Strain identifier

BacDive ID: 158681

Type strain: Yes

Species: Polaribacter tangerinus

Strain Designation: WS2-14

Strain history: <- Zongjun Du, Shandong Univ.

NCBI tax ID(s): 1920034 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 65417

BacDive-ID: 158681

keywords: genome sequence, 16S sequence, Bacteria, aerobe, Gram-negative, coccus-shaped, colony-forming

description: Polaribacter tangerinus WS2-14 is an aerobe, Gram-negative, coccus-shaped bacterium that forms circular colonies and was isolated from sediment collected from a pond for sea cucumber culture.

NCBI tax id

  • NCBI tax id: 1920034
  • Matching level: species

strain history

  • @ref: 67771
  • history: <- Zongjun Du, Shandong Univ.

doi: 10.13145/bacdive158681.20230509.8.1

Name and taxonomic classification

LPSN

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

@ref: 65417

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Polaribacter

species: Polaribacter tangerinus

strain designation: WS2-14

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilitycell lengthcell width
65417negativecoccus-shapedno
65417rod-shaped
65417ovoid-shaped
654170.4-1.6 µm0.3-0.6 µm
67771rod-shaped
67771ovoid-shaped
67771negative

colony morphology

@refcolony shapemedium usedcolony sizecolony colorincubation period
65417circularmarine agar 2216
654170.8-1.5 mmorange5 days

pigmentation

  • @ref: 65417
  • production: no
  • name: Flexirubin

Culture and growth conditions

culture medium

  • @ref: 65417
  • name: Marine agar (MA)
  • growth: yes

culture temp

@refgrowthtypetemperaturerange
65417positivegrowth10-37
65417positivegrowth28mesophilic
67771positivegrowth25-30mesophilic

culture pH

@refabilitytypepHPH range
65417positivegrowth6.5-8.5alkaliphile
65417positiveoptimum7.0-7.5

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
65417aerobe
67771aerobe

halophily

@refsaltgrowthtested relationconcentration
65417NaClpositivegrowth0.5-6.0 %(w/v)
65417NaClpositiveoptimum3 %(w/v)

observation

@refobservation
65417growth does not occur under anaerobic conditions, but grows weakly under microaerobic conditions on MA with or without 0.1 % (w/v) KNO3
65417sole respiratory quinone is MK-6
65417the main cellular polar lipids are phosphatidylethanolamine, one unidentified phospholipid, one unidentified aminolipid and three unidentified lipids
67771quinones: MK-6

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6541715588D-malate+carbon source
6541717925alpha-D-glucose+carbon source
6541773706bromosuccinate+carbon source
6541712936D-galactose+carbon source
6541716988D-ribose+builds acid from
6541717924D-sorbitol+carbon source
6541723652dextrin+carbon source
6541728066gentiobiose+carbon source
6541717306maltose+carbon source
6541728053melibiose+carbon source
6541717992sucrose+carbon source
6541753424tween 20+hydrolysis
6541753423tween 40-hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6541735581indoleno
6541715138sulfideno

enzymes

@refvalueactivityec
65417catalase-1.11.1.6
65417cytochrome oxidase-1.9.3.1
65417nitrate reductase-1.7.99.4
65417gelatinase-
65417arginine dihydrolase-3.5.3.6
65417lysine decarboxylase-4.1.1.18
65417ornithine decarboxylase-4.1.1.17
65417urease-3.5.1.5
65417tryptophan deaminase-4.1.99.1
65417alkaline phosphatase+3.1.3.1
65417leucine arylamidase+3.4.11.1
65417valine arylamidase+
65417cystine arylamidase+3.4.11.3
65417acid phosphatase+3.1.3.2
65417trypsin+3.4.21.4
65417naphthol-AS-BI-phosphohydrolase+
65417esterase (C 4)-
65417esterase Lipase (C 8)-
65417alpha-chymotrypsin-3.4.21.1
65417alpha-galactosidase-3.2.1.22
65417beta-galactosidase-3.2.1.23
65417alpha-glucosidase-3.2.1.20
65417N-acetyl-beta-glucosaminidase-3.2.1.52
65417beta-glucosidase-3.2.1.21
65417beta-glucuronidase-3.2.1.31
65417lipase (C 14)-
65417alpha-fucosidase-3.2.1.51
65417alpha-mannosidase-3.2.1.24

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    65417C13:0 iso15.5
    65417C15:0 iso 3OH14.2
  • type of FA analysis: whole cell analysis
  • incubation medium: marine broth
  • incubation temperature: 25
  • incubation time: 2
  • software version: Sherlock 4.5
  • library/peak naming table: TSBA40
  • system: MIS MIDI
  • instrument: Agilent 6890 N

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitude
65417sediment collected from a pond for sea cucumber cultureRongcheng, Shandong provinceChinaCHNAsia36.9122.233
67771From sediments, pond for sea cucumber culture in RongchengShandong provinceChinaCHNAsia36.9097122.246

isolation source categories

Cat1Cat2Cat3
#Host#Invertebrates (Other)#Echinodermata
#Environmental#Aquatic#Pond (small)
#Environmental#Aquatic#Sediment

Sequence information

16S sequences

  • @ref: 65417
  • description: 16S rRNA gene sequence
  • accession: KX262847
  • database: nuccore

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Polaribacter tangerinus WS2-14GCA_002201235contigncbi1920034
66792Polaribacter tangerinus WS2-142791355037draftimg1920034

GC content

@refGC-contentmethod
6541731.2high performance liquid chromatography (HPLC)
6777131.2

External links

@ref: 65417

culture collection no.: KCTC 52275, MCCC 1H00163

literature

  • topic: Phylogeny
  • Pubmed-ID: 28984567
  • title: Polaribacter tangerinus sp. nov., isolated from sediment in a sea cucumber culture pond.
  • authors: Han JR, Wang K, Zhang J, Chen GJ, Du ZJ
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002369
  • year: 2017
  • mesh: Animals, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/*classification/genetics/isolation & purification, Geologic Sediments/*microbiology, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, *Sea Cucumbers, 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
65417Ji-Ru Han, Kan Wang, Jing Zhang, Guan-Jun Chen, Zong-Jun DuPolaribacter tangerinus sp. nov., isolated from sediment in a sea cucumber culture pond10.1099/ijsem.0.002369IJSEM 67: 4736-4741 201728984567
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
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc