Strain identifier

BacDive ID: 1375

Type strain: Yes

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)

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

@refhistory
7464<- M. Halpern; T3944 D
118234CIP <- 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

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangement
23009positive1.3-3.0 µm0.8-1.0 µmrod-shapedyesperitrichous
118234positiverod-shapedyes

colony morphology

  • @ref: 23009
  • colony color: cream-beige
  • colony shape: circular

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7464BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)yeshttps://mediadive.dsmz.de/medium/514Name: 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
33306Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
118234CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
7464positivegrowth30mesophilic
23009positivegrowth12.0-46.0
23009positiveoptimum37.0mesophilic
33306positivegrowth37mesophilic

culture pH

  • @ref: 23009
  • ability: positive
  • type: optimum
  • pH: 8.5
  • PH range: alkaliphile

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
23009obligate aerobe
118234obligate aerobe

spore formation

  • @ref: 23009
  • spore description: ellipsoidal,terminal or subterminal,in swollen sporangia
  • type of spore: endospore
  • spore formation: yes

halophily

@refhalophily levelsaltgrowthtested relationconcentration
23009halotolerant
23009NaClpositivegrowth0.0-11.0 %
23009NaCloptimum1.0-3.0 %

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
23009casein-hydrolysis
23009tween 60-hydrolysis53425
23009gelatin+hydrolysis5291
23009nitrite+reduction16301
230092-oxoglutarate+respiration30916
230092-oxopentanoate+respiration28644
230092,3-butanediol+respiration62064
23009adenosine+respiration16335
23009alpha-D-glucose+respiration17925
23009alpha-lactose+respiration36219
23009D-fructose+respiration15824
23009D-galactose+respiration12936
23009D-mannose+respiration16024
23009melibiose+respiration28053
23009D-ribose+respiration16988
23009dextrin+respiration23652
23009glycerol+respiration17754
23009L-alaninamide+respiration21217
23009maltose+respiration17306
23009maltotriose+respiration61993
23009N-acetylglucosamine+respiration506227
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
68371gluconate-builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose+builds acid from32528
68371gentiobiose-builds acid from28066
68371xylitol-builds acid from17151
68371glycogen-builds acid from28087
68371starch-builds acid from28017
68371raffinose+builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371trehalose+builds acid from27082
68371sucrose+builds acid from17992
68371melibiose+builds acid from28053
68371lactose+builds acid from17716
68371maltose+builds acid from17306
68371cellobiose-builds acid from17057
68371salicin-builds acid from17814
68371esculin-builds acid from4853
68371arbutin-builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine+builds acid from59640
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371D-mannitol+builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose+builds acid from16024
68371D-fructose+builds acid from15824
68371D-glucose+builds acid from17634
68371D-galactose+builds acid from12936
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose-builds acid from65327
68371D-ribose-builds acid from16988
68371L-arabinose-builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
118234nitrate+reduction17632
118234nitrite+reduction16301

antibiotic resistance

@refChEBImetaboliteis antibioticis resistantis sensitive
2300927902tetracyclineyesyes
2300928971ampicillinyesyes
2300928669bacitracinyesyes
2300917698chloramphenicolyesyes
2300917833gentamicinyesyes
230096104kanamycinyesyes
230097507neomycinyesyes
2300928368novobiocinyesyes
2300918208penicillin gyesyes
2300917076streptomycinyesyes
2300928001vancomycinyesyes

metabolite production

@refChebi-IDmetaboliteproduction
2300935581indoleno
11823435581indoleno

enzymes

@refvalueactivityec
23009catalase+1.11.1.6
23009cytochrome oxidase+1.9.3.1
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase-3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase-3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
118234oxidase+
118234catalase+1.11.1.6
118234urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
118234-+++------++--------

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
118234+/---------++++----+---+-----+++++--+----+---------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentenrichment culture
23009chironomid egg mass from a waste-stabilization pondnear HaifaIsraelISRAsiaLB agar
7464chironomid egg massIsraelISRAsia
118234Egg mass, chironomidIsraelISRAsia

isolation source categories

Cat1Cat2Cat3
#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

@refbiosafety levelbiosafety level comment
74641Risk group (German classification)
1182341Risk 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

@refGC-contentmethod
746438.1
2300938.1high 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

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17267960Oceanobacillus chironomi sp. nov., a halotolerant and facultatively alkaliphilic species isolated from a chironomid egg mass.Raats D, Halpern MInt J Syst Evol Microbiol10.1099/ijs.0.64502-02007Animals, 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, TemperatureGenetics
Phylogeny24453233Oceanobacillus luteolus sp. nov., isolated from soil.Wu M, Yang G, Yu Z, Zhuang L, Jin Y, Zhou SInt J Syst Evol Microbiol10.1099/ijs.0.057869-02014Bacillaceae/*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/chemistryGenetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
7464Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18262)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18262
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
23009Dina Raats,Malka Halpern10.1099/ijs.0.64502-0Oceanobacillus chironomi sp. nov., a halotolerant and facultatively alkaliphilic species isolated from a chironomid egg massIJSEM 57: 255-259 200717267960
33306Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7290
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
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
71026Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID291182.1StrainInfo: A central database for resolving microbial strain identifiers
118234Curators of the CIPCollection of Institut Pasteur (CIP 109536)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109536