Strain identifier

BacDive ID: 12675

Type strain: Yes

Species: Algicola sagamiensis

Strain Designation: B-10-31

Strain history: CIP <- 2003, JCM <- 2001, C. Imada: strain B-10-31

NCBI tax ID(s): 1120963 (strain), 163869 (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: 5428

BacDive-ID: 12675

DSM-Number: 14643

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, motile

description: Algicola sagamiensis B-10-31 is a mesophilic, motile bacterium that was isolated from neritic sea water.

NCBI tax id

NCBI tax idMatching level
163869species
1120963strain

strain history

@refhistory
5428<- C. Imada; B-10-31
67770C. Imada B-10-31.
122347CIP <- 2003, JCM <- 2001, C. Imada: strain B-10-31

doi: 10.13145/bacdive12675.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Alteromonadales
  • family: Pseudoalteromonadaceae
  • genus: Algicola
  • species: Algicola sagamiensis
  • full scientific name: Algicola sagamiensis (Kobayashi et al. 2003) Nam et al. 2007

  • synonyms

    • @ref: 20215
    • synonym: Pseudoalteromonas sagamiensis

@ref: 5428

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Alteromonadales

family: Pseudoalteromonadaceae

genus: Algicola

species: Algicola sagamiensis

full scientific name: Algicola sagamiensis (Kobayashi et al. 2003) Nam et al. 2007

strain designation: B-10-31

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes95.219
6948099.987negative
122347yesnegativerod-shaped

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5428BACTO 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
33917Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
122347CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
5428positivegrowth28mesophilic
33917positivegrowth25mesophilic
67770positivegrowth27mesophilic
122347positivegrowth25-30mesophilic
122347nogrowth5psychrophilic
122347nogrowth10psychrophilic
122347nogrowth37mesophilic
122347nogrowth41thermophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no97
69480no99.985

compound production

  • @ref: 67770
  • compound: monastatin

halophily

@refsaltgrowthtested relationconcentration
122347NaClpositivegrowth2-10 %
122347NaClnogrowth0 %

observation

  • @ref: 67770
  • observation: quinones: Q-8

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 2-ketogluconate-builds acid from
68371gluconate-builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose-builds acid from32528
68371gentiobiose-builds acid from28066
68371glycogen-builds acid from28087
68371starch-builds acid from28017
68371raffinose-builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371sucrose-builds acid from17992
68371melibiose-builds acid from28053
68371lactose-builds acid from17716
68371maltose-builds acid from17306
68371esculin-builds acid from4853
68371arbutin-builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine-builds acid from59640
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371myo-inositol+builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose-builds acid from16024
68371D-fructose-builds acid from15824
68371D-glucose-builds acid from17634
68371D-galactose-builds acid from12936
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose-builds acid from65327
68371D-ribose-builds acid from16988
68371L-arabinose-builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol-builds acid from17754
122347esculin-hydrolysis4853
122347nitrate-reduction17632
122347nitrite-reduction16301

metabolite production

@refChebi-IDmetaboliteproduction
677706426leupeptinyes
67770marinostatinyes
12234735581indoleno

enzymes

@refvalueactivityec
122347oxidase-
122347beta-galactosidase-3.2.1.23
122347alcohol dehydrogenase-1.1.1.1
122347gelatinase+
122347amylase-
122347caseinase+3.4.21.50
122347catalase+1.11.1.6
122347tween esterase+
122347lecithinase+
122347lipase+
122347lysine decarboxylase-4.1.1.18
122347ornithine decarboxylase-4.1.1.17
122347protease-
122347tryptophan deaminase-
122347urease-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
122347-++--+-+--++--------

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
122347----------------++/--------+/-+/-----+/------+/-----------+/-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
5428neritic sea waterKanagawa Prefecture, Aburatsubo Inlet of Sagami BayJapanJPNAsia
67770Coastal seawater at the Aburatsubo Inlet of Sagami BayKanagawa Pref.JapanJPNAsia
122347Environment, Sea water

isolation source categories

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

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
54281Risk group (German classification)
1223471Risk group (French classification)

Sequence information

16S sequences

  • @ref: 5428
  • description: Algicola sagamiensis gene for 16S rRNA
  • accession: AB063324
  • length: 1498
  • database: ena
  • NCBI tax ID: 163869

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Algicola sagamiensis DSM 146431120963.3wgspatric1120963
66792Algicola sagamiensis DSM 146432519899678draftimg1120963
67770Algicola sagamiensis DSM 14643GCA_000374485scaffoldncbi1120963

GC content

@refGC-contentmethod
542842.0
6777042high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno97no
motileyes90.884no
flagellatedyes81.808no
gram-positiveno98.612no
anaerobicno98.766no
aerobicyes86.134no
halophileno50no
spore-formingno92.539no
glucose-utilyes82.913no
thermophileno97.119yes
glucose-fermentno72.194no

External links

@ref: 5428

culture collection no.: DSM 14643, JCM 11461, CIP 108220

straininfo link

  • @ref: 81886
  • straininfo: 128010

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny14657108Pseudoalteromonas sagamiensis sp. nov., a marine bacterium that produces protease inhibitors.Kobayashi T, Imada C, Hiraishi A, Tsujibo H, Miyamoto K, Inamori Y, Hamada N, Watanabe EInt J Syst Evol Microbiol10.1099/ijs.0.02516-02003DNA, Bacterial/genetics/isolation & purification, Genotype, Gram-Negative Aerobic Rods and Cocci/classification/isolation & purification, Molecular Sequence Data, *Phylogeny, Protease Inhibitors/*metabolism, Pseudoalteromonas/*classification/genetics/isolation & purification/metabolism, Seawater/*microbiologyGenetics
Phylogeny17220433Pseudoalteromonas marina sp. nov., a marine bacterium isolated from tidal flats of the Yellow Sea, and reclassification of Pseudoalteromonas sagamiensis as Algicola sagamiensis comb. nov.Nam YD, Chang HW, Park JR, Kwon HY, Quan ZX, Park YH, Lee JS, Yoon JH, Bae JWInt J Syst Evol Microbiol10.1099/ijs.0.64523-02007DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genes, rRNA, Geologic Sediments/*microbiology, Korea, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, Pseudoalteromonas/*classification/genetics/*isolation & purification, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNAGenetics
Phylogeny33332262Algibacillus agarilyticus gen. nov., sp. nov., isolated from the surface of the red algae Gelidium amansii.Meng X, Chang YQ, Wang H, Du ZJInt J Syst Evol Microbiol10.1099/ijsem.0.0045582020Alteromonadaceae/*classification/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodophyta/*microbiology, Sequence Analysis, DNA, Ubiquinone/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitle
5428Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 14643)https://www.dsmz.de/collection/catalogue/details/culture/DSM-14643
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
33917Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5819
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
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
81886Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID128010.1StrainInfo: A central database for resolving microbial strain identifiers
122347Curators of the CIPCollection of Institut Pasteur (CIP 108220)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108220