Strain identifier

BacDive ID: 134125

Type strain: Yes

Species: Bizionia myxarmorum

Strain Designation: ADA-4

Strain history: CIP <- 2004, J. Bowman, Tasmania, Australia: strain ADA-4

NCBI tax ID(s): 291186 (species)

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

@ref: 31431

BacDive-ID: 134125

keywords: genome sequence, 16S sequence, Bacteria, aerobe, psychrophilic, Gram-negative, rod-shaped

description: Bizionia myxarmorum ADA-4 is an aerobe, psychrophilic, Gram-negative bacterium that was isolated from Unknown amphipod species.

NCBI tax id

  • NCBI tax id: 291186
  • Matching level: species

strain history

  • @ref: 121218
  • history: CIP <- 2004, J. Bowman, Tasmania, Australia: strain ADA-4

doi: 10.13145/bacdive134125.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Flavobacteriaceae
  • genus: Bizionia
  • species: Bizionia myxarmorum
  • full scientific name: Bizionia myxarmorum Bowman and Nichols 2005
  • synonyms

    • @ref: 20215
    • synonym: Algorimicrobium myxarmorum

@ref: 31431

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Bizionia

species: Bizionia myxarmorum

strain designation: ADA-4

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
31431negative2.5 µm0.4 µmrod-shapedno
69480negative99.989
121218negativerod-shapedno

pigmentation

  • @ref: 31431
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
34326Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
121218CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
31431positiveoptimum14psychrophilic
34326positivegrowth25mesophilic
121218positivegrowth5-25psychrophilic
121218nogrowth30mesophilic
121218nogrowth37mesophilic
121218nogrowth41thermophilic
121218nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 31431
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.997

halophily

@refsaltgrowthtested relationconcentration
31431NaClpositivegrowth0.2-2 %
31431NaClpositiveoptimum0.35 %
121218NaClpositivegrowth2-10 %
121218NaClnogrowth0 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3143130089acetate+carbon source
3143116449alanine+carbon source
314315291gelatin+carbon source
3143127570histidine+carbon source
3143126271proline+carbon source
3143117822serine+carbon source
3143153426tween 80+carbon source
3143116199urea+carbon source
3143131011valerate+carbon source
12121816947citrate-carbon source
1212184853esculin-hydrolysis
12121817632nitrate-reduction
12121816301nitrite-reduction

metabolite production

  • @ref: 121218
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
12121815688acetoin-
12121817234glucose-

enzymes

@refvalueactivityec
31431alkaline phosphatase+3.1.3.1
31431gelatinase+
31431urease+3.5.1.5
121218oxidase+
121218beta-galactosidase-3.2.1.23
121218alcohol dehydrogenase-1.1.1.1
121218gelatinase+
121218amylase-
121218DNase+
121218caseinase-3.4.21.50
121218catalase+1.11.1.6
121218tween esterase-
121218gamma-glutamyltransferase+2.3.2.2
121218lecithinase-
121218lipase-
121218lysine decarboxylase-4.1.1.18
121218ornithine decarboxylase-4.1.1.17
121218phenylalanine ammonia-lyase+4.3.1.24
121218tryptophan deaminase-
121218urease-3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase+
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase-3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
121218-+++-++---++--------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
121218-+--++-------------------+-----------------------++---------+--------------------+-------++-+------

Isolation, sampling and environmental information

isolation

  • @ref: 121218
  • sample type: Unknown amphipod species
  • geographic location: Vestfold hills
  • country: Antarctica
  • origin.country: ATA
  • continent: Antarctica
  • isolation date: 1999

taxonmaps

  • @ref: 69479
  • File name: preview.99_63006.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_107;96_2813;97_3454;98_44597;99_63006&stattab=map
  • Last taxonomy: Bizionia myxarmorum subclade
  • 16S sequence: AY694002
  • Sequence Identity:
  • Total samples: 3
  • aquatic counts: 3

Safety information

risk assessment

  • @ref: 121218
  • biosafety level: 1
  • biosafety level comment: Risk group (French classification)

Sequence information

16S sequences

  • @ref: 31431
  • description: Bizionia myxarmorum strain ADA-4 16S ribosomal RNA gene, partial sequence
  • accession: AY694002
  • length: 1383
  • database: nuccore
  • NCBI tax ID: 291186

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Bizionia myxarmorum ADA-4GCA_008086205contigncbi291186
66792Bizionia myxarmorum strain ADA-4291186.3wgspatric291186

GC content

  • @ref: 31431
  • GC-content: 43

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
gram-positiveno97.826yes
anaerobicno99.3yes
halophileno62.677yes
spore-formingno95.175no
glucose-utilyes77.128no
motileno89.833yes
flagellatedno95.532yes
aerobicyes90.217yes
thermophileno99.709no
glucose-fermentno92.495no

External links

@ref: 31431

culture collection no.: ACAM 1058, CIP 108535

straininfo link

  • @ref: 91726
  • straininfo: 265387

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny16014468Novel members of the family Flavobacteriaceae from Antarctic maritime habitats including Subsaximicrobium wynnwilliamsii gen. nov., sp. nov., Subsaximicrobium saxinquilinus sp. nov., Subsaxibacter broadyi gen. nov., sp. nov., Lacinutrix copepodicola gen. nov., sp. nov., and novel species of the genera Bizionia, Gelidibacter and Gillisia.Bowman JP, Nichols DSInt J Syst Evol Microbiol10.1099/ijs.0.63527-02005Amphipoda/microbiology, Animals, Antarctic Regions, Bacterial Typing Techniques, Copepoda/microbiology, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, *Environment, Eukaryota/microbiology, Flavobacteriaceae/*classification/genetics/isolation & purification/physiology, Genes, rRNA, Genotype, Ice Cover/microbiology, Molecular Sequence Data, Phenotype, Phylogeny, Quartz, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Species SpecificityGenetics
Phylogeny18842857Bizionia argentinensis sp. nov., isolated from surface marine water in Antarctica.Bercovich A, Vazquez SC, Yankilevich P, Coria SH, Foti M, Hernandez E, Vidal A, Ruberto L, Melo C, Marenssi S, Criscuolo M, Memoli M, Arguelles M, Mac Cormack WPInt J Syst Evol Microbiol10.1099/ijs.0.65599-02008Antarctic Regions, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/chemistry/*classification/*genetics/isolation & purification, Genes, Bacterial, Genes, rRNA, Molecular Sequence Data, Phospholipids/chemistry, Phylogeny, Quinones/chemistry, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Sodium Chloride, Water MicrobiologyGenetics
Phylogeny25103949Bizionia psychrotolerans sp. nov., a psychrophilic bacterium isolated from the intestine of a sea cucumber (Apostichopus japonicus).Song EJ, Lee MH, Seo MJ, Yim KJ, Hyun DW, Bae JW, Park SL, Roh SW, Nam YDAntonie Van Leeuwenhoek10.1007/s10482-014-0253-x2014Animals, Bacterial Typing Techniques, Base Composition, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Flavobacteriaceae/*classification/genetics/*isolation & purification/physiology, Hydrogen-Ion Concentration, Intestines/microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sea Cucumbers/*microbiology, Sequence Analysis, DNA, Sodium Chloride/metabolism, Temperature, Vitamin K 2/analysisGenetics

Reference

@idauthorstitledoi/urlID_cross_referencepubmedcatalogue
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
31431Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172773728776041
34326Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/6168
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
91726Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID265387.1
121218Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108535Collection of Institut Pasteur (CIP 108535)