Strain identifier
BacDive ID: 167
Type strain:
Species: Winkia neuii
Strain Designation: 97/90
Strain history: CIP <- 1994, G. Funke, Dept. Med. Mikrobiol., Zürich, Switzerland: strain 97/90
NCBI tax ID(s): 1120945 (strain), 33007 (species)
General
@ref: 3307
BacDive-ID: 167
DSM-Number: 8576
keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-positive, rod-shaped, colony-forming
description: Winkia neuii 97/90 is a facultative anaerobe, mesophilic, Gram-positive bacterium that forms circular colonies and was isolated from infected mammary hematoma.
NCBI tax id
NCBI tax id | Matching level |
---|---|
1120945 | strain |
33007 | species |
strain history
@ref | history |
---|---|
3307 | <- G. Funke, 50/90 |
41360 | 1994, G. Funke, Dept. Med. Mikrobiol., Zürich, Switzerland: strain 97/90 |
121279 | CIP <- 1994, G. Funke, Dept. Med. Mikrobiol., Zürich, Switzerland: strain 97/90 |
doi: 10.13145/bacdive167.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Actinomycetales
- family: Actinomycetaceae
- genus: Winkia
- species: Winkia neuii
- full scientific name: Winkia neuii (Funke et al. 1994) Nouioui et al. 2018
synonyms
- @ref: 20215
- synonym: Actinomyces neuii
@ref: 3307
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Actinomycetaceae
genus: Winkia
species: Winkia neuii subsp. neuii
full scientific name: Winkia neuii subsp. neuii (Funke et al. 1994) Nouioui et al. 2018
strain designation: 97/90
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell shape | motility |
---|---|---|---|
23109 | positive | rod-shaped | no |
121279 | positive | rod-shaped | no |
colony morphology
@ref | type of hemolysis | hemolysis ability | colony size | colony color | colony shape | incubation period | medium used |
---|---|---|---|---|---|---|---|
23109 | alpha | 1 | 0.5-1.5 mm | white and creamy | circular | 2 days | sheep blood agar |
121279 |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
3307 | COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) | yes | https://mediadive.dsmz.de/medium/693 | Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base |
23109 | sheep blood agar | yes | ||
41360 | MEDIUM 6 - Columbia agar with 10 % horse blood | yes | Distilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml) | |
121279 | CIP Medium 6 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=6 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
3307 | positive | growth | 37 | mesophilic |
41360 | positive | growth | 37 | mesophilic |
50931 | positive | growth | 37 | mesophilic |
121279 | positive | growth | 30-41 | |
121279 | no | growth | 10 | psychrophilic |
121279 | no | growth | 25 | mesophilic |
121279 | no | growth | 45 | thermophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
23109 | facultative anaerobe |
50931 | microaerophile |
spore formation
- @ref: 23109
- spore formation: no
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
121279 | NaCl | positive | growth | 0-6 % |
121279 | NaCl | no | growth | 8 % |
121279 | NaCl | no | growth | 10 % |
murein
- @ref: 3307
- murein short key: A11.51
- type: A5alpha L-Lys-L-Lys-D-Glu
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
23109 | 16808 | 2-dehydro-D-gluconate | - | builds acid from |
23109 | 17108 | D-arabinose | - | builds acid from |
23109 | 17924 | D-sorbitol | - | builds acid from |
23109 | 62345 | L-rhamnose | - | builds acid from |
23109 | 17266 | L-sorbose | - | builds acid from |
23109 | 65328 | L-xylose | - | builds acid from |
23109 | 17814 | salicin | - | builds acid from |
23109 | 4853 | esculin | - | hydrolysis |
23109 | 5291 | gelatin | - | hydrolysis |
23109 | 16199 | urea | - | hydrolysis |
23109 | 17426 | 5-dehydro-D-gluconate | + | builds acid from |
23109 | 18333 | D-arabitol | + | builds acid from |
23109 | 15824 | D-fructose | + | builds acid from |
23109 | 12936 | D-galactose | + | builds acid from |
23109 | 17634 | D-glucose | + | builds acid from |
23109 | 62318 | D-lyxose | + | builds acid from |
23109 | 16899 | D-mannitol | + | builds acid from |
23109 | 16024 | D-mannose | + | builds acid from |
23109 | 16988 | D-ribose | + | builds acid from |
23109 | 65327 | D-xylose | + | builds acid from |
23109 | 17113 | erythritol | + | builds acid from |
23109 | 17754 | glycerol | + | builds acid from |
23109 | 17268 | myo-inositol | + | builds acid from |
23109 | 17716 | lactose | + | builds acid from |
23109 | 17306 | maltose | + | builds acid from |
23109 | 6731 | melezitose | + | builds acid from |
23109 | 28053 | melibiose | + | builds acid from |
23109 | 16634 | raffinose | + | builds acid from |
23109 | 17992 | sucrose | + | builds acid from |
23109 | 27082 | trehalose | + | builds acid from |
23109 | 17632 | nitrate | + | reduction |
23109 | 15963 | ribitol | +/- | builds acid from |
23109 | 17057 | cellobiose | +/- | builds acid from |
23109 | 17108 | D-arabinose | +/- | builds acid from |
23109 | 28847 | D-fucose | +/- | builds acid from |
23109 | 16443 | D-tagatose | +/- | builds acid from |
23109 | 16813 | galactitol | +/- | builds acid from |
23109 | 28066 | gentiobiose | +/- | builds acid from |
23109 | 24265 | gluconate | +/- | builds acid from |
23109 | 28087 | glycogen | +/- | builds acid from |
23109 | 15443 | inulin | +/- | builds acid from |
23109 | 18403 | L-arabitol | +/- | builds acid from |
23109 | 18287 | L-fucose | +/- | builds acid from |
23109 | 43943 | methyl alpha-D-mannoside | +/- | builds acid from |
23109 | 37657 | methyl D-glucoside | +/- | builds acid from |
23109 | 506227 | N-acetylglucosamine | +/- | builds acid from |
23109 | 17151 | xylitol | +/- | builds acid from |
121279 | 16947 | citrate | - | carbon source |
121279 | 4853 | esculin | - | hydrolysis |
121279 | 606565 | hippurate | + | hydrolysis |
121279 | 17632 | nitrate | + | reduction |
121279 | 16301 | nitrite | - | reduction |
121279 | 17632 | nitrate | + | respiration |
68380 | 16199 | urea | - | hydrolysis |
68380 | 29016 | arginine | - | hydrolysis |
68380 | 16024 | D-mannose | - | fermentation |
68380 | 16634 | raffinose | + | fermentation |
68380 | 29985 | L-glutamate | - | degradation |
68380 | 17632 | nitrate | + | reduction |
68380 | 27897 | tryptophan | - | energy source |
antibiotic resistance
- @ref: 121279
- metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
- is antibiotic: yes
- is sensitive: yes
- is resistant: no
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
121279 | 35581 | indole | no |
68380 | 35581 | indole | no |
metabolite tests
@ref | Chebi-ID | metabolite | indole test | voges-proskauer-test | methylred-test |
---|---|---|---|---|---|
68380 | 35581 | indole | - | ||
121279 | 15688 | acetoin | + | ||
121279 | 17234 | glucose | - |
enzymes
@ref | value | activity | ec |
---|---|---|---|
23109 | acid phosphatase | - | 3.1.3.2 |
23109 | alkaline phosphatase | - | 3.1.3.1 |
23109 | alpha-galactosidase | + | 3.2.1.22 |
23109 | alpha-glucosidase | + | 3.2.1.20 |
23109 | alpha-mannosidase | + | 3.2.1.24 |
23109 | beta-galactosidase | + | 3.2.1.23 |
23109 | beta-glucosidase | - | 3.2.1.21 |
23109 | beta-glucuronidase | - | 3.2.1.31 |
23109 | catalase | + | 1.11.1.6 |
23109 | chymotrypsin | - | 3.4.4.5 |
23109 | leucine arylamidase | + | 3.4.11.1 |
23109 | pyrazinamidase | + | 3.5.1.B15 |
23109 | trypsin | - | 3.4.21.4 |
23109 | valine arylamidase | - | |
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 |
68380 | glutamyl-glutamate arylamidase | - | |
68380 | histidine arylamidase | - | |
68380 | glycin arylamidase | + | |
68380 | alanine arylamidase | + | 3.4.11.2 |
68380 | tyrosine arylamidase | - | |
68380 | pyrrolidonyl arylamidase | - | 3.4.19.3 |
68380 | proline-arylamidase | + | 3.4.11.5 |
68380 | alkaline phosphatase | - | 3.1.3.1 |
68380 | tryptophan deaminase | - | 4.1.99.1 |
68380 | alpha-fucosidase | - | 3.2.1.51 |
68380 | glutamate decarboxylase | - | 4.1.1.15 |
68380 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68380 | beta-glucuronidase | - | 3.2.1.31 |
68380 | alpha-arabinosidase | - | 3.2.1.55 |
68380 | beta-glucosidase | - | 3.2.1.21 |
68380 | alpha-glucosidase | + | 3.2.1.20 |
68380 | beta-Galactosidase 6-phosphate | - | |
68380 | beta-galactosidase | + | 3.2.1.23 |
68380 | alpha-galactosidase | + | 3.2.1.22 |
68380 | arginine dihydrolase | - | 3.5.3.6 |
68380 | urease | - | 3.5.1.5 |
121279 | oxidase | - | |
121279 | beta-galactosidase | + | 3.2.1.23 |
121279 | alcohol dehydrogenase | - | 1.1.1.1 |
121279 | gelatinase | - | |
121279 | amylase | - | |
121279 | DNase | - | |
121279 | caseinase | - | 3.4.21.50 |
121279 | catalase | + | 1.11.1.6 |
121279 | tween esterase | +/- | |
121279 | gamma-glutamyltransferase | - | 2.3.2.2 |
121279 | lecithinase | - | |
121279 | lysine decarboxylase | - | 4.1.1.18 |
121279 | ornithine decarboxylase | + | 4.1.1.17 |
121279 | phenylalanine ammonia-lyase | - | 4.3.1.24 |
121279 | tryptophan deaminase | - | |
121279 | urease | - | 3.5.1.5 |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
121279 | - | - | + | + | - | + | - | - | - | - | - | - | - | + | - | - | - | - | - | - |
API rID32A
@ref | URE | ADH Arg | alpha GAL | beta GAL | beta GP | alpha GLU | beta GLU | alpha ARA | beta GUR | beta NAG | MNE | RAF | GDC | alpha FUC | NIT | IND | PAL | ArgA | ProA | LGA | PheA | LeuA | PyrA | TyrA | AlaA | GlyA | HisA | GGA | SerA |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
3307 | - | - | + | + | - | + | - | - | - | - | - | + | - | - | + | - | - | +/- | + | +/- | +/- | +/- | - | - | + | + | - | - | +/- |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | isolation date |
---|---|---|---|---|---|---|
3307 | infected mammary hematoma | Zürich | Switzerland | CHE | Europe | |
23109 | abscesses in association with mixed anaerobic flora, mammary hematoma | |||||
50931 | Human infected mammary hematoma | Zürich | Switzerland | CHE | Europe | |
121279 | Human, Infected mammary hematoma | Zurich | Switzerland | CHE | Europe | 1990 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host Body-Site | #Other | #Abscess |
#Condition | #Anoxic (anaerobic) | |
#Infection | #Disease | |
#Host Body-Site | #Other | #Thoracic segment |
taxonmaps
- @ref: 69479
- File name: preview.99_2565.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_16309;96_1377;97_1637;98_1988;99_2565&stattab=map
- Last taxonomy: Winkia neuii subclade
- 16S sequence: X71861
- Sequence Identity:
- Total samples: 30781
- soil counts: 753
- aquatic counts: 890
- animal counts: 28891
- plant counts: 247
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
3307 | 2 | Risk group (German classification) |
121279 | 2 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Actinomyces neuii subsp. neuii partial 16S rRNA gene, isolate DSM 8576 | AM084228 | 1495 | ena | 144053 |
23109 | Actinomyces neuii subsp. neui 16S rRNA gene, strain 97/90 | X71861 | 1487 | nuccore | 144053 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Winkia neuii subsp. neuii DSM 8576 | GCA_000420405 | contig | ncbi | 1120945 |
66792 | Actinomyces neuii subsp. neuii DSM 8576 | 1120945.3 | wgs | patric | 1120945 |
66792 | Actinomyces neuii neuii DSM 8576 | 2524023166 | draft | img | 1120945 |
GC content
@ref | GC-content | method |
---|---|---|
3307 | 55 | thermal denaturation, midpoint method (Tm) |
23109 | 55.0 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | no | 93.872 | yes |
flagellated | no | 97.141 | yes |
gram-positive | yes | 92.626 | yes |
anaerobic | no | 86.548 | yes |
aerobic | no | 94.381 | yes |
halophile | no | 69.129 | no |
spore-forming | no | 95.357 | no |
glucose-util | yes | 89.609 | no |
thermophile | no | 95.01 | yes |
glucose-ferment | yes | 74.565 | no |
External links
@ref: 3307
culture collection no.: CCUG 32252, DSM 8576, ATCC 51847, CIP 104015
straininfo link
- @ref: 69849
- straininfo: 7828
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
3307 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 8576) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-8576 | |||
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 | |
23109 | GUIDO FUNKE, SIMON STUBBS, ALEXANDER VON GRAEVENITZ, MATTHEW D. COLLINS | 10.1099/00207713-44-1-167 | Assignment of Human-Derived CDC Group 1 Coryneform Bacteria and CDC Group 1-Like Coryneform Bacteria to the Genus Actinomyces as Actinomyces neuii subsp. neuii sp. nov., subsp. nov., and Actinomyces neuii subsp. anitratus subsp. nov. | IJSEM 44: 167-171 1994 | 8123558 | |
41360 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/15876 | ||||
50931 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 32252) | https://www.ccug.se/strain?id=32252 | |||
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) | |||
68380 | Automatically annotated from API rID32A | |||||
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 | |||
69849 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID7828.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
121279 | Curators of the CIP | Collection of Institut Pasteur (CIP 104015) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104015 |