Strain identifier

BacDive ID: 1546

Type strain: Yes

Species: Salirhabdus euzebyi

Strain Designation: CVS-14

Strain history: CIP <- 2004, M.S. Da Costa, Coimbra Univ., Coimbra, Portugal: strain CVS-14

NCBI tax ID(s): 394506 (species)

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General

@ref: 8208

BacDive-ID: 1546

DSM-Number: 19612

keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, mesophilic, Gram-positive, motile, rod-shaped

description: Salirhabdus euzebyi CVS-14 is an aerobe, spore-forming, mesophilic bacterium that was isolated from sea salt evaporation pond.

NCBI tax id

  • NCBI tax id: 394506
  • Matching level: species

strain history

@refhistory
8208<- CIP <- M.S. da Costa <- I. Tiago, CVS-14
119147CIP <- 2004, M.S. Da Costa, Coimbra Univ., Coimbra, Portugal: strain CVS-14

doi: 10.13145/bacdive1546.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Bacillaceae
  • genus: Salirhabdus
  • species: Salirhabdus euzebyi
  • full scientific name: Salirhabdus euzebyi Albuquerque et al. 2007

@ref: 8208

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Bacillaceae

genus: Salirhabdus

species: Salirhabdus euzebyi

full scientific name: Salirhabdus euzebyi Albuquerque et al. 2007

strain designation: CVS-14

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
32121positive5.75 µm0.35 µmrod-shapedyes
69480yes98.148
69480positive100
119147rod-shapedyes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8208BACTO 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
37441Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
119147CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
8208positivegrowth37mesophilic
32121positivegrowth15-50
32121positiveoptimum37.5mesophilic
37441positivegrowth37mesophilic
119147positivegrowth25-45
119147nogrowth10psychrophilic
119147nogrowth15psychrophilic

culture pH

@refabilitytypepHPH range
32121positivegrowth6-9.5alkaliphile
32121positiveoptimum7.8

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
32121aerobe
119147obligate aerobe

spore formation

@refspore formationconfidence
32121yes
69481yes100
69480yes100

halophily

@refsaltgrowthtested relationconcentration
32121NaClpositivegrowth0.0-16 %
32121NaClpositiveoptimum5 %
119147NaClpositivegrowth2 %
119147NaClnogrowth0 %
119147NaClnogrowth4 %
119147NaClnogrowth6 %
119147NaClnogrowth8 %
119147NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3212122599arabinose+carbon source
3212129016arginine+carbon source
3212117057cellobiose+carbon source
3212128757fructose+carbon source
3212117234glucose+carbon source
3212127570histidine+carbon source
3212124996lactate+carbon source
3212125115malate+carbon source
3212117306maltose+carbon source
3212129864mannitol+carbon source
3212137684mannose+carbon source
3212128053melibiose+carbon source
3212117268myo-inositol+carbon source
3212126271proline+carbon source
3212115361pyruvate+carbon source
3212116634raffinose+carbon source
3212126546rhamnose+carbon source
3212133942ribose+carbon source
3212117822serine+carbon source
3212130911sorbitol+carbon source
3212130031succinate+carbon source
3212117992sucrose+carbon source
3212127082trehalose+carbon source
3212153424tween 20+carbon source
3212153425tween 60+carbon source
3212153426tween 80+carbon source
3212117151xylitol+carbon source
3212118222xylose+carbon source
3212117632nitrate+reduction
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
6837117716lactose-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
6837117754glycerol+builds acid from
11914716947citrate-carbon source
1191474853esculin-hydrolysis
11914717632nitrate+reduction
11914716301nitrite+reduction

metabolite production

  • @ref: 119147
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11914715688acetoin-
11914717234glucose-

enzymes

@refvalueactivityec
32121alkaline phosphatase+3.1.3.1
32121catalase+1.11.1.6
32121gelatinase+
32121cytochrome 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
119147oxidase+
119147beta-galactosidase-3.2.1.23
119147alcohol dehydrogenase-1.1.1.1
119147gelatinase-
119147amylase-
119147DNase-
119147catalase+1.11.1.6
119147tween esterase-
119147gamma-glutamyltransferase-2.3.2.2
119147lysine decarboxylase-4.1.1.18
119147ornithine decarboxylase-4.1.1.17
119147phenylalanine ammonia-lyase-4.3.1.24
119147tryptophan deaminase-
119147urease-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
119147-+++-+---+++--------

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
119147+---+/------+++------------------+---------+------+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
8208sea salt evaporation pondLiha do Sal, Cape VerdePortugalPRTEurope
119147Environment, Soil sampleLlha do SalCape VerdeCPVAfrica2004

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Environmental#Aquatic#Pond (small)
#Condition#Saline

taxonmaps

  • @ref: 69479
  • File name: preview.99_15705.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_8018;97_9644;98_11848;99_15705&stattab=map
  • Last taxonomy: Salirhabdus euzebyi subclade
  • 16S sequence: AM292417
  • Sequence Identity:
  • Total samples: 323
  • soil counts: 111
  • aquatic counts: 65
  • animal counts: 128
  • plant counts: 19

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
82081Risk group (German classification)
1191471Risk group (French classification)

Sequence information

16S sequences

  • @ref: 8208
  • description: Salirhabdus euzebyi 16S rRNA gene, type strain CVS-14T
  • accession: AM292417
  • length: 1546
  • database: ena
  • NCBI tax ID: 394506

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Salirhabdus euzebyi DSM 19612GCA_014207435scaffoldncbi394506
66792Salirhabdus euzebyi strain DSM 19612394506.4wgspatric394506
66792Salirhabdus euzebyi DSM 196122861401915draftimg394506

GC content

  • @ref: 8208
  • GC-content: 37

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
flagellatedyes78.633no
gram-positiveyes86.762yes
anaerobicno98.882yes
aerobicyes86.53no
halophileyes87.828no
spore-formingyes94.486no
glucose-utilyes85.196no
thermophileno97.11yes
motileyes90.616no
glucose-fermentno89.834no

External links

@ref: 8208

culture collection no.: DSM 19612, CIP 108577, LMG 22839

straininfo link

  • @ref: 71191
  • straininfo: 133761

literature

  • topic: Phylogeny
  • Pubmed-ID: 17625195
  • title: Salirhabdus euzebyi gen. nov., sp. nov., a Gram-positive, halotolerant bacterium isolated from a sea salt evaporation pond.
  • authors: Albuquerque L, Tiago I, Rainey FA, Taborda M, Nobre MF, Verissimo A, da Costa MS
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.64999-0
  • year: 2007
  • mesh: Africa, Western, Bacillaceae/*classification/*isolation & purification, Bacterial Typing Techniques, Base Composition, Catalase/analysis, Cell Wall/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Genes, rRNA, Hydrogen-Ion Concentration, Locomotion, Microscopy, Phase-Contrast, Molecular Sequence Data, Oxidoreductases/analysis, Peptidoglycan/analysis, Phylogeny, Quinones/analysis, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Sodium Chloride/metabolism, Spores, Bacterial, Temperature
  • topic2: Enzymology

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
8208Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19612)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19612
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
32121Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2836628776041
37441Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/6214
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
71191Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID133761.1StrainInfo: A central database for resolving microbial strain identifiers
119147Curators of the CIPCollection of Institut Pasteur (CIP 108577)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108577