Strain identifier

BacDive ID: 158720

Type strain: Yes

Species: Novosphingobium lubricantis

Strain Designation: KSS165-70

Strain history: CIP <- 2017, P. Kämpfer, Giessen Univ., Giessen, Germany: strain KSS165-70, Novosphingobium sp.

NCBI tax ID(s): 2136109 (species)

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General

@ref: 66492

BacDive-ID: 158720

DSM-Number: 106122

keywords: 16S sequence, Bacteria, chemoorganotroph, rod-shaped, colony-forming

description: Novosphingobium lubricantis KSS165-70 is a chemoorganotroph, rod-shaped bacterium that forms circular colonies and was isolated from a coolant lubricant emulsion, obtained from a company.

NCBI tax id

  • NCBI tax id: 2136109
  • Matching level: species

strain history

@refhistory
66492<- P. Kämpfer, Institute for Applied Mikrobiology, University, Giessen, Germany <- S. P. Glaeser
120659CIP <- 2017, P. Kämpfer, Giessen Univ., Giessen, Germany: strain KSS165-70, Novosphingobium sp.

doi: 10.13145/bacdive158720.20230509.8.1

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 lubricantis
  • full scientific name: Novosphingobium lubricantis Kämpfer et al. 2018

@ref: 66492

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Sphingomonadales

family: Erythrobacteraceae

genus: Novosphingobium

species: Novosphingobium lubricantis

full scientific name: Novosphingobium lubricantis Kämpfer et al. 2018

strain designation: KSS165-70

type strain: yes

Morphology

cell morphology

@refcell lengthcell widthcell shapegram stainmotility
654652.0 µm1.5 µmrod-shaped
120659rod-shapednegativeyes

colony morphology

  • @ref: 65465
  • colony color: yellow
  • colony shape: circular
  • incubation period: 2-3 days
  • medium used: nutrient agar

multimedia

  • @ref: 66492
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_106122.jpg
  • caption: DSM 106122 on medium 1 at 28 °C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
65465peptone-yeast-extract agaryes
65465tryptone soy agaryes
65465Reasoner's 2A agaryes
65465Nutrient agar (NA)yes
66492TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://mediadive.dsmz.de/medium/535Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
66492R2A MEDIUM (DSMZ Medium 830)yeshttps://mediadive.dsmz.de/medium/830Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
66492NUTRIENT AGAR (DSMZ Medium 1)yeshttps://mediadive.dsmz.de/medium/1Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
120659CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
65465positivegrowth15-36
65465nogrowth10psychrophilic
65465nogrowth42thermophilic
66492positivegrowth28mesophilic

culture pH

@refabilitytypepHPH range
65465positivegrowth5-9alkaliphile
65465nogrowth4.5-10.5

Physiology and metabolism

nutrition type

  • @ref: 65465
  • type: chemoorganotroph

spore formation

  • @ref: 65465
  • spore formation: no

observation

@refobservation
65465predominant lipids diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidylcholine, a sphingoglycolipid, two unidentified phospholipids, moderate to minor amounts of three unidentified lipids lacking a functional group, an
65465ubiquinone Q-10 is predominant
65465polyamine pattern contains the major compound spermidine, moderate amounts of spermine and traces of putrescine

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
654652-deoxythymidine-5'-4-nitrophenyl phosphate-hydrolysis
654653-hydroxybenzoate-assimilation16193
654653-hydroxybutyrate-assimilation37054
65465gamma-aminobutyric acid-assimilation16865
654654-nitrophenyl beta-D-galactopyranoside hydrolysate-hydrolysis
65465adipate-assimilation17128
65465ribitol-assimilation15963
65465azelaate-assimilation78208
65465beta-alanine-assimilation16958
65465bis-4-nitrophenyl-phenyl phosphonate-hydrolysis91050
65465bis-4-nitrophenyl-phosphorylcholine-hydrolysis55394
65465cis-aconitate-assimilation16383
65465cellobiose-assimilation17057
65465D-fructose-assimilation15824
65465D-galactose-assimilation12936
65465D-glucose-builds acid from17634
65465D-glucose+carbon source17634
65465D-mannitol-assimilation16899
65465D-mannose-assimilation16024
65465D-ribose-assimilation16988
65465D-sorbitol-assimilation17924
65465D-xylose-builds acid from65327
65465lactate-assimilation24996
65465esculin ferric citrate-hydrolysis
65465fumarate+carbon source29806
65465gluconate-assimilation24265
65465indole-3-acetic acid+carbon source16411
65465itaconate-assimilation17240
65465L-alanine 4-nitroanilide-assimilation
65465L-arabinose-assimilation30849
65465L-arabinose-builds acid from30849
65465L-glutamate-gamma-3-carboxy-4-nitroanilide-hydrolysis
65465L-histidine-assimilation15971
65465L-leucine-assimilation15603
65465L-malate+carbon source15589
65465L-ornithine-assimilation15729
65465L-phenylalanine-assimilation17295
65465L-proline-assimilation17203
65465L-proline 2-naphthylamide-hydrolysis90600
65465L-rhamnose-assimilation62345
65465L-rhamnose-builds acid from62345
65465L-serine-assimilation17115
65465L-tryptophan-assimilation16828
65465lactose-builds acid from17716
65465maltitol-assimilation68428
65465maltose-assimilation17306
65465maltose-builds acid from17306
65465melibiose-builds acid from28053
65465mesaconate-assimilation36986
65465methyl beta-D-glucopyranoside-hydrolysis320055
65465methyl beta-D-xylopyranoside-hydrolysis74863
65465myo-inositol-assimilation17268
65465N-acetylgalactosamine-assimilation28037
65465N-acetylglucosamine-assimilation506227
65465nitrate-reduction17632
654652-oxoglutarate-assimilation30916
65465phenyl beta-D-glucuronide-hydrolysis64681
65465phenylacetate-assimilation18401
65465propionate+carbon source17272
65465putrescine-assimilation17148
65465raffinose-builds acid from16634
65465salicin-assimilation17814
65465sodium citrate-assimilation53258
65465sodium pyruvate-assimilation50144
65465suberic acid-assimilation9300
65465sucrose-assimilation17992
65465sucrose-builds acid from17992
65465sucrose+carbon source17992
65465trehalose-assimilation27082
68369malate-assimilation25115
68369adipate-assimilation17128
68369decanoate-assimilation27689
68369gluconate-assimilation24265
68369maltose+assimilation17306
68369N-acetylglucosamine-assimilation59640
68369D-mannitol-assimilation16899
68369D-mannose-assimilation16024
68369L-arabinose-assimilation30849
68369D-glucose-assimilation17634
68369gelatin-hydrolysis5291
68369esculin-hydrolysis4853
68369urea-hydrolysis16199
68369arginine-hydrolysis29016
68369D-glucose-fermentation17634
68369tryptophan-energy source27897
68369nitrate+reduction17632
68372glycerol-assimilation17754
68372erythritol-assimilation17113
68372D-arabinose-assimilation17108
68372L-arabinose-assimilation30849
68372D-ribose-assimilation16988
68372D-xylose-assimilation65327
68372L-xylose-assimilation65328
68372ribitol-assimilation15963
68372methyl beta-D-xylopyranoside-assimilation74863
68372D-galactose-assimilation12936
68372D-glucose-assimilation17634
68372D-fructose-assimilation15824
68372D-mannose-assimilation16024
68372L-sorbose-assimilation17266
68372L-rhamnose-assimilation62345
68372galactitol-assimilation16813
68372myo-inositol-assimilation17268
68372D-mannitol-assimilation16899
68372sorbitol-assimilation30911
68372methyl alpha-D-mannoside-assimilation43943
68372methyl alpha-D-glucopyranoside-assimilation320061
68372N-acetylglucosamine-assimilation59640
68372amygdalin-assimilation27613
68372arbutin-assimilation18305
68372esculin-assimilation4853
68372salicin-assimilation17814
68372cellobiose-assimilation17057
68372maltose-assimilation17306
68372lactose-assimilation17716
68372melibiose+assimilation28053
68372sucrose-assimilation17992
68372trehalose-assimilation27082
68372inulin-assimilation15443
68372melezitose-assimilation6731
68372raffinose-assimilation16634
68372starch-assimilation28017
68372glycogen-assimilation28087
68372xylitol-assimilation17151
68372gentiobiose-assimilation28066
68372turanose-assimilation32528
68372D-lyxose-assimilation62318
68372D-tagatose-assimilation16443
68372D-fucose-assimilation28847
68372L-fucose-assimilation18287
68372D-arabitol-assimilation18333
68372L-arabitol-assimilation18403
68372gluconate-assimilation24265
68372Potassium 2-ketogluconate-assimilation
68372Potassium 5-ketogluconate-assimilation

metabolite production

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetaboliteindole test
6546527897tryptophan+
6836935581indole-

enzymes

@refvalueactivityec
65465catalase+1.11.1.6
65465cytochrome oxidase+1.9.3.1
65465catalase-1.11.1.6
65465arginine dihydrolase-3.5.3.6
65465lysine decarboxylase-4.1.1.18
65465ornithine decarboxylase-4.1.1.17
65465urease-3.5.1.5
68369cytochrome oxidase+1.9.3.1
68369gelatinase-
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    65465C16:07.4
    65465C17:1ω6c3.3
    65465C18:1ω7c50.5
    65465C14:0 2OH19.2
    65465C16:1ω7c and/or C15 iso 2-OH19.7
  • type of FA analysis: whole cell analysis
  • incubation medium: tryptone soy agar
  • agar/liquid: agar
  • incubation time: 1
  • software version: Sherlock 2.11
  • library/peak naming table: TSBA4.1
  • system: MIS MIDI
  • method/protocol: Kämpfer & Kroppenstedt 1996

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
66492+------------+------+

API 50CHas

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
66492------------------------------+-------------------

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentenrichment culture compositionenrichment culture durationenrichment culture temperaturelatitudelongitudegeographic locationisolation date
65465a coolant lubricant emulsion, obtained from a companyGermanyDEUEuropenutrient agar2 days25
66492metal working fluid, coolant lubricant emulsionGermanyDEUEurope50.58418.6784
120659EnvironmentGermanyDEUEuropeGiessen, Hessen2016-07-20

isolation source categories

  • Cat1: #Engineered
  • Cat2: #Industrial
  • Cat3: #Engineered product

Safety information

risk assessment

  • @ref: 120659
  • biosafety level: 1
  • biosafety level comment: Risk group (French classification)

Sequence information

16S sequences

  • @ref: 65465
  • description: 16S rRNA gene sequence
  • accession: MG571633
  • database: nuccore

External links

@ref: 66492

culture collection no.: CIP 111490, CCM 8814, DSM 106122

straininfo link

  • @ref: 111331
  • straininfo: 405683

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny29561253Novosphingobium lubricantis sp. nov., isolated from a coolant lubricant emulsion.Kampfer P, Busse HJ, Glaeser SPInt J Syst Evol Microbiol10.1099/ijsem.0.0027022018Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Germany, *Lubricants, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Spermidine/chemistry, Sphingomonadaceae/*classification/genetics/isolation & purification, Ubiquinone/chemistryTranscriptome
Phylogeny33411666Novosphingobium olei sp. nov., with the ability to degrade diesel oil, isolated from oil-contaminated soil and proposal to reclassify Novosphingobium stygium as a later heterotypic synonym of Novosphingobium aromaticivorans.Chaudhary DK, Dahal RH, Kim DU, Kim JInt J Syst Evol Microbiol10.1099/ijsem.0.0046282021Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, *Petroleum Pollution, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Soil Pollutants, Sphingomonadaceae/*classification/isolation & purification, Ubiquinone/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorstitledoi/urljournalpubmedcatalogue
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
65465Peter Kämpfer, Hans-Jürgen Busse, Stefanie P. GlaeserNovosphingobium lubricantis sp. nov., isolated from a coolant lubricant emulsion10.1099/ijsem.0.002702IJSEM 68: 1560-1564 201829561253
66492Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-106122Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 106122)
68369Automatically annotated from API 20NE
68372Automatically annotated from API 50CH assim
111331Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID405683.1
120659Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20111490Collection of Institut Pasteur (CIP 111490)