Strain identifier

BacDive ID: 6827

Type strain: Yes

Species: Leuconostoc carnosum

Strain Designation: SML40

Strain history: CIP <- 1989, NCFB <- 1988, Shaw: strain SML40

NCBI tax ID(s): 1046593 (strain), 1252 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 2228

BacDive-ID: 6827

DSM-Number: 5576

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-positive, rod-shaped

description: Leuconostoc carnosum SML40 is a facultative anaerobe, mesophilic, Gram-positive bacterium that was isolated from vakuum-packaged beef.

NCBI tax id

NCBI tax idMatching level
1252species
1046593strain

strain history

@refhistory
2228<- NCFB <- B.G. Shaw, SML40
67770NRIC 1722 <-- NCFB 2776 <-- B. G. Shaw SML40.
117189CIP <- 1989, NCFB <- 1988, Shaw: strain SML40

doi: 10.13145/bacdive6827.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Lactobacillales
  • family: Lactobacillaceae
  • genus: Leuconostoc
  • species: Leuconostoc carnosum
  • full scientific name: Leuconostoc carnosum Shaw and Harding 1989

@ref: 2228

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Leuconostocaceae

genus: Leuconostoc

species: Leuconostoc carnosum

full scientific name: Leuconostoc carnosum Shaw and Harding 1989

strain designation: SML40

type strain: yes

Morphology

cell morphology

  • @ref: 117189
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
2228MRS MEDIUM (DSMZ Medium 11)yeshttps://mediadive.dsmz.de/medium/11Name: MRS MEDIUM (DSMZ Medium 11) Composition: Glucose 20.0 g/l Casein peptone 10.0 g/l Meat extract 10.0 g/l Na-acetate 5.0 g/l Yeast extract 5.0 g/l (NH4)3 citrate 2.0 g/l K2HPO4 2.0 g/l Tween 80 1.0 g/l MgSO4 x 7 H2O 0.2 g/l MnSO4 x H2O 0.05 g/l Distilled water
34246MEDIUM 40- for Lactobacillus and LeuconostocyesDistilled water make up to (1000.000 ml);Man Rogosa Sharp agar (68.000 g)
117189CIP Medium 40yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=40

culture temp

@refgrowthtypetemperaturerange
2228positivegrowth28mesophilic
34246positivegrowth25
49879positivegrowth22psychrophilic
67770positivegrowth30mesophilic
117189positivegrowth10-30
117189nogrowth37mesophilic
117189nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 117189
  • oxygen tolerance: facultative anaerobe

murein

  • @ref: 2228
  • murein short key: A11.05
  • type: A3alpha L-Lys-L-Ala2

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
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
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
117189nitrate-reduction17632
117189nitrite-reduction16301
117189nitrate+respiration17632

metabolite production

  • @ref: 117189
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 117189
  • Chebi-ID: 15688
  • metabolite: acetoin
  • voges-proskauer-test: -

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
117189oxidase-
117189alcohol dehydrogenase-1.1.1.1
117189catalase-1.11.1.6
117189lysine decarboxylase-4.1.1.18
117189ornithine decarboxylase-4.1.1.17
117189urease-3.5.1.5

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    49879C14:010.714
    49879C16:031.716
    49879C18:06.518
    49879C16:1 ω7c13.715.819
    49879C18:1 ω7c /12t/9t17.117.824
    49879C18:1 ω9c13.217.769
    49879C18:2 ω6,9c/C18:0 ANTE7.117.724
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
117189-+---+----++---+----

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
2228-----+-----+++-------++--+/------++-------+---------
2228-----+-----+++----+/---++--------++-------+------+--
117189----+-----+++-------++--------++-------+------+--

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
117189---------------------------------------------------------------------------------------------------

Isolation, sampling and environmental information

isolation

@refsample type
2228vakuum-packaged beef
49879Meat,vacuum packed
67770Vacuum-packed meats
117189Food, Vacuum packed meat

isolation source categories

Cat1Cat2Cat3
#Engineered#Food production#Bottled, canned, packed food
#Engineered#Food production#Meat

taxonmaps

  • @ref: 69479
  • File name: preview.99_6848.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_22;96_35;97_36;98_5042;99_6848&stattab=map
  • Last taxonomy: Leuconostoc carnosum subclade
  • 16S sequence: LC096219
  • Sequence Identity:
  • Total samples: 5291
  • soil counts: 373
  • aquatic counts: 682
  • animal counts: 4024
  • plant counts: 212

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
22281Risk group (German classification)
1171891Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218L.carnosum 16S ribosomal RNAX959771333ena1252
20218Leuconostoc carnosum gene for 16S rRNA, strain:NRIC 1722AB0229251450ena1252
20218Leuconostoc carnosum DNA, 16S-23S rRNA intergenic spacer region, strain: NRIC 1722AB290436370ena1252
67770Leuconostoc carnosum gene for 16S ribosomal RNA, partial sequence, strain: JCM 9695LC0962191497ena1252

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Leuconostoc carnosum DSM 5576GCA_014207505scaffoldncbi1252
66792Leuconostoc carnosum JCM 9695GCA_019655915contigncbi1252
66792Leuconostoc carnosum KCTC 3525GCA_000260375contigncbi1046593
66792Leuconostoc carnosum KCTC 35251046593.3wgspatric1046593
66792Leuconostoc carnosum strain DSM 55761252.25wgspatric1252
66792Leuconostoc carnosum strain JCM 96951252.31wgspatric1252
66792Leuconostoc carnosum DSM 55762861435432draftimg1252
66792Leuconostoc carnosum KCTC 35252547132109draftimg1046593

GC content

@refGC-contentmethod
222839.0
6777039thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno96.232no
flagellatedno97.905no
gram-positiveyes96.807no
anaerobicno93.503no
aerobicno96.101no
halophileyes91.089no
spore-formingno94.634no
thermophileno99.821yes
glucose-utilyes88.12no
glucose-fermentyes90.029no

External links

@ref: 2228

culture collection no.: DSM 5576, ATCC 49367, NCFB 2776, CCUG 30059, JCM 9695, CECT 4024, CIP 103319, KCTC 3525, LMG 11498, NCIMB 12898, NRIC 1722

straininfo link

  • @ref: 76292
  • straininfo: 125691

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny16995536Leuconostoc carnosum associated with spoilage of refrigerated whole cooked hams in Greece.Samelis J, Bjorkroth J, Kakouri A, Rementzis JJ Food Prot10.4315/0362-028x-69.9.22682006Aldehyde-Lyases/*analysis, Animals, Consumer Product Safety, Cytochrome P-450 Enzyme System/*analysis, Food Contamination/*analysis, Food Preservation/*methods/standards, Greece, Humans, Lactobacillus/classification/genetics/growth & development, Leuconostoc/classification/genetics/*growth & development, Meat Products/*microbiology, *Phylogeny, Polymorphism, Restriction Fragment Length, Refrigeration, Ribotyping, Species Specificity, SwinePathogenicity
Genetics21994929Genome sequence of Leuconostoc carnosum KCTC 3525.Nam SH, Kim A, Choi SH, Kang A, Kim DW, Kim RN, Kim DS, Park HSJ Bacteriol10.1128/JB.06028-112011Base Composition, DNA, Bacterial/*chemistry/*genetics, Food Industry/methods, Food Microbiology, *Genome, Bacterial, Leuconostoc/*genetics/isolation & purification, Molecular Sequence Data, Sequence Analysis, DNA/methodsBiotechnology

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
2228Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 5576)https://www.dsmz.de/collection/catalogue/details/culture/DSM-5576
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
34246Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/15104
49879Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 30059)https://www.ccug.se/strain?id=30059
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
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
76292Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID125691.1StrainInfo: A central database for resolving microbial strain identifiers
117189Curators of the CIPCollection of Institut Pasteur (CIP 103319)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103319