Strain identifier

BacDive ID: 5151

Type strain: Yes

Species: Serratia plymuthica

Strain Designation: Grimont 510, 510

Strain history: CIP <- 1988, P.A.D. Grimont, Inst. Pasteur, Paris, France: strain 510 <- ATCC <- R.S. Breed, USA: strain K7, Serratia plymouthensis <- Kràl Collection, Vienne, Austria <- Abel <- D. Fischer

NCBI tax ID(s): 1218095 (strain), 82996 (species)

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General

@ref: 1721

BacDive-ID: 5151

DSM-Number: 4540

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, motile, human pathogen

description: Serratia plymuthica Grimont 510 is a facultative anaerobe, mesophilic, motile human pathogen that was isolated from Water.

NCBI tax id

NCBI tax idMatching level
82996species
1218095strain

strain history

@refhistory
1721<- ATCC <- R.S. Breed (Serratia plymouthensis K-7) <- Kral. Collection <- Abel <- B. Fischer
67770Y. Kosako 341 <-- R. Sakazaki 341 <-- P. A. D. Grimont 510 <-- CCM 640 <-- ATCC 183 <-- R. S. Breed K-7 ("Serratia plymouthensis") <-- Král Collection <-- Abel <-- B. Fischer.
67772ATCC <- R.S. Breed (Serratia plymouthensis K-7) <- Kral. Collection <- Abel <- B. Fischer
121876CIP <- 1988, P.A.D. Grimont, Inst. Pasteur, Paris, France: strain 510 <- ATCC <- R.S. Breed, USA: strain K7, Serratia plymouthensis <- Kràl Collection, Vienne, Austria <- Abel <- D. Fischer

doi: 10.13145/bacdive5151.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Enterobacterales
  • family: Yersiniaceae
  • genus: Serratia
  • species: Serratia plymuthica
  • full scientific name: Serratia plymuthica (Lehmann and Neumann 1896) Breed et al. 1948 (Approved Lists 1980)

  • synonyms

    • @ref: 20215
    • synonym: Bacterium plymuthicum

@ref: 1721

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Enterobacteriales, not validated

family: Yersiniaceae

genus: Serratia

species: Serratia plymuthica

full scientific name: Serratia plymuthica (Lehmann and Neumann 1896) Breed et al. 1948

strain designation: Grimont 510, 510

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes98.71
6948099.939negative
121876yesnegativerod-shaped

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
1721REACTIVATION 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
36320MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
121876CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
121876CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperaturerange
1721positivegrowth26mesophilic
36320positivegrowth30mesophilic
46121positivegrowth26mesophilic
67770positivegrowth37mesophilic
67772positiveoptimum26-30mesophilic
121876positivegrowth10-41
121876nogrowth5psychrophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 121876
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no98.179

compound production

  • @ref: 1721
  • compound: FSH binding inhibitor (FSH=follicle stimulating hormone)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836830849L-arabinose+fermentation
6836827613amygdalin+fermentation
6836828053melibiose+fermentation
6836817992sucrose+fermentation
6836862345L-rhamnose-fermentation
6836830911sorbitol+fermentation
6836817268myo-inositol+fermentation
6836816899D-mannitol+fermentation
6836817634D-glucose+fermentation
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea-hydrolysis
6836816947citrate+assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis
12187629864mannitol+fermentation
12187616947citrate+carbon source
12187617234glucose+fermentation
121876606565hippurate-hydrolysis
12187617716lactose-fermentation
12187617632nitrate+reduction
12187616301nitrite-reduction
12187615792malonate-assimilation
121876132112sodium thiosulfate-builds gas from
12187617234glucose+degradation

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinno
6836835581indoleno
6836816136hydrogen sulfideno
12187635581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole testmethylred-test
6836815688acetoin-
6836835581indole-
12187615688acetoin+
12187617234glucose+

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382beta-glucosidase+3.2.1.21
68382alpha-glucosidase+3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase+3.2.1.23
68382alpha-galactosidase+3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin+3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
68368cytochrome oxidase-1.9.3.1
68368gelatinase+
68368tryptophan deaminase-4.1.99.1
68368urease-3.5.1.5
68368ornithine decarboxylase-4.1.1.17
68368lysine decarboxylase-4.1.1.18
68368arginine dihydrolase-3.5.3.6
68368beta-galactosidase+3.2.1.23
121876oxidase-
121876beta-galactosidase+3.2.1.23
121876alcohol dehydrogenase-1.1.1.1
121876gelatinase-
121876catalase+1.11.1.6
121876gamma-glutamyltransferase+2.3.2.2
121876lysine decarboxylase-4.1.1.18
121876ornithine decarboxylase-4.1.1.17
121876phenylalanine ammonia-lyase-4.3.1.24
121876tryptophan deaminase-
121876urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
121876-+++-+--+-++++-+++--

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARAOX
1721+---+-----+++++-++++-

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
121876+++++-+++++++++++-+++++-++-----+++++-------++----++--+++++-++-+++-------++-+--+++-----+--+++-++--+-

Isolation, sampling and environmental information

isolation

@refsample type
46121Water
67770Water
121876Environment, Water

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic

taxonmaps

  • @ref: 69479
  • File name: preview.99_1915.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_6;96_106;97_324;98_1503;99_1915&stattab=map
  • Last taxonomy: Serratia
  • 16S sequence: AJ233433
  • Sequence Identity:
  • Total samples: 7958
  • soil counts: 1582
  • aquatic counts: 1805
  • animal counts: 3646
  • plant counts: 925

Safety information

risk assessment

@refpathogenicity humanbiosafety levelbiosafety level comment
1721yes, in single cases1Risk group (German classification)
677721
1218761Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Serratia plymuthica DSM 4540 16S ribosomal RNA gene, partial sequenceAF2868721464ena82996
20218Serratia plymuthica 16S rRNA gene (strain DSM 4540)AJ2334331502ena82996
20218Serratia plymuthica gene for 16S rRNA, partial sequence, strain: NBRC 102599AB6818761467ena82996

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Serratia plymuthica NCTC12961GCA_900478125completencbi82996
66792Serratia plymuthica NBRC 1025991218095.3wgspatric1218095
66792Serratia plymuthica strain FDAARGOS_89582996.52completepatric82996
66792Serratia plymuthica strain NCTC1296182996.23completepatric82996
66792Serratia plymuthica NBRC 1025992731957629draftimg1218095
67772Serratia plymuthica NBRC 102599GCA_001590925contigncbi1218095

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno57.401no
gram-positiveno97.991no
anaerobicno98.143no
aerobicyes81.237no
halophileno93.55no
spore-formingno95.483no
thermophileno99.407yes
glucose-utilyes94.906no
motileyes88.904no
glucose-fermentyes90.459no

External links

@ref: 1721

culture collection no.: CCUG 14509, DSM 4540, ATCC 183, CCM 640, JCM 1244, BCRC 12224, CIP 103239, IAM 13543, LMG 7886, NBRC 102599, NCTC 12961, UCCCB109

straininfo link

  • @ref: 74643
  • straininfo: 10390

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Enzymology24028969Monoterpenes with antibacterial activities from a Cameroonian medicinal plant Canthium Multiflorum (Rubiaceae).Kouam SF, Ngouonpe AW, Bullach A, Lamshoft M, Kuigoua GM, Spiteller MFitoterapia10.1016/j.fitote.2013.08.0252013Animals, Anti-Bacterial Agents/isolation & purification/*pharmacology, Antineoplastic Agents, Phytogenic/isolation & purification/pharmacology/therapeutic use, Antiparasitic Agents/isolation & purification/*pharmacology, Bacteria/*drug effects, Cameroon, Cell Line, Tumor, Iridoids/isolation & purification/*pharmacology, Molecular Structure, Monoterpenes/isolation & purification/*pharmacology, Neoplasms/drug therapy, Phytotherapy, Plant Components, Aerial, Plant Extracts/chemistry/*pharmacology, Plants, Medicinal, Plasmodium falciparum/drug effects, Rats, Rubiaceae/*chemistryPhylogeny
Phylogeny25563917Hafnia psychrotolerans sp. nov., isolated from lake water.Gu Z, Liu Y, Shen L, Liu X, Xiao N, Jiao N, Liu H, Zhou Y, Zhang SInt J Syst Evol Microbiol10.1099/ijs.0.0000492015Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Hafnia/*genetics/growth & development/isolation & purification, Lakes/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAGenetics
Phylogeny31089912Serratia microhaemolytica sp. nov., isolated from an artificial lake in Southern China.Wang J, Zheng ML, Jiao JY, Wang WJ, Li S, Xiao M, Chen C, Qu PH, Li WJAntonie Van Leeuwenhoek10.1007/s10482-019-01273-92019Anaerobiosis, Bacterial Typing Techniques, Base Composition, China, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Fresh Water/microbiology, Hydrogen-Ion Concentration, Lakes/*microbiology, Locomotion, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Serratia/*classification/genetics/*isolation & purification/physiology, Sodium Chloride/metabolism, TemperatureTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
1721Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 4540)https://www.dsmz.de/collection/catalogue/details/culture/DSM-4540
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
36320Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/15015
46121Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 14509)https://www.ccug.se/strain?id=14509
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/
67772Curators of the UCCCBhttps://ucccb.uc.pt/
68368Automatically annotated from API 20E
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
74643Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID10390.1StrainInfo: A central database for resolving microbial strain identifiers
121876Curators of the CIPCollection of Institut Pasteur (CIP 103239)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103239