Strain identifier

BacDive ID: 133407

Type strain: Yes

Species: Sphingomonas aquatica

Strain Designation: W1-2-1

NCBI tax ID(s): 1763824 (species)

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General

@ref: 25278

BacDive-ID: 133407

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

description: Sphingomonas aquatica W1-2-1 is an aerobe, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from tap water.

NCBI tax id

  • NCBI tax id: 1763824
  • Matching level: species

doi: 10.13145/bacdive133407.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Sphingomonadales
  • family: Sphingomonadaceae
  • genus: Sphingomonas
  • species: Sphingomonas aquatica
  • full scientific name: Sphingomonas aquatica Choi et al. 2017

@ref: 25278

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Sphingomonadales

family: Sphingomonadaceae

genus: Sphingomonas

species: Sphingomonas aquatica

strain designation: W1-2-1

type strain: yes

Morphology

cell morphology

  • @ref: 25278
  • gram stain: negative
  • cell length: 0.8-1.2 µm
  • cell width: 0.3-0.4 µm
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 25278
  • colony size: 1-2 mm
  • colony color: yellowish translucent
  • colony shape: circular
  • incubation period: 2 days
  • medium used: R2A agar

Culture and growth conditions

culture medium

@refnamegrowth
25278Reasoner's 2A agar (R2A)yes
25278nutritient agar (NA)yes
25278tryptic soy agar (TSA)yes
25278MacConkey agarno

culture temp

@refgrowthtypetemperaturerange
25278positivegrowth18-42
25278positiveoptimum30mesophilic

culture pH

@refabilitytypepHPH range
25278positivegrowth6.0-10.0alkaliphile
25278positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 25278
  • oxygen tolerance: aerobe

spore formation

  • @ref: 25278
  • spore formation: no

halophily

  • @ref: 25278
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0.0-0.5 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
25278168082-dehydro-D-gluconate-assimilation
25278161933-hydroxybenzoate-assimilation
25278178794-hydroxybenzoate-assimilation
2527830089acetate-assimilation
2527817968butyrate-assimilation
25278casein-hydrolysis
2527816947citrate-assimilation
2527816899D-mannitol-assimilation
2527816988D-ribose-assimilation
2527817924D-sorbitol-assimilation
2527816991dna-hydrolysis
252785291gelatin-hydrolysis
2527824265gluconate-assimilation
2527817234glucose-builds acid from
2527817268myo-inositol-assimilation
2527817240itaconate-assimilation
2527816977L-alanine-assimilation
2527830849L-arabinose-assimilation
2527815971L-histidine-assimilation
2527862345L-rhamnose-assimilation
2527817115L-serine-assimilation
2527824996lactate-assimilation
2527815792malonate-assimilation
25278506227N-acetylglucosamine-assimilation
2527817632nitrate-reduction
2527818401phenylacetate-assimilation
2527817272propionate-assimilation
2527817814salicin-assimilation
2527817992sucrose-assimilation
2527831011valerate-assimilation
25278370543-hydroxybutyrate+assimilation
25278581435-dehydro-D-gluconate+assimilation
2527817128adipate+assimilation
2527817634D-glucose+assimilation
2527816024D-mannose+assimilation
2527828087glycogen+assimilation
2527818287L-fucose+assimilation
2527817203L-proline+assimilation
2527825115malate+assimilation
2527817306maltose+assimilation
2527828053melibiose+assimilation
2527828017starch+hydrolysis
252789300suberic acid+assimilation

metabolite production

  • @ref: 25278
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
25278acid phosphatase+3.1.3.2
25278alkaline phosphatase+3.1.3.1
25278alpha-chymotrypsin+3.4.21.1
25278alpha-fucosidase-3.2.1.51
25278alpha-galactosidase+3.2.1.22
25278alpha-glucosidase+3.2.1.20
25278alpha-mannosidase-3.2.1.24
25278arginine dihydrolase-3.5.3.6
25278beta-galactosidase+3.2.1.23
25278beta-glucosidase-3.2.1.21
25278beta-glucuronidase-3.2.1.31
25278catalase+1.11.1.6
25278cystine arylamidase+3.4.11.3
25278cytochrome oxidase+1.9.3.1
25278esterase (C 4)+
25278esterase Lipase (C 8)+
25278leucine arylamidase+3.4.11.1
25278lipase (C 14)-
25278naphthol-AS-BI-phosphohydrolase+
25278trypsin-3.4.21.4
25278valine arylamidase+

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    25278C14:0 2OH10.5
    25278C16:017.2
    25278C18:1ω7c / C18:1ω6c58.7
  • type of FA analysis: whole cell analysis
  • incubation medium: R2A
  • agar/liquid: agar
  • incubation temperature: 30
  • incubation time: 2
  • software version: Sherlock 6.0
  • library/peak naming table: TSBA 60
  • system: MIS MIDI
  • instrument: 6890, Hewlett Packard
  • method/protocol: Sasser 1990
  • cutoff value:

Isolation, sampling and environmental information

isolation

  • @ref: 25278
  • sample type: tap water
  • geographic location: Daejeon city
  • country: Republic of Korea
  • origin.country: KOR
  • continent: Asia
  • isolation procedure: standard dilution-plating technique

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Freshwater
#Engineered#Built environment#Water reservoir (Aquarium/pool)
#Engineered#Built environment

taxonmaps

  • @ref: 69479
  • File name: preview.99_6382.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_20;96_348;97_3719;98_4716;99_6382&stattab=map
  • Last taxonomy: Sphingomonas aquatica subclade
  • 16S sequence: KT309085
  • Sequence Identity:
  • Total samples: 1706
  • soil counts: 216
  • aquatic counts: 621
  • animal counts: 819
  • plant counts: 50

Sequence information

16S sequences

  • @ref: 25278
  • description: Sphingomonas aquaticus strain W1-2-1 16S ribosomal RNA gene, partial sequence
  • accession: KT309085
  • length: 1404
  • database: nuccore
  • NCBI tax ID: 1763824

GC content

  • @ref: 25278
  • GC-content: 67.1
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 25278

culture collection no.: KACC 18309, LMG 28596

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny27902288Sphingomonas aquatica sp. nov., isolated from tap water.Choi GM, Jo JH, Kang MS, Kim MS, Lee SY, Im WTInt J Syst Evol Microbiol10.1099/ijsem.0.0016822017Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Drinking Water/*microbiology, Fatty Acids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Spermidine/chemistry, Sphingomonas/*classification/genetics/isolation & purification, Ubiquinone/analogs & derivatives/chemistryTranscriptome
Phylogeny31671048Sphingomonas paeninsulae sp. nov., isolated from soil sampled at Fildes Peninsula, Antarctica.Geng Y, Zhang Y, Qin K, Liu J, Tian J, Huang Y, Wei Z, Zhang F, Peng FInt J Syst Evol Microbiol10.1099/ijsem.0.0035042019Antarctic Regions, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Spermidine/analogs & derivatives/chemistry, Sphingomonas/*classification/isolation & purification, Ubiquinone/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
25278G. M. J. Choi, J. H.,Kang, M. S.,Kim, M. S.,Lee, S. Y.,Im, W. T.Sphingomonas aquatica sp. nov., isolated from tap water10.1099/ijsem.0.001682IJSEM 67: 845-850 201727902288
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/