Strain identifier

BacDive ID: 24493

Type strain: Yes

Species: Phaeobacter gallaeciensis

Strain Designation: BS 107

Strain history: CIP <- 1997, C. Ruiz-Ponte, IFREMER, Brest, France: strain BS 107

NCBI tax ID(s): 1423144 (strain), 60890 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 20729

BacDive-ID: 24493

DSM-Number: 26640

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative

description: Phaeobacter gallaeciensis BS 107 is a mesophilic, Gram-negative bacterium that was isolated from seawater from larval cultures of scallop, Pecten maximus.

NCBI tax id

NCBI tax idMatching level
60890species
1423144strain

strain history

@refhistory
20729<- T. Brinkhoff, Univ. Oldenburg, Germany <- CIP <- C. Ruiz-Ponte; BS 107
67770IAM 14812 <-- CIP 105210 <-- C. Ruiz-Ponte BS107.
119508CIP <- 1997, C. Ruiz-Ponte, IFREMER, Brest, France: strain BS 107

doi: 10.13145/bacdive24493.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodobacterales
  • family: Roseobacteraceae
  • genus: Phaeobacter
  • species: Phaeobacter gallaeciensis
  • full scientific name: Phaeobacter gallaeciensis (Ruiz-Ponte et al. 1998) Martens et al. 2006

  • synonyms

    • @ref: 20215
    • synonym: Roseobacter gallaeciensis

@ref: 20729

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodobacterales

family: Rhodobacteraceae

genus: Phaeobacter

species: Phaeobacter gallaeciensis

full scientific name: Phaeobacter gallaeciensis (Ruiz-Ponte et al. 1998) Martens et al. 2006

strain designation: BS 107

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480negative99.994
119508negativerod-shapedyes

colony morphology

  • @ref: 20729
  • incubation period: 1-2 days

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
20729BACTO 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
41627Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
119508CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
20729positivegrowth25mesophilic
41627positivegrowth22psychrophilic
67770positivegrowth25mesophilic
119508positivegrowth5-30
119508nogrowth37mesophilic
119508nogrowth41thermophilic
119508nogrowth45thermophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no100
69480no99.992

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836927689decanoate-assimilation
683695291gelatin-hydrolysis
683694853esculin-hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction
119508606565hippurate-hydrolysis
11950817632nitrate-builds gas from
11950817632nitrate+reduction
11950816301nitrite-builds gas from
11950816301nitrite-reduction

antibiotic resistance

  • @ref: 119508
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
11950835581indoleno

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
20729catalase+1.11.1.6
20729cytochrome-c oxidase+1.9.3.1
68369gelatinase-
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
119508oxidase+
119508beta-galactosidase+3.2.1.23
119508gelatinase+/-
119508amylase+
119508caseinase-3.4.21.50
119508catalase+1.11.1.6
119508gamma-glutamyltransferase+2.3.2.2
119508lecithinase-
119508lipase-
119508tryptophan deaminase-
119508urease-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
119508-+++-+----++--------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPAC
20729-------+---+/-+/-+/----+/---
20729-------+/-+++++++-++++/-

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
119508---------------------------------------------------------------------------------------------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinenthost speciesisolation date
20729seawater from larval cultures of scallop, Pecten maximusGaliciaSpainESPEurope
67770Seawater from larval cultures of the scallop, Pecten maximusInstituto Oceanografico, A CoruñaSpainESPEuropePecten maximus
119508Animal, Scallop Pecten maximus, larvaGaliciaSpainESPEurope1994

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Host#Invertebrates (Other)#Mollusca

taxonmaps

  • @ref: 69479
  • File name: preview.99_1899.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_19;96_355;97_566;98_1495;99_1899&stattab=map
  • Last taxonomy: Phaeobacter
  • 16S sequence: Y13244
  • Sequence Identity:
  • Total samples: 7469
  • soil counts: 318
  • aquatic counts: 6774
  • animal counts: 295
  • plant counts: 82

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
207291Risk group (German classification)
1195081Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20729Phaeobacter gallaeciensis strain CIP 105210 16S ribosomal RNA gene, partial sequenceKC1762391380ena1423144
67770Roseobacter gallaeciensis 16S rRNA geneY132441382ena1423144

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Phaeobacter gallaeciensis DSM 26640GCA_000511385completencbi1423144
66792Phaeobacter gallaeciensis DSM 266401423144.22plasmidpatric1423144
66792Phaeobacter gallaeciensis DSM 266401423144.21plasmidpatric1423144
66792Phaeobacter gallaeciensis DSM 266401423144.26plasmidpatric1423144
66792Phaeobacter gallaeciensis DSM 266401423144.23plasmidpatric1423144
66792Phaeobacter gallaeciensis DSM 266401423144.27plasmidpatric1423144
66792Phaeobacter gallaeciensis DSM 266401423144.3completepatric1423144
66792Phaeobacter gallaeciensis DSM 266401423144.24plasmidpatric1423144
66792Phaeobacter gallaeciensis DSM 266401423144.14wgspatric1423144
66792Phaeobacter gallaeciensis DSM 266401423144.25plasmidpatric1423144
66792Phaeobacter gallaeciensis DSM 266402558309061completeimg1423144
67770Phaeobacter gallaeciensis DSM 26640GCA_000819625contigncbi1423144

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes79.369no
flagellatedno63.239no
gram-positiveno98.725no
anaerobicno98.699no
halophileyes77.413no
spore-formingno94.874no
thermophileno97.459no
glucose-utilyes85.909no
aerobicyes91.747no
glucose-fermentno91.239yes

External links

@ref: 20729

culture collection no.: DSM 26640, CIP 105210, IAM 14812, JCM 21319, ATCC 700781, IFO 16654, NBRC 16654

straininfo link

  • @ref: 88352
  • straininfo: 44134

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny9731295Roseobacter gallaeciensis sp. nov., a new marine bacterium isolated from rearings and collectors of the scallop Pecten maximus.Ruiz-Ponte C, Cilia V, Lambert C, Nicolas JLInt J Syst Bacteriol10.1099/00207713-48-2-5371998Animals, Base Composition, Base Sequence, DNA, Bacterial, Gram-Negative Aerobic Rods and Cocci/*classification/metabolism/physiology, Microbial Sensitivity Tests, Molecular Sequence Data, Mollusca/*microbiology, Nucleic Acid Hybridization, Phylogeny, RNA, Bacterial, RNA, RibosomalGenetics
Phylogeny16738106Reclassification of Roseobacter gallaeciensis Ruiz-Ponte et al. 1998 as Phaeobacter gallaeciensis gen. nov., comb. nov., description of Phaeobacter inhibens sp. nov., reclassification of Ruegeria algicola (Lafay et al. 1995) Uchino et al. 1999 as Marinovum algicola gen. nov., comb. nov., and emended descriptions of the genera Roseobacter, Ruegeria and Leisingera.Martens T, Heidorn T, Pukall R, Simon M, Tindall BJ, Brinkhoff TInt J Syst Evol Microbiol10.1099/ijs.0.63724-02006Chromosomes, Bacterial, DNA, Bacterial/genetics, Fatty Acids/analysis, Microbial Sensitivity Tests, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Roseobacter/*classification/drug effects/growth & development/isolation & purification/ultrastructureGenetics
Phylogeny24187021Molecular and phenotypic analyses reveal the non-identity of the Phaeobacter gallaeciensis type strain deposits CIP 105210T and DSM 17395.Buddruhs N, Pradella S, Goker M, Pauker O, Pukall R, Sproer C, Schumann P, Petersen J, Brinkhoff TInt J Syst Evol Microbiol10.1099/ijs.0.053900-02013Bacterial Typing Techniques, DNA, Bacterial/genetics, DNA, Ribosomal Spacer/genetics, Electrophoresis, Gel, Pulsed-Field, Molecular Sequence Data, Nucleic Acid Conformation, Nucleic Acid Hybridization, *Phylogeny, Plasmids/genetics, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/growth & development, Sequence Analysis, DNA, Spectrometry, Mass, Matrix-Assisted Laser Desorption-IonizationEnzymology
Phylogeny25027448Seohaeicola nanhaiensis sp. nov., a moderately halophilic bacterium isolated from the benthic sediment of South China Sea.Xie BS, Lv XL, Cai M, Tang YQ, Wang YN, Cui HL, Liu XY, Tan Y, Wu XLCurr Microbiol10.1007/s00284-014-0658-92014Aerobiosis, Bacterial Typing Techniques, Base Composition, China, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Geologic Sediments/*microbiology, Hydrogen-Ion Concentration, Molecular Sequence Data, Phospholipids/analysis, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/*isolation & purification/physiology, Sequence Analysis, DNA, Sodium Chloride/metabolism, TemperatureGenetics
Phylogeny25180090Cribrihabitans neustonicus sp. nov., isolated from coastal surface seawater, and emended description of the genus Cribrihabitans Chen et al. 2014.Hameed A, Shahina M, Lin SY, Lai WA, Liu YC, Hsu YH, Young CCInt J Syst Evol Microbiol10.1099/ijs.0.066142-02014Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/isolation & purification, Seawater/*microbiology, Sequence Analysis, DNA, Taiwan, Ubiquinone/chemistryGenetics
Genetics25197473Complete genome sequence of the Phaeobacter gallaeciensis type strain CIP 105210(T) (= DSM 26640(T) = BS107(T)).Frank O, Pradella S, Rohde M, Scheuner C, Klenk HP, Goker M, Petersen JStand Genomic Sci10.4056/sigs.51791102014
Phylogeny28699865Phaeobacter porticola sp. nov., an antibiotic-producing bacterium isolated from a sea harbour.Breider S, Freese HM, Sproer C, Simon M, Overmann J, Brinkhoff TInt J Syst Evol Microbiol10.1099/ijsem.0.0018792017Anti-Bacterial Agents/biosynthesis, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Heterotrophic Processes, North Sea, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Pigmentation, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/isolation & purification, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/chemistryTranscriptome
Phylogeny28809139Paraphaeobacter pallidus gen. nov., sp. nov., isolated from seawater.Cai X, Wang Y, Yang X, Liu J, Wu Y, Zhang XHInt J Syst Evol Microbiol10.1099/ijsem.0.0019352017Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/isolation & purification, Seawater/*microbiology, Sequence Analysis, DNATranscriptome
28912769Adaptation of Surface-Associated Bacteria to the Open Ocean: A Genomically Distinct Subpopulation of Phaeobacter gallaeciensis Colonizes Pacific Mesozooplankton.Freese HM, Methner A, Overmann JFront Microbiol10.3389/fmicb.2017.016592017
Phylogeny31913437Polyphasic taxonomic analysis of Parasedimentitalea marina gen. nov., sp. nov., a psychrotolerant bacterium isolated from deep sea water of the New Britain Trench.Ding W, Liu P, Xu Y, Fang J, Cao JFEMS Microbiol Lett10.1093/femsle/fnaa0042019Base Composition, China, Chromosomes, Bacterial, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Hydrogen-Ion Concentration, Phospholipids/analysis, *Phylogeny, Plasmids/analysis, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/*isolation & purification/physiology, Seawater/*microbiology, Sequence Analysis, DNA, Sodium Chloride/metabolism, TemperatureTranscriptome

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
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
20729Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-26640Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26640)
41627Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/17205
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
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa1025Nucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68369Automatically annotated from API 20NE
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
88352Reimer, 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-ID44134.1
119508Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105210Collection of Institut Pasteur (CIP 105210)