Strain identifier

BacDive ID: 495

Type strain: Yes

Species: Haliea salexigens

Strain Designation: 3x/A02/235

Strain history: CIP <- 2007, L. Urios, CNRS, Banyuls sur mer, France: strain 3X/A02/235

NCBI tax ID(s): 1121937 (strain), 287487 (species)

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General

@ref: 8158

BacDive-ID: 495

DSM-Number: 19537

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

description: Haliea salexigens 3x/A02/235 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from surface microlayer of seawater from the bay of Banyuls-sur-Mer.

NCBI tax id

NCBI tax idMatching level
287487species
1121937strain

strain history

@refhistory
8158<- P. Lebaron, Lab. d'Océanographie Biologique de Banyuls (LOBB), Univ. Pierre et Marie Curie; 3x/A02/235 <- L. Intertaglia
377822007, L. Urios, CNRS, Banyuls/mer, France: strain 3X/A02/235
122367CIP <- 2007, L. Urios, CNRS, Banyuls sur mer, France: strain 3X/A02/235

doi: 10.13145/bacdive495.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Cellvibrionales
  • family: Halieaceae
  • genus: Haliea
  • species: Haliea salexigens
  • full scientific name: Haliea salexigens Urios et al. 2008

@ref: 8158

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Alteromonadales

family: Halieaceae

genus: Haliea

species: Haliea salexigens

full scientific name: Haliea salexigens Urios et al. 2008

strain designation: 3x/A02/235

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
32420negative1.6 µm0.5 µmrod-shapedyes
69480negative99.996
122367negativerod-shapedno

multimedia

@refmultimedia contentcaptionintellectual property rights
66793EM_DSM_19537_1.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_19537_2.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_19537_3.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_19537_4.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_19537_5.jpgelectron microscopic image© HZI/Manfred Rohde

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8158BACTO 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
37782Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
122367CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
8158positivegrowth28mesophilic
32420positivegrowth10-37
32420positiveoptimum27.5mesophilic
37782positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
32420positivegrowth05-09alkaliphile
32420positiveoptimum8

Physiology and metabolism

oxygen tolerance

  • @ref: 32420
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.987

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
32420286442-oxopentanoate+carbon source
3242029987glutamate+carbon source
3242017754glycerol+carbon source
3242051850methyl pyruvate+carbon source
3242030031succinate+carbon source
3242053423tween 40+carbon source
3242053426tween 80+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
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
6837116988D-ribose-builds acid from
6837130849L-arabinose-builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
6837117754glycerol-builds acid from
12236717632nitrate-reduction
12236716301nitrite-reduction

metabolite production

  • @ref: 122367
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
32420acid phosphatase+3.1.3.2
32420alkaline phosphatase+3.1.3.1
32420catalase+1.11.1.6
32420cytochrome 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
122367oxidase+
122367catalase+1.11.1.6
122367urease-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
122367-+++-+----++--------

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
122367-------------------------------------------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
8158surface microlayer of seawater from the bay of Banyuls-sur-Mernorth-western Mediterranean SeaFranceFRAEurope
122367Environment, Sea waterBanuyls sur merFranceFRAEurope2002

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Environmental#Aquatic#Surface water

taxonmaps

  • @ref: 69479
  • File name: preview.99_5765.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_305;96_2767;97_3404;98_4295;99_5765&stattab=map
  • Last taxonomy: Haliea
  • 16S sequence: AY576769
  • Sequence Identity:
  • Total samples: 3252
  • soil counts: 107
  • aquatic counts: 2985
  • animal counts: 146
  • plant counts: 14

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
81581Risk group (German classification)
1223671Risk group (French classification)

Sequence information

16S sequences

  • @ref: 8158
  • description: Haliea salexigens strain 3X/A02/235 16S ribosomal RNA gene, partial sequence
  • accession: AY576769
  • length: 1485
  • database: ena
  • NCBI tax ID: 1121937

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Haliea salexigens DSM 19537GCA_000423125scaffoldncbi1121937
66792Haliea salexigens DSM 195371121937.15wgspatric1121937
66792Haliea salexigens DSM 195372523533559draftimg1121937

GC content

  • @ref: 32420
  • GC-content: 61

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes85.74yes
flagellatedyes56.73no
gram-positiveno98.444yes
anaerobicno98.259no
aerobicyes90.048yes
halophileyes55.495no
spore-formingno97.107no
glucose-utilyes59.734no
thermophileno99.276yes
glucose-fermentno92.07no

External links

@ref: 8158

culture collection no.: DSM 19537, CECT 7478, CIP 109602, MOLA 286, OOB 286

straininfo link

  • @ref: 70174
  • straininfo: 354007

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny18450719Haliea salexigens gen. nov., sp. nov., a member of the Gammaproteobacteria from the Mediterranean Sea.Urios L, Intertaglia L, Lesongeur F, Lebaron PInt J Syst Evol Microbiol10.1099/ijs.0.65470-02008Alteromonadaceae/*classification/genetics/isolation & purification/physiology, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genes, rRNA, Genotype, Mediterranean Sea, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Species SpecificityGenetics
Phylogeny31751199Haliea alexandrii sp. nov., isolated from phycosphere microbiota of the toxin-producing dinoflagellate Alexandrium catenella.Yang Q, Jiang Z, Zhou X, Zhang R, Xie Z, Zhang S, Wu Y, Ge Y, Zhang XInt J Syst Evol Microbiol10.1099/ijsem.0.0038902020Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Dinoflagellida/*microbiology, Fatty Acids/chemistry, Gammaproteobacteria/*classification/isolation & purification, Microbiota, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Ubiquinone/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
8158Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19537)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19537
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
32420Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2864328776041
37782Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7364
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)
66793Mukherjee et al.10.1038/nbt.3886GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life28604660 35: 676-683 2017
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
70174Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID354007.1StrainInfo: A central database for resolving microbial strain identifiers
122367Curators of the CIPCollection of Institut Pasteur (CIP 109602)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109602