Strain identifier
BacDive ID: 6844
Type strain:
Species: Weissella confusa
Strain Designation: 548-D
Strain history: CIP <- 1988, NCIB, Lactobacillus confusus <- 1961, NRRL: B-1064 <- C.S. McCleskey: strain 548D, Leuconostoc mesenteroides
NCBI tax ID(s): 1583 (species)
General
@ref: 8469
BacDive-ID: 6844
DSM-Number: 20196
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-positive, rod-shaped, human pathogen
description: Weissella confusa 548-D is an aerobe, mesophilic, Gram-positive human pathogen that was isolated from sugar cane.
NCBI tax id
- NCBI tax id: 1583
- Matching level: species
strain history
@ref | history |
---|---|
8469 | <- ATCC <- C.S. McCleskey, 548-D |
67770 | T. Mitsuoka S8-9 <-- DSM 20196 <-- ATCC 10881 (Leuconostoc mesenteroides) <-- C. S. McCleskey 548-D. |
118727 | CIP <- 1988, NCIB, Lactobacillus confusus <- 1961, NRRL: B-1064 <- C.S. McCleskey: strain 548D, Leuconostoc mesenteroides |
doi: 10.13145/bacdive6844.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Bacilli
- order: Lactobacillales
- family: Lactobacillaceae
- genus: Weissella
- species: Weissella confusa
- full scientific name: Weissella confusa corrig. (Holzapfel and Kandler 1969) Collins et al. 1994
synonyms
@ref synonym 20215 Lactobacillus coprophilus subsp. confusus 20215 Lactobacillus confusus 20215 Lactobacillus confusa
@ref: 8469
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Lactobacillales
family: Leuconostocaceae
genus: Weissella
species: Weissella confusa
full scientific name: Weissella confusa (Holzapfel and Kandler 1969) Collins et al. 1994
strain designation: 548-D
type strain: yes
Morphology
cell morphology
- @ref: 118727
- gram stain: positive
- cell shape: rod-shaped
- motility: no
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
8469 | MRS MEDIUM (DSMZ Medium 11) | yes | https://mediadive.dsmz.de/medium/11 | Name: 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 |
34122 | MEDIUM 40- for Lactobacillus and Leuconostoc | yes | Distilled water make up to (1000.000 ml);Man Rogosa Sharp agar (68.000 g) | |
118727 | CIP Medium 40 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=40 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
8469 | positive | growth | 30 | mesophilic |
34122 | positive | growth | 30 | mesophilic |
49916 | positive | growth | 30-37 | mesophilic |
67770 | positive | growth | 30 | mesophilic |
118727 | positive | growth | 15-45 | |
118727 | no | growth | 10 | psychrophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
49916 | aerobe |
49916 | microaerophile |
118727 | facultative anaerobe |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
118727 | NaCl | positive | growth | 0-4 % |
118727 | NaCl | no | growth | 6 % |
118727 | NaCl | no | growth | 8 % |
118727 | NaCl | no | growth | 10 % |
murein
- @ref: 8469
- murein short key: A11.04
- type: A3alpha L-Lys-L-Ala
metabolite utilization
@ref | metabolite | utilization activity | kind of utilization tested | Chebi-ID |
---|---|---|---|---|
68371 | Potassium 5-ketogluconate | - | builds acid from | |
68371 | L-arabitol | - | builds acid from | 18403 |
68371 | D-arabitol | - | builds acid from | 18333 |
68371 | L-fucose | - | builds acid from | 18287 |
68371 | D-fucose | - | builds acid from | 28847 |
68371 | D-tagatose | - | builds acid from | 16443 |
68371 | D-lyxose | - | builds acid from | 62318 |
68371 | turanose | - | builds acid from | 32528 |
68371 | gentiobiose | - | builds acid from | 28066 |
68371 | xylitol | - | builds acid from | 17151 |
68371 | glycogen | - | builds acid from | 28087 |
68371 | starch | - | builds acid from | 28017 |
68371 | raffinose | - | builds acid from | 16634 |
68371 | melezitose | - | builds acid from | 6731 |
68371 | inulin | - | builds acid from | 15443 |
68371 | trehalose | - | builds acid from | 27082 |
68371 | sucrose | - | builds acid from | 17992 |
68371 | melibiose | - | builds acid from | 28053 |
68371 | lactose | - | builds acid from | 17716 |
68371 | maltose | + | builds acid from | 17306 |
68371 | cellobiose | + | builds acid from | 17057 |
68371 | esculin | + | builds acid from | 4853 |
68371 | arbutin | - | builds acid from | 18305 |
68371 | amygdalin | + | builds acid from | 27613 |
68371 | N-acetylglucosamine | + | builds acid from | 59640 |
68371 | methyl alpha-D-glucopyranoside | - | builds acid from | 320061 |
68371 | methyl alpha-D-mannoside | - | builds acid from | 43943 |
68371 | D-sorbitol | - | builds acid from | 17924 |
68371 | D-mannitol | - | builds acid from | 16899 |
68371 | myo-inositol | - | builds acid from | 17268 |
68371 | galactitol | - | builds acid from | 16813 |
68371 | L-rhamnose | - | builds acid from | 62345 |
68371 | L-sorbose | - | builds acid from | 17266 |
68371 | D-mannose | + | builds acid from | 16024 |
68371 | D-fructose | + | builds acid from | 15824 |
68371 | D-glucose | + | builds acid from | 17634 |
68371 | D-galactose | + | builds acid from | 12936 |
68371 | methyl beta-D-xylopyranoside | - | builds acid from | 74863 |
68371 | ribitol | - | builds acid from | 15963 |
68371 | L-xylose | - | builds acid from | 65328 |
68371 | D-xylose | + | builds acid from | 65327 |
68371 | L-arabinose | - | builds acid from | 30849 |
68371 | D-arabinose | - | builds acid from | 17108 |
68371 | erythritol | - | builds acid from | 17113 |
68371 | glycerol | - | builds acid from | 17754 |
118727 | citrate | - | carbon source | 16947 |
118727 | nitrate | - | reduction | 17632 |
118727 | nitrite | - | reduction | 16301 |
118727 | nitrate | + | respiration | 17632 |
antibiotic resistance
- @ref: 118727
- metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
- is antibiotic: yes
- is sensitive: no
- is resistant: yes
metabolite tests
- @ref: 118727
- Chebi-ID: 15688
- metabolite: acetoin
- voges-proskauer-test: -
enzymes
@ref | value | activity | ec |
---|---|---|---|
68382 | alpha-fucosidase | - | 3.2.1.51 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | beta-glucosidase | + | 3.2.1.21 |
68382 | alpha-glucosidase | - | 3.2.1.20 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | beta-galactosidase | - | 3.2.1.23 |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | naphthol-AS-BI-phosphohydrolase | + | |
68382 | acid phosphatase | + | 3.1.3.2 |
68382 | alpha-chymotrypsin | + | 3.4.21.1 |
68382 | trypsin | - | 3.4.21.4 |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | valine arylamidase | - | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | lipase (C 14) | - | |
68382 | esterase lipase (C 8) | - | |
68382 | esterase (C 4) | - | |
68382 | alkaline phosphatase | + | 3.1.3.1 |
118727 | oxidase | - | |
118727 | alcohol dehydrogenase | + | 1.1.1.1 |
118727 | gelatinase | - | |
118727 | caseinase | - | 3.4.21.50 |
118727 | catalase | - | 1.11.1.6 |
118727 | lysine decarboxylase | - | 4.1.1.18 |
118727 | ornithine decarboxylase | - | 4.1.1.17 |
API zym
@ref | Control | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- Fucosidase |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
118727 | - | + | - | - | - | + | - | - | - | + | + | + | - | - | - | - | + | - | - | - |
API 50CHac
@ref | Q | GLY | ERY | DARA | LARA | RIB | DXYL | LXYL | ADO | MDX | GAL | GLU | FRU | MNE | SBE | RHA | DUL | INO | MAN | SOR | MDM | MDG | NAG | AMY | ARB | ESC | SAL | CEL | MAL | LAC | MEL | SAC | TRE | INU | MLZ | RAF | AMD | GLYG | XLT | GEN | TUR | LYX | TAG | DFUC | LFUC | DARL | LARL | GNT | 2KG | 5KG |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
8469 | - | - | - | - | - | + | + | - | - | - | + | + | + | + | - | - | - | - | - | - | - | - | + | + | - | + | - | + | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
8469 | - | - | - | - | - | - | + | - | - | - | + | + | + | + | - | - | - | - | - | - | - | - | + | + | - | + | + | + | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | +/- | +/- | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | country | origin.country | continent | isolation date |
---|---|---|---|---|---|
8469 | sugar cane | ||||
67770 | Sugar cane | ||||
118727 | Other, Sugarcane juice | United States of America | USA | North America | 1946 |
isolation source categories
- Cat1: #Host
- Cat2: #Plants
- Cat3: #Herbaceous plants (Grass,Crops)
taxonmaps
- @ref: 69479
- File name: preview.99_7464.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_155;96_519;97_786;98_910;99_7464&stattab=map
- Last taxonomy: Weissella
- 16S sequence: AB023241
- Sequence Identity:
- Total samples: 13671
- soil counts: 505
- aquatic counts: 937
- animal counts: 11257
- plant counts: 972
Safety information
risk assessment
@ref | pathogenicity human | pathogenicity animal | biosafety level | biosafety level comment |
---|---|---|---|---|
8469 | yes, in single cases | yes, in single cases | 1 | Risk group (German classification) |
118727 | 1 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Weissella confusa DNA for 16S ribosomal RNA, strain JCM 1093 | AB023241 | 1477 | ena | 1583 |
20218 | Weissella confusa gene for 16S rRNA, partial sequence, strain: JCM 1093 | AB596944 | 1499 | ena | 1583 |
20218 | Lactobacillus confusus gene for 16S ribosomal RNA, partial sequence | D31684 | 230 | ena | 1583 |
67770 | Weissella confusa gene for 16S ribosomal RNA, partial sequence, strain: JCM 1093 | LC063164 | 1538 | ena | 1583 |
67770 | L.confusus 16S small subunit ribosomal RNA | M23036 | 1525 | ena | 1583 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Weissella confusa NBRC 106469 | GCA_007991875 | contig | ncbi | 1583 |
66792 | Weissella confusa strain DSM 20196 | 1583.306 | wgs | patric | 1583 |
66792 | Weissella confusa strain DSM 20196 | 1583.20 | wgs | patric | 1583 |
66792 | Weissella confusa strain NBRC 106469 | 1583.181 | wgs | patric | 1583 |
66792 | Weissella confusa DSM 20196 | 2660238305 | draft | img | 1583 |
67770 | Weissella confusa DSM 20196 | GCA_001436895 | scaffold | ncbi | 1583 |
GC content
@ref | GC-content | method |
---|---|---|
8469 | 45.0 | |
67770 | 45 | thermal denaturation, midpoint method (Tm) |
67770 | 46.6 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | no | 97.723 | no |
gram-positive | yes | 95.088 | no |
anaerobic | no | 92.508 | yes |
aerobic | no | 95.167 | no |
halophile | yes | 93.106 | no |
spore-forming | no | 96.301 | no |
thermophile | no | 99.741 | yes |
glucose-util | yes | 89.757 | no |
flagellated | no | 98.674 | no |
glucose-ferment | yes | 88.541 | no |
External links
@ref: 8469
culture collection no.: DSM 20196, ATCC 10881, NCDO 1586, NCIB 9311, CCUG 30113, JCM 1093, BCRC 14002, CECT 4707, CIP 103172, LMG 9497, NBRC 106469, NCIMB 9311, NRIC 0207, NRRL B-1064, VTT E-90393
straininfo link
- @ref: 76309
- straininfo: 3269
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Metabolism | 4259626 | Some slime-forming heterofermentative species of the genus Lactobacillus. | Sharpe ME, Garvie EI, Tilbury RH | Appl Microbiol | 10.1128/am.23.2.389-397.1972 | 1972 | Ammonia/biosynthesis, Arginine/metabolism, Carbohydrate Metabolism, Chromatography, Gas, Chromatography, Paper, Fermentation, Flavonoids/metabolism, Fructose-Bisphosphate Aldolase/analysis, Glycoside Hydrolases, L-Lactate Dehydrogenase/analysis, Lactates/biosynthesis, Lactobacillus/analysis/*classification/enzymology/growth & development/*metabolism, Leuconostoc/classification, Penicillium/enzymology, Phosphofructokinase-1/analysis, Polysaccharides, Bacterial/analysis/biosynthesis, Pyruvate Oxidase/analysis, Species Specificity, Spectrophotometry, Terminology as Topic | Phylogeny |
8910918 | Lactobacillus- and bifidobacterium-mediated antigenotoxicity in the colon of rats. | Pool-Zobel BL, Neudecker C, Domizlaff I, Ji S, Schillinger U, Rumney C, Moretti M, Vilarini I, Scassellati-Sforzolini R, Rowland I | Nutr Cancer | 10.1080/01635589609514492 | 1996 | 1,2-Dimethylhydrazine, Animals, *Anticarcinogenic Agents, *Antimutagenic Agents, Bifidobacterium/*physiology, Carcinogens/administration & dosage, Colon/*microbiology, Colonic Neoplasms/genetics/prevention & control, DNA Damage, Dimethylhydrazines/administration & dosage, Immunohistochemistry, Lactobacillus/*physiology, Lactobacillus acidophilus/physiology, Male, Methylnitronitrosoguanidine/administration & dosage, Proliferating Cell Nuclear Antigen/analysis, Rats, Rats, Sprague-Dawley | ||
Metabolism | 27233126 | Molecular cloning of kman coding for mannanase from Klebsiella oxytoca KUB-CW2-3 and its hybrid mannanase characters. | Pongsapipatana N, Damrongteerapap P, Chantorn S, Sintuprapa W, Keawsompong S, Nitisinprasert S | Enzyme Microb Technol | 10.1016/j.enzmictec.2016.03.005 | 2016 | Amino Acid Sequence, Bacterial Proteins/chemistry/*genetics/*metabolism, Cloning, Molecular, Escherichia coli/enzymology/genetics, Genes, Bacterial, Klebsiella oxytoca/*enzymology/*genetics, Mannans/metabolism, Models, Molecular, Protein Conformation, Recombinant Proteins/chemistry/genetics/metabolism, Substrate Specificity, beta-Mannosidase/chemistry/*genetics/*metabolism | Enzymology |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
8469 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20196) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-20196 | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
34122 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/14940 | ||||
49916 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 30113) | https://www.ccug.se/strain?id=30113 | |||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
68371 | Automatically annotated from API 50CH acid | |||||
68382 | Automatically annotated from API zym | |||||
69479 | João 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 | |||
76309 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID3269.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
118727 | Curators of the CIP | Collection of Institut Pasteur (CIP 103172) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103172 |