Strain identifier

BacDive ID: 140562

Type strain: Yes

Species: Algibacter aquaticus

Strain Designation: SK-16

Strain history: <- Koji HAMASAKI, Univ. of Tokyo

NCBI tax ID(s): 1849968 (species)

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General

@ref: 43339

BacDive-ID: 140562

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

description: Algibacter aquaticus SK-16 is an aerobe, psychrophilic, Gram-negative bacterium that forms circular colonies and was isolated from surface seawater of Aburatsubo Inlet, a semi-enclosed coastal inlet.

NCBI tax id

  • NCBI tax id: 1849968
  • Matching level: species

strain history

  • @ref: 67771
  • history: <- Koji HAMASAKI, Univ. of Tokyo

doi: 10.13145/bacdive140562.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Flavobacteriaceae
  • genus: Algibacter
  • species: Algibacter aquaticus
  • full scientific name: Algibacter aquaticus Wong et al. 2017

  • synonyms

    • @ref: 20215
    • synonym: Flavivirga aquatica

@ref: 43339

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Algibacter

species: Algibacter aquaticus

strain designation: SK-16

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangement
43339negative1.2-2.6 µm0.2-0.4 µmrod-shapedyes
67771rod-shapedyesgliding
67771negative

colony morphology

  • @ref: 43339
  • colony color: pale yellow
  • colony shape: circular
  • incubation period: 3 days
  • medium used: 1/2 marine agar (Difco)

pigmentation

  • @ref: 43339
  • production: yes
  • name: Flexirubin-Type

Culture and growth conditions

culture medium

  • @ref: 43339
  • name: 1/2 marine agar (Difco)
  • growth: yes

culture temp

@refgrowthtypetemperaturerange
43339positiveoptimum15-20psychrophilic
43339positivegrowth10-30
67771positivegrowth20psychrophilic

culture pH

@refabilitytypepHPH range
43339positivegrowth7-10alkaliphile
43339positiveoptimum8

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
43339aerobe
67771aerobe

halophily

@refsaltgrowthtested relationconcentration
43339NaClpositivegrowth0-8 %
43339NaClpositivemaximum2 %

observation

  • @ref: 67771
  • observation: quinones: MK-6

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4333917632nitrate-reduction
4333916301nitrite-reduction
4333917234glucose-builds acid from
433394853esculin+hydrolysis
433392509agar+hydrolysis
4333985146carboxymethylcellulose+hydrolysis
4333916991dna-hydrolysis
4333928017starch-hydrolysis
433395291gelatin-hydrolysis
4333916199urea-hydrolysis
4333933942ribose+builds acid from
4333965327D-xylose+builds acid from
4333965328L-xylose+builds acid from
4333915963ribitol+builds acid from
4333974863methyl beta-D-xylopyranoside+builds acid from
4333926546rhamnose+builds acid from
43339506227N-acetylglucosamine+builds acid from
433394853esculin+builds acid from
4333917814salicin+builds acid from
4333917057cellobiose+builds acid from
433396731melezitose+builds acid from
4333917151xylitol+builds acid from
43339581435-dehydro-D-gluconate+builds acid from

metabolite production

@refChebi-IDmetaboliteproduction
4333915688acetoinyes
4333935581indoleno
4333916136hydrogen sulfideno

enzymes

@refvalueactivityec
43339catalase+1.11.1.6
43339cytochrome oxidase+1.9.3.1
43339alkaline phosphatase+3.1.3.1
43339valine arylamidase+
43339naphthol-AS-BI-phosphohydrolase+
43339esterase Lipase (C 8)+
43339leucine arylamidase+3.4.11.1
43339beta-glucuronidase+3.2.1.31
43339acid phosphatase+3.1.3.2
43339esterase (C 4)-
43339lipase (C 14)-
43339cystine arylamidase-3.4.11.3
43339trypsin-3.4.21.4
43339alpha-chymotrypsin-3.4.21.1
43339alpha-galactosidase-3.2.1.22
43339beta-galactosidase-3.2.1.23
43339N-acetyl-beta-glucosaminidase-3.2.1.52
43339alpha-mannosidase-3.2.1.24
43339alpha-fucosidase-3.2.1.51

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    43339C15:1 ω6c4.2
    43339C18:1ω5c1.6
    43339C13:0 iso1.2
    43339C14:0 iso1
    43339C15:0 iso32.7
    43339C15:0 anteiso2.8
    43339iso-C15:0 G15.5
    43339C17:0 2OH1
    43339C15:0 3OH1
    43339iso C15:0 3-OH10.4
    43339iso C16:0 3-OH4
    43339iso C17:0 3-OH16.9
    43339C16:1 ω6c / C16:1 ω7c2
    43339C 17:1ω9c / 10-Methyl C16:01.1
  • type of FA analysis: whole cell analysis
  • incubation medium: 1/2 MA
  • incubation temperature: 25
  • incubation time: 5
  • system: MIS MIDI
  • cutoff value:

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentenrichment cultureenrichment culture compositionenrichment culture durationenrichment culture temperatureisolation procedurelatitudelongitude
43339surface seawater of Aburatsubo Inlet, a semi-enclosed coastal inletKanagawa PrefectureJapanJPNAsia1/10th stength ZoBell Agar0.5g peptone, 0.1g yeast extract, 15g agar in 1L of 80% aged natural seawater (at least 1y aged)4 days20Cpicked and recultivated
67771From the coastal surface waternear the pier of Misaki Marine Biological Station, University of Tokyo, Aburatsubo inlet(semi-enclosed coastal inlet), Misaki, Kanagawa PrefectureJapanJPNAsia35.1583139.608

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Coast
#Environmental#Aquatic#Marine
#Environmental#Aquatic#Surface water

taxonmaps

  • @ref: 69479
  • File name: preview.99_1322.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_107;96_766;97_894;98_1047;99_1322&stattab=map
  • Last taxonomy: Algibacter aquaticus subclade
  • 16S sequence: KM502325
  • Sequence Identity:
  • Total samples: 260
  • soil counts: 2
  • aquatic counts: 251
  • animal counts: 5
  • plant counts: 2

Sequence information

16S sequences

  • @ref: 43339
  • description: Algibacter sp. NBRC 110220 16S ribosomal RNA gene, partial sequence
  • accession: KM502325
  • length: 1417
  • database: nuccore
  • NCBI tax ID: 1563679

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Flavivirga aquatica SK-16GCA_001747085contigncbi1849968
66792Algibacter aquaticus SK-162791354951draftimg1849968

GC content

@refGC-contentmethod
4333932.3high performance liquid chromatography (HPLC)
6777132.3

External links

@ref: 43339

culture collection no.: NBRC 110220, KCTC 32974

literature

  • topic: Phylogeny
  • Pubmed-ID: 28699854
  • title: Algibacter aquaticus sp. nov., a slightly alkaliphilic marine Flavobacterium isolated from coastal surface water.
  • authors: Wong SK, Park S, Lee JS, Lee KC, Ogura Y, Hayashi T, Chiura HX, Yoshizawa S, Hamasaki K
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.001924
  • year: 2017
  • mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/*classification/genetics/isolation & purification, Japan, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urljournalpubmed
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
43339Shu-Kuan Wong, Sanghwa Park, Jung-Sook Lee, Keun Chul Lee, Yoshitoshi Ogura, Tetsuya Hayashi, Hiroshi Xavier Chiura, Susumu Yoshizawa, Koji HamasakiAlgibacter aquaticus sp. nov., a slightly alkaliphilic marine Flavobacterium isolated from coastal surface water10.1099/ijsem.0.001924IJSEM 67: 2199-2204 201728699854
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
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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/