Strain identifier

BacDive ID: 5124

Type strain: Yes

Species: Salmonella enterica subsp. salamae

Strain Designation: 72

Strain history: CIP <- 1982, L. Le Minor, Inst. Pasteur, Paris, France, Salmonella choleraesuis subsp. salamae <- F. Kaufmann, Copenhagen, Denmark: strain 72

NCBI tax ID(s): 59202 (subspecies)

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General

@ref: 3517

BacDive-ID: 5124

DSM-Number: 9220

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

description: Salmonella enterica subsp. salamae 72 is a facultative anaerobe, mesophilic, motile bacterium of the family Enterobacteriaceae.

NCBI tax id

  • NCBI tax id: 59202
  • Matching level: subspecies

strain history

@refhistory
3517<- CIP <- L. Le Minor <- F. Kauffmann
67770R. Sakazaki <-- NCTC 5773 <-- F. Kauffmann 72.
119038CIP <- 1982, L. Le Minor, Inst. Pasteur, Paris, France, Salmonella choleraesuis subsp. salamae <- F. Kaufmann, Copenhagen, Denmark: strain 72

doi: 10.13145/bacdive5124.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Enterobacterales
  • family: Enterobacteriaceae
  • genus: Salmonella
  • species: Salmonella enterica subsp. salamae
  • full scientific name: Salmonella enterica subsp. salamae (Le Minor et al. 1985 ex Le Minor et al. 1970) Le Minor and Popoff 1987

  • synonyms

    @refsynonym
    20215Salmonella salamae
    20215Salmonella choleraesuis subsp. salamae

@ref: 3517

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Enterobacteriales, not validated

family: Enterobacteriaceae

genus: Salmonella

species: Salmonella enterica subsp. salamae

full scientific name: Salmonella enterica subsp. salamae (Le Minor et al. 1985) Le Minor and Popoff 1987

strain designation: 72

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes92.815
6948099.996negative
119038yesnegativerod-shaped

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
3517CASO 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
39667MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
119038CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3
119038CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
3517positivegrowth37mesophilic
39667positivegrowth30mesophilic
49869positivegrowth30mesophilic
67770positivegrowth37mesophilic
119038positivegrowth10-41
119038nogrowth5psychrophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 119038
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.971

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate+builds acid from
68371Potassium 2-ketogluconate-builds acid from
68371gluconate+builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose+builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose-builds acid from32528
68371gentiobiose-builds acid from28066
68371xylitol-builds acid from17151
68371glycogen-builds acid from28087
68371starch-builds acid from28017
68371raffinose-builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371trehalose+builds acid from27082
68371sucrose-builds acid from17992
68371melibiose+builds acid from28053
68371lactose-builds acid from17716
68371maltose+builds acid from17306
68371cellobiose-builds acid from17057
68371salicin-builds acid from17814
68371arbutin-builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine+builds acid from59640
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol+builds acid from17924
68371D-mannitol+builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol+builds acid from16813
68371L-rhamnose+builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose+builds acid from16024
68371D-fructose+builds acid from15824
68371D-glucose+builds acid from17634
68371D-galactose+builds acid from12936
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose+builds acid from65327
68371D-ribose+builds acid from16988
68371L-arabinose+builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol+builds acid from17754
119038citrate+carbon source16947
119038nitrate+reduction17632
119038nitrite+reduction16301
119038malonate+assimilation15792
119038sodium thiosulfate+builds gas from132112
119038glucose+degradation17234
68374ornithine+degradation18257
68374arginine+hydrolysis29016
68374lysine+degradation25094
68374urea-hydrolysis16199
68374L-arabitol-builds acid from18403
68374D-galacturonic acid+builds acid from18024
68374Potassium 5-ketogluconate+builds acid from
68374D-mannitol+builds acid from16899
68374maltose+builds acid from17306
68374ribitol-builds acid from15963
68374palatinose-builds acid from18394
68374malonate-assimilation15792
68374tryptophan-energy source27897
68374D-glucose+builds acid from17634
68374sucrose-builds acid from17992
68374L-arabinose+builds acid from30849
68374D-arabitol-builds acid from18333
68374trehalose+builds acid from27082
68374L-rhamnose+builds acid from62345
68374myo-inositol-builds acid from17268
68374cellobiose-builds acid from17057
68374sorbitol+builds acid from30911

antibiotic resistance

  • @ref: 119038
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

@refChebi-IDmetaboliteproduction
6837435581indoleno
11903835581indoleno

metabolite tests

@refChebi-IDmetaboliteindole testvoges-proskauer-testmethylred-test
6837435581indole-
11903815688acetoin-
11903817234glucose+

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
68374L-aspartate arylamidase-3.4.11.21
68374alpha-maltosidase-
68374alpha-galactosidase+3.2.1.22
68374alpha-glucosidase-3.2.1.20
68374beta-galactosidase-3.2.1.23
68374N-acetyl-beta-glucosaminidase-3.2.1.52
68374beta-glucuronidase-3.2.1.31
68374beta-glucosidase-3.2.1.21
68374lipase+
68374urease-3.5.1.5
68374lysine decarboxylase+4.1.1.18
68374arginine dihydrolase+3.5.3.6
68374ornithine decarboxylase+4.1.1.17
119038oxidase-
119038beta-galactosidase-3.2.1.23
119038alcohol dehydrogenase-1.1.1.1
119038catalase+1.11.1.6
119038lysine decarboxylase+4.1.1.18
119038ornithine decarboxylase+4.1.1.17
119038tryptophan deaminase-
119038urease-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
119038-+++-++-+-+++--+----

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
119038+--+++---++++-++-++--+--+/---+-+-+-----------+--+-+

API ID32E

@refODCADH ArgLDC LysURELARLGAT5KGLIPRPbeta GLUMANMALADOPLEbeta GURMNTINDbeta NAGbeta GALGLUSACLARADARLalpha GLUalpha GALTRERHAINOCELSORalphaMALAspA
49869+++--+++--++-------+-+--+++--+--

Isolation, sampling and environmental information

taxonmaps

  • @ref: 69479
  • File name: preview.99_9.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_6;96_7;97_7;98_8;99_9&stattab=map
  • Last taxonomy: Salmonella enterica
  • 16S sequence: EU014685
  • Sequence Identity:
  • Total samples: 28103
  • soil counts: 1084
  • aquatic counts: 2005
  • animal counts: 23018
  • plant counts: 1996

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
35172Risk group (German classification)
1190382Risk group (French classification)

Sequence information

16S sequences

  • @ref: 20218
  • description: Salmonella enterica subsp. salamae strain DSM 9220 16S ribosomal RNA gene, partial sequence
  • accession: EU014685
  • length: 1448
  • database: ena
  • NCBI tax ID: 59202

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Salmonella enterica subsp. enterica serovar Thompson 72GCA_003120605contigncbi600
66792Salmonella enterica subsp. salamae NCTC5773GCA_900635535completencbi59202
66792Salmonella enterica subsp. salamae strain NCTC577359202.18completepatric59202
67770Salmonella enterica subsp. salamae CCUG 30039TGCA_008692775contigncbi59202
66792Salmonella enterica subsp. salamae CCUG30039GCA_016029065contigncbi59202

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno52.599no
gram-positiveno98.766no
anaerobicno90.832no
aerobicyes72.342no
halophileno93.769no
spore-formingno93.839no
thermophileno98.467yes
glucose-utilyes92.042no
motileyes90.62no
glucose-fermentyes93.267no

External links

@ref: 3517

culture collection no.: CCUG 30039, DSM 9220, ATCC 43972, CIP 82.29, NCTC 5773, JCM 1653, ATCC 6959, BCRC 15450, CECT 4000, NCTC 2206

straininfo link

  • @ref: 74616
  • straininfo: 92786

literature

  • topic: Phylogeny
  • Pubmed-ID: 28086074
  • title: Mangrovibacter phragmitis sp. nov., an endophyte isolated from the roots of Phragmites karka.
  • authors: Behera P, Venkata Ramana V, Maharana B, Joseph N, Vaishampayan P, Singh NK, Shouche Y, Bhadury P, Mishra SR, Raina V, Suar M, Pattnaik AK, Rastogi G
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.001789
  • year: 2017
  • mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Endophytes/classification/genetics/isolation & purification, Enterobacteriaceae/*classification/genetics/isolation & purification, Fatty Acids/chemistry, India, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Plant Roots/*microbiology, Poaceae/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
  • topic2: Enzymology

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
3517Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 9220)https://www.dsmz.de/collection/catalogue/details/culture/DSM-9220
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
39667Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/11298
49869Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 30039)https://www.ccug.se/strain?id=30039
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/
68371Automatically annotated from API 50CH acid
68374Automatically annotated from API ID32E
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
74616Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID92786.1StrainInfo: A central database for resolving microbial strain identifiers
119038Curators of the CIPCollection of Institut Pasteur (CIP 82.29)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2082.29