Strain identifier

BacDive ID: 159769

Type strain: Yes

Species: Sphingomonas oleivorans

Strain Designation: FW-11

NCBI tax ID(s): 1735121 (species)

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General

@ref: 66728

BacDive-ID: 159769

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

description: Sphingomonas oleivorans FW-11 is a mesophilic, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from oil-contaminated soil.

NCBI tax id

  • NCBI tax id: 1735121
  • Matching level: species

doi: 10.13145/bacdive159769.20230509.8.1

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 oleivorans
  • full scientific name: Sphingomonas oleivorans Chen et al. 2018

@ref: 66728

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Sphingomonadales

family: Sphingomonadaceae

genus: Sphingomonas

species: Sphingomonas oleivorans

strain designation: FW-11

type strain: yes

Morphology

cell morphology

  • @ref: 66728
  • gram stain: negative
  • cell length: 1.6-2.4 µm
  • cell width: 0.4-0.85 µm
  • cell shape: rod-shaped

colony morphology

  • @ref: 66728
  • colony size: 0.5-1.2 mm
  • colony color: light yellow
  • colony shape: circular
  • incubation period: 2 days
  • medium used: Reasoner's 2A agar (R2A)

Culture and growth conditions

culture medium

  • @ref: 66728
  • name: Reasoner's 2A agar (R2A)
  • growth: yes

culture temp

@refgrowthtypetemperaturerange
66728positiveoptimum28-30mesophilic
66728positivegrowth4-37

culture pH

@refabilitytypepHPH range
66728positiveoptimum7
66728positivegrowth5-9alkaliphile

Physiology and metabolism

spore formation

  • @ref: 66728
  • spore formation: no

halophily

  • @ref: 66728
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: <3 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
667285291gelatin-assimilation
6672816199urea-assimilation
6672816467L-arginine-assimilation
6672816828L-tryptophan-assimilation
6672817128adipate-assimilation
6672817634D-glucose-assimilation
6672818401phenylacetate-assimilation
6672825115malate-assimilation
6672830849L-arabinose-assimilation
6672832032potassium gluconate-assimilation
6672853258sodium citrate-assimilation
6672863043potassium nitrate-assimilation
667283557154-nitrophenyl beta-D-galactopyranoside-assimilation
66728esculin ferric citrate-assimilation
6672816024D-mannose+assimilation
6672816899D-mannitol+assimilation
6672817306maltose+assimilation
6672827689decanoate+assimilation
6672859640N-acetylglucosamine+assimilation
6672815963ribitol-builds acid from
6672816813galactitol-builds acid from
6672816899D-mannitol-builds acid from
6672817108D-arabinose-builds acid from
6672817113erythritol-builds acid from
6672817151xylitol-builds acid from
6672817266L-sorbose-builds acid from
6672817268myo-inositol-builds acid from
6672817754glycerol-builds acid from
6672818287L-fucose-builds acid from
6672818333D-arabitol-builds acid from
6672818403L-arabitol-builds acid from
6672843943methyl alpha-D-mannoside-builds acid from
6672862345L-rhamnose-builds acid from
6672865328L-xylose-builds acid from
6672874863methyl beta-D-xylopyranoside-builds acid from
66728potassium 2-dehydro-D-gluconate-builds acid from
667286731melezitose+builds acid from
6672812936D-galactose+builds acid from
6672815443inulin+builds acid from
6672815824D-fructose+builds acid from
6672816024D-mannose+builds acid from
6672816443D-tagatose+builds acid from
6672816634raffinose+builds acid from
6672816988D-ribose+builds acid from
6672817057cellobiose+builds acid from
6672817306maltose+builds acid from
6672817634D-glucose+builds acid from
6672817716lactose+builds acid from
6672817814salicin+builds acid from
6672817924D-sorbitol+builds acid from
6672817992sucrose+builds acid from
6672818305arbutin+builds acid from
6672827082trehalose+builds acid from
6672827613amygdalin+builds acid from
6672828017starch+builds acid from
6672828053melibiose+builds acid from
6672828066gentiobiose+builds acid from
6672828087glycogen+builds acid from
6672828847D-fucose+builds acid from
6672830849L-arabinose+builds acid from
6672832032potassium gluconate+builds acid from
6672832528turanose+builds acid from
6672859640N-acetylglucosamine+builds acid from
6672862318D-lyxose+builds acid from
6672865327D-xylose+builds acid from
66728320061methyl alpha-D-glucopyranoside+builds acid from
66728esculin ferric citrate+builds acid from
66728potassium 5-dehydro-D-gluconate+builds acid from

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.is resistantresistance conc.
6672828077rifampicinyesyes15 µg/mL
6672817698chloramphenicolyesyes20 µg/mL
6672827902tetracyclineyesyes10 µg/mL
6672817833gentamicinyesyes5 µg/mL
667286104kanamycinyesyes100 µg/mL
6672817076streptomycinyesyes200 µg/mL
6672828971ampicillinyesyes100 µg/mL
667289215spectinomycinyesyes100 µg/mL

enzymes

@refvalueactivityec
66728alpha-chymotrypsin-3.4.21.1
66728alpha-fucosidase-3.2.1.51
66728alpha-galactosidase-3.2.1.22
66728alpha-mannosidase-3.2.1.24
66728beta-glucosidase-3.2.1.21
66728beta-glucuronidase-3.2.1.31
66728catalase-1.11.1.6
66728cytochrome oxidase-1.9.3.1
66728lipase-
66728N-acetyl-beta-glucosaminidase-3.2.1.52
66728acid phosphatase+3.1.3.2
66728alkaline phosphatase+3.1.3.1
66728alpha-glucosidase+3.2.1.20
66728beta-galactosidase+3.2.1.23
66728cystine arylamidase+3.4.11.3
66728esterase+
66728esterase Lipase (C 8)+
66728leucine arylamidase+3.4.11.1
66728naphthol-AS-BI-phosphohydrolase+
66728trypsin+3.4.21.4
66728valine arylamidase+

Isolation, sampling and environmental information

isolation

  • @ref: 66728
  • sample type: oil-contaminated soil
  • geographic location: Panjin in Liaoning Province
  • country: China
  • origin.country: CHN
  • continent: Asia
  • latitude: 41.2241
  • longitude: 122.086
  • enrichment culture: nitrogen-free mineral medium
  • enrichment culture composition: included 1 % glucose, 0.1 % K2HPO4, 0.2 % MgSO4 x 7H2O, 0.05 % FeSO4 x 7H2O, 0.1 % CaCl2 x 2H2O, 0.001 % NaMoO4 x 2H2O and 1.5 % agar; the pH value was 7.0
  • enrichment culture duration: 5 days
  • enrichment culture temperature: 28
  • isolation procedure: Separation was carried out in a conical flask by adding a 10 % petroleum-contaminated soil sample in nitrogen-free mineral liquid medium, followed by serial dilution, and then spread onto nitrogen-free mineral agar medium. The plates were incubated at 28°C for 5 days.

isolation source categories

Cat1Cat2Cat3
#Engineered#Contamination#Oil (Fuel)
#Environmental#Terrestrial#Soil

Sequence information

16S sequences

  • @ref: 66728
  • description: Sphingomonas sp. FW-11 16S ribosomal RNA gene, partial sequence
  • accession: KT855088
  • length: 1455
  • database: ena
  • NCBI tax ID: 1735121

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Sphingomonas oleivorans FW-11GCA_003050615contigncbi1735121
66792Sphingomonas oleivorans FW-112906746928draftimg1735121

GC content

  • @ref: 66728
  • GC-content: 64.04
  • method: genome sequence analysis

External links

@ref: 66728

culture collection no.: LMG 29274, HAMBI 3659

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny30252641Sphingomonas oleivorans sp. nov., isolated from oil-contaminated soil.Chen L, Chen WF, Xu ZL, Li W, Zhang XY, Li WJ, Wang LInt J Syst Evol Microbiol10.1099/ijsem.0.0030142018Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Petroleum Pollution, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, *Soil Pollutants, Sphingomonas/*classification/genetics/isolation & purification, Ubiquinone/chemistryTranscriptome
Phylogeny35239058Sphingomonas quercus sp. nov., Isolated from Rhizosphere Soil of Quercus mongolica.Shen L, Liu P, An M, Liang R, He X, Zhao GCurr Microbiol10.1007/s00284-022-02819-32022Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/chemistry, Phospholipids/chemistry, Phylogeny, *Quercus/genetics, RNA, Ribosomal, 16S/genetics, Rhizosphere, Sequence Analysis, DNA, Soil, Soil Microbiology, *SphingomonasTranscriptome

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
66728Lin Chen, Wen-Feng Chen, Zhi-Ling Xu, Wei Li, Xin-Yu Zhang, Wen-Jun Li, Lei WangSphingomonas oleivorans sp. nov., isolated from oil-contaminated soil10.1099/ijsem.0.003014IJSEM 68: 3720-3725 201830252641
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