Strain identifier

BacDive ID: 5164

Type strain: Yes

Species: Serratia entomophila

Strain Designation: A1

Strain history: CIP <- 1987, P.A.D. Grimont, Inst. Pasteur, Paris, France <- T.A. Jackson: strain A1

NCBI tax ID(s): 42906 (species)

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General

@ref: 4619

BacDive-ID: 5164

DSM-Number: 12358

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, oval-shaped, animal pathogen

description: Serratia entomophila A1 is an aerobe, mesophilic, Gram-negative animal pathogen that was isolated from diseased grass grub larva .

NCBI tax id

  • NCBI tax id: 42906
  • Matching level: species

strain history

@refhistory
4619<- CIP <- P.A.D. Grimont <- T.A. Jackson, A1
119087CIP <- 1987, P.A.D. Grimont, Inst. Pasteur, Paris, France <- T.A. Jackson: strain A1

doi: 10.13145/bacdive5164.20250331.9.3

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 entomophila
  • full scientific name: Serratia entomophila Grimont et al. 1988

@ref: 4619

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Enterobacteriales, not validated

family: Yersiniaceae

genus: Serratia

species: Serratia entomophila

full scientific name: Serratia entomophila Grimont et al. 1988

strain designation: A1

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
119087negativeoval-shapedyes
125438negative98.5

colony morphology

  • @ref: 60614
  • incubation period: 1 day

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
4619CASO AGAR (MERCK 105458) (DSMZ Medium 220)yeshttps://mediadive.dsmz.de/medium/220Name: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled water
33752MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
119087CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
119087CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3
4619TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium535.pdf
4619TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium545.pdf

culture temp

@refgrowthtypetemperature
4619positivegrowth28
33752positivegrowth30
60614positivegrowth30-37
119087positivegrowth5-37
119087nogrowth41

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
60614aerobe
119087facultative anaerobe

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
11908729864mannitol+fermentation
11908716947citrate+carbon source
11908717234glucose+fermentation
119087606565hippurate-hydrolysis
11908717716lactose-fermentation
11908717632nitrate+reduction
11908716301nitrite-reduction
11908715792malonate-assimilation
119087132112sodium thiosulfate-builds gas from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837117634D-glucose+builds acid from
68371Potassium 2-ketogluconate+builds acid from
6837124265gluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118287L-fucose+builds acid from
6837116443D-tagatose-builds acid from
6837132528turanose-builds acid from
6837117151xylitol-builds acid from
6837128087glycogen-builds acid from
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837117992sucrose+builds acid from
683714853esculin+builds acid from
6837127613amygdalin-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837165328L-xylose-builds acid from
6837116988D-ribose+builds acid from
6837130849L-arabinose+builds acid from
6837117113erythritol-builds acid from
6836817632nitrate+reduction
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

metabolite production

@refChebi-IDmetaboliteproduction
11908735581indoleno
6836817997dinitrogenno
6836816301nitriteyes
6836815688acetoinyes
6836835581indoleno
6836816136hydrogen sulfideno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-testindole test
11908715688acetoin+
11908717234glucose-
6836815688acetoin+
6836835581indole-

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382alpha-glucosidase+3.2.1.20
68382beta-glucosidase+3.2.1.21
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase+3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382trypsin+3.4.21.4
68382cystine arylamidase+3.4.11.3
68382valine arylamidase+
68382lipase (C 14)+
68382alkaline phosphatase+3.1.3.1
119087oxidase-
119087beta-galactosidase+3.2.1.23
119087alcohol dehydrogenase-1.1.1.1
119087gelatinase+
119087catalase+1.11.1.6
119087gamma-glutamyltransferase+2.3.2.2
119087lysine decarboxylase-4.1.1.18
119087ornithine decarboxylase-4.1.1.17
119087phenylalanine ammonia-lyase-4.3.1.24
119087tryptophan deaminase-
119087urease-3.5.1.5
68382leucine arylamidase+3.4.11.1
68382esterase lipase (C 8)+
68382esterase (C 4)+
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

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
119087-++++++++-++-+-+++--

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARAOXNO2N2
4619+---+----+++++--+++--+-

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
119087+/--+/-+++/--+/--+/-++/-+/----+/-+/----+/--+/-++/-+/-+/-+/-+/-++/----+/---+/--+/--+/-++/---++/-

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
119087+++++--+-++----+++++----+-+----+++---+-+---------+++-+++++++++--+--+----++-++++++-----++-++++++---+

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
4619diseased grass grub larva (Costelytra zealandica)Costelytra zealandicaFairtonNew ZealandNZLAustralia and Oceania
60614Diseased grass grub larva,Costelytra zealandicaFairtonNew ZealandNZLAustralia and Oceania
119087Environment, Diseased grass grub larva, Costelytra zealandicaFairtonNew ZealandNZLAustralia and Oceania

isolation source categories

  • Cat1: #Host
  • Cat2: #Arthropoda
  • Cat3: #Insecta

Safety information

risk assessment

@refpathogenicity animalbiosafety levelbiosafety level comment
4619yes1Risk group (German classification)
1190871Risk group (French classification)

Sequence information

16S sequences

  • @ref: 20218
  • description: Serratia entomophila 16S rRNA gene (strain DSM 12358)
  • accession: AJ233427
  • length: 1516
  • database: nuccore
  • NCBI tax ID: 42906

Genome sequences

  • @ref: 66792
  • description: Serratia entomophila A1
  • accession: GCA_021462285
  • assembly level: complete
  • database: ncbi
  • NCBI tax ID: 42906

GC content

  • @ref: 4619
  • GC-content: 58

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingno98.5no
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no99.329no
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no57.441no
125438spore-formingspore-formingAbility to form endo- or exosporesno87.637no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno99yes
125438motile2+flagellatedAbility to perform flagellated movementyes75.977no

External links

@ref: 4619

culture collection no.: CCUG 55496, LMG 8456, KCTC 2934, NCIMB 12800, BCRC 15867, DSM 12358, ATCC 43705, CIP 102919

straininfo link

  • @ref: 74656
  • straininfo: 10849

literature

  • topic: Phylogeny
  • Pubmed-ID: 31089912
  • title: Serratia microhaemolytica sp. nov., isolated from an artificial lake in Southern China.
  • authors: Wang J, Zheng ML, Jiao JY, Wang WJ, Li S, Xiao M, Chen C, Qu PH, Li WJ
  • journal: Antonie Van Leeuwenhoek
  • DOI: 10.1007/s10482-019-01273-9
  • year: 2019
  • mesh: Anaerobiosis, 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, Temperature
  • topic2: Transcriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
4619Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 12358)https://www.dsmz.de/collection/catalogue/details/culture/DSM-12358
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
33752Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/14659
60614Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 55496)https://www.ccug.se/strain?id=55496
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)
68368Automatically annotated from API 20E
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
74656Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID10849.1StrainInfo: A central database for resolving microbial strain identifiers
119087Curators of the CIPCollection of Institut Pasteur (CIP 102919)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20102919
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann10.1101/2024.08.12.607695Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets