Strain identifier

BacDive ID: 140737

Type strain: Yes

Species: Novosphingobium ipomoeae

Strain Designation: Tese-5

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

NCBI tax ID(s): 1610495 (species)

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General

@ref: 43516

BacDive-ID: 140737

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

description: Novosphingobium ipomoeae Tese-5 is an aerobe, chemoheterotroph, Gram-negative bacterium that forms circular colonies and was isolated from a water convolvulus field.

NCBI tax id

  • NCBI tax id: 1610495
  • Matching level: species

strain history

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

doi: 10.13145/bacdive140737.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Sphingomonadales
  • family: Erythrobacteraceae
  • genus: Novosphingobium
  • species: Novosphingobium ipomoeae
  • full scientific name: Novosphingobium ipomoeae Chen et al. 2017

@ref: 43516

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Sphingomonadales

family: Sphingomonadaceae

genus: Novosphingobium

species: Novosphingobium ipomoeae

strain designation: Tese-5

type strain: yes

Morphology

cell morphology

  • @ref: 43516
  • gram stain: negative
  • cell length: 1-1.3 µm
  • cell width: 0.2-0.4 µm
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 43516
  • colony size: 0.7-1 mm
  • colony color: bright yellow
  • colony shape: circular
  • incubation period: 2 days
  • medium used: R2A agar

Culture and growth conditions

culture medium

  • @ref: 43516
  • name: Reasoner's 2A agar (R2A)
  • growth: yes

culture temp

@refgrowthtypetemperaturerange
43516positivegrowth15-35
43516positiveoptimum30mesophilic
67771positivegrowth25mesophilic

culture pH

@refabilitytypepH
43516positivegrowth5.5-7
43516positiveoptimum6

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
43516aerobe
67771aerobe

nutrition type

  • @ref: 43516
  • type: chemoheterotroph

spore formation

  • @ref: 43516
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
43516NaClpositivegrowth0-1 %
43516NaClpositiveoptimum0-0.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4351617128adipate-assimilation
4351622599arabinose-assimilation
4351627689decanoate-assimilation
4351625115malate-assimilation
4351624265gluconate-assimilation
4351617234glucose-assimilation
4351617306maltose-assimilation
4351629864mannitol-assimilation
4351618401phenylacetate-assimilation
4351617234glucose-fermentation
4351617057cellobiose-growth
4351615963ribitol-growth
4351615824D-fructose-growth
4351612936D-galactose-growth
4351617924D-sorbitol-growth
4351623652dextrin-growth
4351662345L-rhamnose-growth
4351616634raffinose-growth
4351617992sucrose-growth
4351653424tween 20-growth
4351653423tween 40-growth
4351685146carboxymethylcellulose-hydrolysis
43516casein-hydrolysis
4351617029chitin-hydrolysis
43516corn oil-hydrolysis
435164853esculin-hydrolysis
435165291gelatin-hydrolysis
4351628017starch-hydrolysis
4351653424tween 20-hydrolysis
4351616199urea-hydrolysis
4351617632nitrate-reduction
4351616947citrate+assimilation
4351637684mannose+assimilation
43516506227N-acetylglucosamine+assimilation
4351627082trehalose+growth
4351653425tween 60+growth
4351653426tween 80+growth
4351616991dna+hydrolysis
4351653423tween 40+hydrolysis
4351653425tween 60+hydrolysis
4351653426tween 80+hydrolysis

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.
4351628971ampicillinyesyes10 µg (disc)
4351617698chloramphenicolyesyes30 µg (disc)
4351617833gentamicinyesyes10 µg (disc)
435166104kanamycinyesyes30 µg (disc)
4351628077rifampicinyesyes5 µg (disc)
43516100147nalidixic acidyesyes30 µg (disc)
4351627902tetracyclineyesyes30 µg (disc)
4351628368novobiocinyesyes30 µg (disc)
4351618208penicillin gyesyes10 Unit (disc)
4351617076streptomycinyesyes10 µg (disc)
435169332sulfamethoxazoleyesyes23.75 µg (disc)
4351645924trimethoprimyesyes1.25 µg (disc)

metabolite production

  • @ref: 43516
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
43516catalase+1.11.1.6
43516cytochrome oxidase+1.9.3.1
43516arginine dihydrolase-3.5.3.6
43516urease-3.5.1.5
435162-nitrophenyl beta-D-galactopyranoside-3.2.1.52
43516alkaline phosphatase+3.1.3.1
43516esterase (C 4)+
43516esterase Lipase (C 8)+
43516lipase (C 14)+
43516leucine arylamidase+3.4.11.1
43516valine arylamidase+
43516cystine arylamidase+3.4.11.3
43516alpha-chymotrypsin+3.4.21.1
43516acid phosphatase+3.1.3.2
43516naphthol-AS-BI-phosphohydrolase+
43516alpha-glucosidase+3.2.1.20
43516beta-glucosidase+3.2.1.21
43516trypsin-3.4.21.4
43516alpha-galactosidase-3.2.1.22
43516beta-galactosidase-3.2.1.23
43516beta-glucuronidase-3.2.1.31
43516N-acetyl-beta-glucosaminidase-3.2.1.52
43516alpha-mannosidase-3.2.1.24
43516alpha-fucosidase-3.2.1.51

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    43516C10:0 3OH5.2
    43516C12:1 3OH4.2
    43516C16:09
    43516C16:1ω7c / C16:1ω6c2
    43516C18:04.2
    43516C18:1ω7c / C18:1ω6c64.4
    4351611-methyl C18:1ω7c3.9
    4351610-methyl C19:07.1
  • type of FA analysis: whole cell analysis
  • incubation medium: R2A
  • agar/liquid: agar
  • incubation temperature: 30
  • incubation time: 2
  • incubation pH: 6
  • incubation_oxygen: aerobic
  • software version: Sherlock 6.0
  • library/peak naming table: RTSBA6
  • system: MIS MIDI
  • cutoff value:

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitude
43516a water convolvulus (Ipomoea aquatica) fieldVicinity of TaitungTaiwanTWNAsia22.957121.157
67771From fresh waterTaiwanTWNAsia

isolation source categories

Cat1Cat2Cat3
#Engineered#Agriculture#Field
#Environmental#Aquatic
#Host#Plants#Herbaceous plants (Grass,Crops)

Sequence information

16S sequences

  • @ref: 43516
  • description: 16S rRNA gene sequence
  • accession: LN811085
  • database: nuccore

GC content

  • @ref: 43516
  • GC-content: 65.7
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 43516

culture collection no.: BCRC 80904, LMG 28838, KCTC 42656

literature

  • topic: Phylogeny
  • Pubmed-ID: 28866996
  • title: Novosphingobium ipomoeae sp. nov., isolated from a water convolvulus field.
  • authors: Chen WM, Huang CW, Chen JC, Chen ZH, Sheu SY
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002174
  • year: 2017
  • mesh: Bacterial Typing Techniques, Base Composition, Convolvulus/*microbiology, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Spermidine/chemistry, Sphingomonadaceae/*classification/genetics/isolation & purification, Taiwan, Ubiquinone/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
43516Wen-Ming Chen, Cheng-Wen Huang, Jhen-Ci Chen, Zih-Han Chen, Shih-Yi SheuNovosphingobium ipomoeae sp. nov., isolated from a water convolvulus field10.1099/ijsem.0.002174IJSEM 67: 3590-3596 201728866996
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc