Strain identifier

BacDive ID: 158535

Type strain: Yes

Species: Flavobacterium amniphilum

Strain Designation: KYPY10

Strain history: <- Wen-Ming Chen, National Kaohsiung Marine Univ.

NCBI tax ID(s): 1834035 (species)

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General

@ref: 65223

BacDive-ID: 158535

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

description: Flavobacterium amniphilum KYPY10 is an aerobe, Gram-negative, motile bacterium that forms circular colonies and was isolated from water sample.

NCBI tax id

  • NCBI tax id: 1834035
  • Matching level: species

strain history

  • @ref: 67771
  • history: <- Wen-Ming Chen, National Kaohsiung Marine Univ.

doi: 10.13145/bacdive158535.20230509.8.1

Name and taxonomic classification

LPSN

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

@ref: 65223

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Flavobacterium

species: Flavobacterium amniphilum

strain designation: KYPY10

type strain: yes

Morphology

cell morphology

  • @ref: 65223
  • gram stain: negative
  • cell length: 2.5-3.0 µm
  • cell width: 0.2-0.3 µm
  • cell shape: rod-shaped
  • motility: yes
  • flagellum arrangement: gliding

colony morphology

  • @ref: 65223
  • colony size: 1.0-1.8 mm
  • colony color: light yellow
  • colony shape: circular
  • incubation period: 2 days
  • medium used: R2A

pigmentation

  • @ref: 65223
  • production: no
  • name: flexirubin-type pigments

Culture and growth conditions

culture medium

@refnamegrowth
65223Nutrient agar (NA)yes
65223LB (Luria-Bertani) MEDIUMno
65223tripticase soy agarno
65223Reasoner's 2A agar (R2A)yes

culture temp

@refgrowthtypetemperaturerange
65223positivegrowth20-30
65223positiveoptimum25mesophilic
67771positivegrowth25mesophilic

culture pH

@refabilitytypepH
65223positivegrowth6-7
65223positiveoptimum6

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
65223aerobe
67771aerobe

halophily

@refsaltgrowthtested relationconcentration
65223NaClpositivegrowth0-0.2 %(w/v)
65223NaClpositiveoptimum0 %(w/v)

observation

@refobservation
65223colonies do not adhere to the agar
65223Congo red is not absorbed by colonies

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
65223645522-hydroxybutyrate+respiration
6522317128adipate-growth
6522340585alpha-cyclodextrin+respiration
6522327689decanoate-growth
6522385146carboxymethylcellulose-hydrolysis
65223casein+hydrolysis
6522317029chitin-hydrolysis
6522317634D-glucose-builds acid from
6522317634D-glucose-growth
6522317306maltose-growth
6522316899D-mannitol-growth
6522316024D-mannose-growth
6522316991dna-hydrolysis
652234853esculin-hydrolysis
652235291gelatin+hydrolysis
6522328087glycogen+respiration
6522330849L-arabinose-growth
6522329985L-glutamate+respiration
6522317203L-proline+respiration
6522317895L-tyrosine+hydrolysis
6522361995lecithin-hydrolysis
6522325115malate-growth
6522317306maltose+respiration
65223506227N-acetylglucosamine-growth
6522317632nitrate-reduction
6522317309pectin-hydrolysis
6522318401phenylacetate-growth
6522332032potassium gluconate-growth
6522353258sodium citrate-growth
6522328017starch+hydrolysis
6522353424tween 20-hydrolysis
6522353423tween 40-hydrolysis
6522353425tween 60+hydrolysis
6522353426tween 80+hydrolysis
6522316704uridine+respiration

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.group ID
6522328077rifampicinyesyes5 µg (disc)
6522328971ampicillinyesyes10 µg (disc)
6522317833gentamicinyesyes10 µg (disc)
6522318208penicillin gyesyes10 Unit (disc)
6522317076streptomycinyesyes10 µg (disc)
6522317698chloramphenicolyesyes30 µg (disc)
652236104kanamycinyesyes30 µg (disc)
65223100147nalidixic acidyesyes30 µg (disc)
6522328368novobiocinyesyes30 µg (disc)
6522327902tetracyclineyesyes30 µg (disc)
6522345924trimethoprimyesyes1.25 µg (disc)26
652239332sulfamethoxazoleyesyes23.75 µg (disc)26

metabolite production

  • @ref: 65223
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
65223catalase+1.11.1.6
65223cytochrome oxidase+1.9.3.1
65223lipase-
65223urease-3.5.1.5
65223arginine dihydrolase-3.5.3.6
65223alkaline phosphatase+3.1.3.1
65223esterase (C 4)+
65223esterase Lipase (C 8)+
65223leucine arylamidase+3.4.11.1
65223valine arylamidase+
65223cystine arylamidase+3.4.11.3
65223naphthol-AS-BI-phosphohydrolase+
65223acid phosphatase+3.1.3.2
65223lipase (C 14)-
65223trypsin-3.4.21.4
65223alpha-chymotrypsin-3.4.21.1
65223alpha-galactosidase-3.2.1.22
65223beta-galactosidase-3.2.1.23
65223beta-glucuronidase-3.2.1.31
65223beta-glucosidase-3.2.1.21
65223alpha-glucosidase-3.2.1.20
65223N-acetyl-beta-glucosaminidase-3.2.1.52
65223alpha-mannosidase-3.2.1.24
65223alpha-fucosidase-3.2.1.51

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitudeenrichment cultureenrichment culture durationenrichment culture temperatureisolation procedure
65223water sampleFunglin Stream in the vicinity of Hualien CountyTaiwanTWNAsia23.7594121.447R2A agar3 days25aerobic incubation
67771From riverHualien CountyTaiwanTWNAsia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic

Sequence information

16S sequences

  • @ref: 65223
  • description: 16S rRNA gene sequence
  • accession: LT555403
  • database: nuccore

Genome sequences

  • @ref: 66792
  • description: Flavobacterium amniphilum KYPY10
  • accession: GCA_023634845
  • assembly level: scaffold
  • database: ncbi
  • NCBI tax ID: 1834035

GC content

  • @ref: 65223
  • GC-content: 41
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedno95.554no
gram-positiveno98.101yes
anaerobicno99.449yes
aerobicyes89.625no
halophileno96.996yes
spore-formingno93.604no
motileno90.577no
glucose-fermentno92.146no
thermophileno99.447no
glucose-utilyes77.393no

External links

@ref: 65223

culture collection no.: BCRC 81006, LMG 29727, KCTC 52443

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny29072560Flavobacterium amniphilum sp. nov., isolated from a stream.Sheu SY, Su CL, Kwon SW, Chen WMInt J Syst Evol Microbiol10.1099/ijsem.0.0024432017Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacterium/*classification/genetics/isolation & purification, Phospholipids/chemistry, *Phylogeny, Pigmentation, Polyamines/chemistry, RNA, Ribosomal, 16S/genetics, Rivers/*microbiology, Sequence Analysis, DNA, Taiwan, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny31120829Flavobacterium amnicola sp. nov., isolated from a sub-tropical stream.Sheu SY, Guo YP, Chen WMInt J Syst Evol Microbiol10.1099/ijsem.0.0034632019Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacterium/*classification/isolation & purification, Fresh Water/microbiology, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Polyamines/chemistry, RNA, Ribosomal, 16S/genetics, Rivers/*microbiology, Sequence Analysis, DNA, Taiwan, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

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
65223Shih-Yi Sheu, Ching-Ling Su, Soon-Wo Kwon, Wen-Ming ChenFlavobacterium amniphilum sp. nov., isolated from a stream10.1099/ijsem.0.002443IJSEM 67: 5179-5186 201729072560
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