Strain identifier

BacDive ID: 17738

Type strain: Yes

Species: Balneola vulgaris

Strain Designation: 13IX/A01/164, 131X/A01/164

Strain history: CIP <- 2006, P. Lebaron, Banyuls sur mer, France: strain 131X/A01/164

NCBI tax ID(s): 1121104 (strain), 287535 (species)

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General

@ref: 7223

BacDive-ID: 17738

DSM-Number: 17893

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

description: Balneola vulgaris 13IX/A01/164 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from sea water.

NCBI tax id

NCBI tax idMatching level
1121104strain
287535species

strain history

@refhistory
7223<- P. Lebaron, Lab. d'Océanographie Biologique de Banyuls (LOBB); 13IX/A01/164 <- H. Agogué; OOB 256
123889CIP <- 2006, P. Lebaron, Banyuls sur mer, France: strain 131X/A01/164

doi: 10.13145/bacdive17738.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/balneolota
  • domain: Bacteria
  • phylum: Balneolota
  • class: Balneolia
  • order: Balneolales
  • family: Balneolaceae
  • genus: Balneola
  • species: Balneola vulgaris
  • full scientific name: Balneola vulgaris Urios et al. 2006

@ref: 7223

domain: Bacteria

phylum: Balneolaeota

class: Balneolia

order: Sphingobacteriales

family: Balneolaceae

genus: Balneola

species: Balneola vulgaris

full scientific name: Balneola vulgaris Urios et al. 2006 emend. Hahnke et al. 2016

strain designation: 13IX/A01/164, 131X/A01/164

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
31789negative02-03 µm0.2 µmrod-shapedyes
69480negative99.989
123889negativeoval-shapedyes

pigmentation

  • @ref: 31789
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7223BACTO 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
40118Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
123889CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
7223positivegrowth28mesophilic
31789positivegrowth10-40
31789positiveoptimum30mesophilic
40118positivegrowth25mesophilic

culture pH

@refabilitytypepHPH range
31789positivegrowth05-10alkaliphile
31789positiveoptimum8

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
31789aerobe
123889facultative anaerobe

spore formation

@refspore formationconfidence
31789no
69481no100
69480no99.985

observation

  • @ref: 31789
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3178930089acetate+carbon source
3178915963ribitol+carbon source
3178922599arabinose+carbon source
3178918403L-arabitol+carbon source
3178928757fructose+carbon source
3178933984fucose+carbon source
3178917234glucose+carbon source
3178917306maltose+carbon source
31789506227N-acetylglucosamine+carbon source
3178917272propionate+carbon source
3178930911sorbitol+carbon source
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837132528turanose-builds acid from
6837128066gentiobiose-builds acid from
6837117151xylitol-builds acid from
6837128087glycogen-builds acid from
6837128017starch-builds acid from
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837127082trehalose+builds acid from
6837117992sucrose+builds acid from
6837128053melibiose-builds acid from
6837117306maltose+builds acid from
6837117057cellobiose-builds acid from
6837117814salicin-builds acid from
683714853esculin-builds acid from
6837118305arbutin-builds acid from
6837127613amygdalin-builds acid from
6837159640N-acetylglucosamine-builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837116899D-mannitol+builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose+builds acid from
6837115824D-fructose+builds acid from
6837117634D-glucose+builds acid from
6837112936D-galactose-builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose-builds acid from
6837130849L-arabinose-builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
12388917632nitrate+reduction
12388916301nitrite+reduction

metabolite production

  • @ref: 123889
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
31789acid phosphatase+3.1.3.2
31789alkaline phosphatase+3.1.3.1
31789catalase+1.11.1.6
123889oxidase+
123889alcohol dehydrogenase+1.1.1.1
123889catalase+1.11.1.6
123889lysine decarboxylase-4.1.1.18
123889ornithine decarboxylase-4.1.1.17
123889urease+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
123889-+++-++-++++---+----

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
123889+/----+/------+++----+---------++/--++-----------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitudeisolation date
7223sea waterbay of Banyuls-sur-Mer (42° 29' N 3° 08' E)FranceFRAEurope42.48333.1333
123889Environment, Surface watersBanyuls sur merFranceFRAEurope2001

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #Marine

taxonmaps

  • @ref: 69479
  • File name: preview.99_4496.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_471;96_2248;97_2722;98_3380;99_4496&stattab=map
  • Last taxonomy: Balneola vulgaris subclade
  • 16S sequence: AY576749
  • Sequence Identity:
  • Total samples: 1412
  • soil counts: 39
  • aquatic counts: 1344
  • animal counts: 27
  • plant counts: 2

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
72231Risk group (German classification)
1238891Risk group (French classification)

Sequence information

16S sequences

  • @ref: 7223
  • description: Balneola vulgaris strain 13IX/A01/164 16S ribosomal RNA gene, partial sequence
  • accession: AY576749
  • length: 1467
  • database: ena
  • NCBI tax ID: 287535

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Balneola vulgaris DSM 17893GCA_000375465contigncbi1121104
66792Balneola vulgaris DSM 178931121104.3wgspatric1121104
66792Balneola vulgaris DSM 178932515154152draftimg1121104

GC content

@refGC-contentmethod
722342.0
3178942
722339.8sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno87.707yes
flagellatedno97.772no
gram-positiveno96.599yes
anaerobicno99.308yes
aerobicyes93.604yes
halophileyes80.121no
spore-formingno91.294no
thermophileno93.871no
glucose-utilyes86.699yes
glucose-fermentno82.906no

External links

@ref: 7223

culture collection no.: DSM 17893, CIP 109092, OOB 256

straininfo link

  • @ref: 86728
  • straininfo: 297140

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny16902025Balneola vulgaris gen. nov., sp. nov., a member of the phylum Bacteroidetes from the north-western Mediterranean Sea.Urios L, Agogue H, Lesongeur F, Stackebrandt E, Lebaron PInt J Syst Evol Microbiol10.1099/ijs.0.64285-02006Agar, Bacteroidetes/*classification/genetics/growth & development/isolation & purification, Culture Media, DNA, Bacterial/genetics, Genome, Bacterial, Locomotion, Mediterranean Sea, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Homology, Nucleic Acid, Species Specificity, *Water MicrobiologyGenetics
Phylogeny26961808Aliifodinibius halophilus sp. nov., a moderately halophilic member of the genus Aliifodinibius, and proposal of Balneolaceae fam. nov.Xia J, Ling SK, Wang XQ, Chen GJ, Du ZJInt J Syst Evol Microbiol10.1099/ijsem.0.0010122016Bacterial Typing Techniques, Bacteroidetes/*classification/genetics/isolation & purification, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Gram-Positive Rods/*classification/genetics/isolation & purification, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Salinity, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry, *Water MicrobiologyEnzymology
Phylogeny27902267Soortia roseihalophila gen. nov., sp. nov., a new taxon in the order Balneolales isolated from a travertine spring, and description of Soortiaceae fam. nov.Amoozegar MA, Khansha J, Mehrshad M, Shahzadeh Fazeli SA, Ramezani M, de la Haba RR, Sanchez-Porro C, Ventosa AInt J Syst Evol Microbiol10.1099/ijsem.0.0015832017Bacterial Typing Techniques, Bacteroidetes/*classification/genetics/isolation & purification, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Iran, Natural Springs/*microbiology, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNATranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
7223Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17893)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17893
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
31789Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2806028776041
40118Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/6796
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)
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
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)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
86728Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID297140.1StrainInfo: A central database for resolving microbial strain identifiers
123889Curators of the CIPCollection of Institut Pasteur (CIP 109092)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109092