Strain identifier

BacDive ID: 158592

Type strain: Yes

Species: Hymenobacter defluvii

Strain Designation: POA9

Strain history: <- Chi Nam Seong, Sunchon National Univ.

NCBI tax ID(s): 2054411 (species)

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General

@ref: 65592

BacDive-ID: 158592

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

description: Hymenobacter defluvii POA9 is an aerobe, Gram-negative, rod-shaped bacterium that forms irregular colonies and was isolated from wastewater of an acidic water neutralization facility, Water temperature, salinity and pH of the wastewater sample were 18°C, absence of salinity and pH 7.0, respectively..

NCBI tax id

  • NCBI tax id: 2054411
  • Matching level: species

strain history

@refhistory
67770C. N. Seong; Sunchon Natl. Univ., South Korea; POA9.
67771<- Chi Nam Seong, Sunchon National Univ.

doi: 10.13145/bacdive158592.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Cytophagia
  • order: Cytophagales
  • family: Hymenobacteraceae
  • genus: Hymenobacter
  • species: Hymenobacter defluvii
  • full scientific name: Hymenobacter defluvii Kang et al. 2018

@ref: 65592

domain: Bacteria

phylum: Bacteroidetes

class: Cytophagia

order: Cytophagales

family: Hymenobacteraceae

genus: Hymenobacter

species: Hymenobacter defluvii

strain designation: POA9

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
65592negative1.5-2.8 µm0.5 µmrod-shapedno
67771rod-shapedno
67771negative

colony morphology

  • @ref: 65592
  • colony size: 2-3 mm
  • colony color: pink
  • colony shape: irregular
  • incubation period: 3 days
  • medium used: R2A

pigmentation

@refproductionname
65592noflexirubin-type pigments
65592yescarotinoid pigments

Culture and growth conditions

culture medium

@refnamegrowth
65592Reasoner's 2A agar (R2A)yes
65592Nutrient agar (NA)yes
65592Marine agar (MA)no
65592tryptic soy agarno
65592plate count agaryes

culture temp

@refgrowthtypetemperaturerange
65592positivegrowth10-35
65592positiveoptimum25-30mesophilic
67770positivegrowth25mesophilic
67771positivegrowth25mesophilic

culture pH

@refabilitytypepHPH range
65592positivegrowth6-10alkaliphile
65592positiveoptimum7

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
65592aerobe
67771aerobe

halophily

@refsaltgrowthtested relationconcentration
65592NaClpositivegrowth0-2 %(w/v)
65592NaClpositiveoptimum0 %(w/v)

observation

@refobservation
65592Cells produce extracellular polymeric substances and aggregate to tight, thin layers on agar surfaces.
67771quinones: MK-7

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6559222599arabinose+assimilation
6559285146carboxymethylcellulose-hydrolysis
65592casein+hydrolysis
6559217029chitin-hydrolysis
6559216991dna-hydrolysis
655924853esculin+hydrolysis
6559228757fructose-builds acid from
6559228260galactose+builds acid from
655925291gelatin-hydrolysis
6559217234glucose-builds acid from
6559217234glucose+assimilation
6559217368hypoxanthine-hydrolysis
6559217895L-tyrosine-hydrolysis
6559217716lactose+builds acid from
6559217306maltose+assimilation
6559217306maltose+builds acid from
6559229864mannitol-builds acid from
6559237684mannose+assimilation
6559237684mannose+builds acid from
65592506227N-acetylglucosamine+assimilation
6559217632nitrate-reduction
6559217309pectin-hydrolysis
6559226546rhamnose-builds acid from
6559253311sodium alginate+hydrolysis
6559228017starch-hydrolysis
6559217992sucrose-builds acid from
6559227082trehalose+builds acid from
6559253424tween 20-hydrolysis
6559253426tween 80-hydrolysis
6559216199urea-hydrolysis
6559215318xanthine-hydrolysis
6559237166xylan-hydrolysis
6559218222xylose-builds acid from

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.is resistantresistance conc.
6559228971ampicillinyesyes10 µg (disc)
6559217076streptomycinyesyes10 µg (disc)
6559217334penicillinyesyes10 Unit (disc)
6559248923erythromycinyesyes15 µg (disc)
6559217698chloramphenicolyesyes30 µg (disc)
65592100147nalidixic acidyesyes30 µg (disc)
6559227902tetracyclineyesyes30 µg (disc)
6559228001vancomycinyesyes30 µg (disc)
6559217833gentamicinyesyes10 µg (disc)
655922637amikacinyesyes30 µg (disc)
655926104kanamycinyesyes30 µg (disc)

metabolite production

@refChebi-IDmetaboliteproduction
6559216136hydrogen sulfideno
6559235581indoleno

enzymes

@refvalueactivityec
65592catalase+1.11.1.6
65592cytochrome oxidase-1.9.3.1
65592acid phosphatase+3.1.3.2
65592alkaline phosphatase+3.1.3.1
65592cystine arylamidase+3.4.11.3
65592esterase (C 4)+
65592esterase Lipase (C 8)+
65592beta-galactosidase+3.2.1.23
65592alpha-glucosidase+3.2.1.20
65592beta-glucuronidase+3.2.1.31
65592leucine arylamidase+3.4.11.1
65592naphthol-AS-BI-phosphohydrolase+
65592N-acetyl-beta-glucosaminidase+3.2.1.52
65592valine arylamidase+
65592alpha-chymotrypsin-3.4.21.1
65592alpha-fucosidase-3.2.1.51
65592alpha-galactosidase-3.2.1.22
65592beta-glucuronidase-3.2.1.31
65592lipase (C 14)-
65592alpha-mannosidase-3.2.1.24
65592trypsin-3.4.21.4

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    65592C14:01.2
    65592C16:04
    65592C15:0 iso24.5
    65592C17:0 iso3.6
    65592C15:0 iso 3OH1.9
    65592C17:0 iso 3OH1.5
    65592C15:0 anteiso10.2
    65592C16:1ω5c25.6
    65592C16:1ω7c and/or C16:1ω6c18.3
    65592C17:1 iso I and/or C17:1 anteiso B5.5
    65592Unknown 13.5652.114
  • type of FA analysis: whole cell analysis
  • incubation medium: R2A
  • agar/liquid: agar
  • incubation temperature: 30
  • incubation time: 2
  • software version: Sherlock 6.1
  • library/peak naming table: TSBA6
  • system: MIS MIDI
  • cutoff value:

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentenrichment cultureenrichment culture durationenrichment culture temperature
65592wastewater of an acidic water neutralization facility, Water temperature, salinity and pH of the wastewater sample were 18°C, absence of salinity and pH 7.0, respectively.steelworks, Gwangyang, Jeonnam ProvinceRepublic of KoreaKORAsiaR2A agar5 days25
67770Wastewater from the acidic water neutralization facility of a steel-worksGwangyang, Jeonnam ProvinceRepublic of KoreaKORAsia
67771From wastewater, acidic water neutralization facility of a steelworksGwangyang, Jeonnam ProvinceRepublic of KoreaKORAsia

isolation source categories

  • Cat1: #Engineered
  • Cat2: #Waste
  • Cat3: #Wastewater

Sequence information

16S sequences

  • @ref: 65592
  • description: 16S rRNA gene sequence
  • accession: KY883691
  • database: nuccore

GC content

@refGC-contentmethod
6777157.0
6777057thermal denaturation, midpoint method (Tm)

External links

@ref: 65592

culture collection no.: KCTC 52270, JCM 31658

literature

  • topic: Phylogeny
  • Pubmed-ID: 29148363
  • title: Hymenobacter defluvii sp. nov., isolated from wastewater of an acidic water neutralization facility.
  • authors: Kang JW, Choi S, Choe HN, Seong CN
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002497
  • year: 2017
  • mesh: Bacterial Typing Techniques, Base Composition, Cytophagaceae/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Phosphatidylethanolamines/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Spermidine/analogs & derivatives/chemistry, Tibet, Vitamin K 2/analogs & derivatives/chemistry, Waste Water/*microbiology
  • 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
65592Joo Won Kang, Seon Choi, Han Na Choe, Chi Nam SeongHymenobacter defluvii sp. nov., isolated from wastewater of an acidic water neutralization facility10.1099/ijsem.0.002497IJSEM 68: 277-282 201829148363
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc