Strain identifier

BacDive ID: 134123

Type strain: Yes

Species: Subsaximicrobium saxinquilinus

Strain Designation: Y4-5

Strain history: CIP <- 2004, J. Bowman, Tasmania, Australia: strain Y4-5

NCBI tax ID(s): 291180 (species)

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General

@ref: 31431

BacDive-ID: 134123

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

description: Subsaximicrobium saxinquilinus Y4-5 is an aerobe, psychrophilic, Gram-negative bacterium that was isolated from Cyanobacterial biofilm on the underside of a quartz stone.

NCBI tax id

  • NCBI tax id: 291180
  • Matching level: species

strain history

  • @ref: 122497
  • history: CIP <- 2004, J. Bowman, Tasmania, Australia: strain Y4-5

doi: 10.13145/bacdive134123.20230509.8.1

Name and taxonomic classification

LPSN

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

@ref: 31431

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Subsaximicrobium

species: Subsaximicrobium saxinquilinus

strain designation: Y4-5

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityflagellum arrangement
31431negativerod-shapedyesgliding
122497negativerod-shapedno

pigmentation

  • @ref: 31431
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
33979Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
122497CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
31431positiveoptimum9psychrophilic
33979positivegrowth22psychrophilic
122497positivegrowth5-25psychrophilic
122497nogrowth30mesophilic
122497nogrowth37mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 31431
  • oxygen tolerance: aerobe

halophily

@refsaltgrowthtested relationconcentration
31431NaClpositivegrowth0.1-2 %
31431NaClpositiveoptimum0.35 %
122497NaClnogrowth0 %
122497NaClnogrowth2 %
122497NaClnogrowth4 %
122497NaClnogrowth6 %
122497NaClnogrowth8 %
122497NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
314315291gelatin+carbon source
3143117234glucose+carbon source
3143128087glycogen+carbon source
3143117306maltose+carbon source
3143137684mannose+carbon source
3143126271proline+carbon source
3143153426tween 80+carbon source
314314853esculin+hydrolysis
12249716947citrate-carbon source
1224974853esculin+hydrolysis
12249717632nitrate-reduction
12249716301nitrite-reduction
12249715792malonate-assimilation

metabolite production

  • @ref: 122497
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
12249715688acetoin-
12249717234glucose-

enzymes

@refvalueactivityec
31431alkaline phosphatase+3.1.3.1
31431gelatinase+
122497oxidase+
122497beta-galactosidase-3.2.1.23
122497alcohol dehydrogenase-1.1.1.1
122497gelatinase+
122497amylase+
122497caseinase+3.4.21.50
122497catalase+1.11.1.6
122497tween esterase+
122497gamma-glutamyltransferase-2.3.2.2
122497lecithinase-
122497lipase-
122497lysine decarboxylase-4.1.1.18
122497ornithine decarboxylase-4.1.1.17
122497phenylalanine ammonia-lyase-4.3.1.24
122497protease+
122497tryptophan deaminase-
122497urease-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
122497-+++-++---++--------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
122497-------+++++++++++---------+++++++++++------------++---+++---+--------++++-+---------+---------+--+

Isolation, sampling and environmental information

isolation

  • @ref: 122497
  • sample type: Cyanobacterial biofilm on the underside of a quartz stone
  • geographic location: Vestfold hills
  • country: Antarctica
  • origin.country: ATA
  • continent: Antarctica
  • isolation date: 1999

taxonmaps

  • @ref: 69479
  • File name: preview.99_63003.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_107;96_27487;97_34583;98_44595;99_63003&stattab=map
  • Last taxonomy: Subsaximicrobium
  • 16S sequence: AY693998
  • Sequence Identity:
  • Total samples: 301
  • soil counts: 45
  • aquatic counts: 230
  • animal counts: 24
  • plant counts: 2

Safety information

risk assessment

  • @ref: 122497
  • biosafety level: 1
  • biosafety level comment: Risk group (French classification)

Sequence information

16S sequences

  • @ref: 31431
  • description: Subsaximicrobium saxinquilinus strain Y4-5 16S ribosomal RNA gene, partial sequence
  • accession: AY693998
  • length: 1392
  • database: nuccore
  • NCBI tax ID: 291180

GC content

  • @ref: 31431
  • GC-content: 39

External links

@ref: 31431

culture collection no.: ACAM 1063, CIP 108526

straininfo link

  • @ref: 91724
  • straininfo: 265411

literature

  • topic: Phylogeny
  • Pubmed-ID: 16014468
  • title: Novel 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.
  • authors: Bowman JP, Nichols DS
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.63527-0
  • year: 2005
  • mesh: Amphipoda/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 Specificity
  • topic2: Genetics

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
33979Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/6158
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/
91724Reimer, 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-ID265411.1
122497Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108526Collection of Institut Pasteur (CIP 108526)