mass | Israel | ISR | Asia | ||
118234 | Egg mass, chironomid | Israel | ISR | Asia |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Pond (small) |
#Host | #Arthropoda | #Insecta |
#Host Body Product | #Urogenital tract | #Egg |
taxonmaps
- @ref: 69479
- File name: preview.99_120194.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_5972;97_8778;98_81004;99_120194&stattab=map
- Last taxonomy: Oceanobacillus chironomi subclade
- 16S sequence: DQ298074
- Sequence Identity:
- Total samples: 363
- soil counts: 90
- aquatic counts: 55
- animal counts: 199
- plant counts: 19
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
7464 | 1 | Risk group (German classification) |
118234 | 1 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 7464
- description: Oceanobacillus chironomi strain T3944D 16S ribosomal RNA gene, partial sequence
- accession: DQ298074
- length: 1471
- database: ena
- NCBI tax ID: 381706
GC content
@ref | GC-content | method |
---|---|---|
7464 | 38.1 | |
23009 | 38.1 | high performance liquid chromatography (HPLC) |
External links
@ref: 7464
culture collection no.: DSM 18262, CIP 109536, KCTC 13626, LMG 23627
straininfo link
- @ref: 71026
- straininfo: 291182
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 17267960 | Oceanobacillus chironomi sp. nov., a halotolerant and facultatively alkaliphilic species isolated from a chironomid egg mass. | Raats D, Halpern M | Int J Syst Evol Microbiol | 10.1099/ijs.0.64502-0 | 2007 | Animals, Bacillaceae/*classification/cytology/*isolation & purification/physiology, Bacterial Typing Techniques, Base Composition, Chironomidae/*microbiology, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis/chemistry, Genes, rRNA/genetics, Hydrogen-Ion Concentration, Israel, Molecular Sequence Data, Molecular Weight, Movement, Ovum/*microbiology, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Sodium Chloride, Temperature | Genetics |
Phylogeny | 24453233 | Oceanobacillus luteolus sp. nov., isolated from soil. | Wu M, Yang G, Yu Z, Zhuang L, Jin Y, Zhou S | Int J Syst Evol Microbiol | 10.1099/ijs.0.057869-0 | 2014 | Bacillaceae/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Ecosystem, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Oryza, Peptidoglycan/chemistry, Phosphatidylglycerols/genetics, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Trees, Vitamin K 2/analogs & derivatives/chemistry | Genetics |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
7464 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18262) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-18262 | |||
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 | |||
23009 | Dina Raats,Malka Halpern | 10.1099/ijs.0.64502-0 | Oceanobacillus chironomi sp. nov., a halotolerant and facultatively alkaliphilic species isolated from a chironomid egg mass | IJSEM 57: 255-259 2007 | 17267960 | |
33306 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/7290 | ||||
68371 | Automatically annotated from API 50CH acid | |||||
68382 | Automatically annotated from API zym | |||||
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 | |||
71026 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID291182.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
118234 | Curators of the CIP | Collection of Institut Pasteur (CIP 109536) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109536 |