Strain identifier

BacDive ID: 14201

Type strain: Yes

Species: Sphingomonas paucimobilis

Strain Designation: CL 1/70

Strain history: CIP <- 1984, ATCC <- NCTC, Pseudomonas paucimobilis <- I. Phillis, St Thomas Hosp., London, UK: strain CL 1/70

NCBI tax ID(s): 1219050 (strain), 13689 (species)

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General

@ref: 548

BacDive-ID: 14201

DSM-Number: 1098

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, Gram-negative

description: Sphingomonas paucimobilis CL 1/70 is an obligate aerobe, mesophilic, Gram-negative bacterium that was isolated from hospital respirator.

NCBI tax id

NCBI tax idMatching level
1219050strain
13689species

strain history

@refhistory
548<- NCTC <- B. Holmes; CL 1/70
67770GIFU 2395 <-- NCTC 11030 <-- I. Phillips CL 1/70.
121633CIP <- 1984, ATCC <- NCTC, Pseudomonas paucimobilis <- I. Phillis, St Thomas Hosp., London, UK: strain CL 1/70

doi: 10.13145/bacdive14201.20230509.8.1

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 paucimobilis
  • full scientific name: Sphingomonas paucimobilis (Holmes et al. 1977) Yabuuchi et al. 1990

  • synonyms

    • @ref: 20215
    • synonym: Pseudomonas paucimobilis

@ref: 548

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Sphingomonadales

family: Sphingomonadaceae

genus: Sphingomonas

species: Sphingomonas paucimobilis

full scientific name: Sphingomonas paucimobilis (Holmes et al. 1977) Yabuuchi et al. 1990

strain designation: CL 1/70

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480negative99.985
121633negativerod-shapedno

pigmentation

  • @ref: 121633
  • production: no
  • name: Pyocyanin

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
548COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://mediadive.dsmz.de/medium/693Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
548TRYPTICASE 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
36454MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
121633CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
121633CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperaturerange
548positivegrowth30mesophilic
36454positivegrowth30mesophilic
67770positivegrowth30mesophilic
121633positivegrowth25-37mesophilic
121633nogrowth5psychrophilic
121633nogrowth10psychrophilic
121633nogrowth41thermophilic
121633nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 121633
  • oxygen tolerance: obligate aerobe

spore formation

@refspore formationconfidence
69481no99
69480no99.99

halophily

@refsaltgrowthtested relationconcentration
121633NaClpositivegrowth0 %
121633NaClnogrowth2 %
121633NaClnogrowth4 %
121633NaClnogrowth6 %
121633NaClnogrowth8 %
121633NaClnogrowth10 %

observation

  • @ref: 67770
  • observation: quinones: Q-10

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836925115malate+assimilation
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836924265gluconate-assimilation
6836917306maltose+assimilation
6836959640N-acetylglucosamine+assimilation
6836916899D-mannitol-assimilation
6836916024D-mannose+assimilation
6836930849L-arabinose+assimilation
6836917634D-glucose+assimilation
683695291gelatin-hydrolysis
683694853esculin+hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction
12163316947citrate-carbon source
1216334853esculin+hydrolysis
12163317632nitrate-reduction
12163316301nitrite-reduction
12163315882phenol-degradation
12163317632nitrate-respiration

antibiotic resistance

  • @ref: 121633
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
12163335581indoleno

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
68369cytochrome oxidase+1.9.3.1
68369gelatinase-
68369beta-glucosidase+3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
121633oxidase+
121633beta-galactosidase+3.2.1.23
121633alcohol dehydrogenase-1.1.1.1
121633gelatinase-
121633amylase-
121633DNase-
121633caseinase-3.4.21.50
121633catalase+1.11.1.6
121633tween esterase+
121633lecithinase-
121633lipase-
121633lysine decarboxylase-4.1.1.18
121633ornithine decarboxylase-4.1.1.17
121633protease-
121633tryptophan deaminase-
121633urease-3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase+
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin+3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase+3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382beta-glucosidase+3.2.1.21
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
121633-+++-++--+++-+-+++--

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
548-----+-++++-++---+--+
548-----+-++++-++---+--+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
121633+++++-+++++++++++++-+++-++--------++-----+-------+++-+-----+--++-------+---+---++-------+++--++---+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
548hospital respiratorLondonUnited KingdomGBREurope
67770Hospital respirator
121633Human, Hospital respiratorLondonUnited KingdomGBREurope1969

isolation source categories

Cat1Cat2Cat3
#Infection#Medical device
#Infection#Medical environment#Clinic

taxonmaps

  • @ref: 69479
  • File name: preview.99_2134.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_20;96_761;97_956;98_1667;99_2134&stattab=map
  • Last taxonomy: Sphingomonas paucimobilis
  • 16S sequence: LC069038
  • Sequence Identity:
  • Total samples: 942
  • soil counts: 195
  • aquatic counts: 244
  • animal counts: 345
  • plant counts: 158

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
5482Risk group (German classification)
1216331Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Sphingomonas paucimobilis partial 16S rRNA gene, isolate OS-64.aAM2373641431ena13689
20218Sphingomonas paucimobilis 16S small subunit ribosomal RNA gene, partial sequenceU207761231ena13689
20218Sphingomonas paucimobilis strain ATCC 29837 16S ribosomal RNA (rrn) gene, partial sequenceU373371414ena13689
548Sphingomonas paucimobilis partial 16S rRNA gene, type strain DSM 1098TLN6815661441ena13689
67770Sphingomonas paucimobilis gene for 16S rRNA, partial sequence, strain: NBRC 13935AB6805261414ena13689
67770Sphingomonas paucimobilis gene for 16S rRNA, partial sequenceD161441446ena13689
67770Sphingomonas paucimobilis gene for 16S ribosomal RNA, partial sequence, strain: JCM 7516LC0690381411ena13689
67770Sphingomonas paucimobilis JCM 7516 gene for 16S ribosomal RNA, partial sequenceLC5040301411ena13689

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Sphingomonas paucimobilis NBRC 139351219050.3wgspatric1219050
66792Sphingomonas paucimobilis strain FDAARGOS_90813689.29completepatric13689
66792Sphingomonas paucimobilis strain NCTC1103013689.16wgspatric13689
66792Sphingomonas paucimobilis NBRC 139352600255072draftimg1219050
67770Sphingomonas paucimobilis NBRC 13935GCA_000739895contigncbi1219050
67770Sphingomonas paucimobilis NCTC11030GCA_900457515contigncbi13689

GC content

@refGC-contentmethod
54865.0
54865.5thermal denaturation, midpoint method (Tm)
6777063.7high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno99no
motileyes69.866no
gram-positiveno96.7no
anaerobicno99.016no
halophileno91.722no
spore-formingno93.905no
thermophileno97.585yes
glucose-utilyes92.322yes
flagellatedno89.293no
aerobicyes94.303no
glucose-fermentno90.188yes

External links

@ref: 548

culture collection no.: DSM 1098, ATCC 29837, NCPPB 3838, NCTC 11030, JCM 7516, CCM 3293, CCUG 31192, CCUG 6518, CDC CL 1/70, CECT 599, CIP 100752, GIFU 2395, IAM 12576, ICPB 4235, IFO 13935, LMG 1227, NBRC 13935, PCM 2585

straininfo link

  • @ref: 83360
  • straininfo: 72295

literature

topicPubmed-IDtitleauthorsjournalyearmeshtopic2DOI
Phenotype3706830[Phenotype characteristics of 63 strains of Pseudomonas paucimobilis, mostly of hospital origin].Richard CAnn Biol Clin (Paris)1986Anti-Bacterial Agents/pharmacology, Drug Resistance, Microbial, Phenotype, Pseudomonas/drug effects/*genetics/growth & developmentPathogenicity
Phylogeny7126625Isolation of an unusual 'lipid A' type glycolipid from Pseudomonas paucimobilis.Kawahara K, Uchida K, Aida KBiochim Biophys Acta1982Amino Acids/analysis, Carbohydrates/analysis, Chromatography, Gas, Chromatography, Thin Layer, Glycolipids/*isolation & purification, Indicators and Reagents, Lipid A/*isolation & purification, Lipopolysaccharides/*isolation & purification, Pseudomonas/*analysisEnzymology10.1016/0005-2760(82)90285-5
Phylogeny7183747The similarities between Pseudomonas paucimobilis and allied bacteria derived from analysis of deoxyribonucleic acids and electrophoretic protein patterns.Owen RJ, Jackman PJJ Gen Microbiol1982Bacterial Proteins/*analysis, Base Composition, Chromobacterium/analysis/classification, *DNA, Bacterial, Electrophoresis, Polyacrylamide Gel, Flavobacterium/analysis/classification, Nucleic Acid Hybridization, Pseudomonas/analysis/*classification, Xanthomonas/analysis/classificationEnzymology10.1099/00221287-128-12-2945
Phylogeny7544095Aromatic-degrading Sphingomonas isolates from the deep subsurface.Fredrickson JK, Balkwill DL, Drake GR, Romine MF, Ringelberg DB, White DCAppl Environ Microbiol1995Bacteria, Aerobic/classification/*isolation & purification/metabolism, Base Sequence, Biodegradation, Environmental, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Hydrocarbons/*metabolism, Molecular Sequence Data, Phylogeny, Polycyclic Compounds/metabolism, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Homology, Nucleic Acid, *Soil Microbiology, Species Specificity, Sphingolipids/metabolism, TennesseeMetabolism10.1128/aem.61.5.1917-1922.1995
Metabolism9538506Molecular mechanisms of polymyxin B-membrane interactions: direct correlation between surface charge density and self-promoted transport.Wiese A, Munstermann M, Gutsmann T, Lindner B, Kawahara K, Zahringer U, Seydel UJ Membr Biol1998Anti-Bacterial Agents/chemistry/*metabolism, Detergents/pharmacology, Lipid Bilayers/*metabolism, Organophosphorus Compounds/pharmacology, Polymyxin B/chemistry/*metabolism, Quaternary Ammonium Compounds/pharmacology, Sodium Dodecyl Sulfate/pharmacology10.1007/s002329900350
Enzymology9929374Complement activation by bacterial surface glycolipids: a study with planar bilayer membranes.Munstermann M, Wiese A, Brandenburg K, Zahringer U, Brade L, Kawahara K, Seydel UJ Membr Biol1999Antibodies/immunology, Complement Activation/*immunology, Escherichia coli/chemistry/immunology, Glycolipids/*immunology/isolation & purification, Glycosphingolipids/immunology/isolation & purification, Humans, Lipid A/analogs & derivatives/immunology/isolation & purification, Lipid Bilayers/*immunology, Lipopolysaccharides/immunology/isolation & purification, Membrane Potentials, Salmonella enterica/chemistry/immunology, Zymomonas/chemistry/immunologyPhylogeny10.1007/s002329900486
Phylogeny16166696Hexachlorocyclohexane-degrading bacterial strains Sphingomonas paucimobilis B90A, UT26 and Sp+, having similar lin genes, represent three distinct species, Sphingobium indicum sp. nov., Sphingobium japonicum sp. nov. and Sphingobium francense sp. nov., and reclassification of [Sphingomonas] chungbukensis as Sphingobium chungbukense comb. nov.Pal R, Bala S, Dadhwal M, Kumar M, Dhingra G, Prakash O, Prabagaran SR, Shivaji S, Cullum J, Holliger C, Lal RInt J Syst Evol Microbiol2005Bacterial Proteins/*genetics/metabolism, Bacterial Typing Techniques, Biodegradation, Environmental, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genes, rRNA, Hexachlorocyclohexane/*metabolism, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sphingomonadaceae/*classification/enzymology/genetics/physiology, Sphingomonas/*classification/enzymology/genetics/physiologyMetabolism10.1099/ijs.0.63201-0
Phylogeny21856979Sphingomonas alpina sp. nov., a psychrophilic bacterium isolated from alpine soil.Margesin R, Zhang DC, Busse HJInt J Syst Evol Microbiol2011Aerobiosis, Bacterial Typing Techniques, Base Composition, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, Polyamines/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Sphingomonas/*classification/genetics/*isolation & purification/physiology, Ubiquinone/analysisGenetics10.1099/ijs.0.035964-0
Phylogeny22685105Sphingomonas starnbergensis sp. nov., isolated from a prealpine freshwater lake.Chen H, Jogler M, Tindall BJ, Klenk HP, Rohde M, Busse HJ, Overmann JInt J Syst Evol Microbiol2012Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Germany, Lakes/*microbiology, Molecular Sequence Data, *Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Spermidine/analogs & derivatives/analysis, Sphingomonas/*classification/genetics/isolation & purification, Water MicrobiologyGenetics10.1099/ijs.0.042887-0
Phylogeny25318449Sphingomonas aeria sp. nov. from indoor air of a pharmaceutical environment.Park HK, Han JH, Kim TS, Joung Y, Cho SH, Kwon SW, Kim SBAntonie Van Leeuwenhoek2014Aerobiosis, *Air Microbiology, Anti-Bacterial Agents/pharmacology, Bacterial Typing Techniques, Base Composition, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Drug Industry, Fatty Acids/analysis, Locomotion, Microbial Sensitivity Tests, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism, Spermidine/analysis, Sphingomonas/*classification/genetics/*isolation & purification/physiology, TemperatureGenetics10.1007/s10482-014-0302-5
28064425Enantioselective Resolution of (R,S)-Carvedilol to (S)-(-)-Carvedilol by Biocatalysts.Ettireddy S, Chandupatla V, Veeresham CNat Prod Bioprospect201710.1007/s13659-016-0118-2
33917603Characterization of the Aerobic Anoxygenic Phototrophic Bacterium Sphingomonas sp. AAP5.Kopejtka K, Zeng Y, Kaftan D, Selyanin V, Gardian Z, Tomasch J, Sommaruga R, Koblizek MMicroorganisms202110.3390/microorganisms9040768

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
548Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 1098)https://www.dsmz.de/collection/catalogue/details/culture/DSM-1098
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
36454Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/12251
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68369Automatically annotated from API 20NE
68382Automatically annotated from API zym
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
83360Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID72295.1StrainInfo: A central database for resolving microbial strain identifiers
121633Curators of the CIPCollection of Institut Pasteur (CIP 100752)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20100752