Strain identifier

BacDive ID: 13146

Type strain: Yes

Species: Stenotrophomonas pictorum

Strain history: CIP <- 1989, CCM

NCBI tax ID(s): 1236960 (strain), 86184 (species)

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General

@ref: 7994

BacDive-ID: 13146

DSM-Number: 19282

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, colony-forming

description: Stenotrophomonas pictorum DSM 19282 is an aerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from soil.

NCBI tax id

NCBI tax idMatching level
1236960strain
86184species

strain history

@refhistory
7994<- CCM <- P. H. H. Gray
349151989, CCM
67770CCM 284 <-- P. H. H. Gray.
121821CIP <- 1989, CCM

doi: 10.13145/bacdive13146.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Lysobacterales
  • family: Lysobacteraceae
  • genus: Stenotrophomonas
  • species: Stenotrophomonas pictorum
  • full scientific name: Stenotrophomonas pictorum (Gray and Thornton 1928) Ouattara et al. 2017

  • synonyms

    • @ref: 20215
    • synonym: Pseudomonas pictorum

@ref: 7994

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Lysobacteraceae

genus: Stenotrophomonas

species: Stenotrophomonas pictorum

full scientific name: Stenotrophomonas pictorum (Gray and Thornton 1928) Ouattara et al. 2017

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthmotilityconfidencecell shape
43240negative1.5-3 µm0.5-0.8 µmyes
69480yes94.751
69480negative99.961
121821negativeyesrod-shaped

colony morphology

@refcolony colorcolony shapemedium used
43240yellowcirculartrypticase soy agar
43240orange-yellowcircularnutritient agar (NA)

pigmentation

  • @ref: 121821
  • production: no
  • name: Pyocyanin

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7994REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a)yeshttps://mediadive.dsmz.de/medium/1aName: REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
34915MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
43240trypticase soy agaryes
43240nutritient agar (NA)yes
121821CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperaturerange
7994positivegrowth28mesophilic
34915positivegrowth30mesophilic
43240nogrowth41thermophilic
43240nogrowth4psychrophilic
67770positivegrowth30mesophilic
121821positivegrowth25-37mesophilic
121821nogrowth5psychrophilic
121821nogrowth10psychrophilic
121821nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
43240aerobe
121821obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.998

halophily

@refsaltgrowthtested relationconcentration
121821NaClpositivegrowth0-6 %
121821NaClnogrowth8 %
121821NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
432404853esculin+hydrolysis
4324016947citrate-carbon source
4324028017starch+/-hydrolysis
4324017632nitrate+reduction
4324016301nitrite-reduction
4324017634D-glucose+assimilation
4324015824D-fructose+assimilation
4324016024D-mannose+assimilation
4324061993maltotriose+assimilation
4324017306maltose+assimilation
4324028066gentiobiose+assimilation
4324062318D-lyxose+assimilation
43240506227N-acetylglucosamine+assimilation
4324015971L-histidine+assimilation
4324016977L-alanine+assimilation
4324015882phenol+assimilation
4324017234glucose+builds acid from
4324017306maltose+builds acid from
4324012936D-galactose-assimilation
4324016551D-trehalose-assimilation
4324017266L-sorbose-assimilation
4324028053melibiose-assimilation
4324017992sucrose-assimilation
4324016634raffinose-assimilation
4324017716lactose-assimilation
432406359lactulose-assimilation
4324017540methyl beta-D-galactoside-assimilation
4324055507methyl alpha-D-galactoside-assimilation
4324017057cellobiose-assimilation
4324016988D-ribose-assimilation
4324030849L-arabinose-assimilation
4324065327D-xylose-assimilation
4324018394palatinose-assimilation
4324062345L-rhamnose-assimilation
4324018287L-fucose-assimilation
432406731melezitose-assimilation
4324018333D-arabitol-assimilation
4324018403L-arabitol-assimilation
4324017151xylitol-assimilation
4324016813galactitol-assimilation
4324016443D-tagatose-assimilation
4324017754glycerol-assimilation
4324017268myo-inositol-assimilation
4324016899D-mannitol-assimilation
4324068428maltitol-assimilation
4324032528turanose-assimilation
4324017924D-sorbitol-assimilation
4324015963ribitol-assimilation
4324017113erythritol-assimilation
43240739183-O-methyl-D-glucose-assimilation
4324033801D-saccharate-assimilation
4324030924L-tartrate-assimilation
4324030927D-tartrate-assimilation
4324030928meso-tartrate-assimilation
4324015588D-malate-assimilation
4324015589L-malate-assimilation
4324016383cis-aconitate-assimilation
4324015708trans-aconitate-assimilation
4324062517tricarballylate-assimilation
4324016947citrate-assimilation
4324015748D-glucuronate-assimilation
4324018024D-galacturonic acid-assimilation
43240168082-dehydro-D-gluconate-assimilation
43240581435-dehydro-D-gluconate-assimilation
4324027897tryptophan-assimilation
432408391D-gluconate-assimilation
4324018401phenylacetate-assimilation
4324036241protocatechuate-assimilation
43240178794-hydroxybenzoate-assimilation
4324026490quinate-assimilation
4324058044gentisate-assimilation
43240161933-hydroxybenzoate-assimilation
4324016150benzoate-assimilation
43240510573-phenylpropionate-assimilation
4324032357m-coumaric acid-assimilation
4324018123trigonelline-assimilation
4324017750betaine-assimilation
4324017148putrescine-assimilation
4324016865gamma-aminobutyric acid-assimilation
4324018295histamine-assimilation
4324024996lactate-assimilation
4324027689decanoate-assimilation
4324025646octanoate-assimilation
4324030031succinate-assimilation
4324029806fumarate-assimilation
4324030921glutarate-assimilation
4324033871glycerate-assimilation
43240158875-aminovalerate-assimilation
4324016000ethanolamine-assimilation
4324016765tryptamine-assimilation
4324017315D-glucosamine-assimilation
4324017240itaconate-assimilation
43240370543-hydroxybutyrate-assimilation
4324029991L-aspartate-assimilation
4324029985L-glutamate-assimilation
4324017203L-proline-assimilation
4324015570D-alanine-assimilation
4324017115L-serine-assimilation
4324015792malonate-assimilation
4324017272propionate-assimilation
4324017895L-tyrosine-assimilation
43240309162-oxoglutarate-assimilation
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837132528turanose-builds acid from
6837128066gentiobiose-builds acid from
6837117151xylitol-builds acid from
6837128087glycogen-builds acid from
6837128017starch-builds acid from
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837127082trehalose-builds acid from
6837117992sucrose-builds acid from
6837128053melibiose-builds acid from
6837117716lactose-builds acid from
6837117306maltose-builds acid from
6837117057cellobiose-builds acid from
6837117814salicin-builds acid from
683714853esculin-builds acid from
6837118305arbutin-builds acid from
6837127613amygdalin-builds acid from
6837159640N-acetylglucosamine-builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837116899D-mannitol-builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose-builds acid from
6837115824D-fructose-builds acid from
6837117634D-glucose-builds acid from
6837112936D-galactose-builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose-builds acid from
6837116988D-ribose-builds acid from
6837130849L-arabinose-builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
6837117754glycerol-builds acid from
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
12182116947citrate-carbon source
1218214853esculin+hydrolysis
12182117632nitrate+reduction
12182116301nitrite-reduction
12182115882phenol-degradation
12182117632nitrate-respiration

antibiotic resistance

  • @ref: 121821
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
4324035581indoleno
6836935581indoleno
12182135581indoleno

metabolite tests

@refChebi-IDmetabolitecitrate testindole test
4324016947citrate-
6836935581indole-

enzymes

@refvalueactivityec
43240catalase+1.11.1.6
43240urease-3.5.1.5
43240lysine decarboxylase-4.1.1.18
43240ornithine decarboxylase-4.1.1.17
43240arginine dihydrolase-3.5.3.6
43240DNase-
43240cytochrome oxidase+/-1.9.3.1
68369cytochrome oxidase+1.9.3.1
68369gelatinase-
68369beta-glucosidase+3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
121821oxidase+
121821beta-galactosidase-3.2.1.23
121821alcohol dehydrogenase-1.1.1.1
121821gelatinase-
121821amylase-
121821DNase-
121821caseinase-3.4.21.50
121821catalase+1.11.1.6
121821tween esterase-
121821lecithinase-
121821lipase-
121821lysine decarboxylase-4.1.1.18
121821ornithine decarboxylase-4.1.1.17
121821tryptophan deaminase-
121821urease-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

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    43240C15:024.2
    43240C15:0 anteiso8.1
    43240C17:1 iso ω9c7.5
    43240C16:06.7
    43240C14:0 iso6.1
    43240C15:1 iso F5.5
  • type of FA analysis: whole cell analysis
  • incubation medium: trypticase soy agar (TSA)
  • agar/liquid: agar
  • incubation temperature: 28
  • incubation time: 1
  • system: MIS MIDI
  • cutoff value:

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
121821-+++-+--++++---+----

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
7994+----+--+-+-++------+

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
121821-------------------------------------------------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
121821++--+----++----++-++---------------------------------------+------------------+-----------+++++-+--

Isolation, sampling and environmental information

isolation

@refsample type
7994soil
43240soil
121821Environment, Soil

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_383.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17;96_26;97_288;98_321;99_383&stattab=map
  • Last taxonomy: Stenotrophomonas
  • 16S sequence: LC177210
  • Sequence Identity:
  • Total samples: 294
  • soil counts: 83
  • aquatic counts: 65
  • animal counts: 115
  • plant counts: 31

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
79941Risk group (German classification)
1218211Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
7994[Pseudomonas] pictorum gene for 16S rRNA, strain: ATCC 23328AB0213921511ena1236960
7994Pseudomonas pictorum strain LMG 981, 16S ribosomal RNA, partialAJ1311161502ena1236960
67770[Pseudomonas] pictorum gene for 16S ribosomal RNA, partial sequence, strain: JCM 9942LC1772101469ena1236960

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Stenotrophomonas pictorum JCM 9942GCA_001310775contigncbi1236960
66792Stenotrophomonas maltophilia strain JCM 994240324.139wgspatric40324
66792Stenotrophomonas pictorum JCM 99421236960.5wgspatric1236960
66792Stenotrophomonas pictorum JCM 99422728369656draftimg1236960
66792Stenotrophomonas pictorum JCM 99422713896885draftimg1236960
67770Stenotrophomonas pictorum JCM 9942GCA_001431585contigncbi1236960

GC content

  • @ref: 7994
  • GC-content: 65.7
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes87.151no
gram-positiveno98.405no
anaerobicno98.651yes
aerobicyes92.747no
halophileno94.411no
spore-formingno94.561no
glucose-utilyes83.304yes
flagellatedno86.193no
thermophileno97.369no
glucose-fermentno88.951no

External links

@ref: 7994

culture collection no.: DSM 19282, ATCC 23328, CCM 284, CIP 103273, JCM 9942, LMG 981, NCIMB 9152, VKM 1240, BCRC 15831, CCEB 322, CCUG 1823, CCUG 3368, KCTC 12497, NCAIM B.01950, NRRL B-2543, VKM B-1240, IMET 10400

straininfo link

  • @ref: 82353
  • straininfo: 6107

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny11931169Stenotrophomonas acidaminiphila sp. nov., a strictly aerobic bacterium isolated from an upflow anaerobic sludge blanket (UASB) reactor.Assih EA, Ouattara AS, Thierry S, Cayol JL, Labat M, Macarie HInt J Syst Evol Microbiol10.1099/00207713-52-2-5592002Anaerobiosis, Anti-Bacterial Agents/pharmacology, DNA, Bacterial/chemistry, Environmental Microbiology, Industrial Waste, Microbial Sensitivity Tests, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/chemistry, Sequence Homology, Nucleic Acid, Sewage/*microbiology, Stenotrophomonas/*classification/drug effects/physiologyGenetics
Phylogeny28629502Transfer of Pseudomonas pictorum Gray and Thornton 1928 to genus Stenotrophomonas as Stenotrophomonas pictorum comb. nov., and emended description of the genus Stenotrophomonas.Ouattara AS, Le Mer J, Joseph M, Macarie HInt J Syst Evol Microbiol10.1099/ijsem.0.0018802017Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Nucleic Acid Hybridization, *Phylogeny, Pseudomonas/*classification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Stenotrophomonas/*classificationTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
7994Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19282)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19282
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
34915Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/15052
43240Aboubakar Sidiki Ouattara, Jean Le Mer, Manon Joseph, Herve Macarie10.1099/ijsem.0.001880Transfer of Pseudomonas pictorum Gray and Thornton 1928 to genus Stenotrophomonas as Stenotrophomonas pictorum comb. nov., and emended description of the genus StenotrophomonasIJSEM 67: 1894-1900 201728629502
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
68371Automatically annotated from API 50CH acid
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
82353Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID6107.1StrainInfo: A central database for resolving microbial strain identifiers
121821Curators of the CIPCollection of Institut Pasteur (CIP 103273)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103273