Strain identifier
BacDive ID: 14292
Type strain:
Species: Zymomonas mobilis subsp. pomaceae
Strain history: IFO 13757 <-- J. De Ley strain Z.an.a <-- J. van der Toorn strain T. H. Delft <-- B. T. P. Baker strain I.
NCBI tax ID(s): 579138 (strain), 120044 (subspecies)
General
@ref: 16445
BacDive-ID: 14292
DSM-Number: 22645
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative
description: Zymomonas mobilis subsp. pomaceae DSM 22645 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from spoiled ciders.
NCBI tax id
NCBI tax id | Matching level |
---|---|
120044 | subspecies |
579138 | strain |
strain history
@ref | history |
---|---|
16445 | <- LMG <- J. Swings, Univ. Ghent, Belgium <- A. Kluyver <- B. Barker |
67770 | IFO 13757 <-- J. De Ley strain Z.an.a <-- J. van der Toorn strain T. H. Delft <-- B. T. P. Baker strain I. |
doi: 10.13145/bacdive14292.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Sphingomonadales
- family: Zymomonadaceae
- genus: Zymomonas
- species: Zymomonas mobilis subsp. pomaceae
- full scientific name: Zymomonas mobilis subsp. pomaceae (Millis 1956) De Ley and Swings 1976 (Approved Lists 1980)
@ref: 16445
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Sphingomonadales
family: Zymomonadaceae
genus: Zymomonas
species: Zymomonas mobilis subsp. pomaceae
full scientific name: Zymomonas mobilis subsp. pomaceae (Millis 1956) De Ley and Swings 1976 emend. Coton et al. 2006
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.988
colony morphology
- @ref: 46714
- incubation period: 3-6 days
Culture and growth conditions
culture medium
- @ref: 16445
- name: ZYMOMONAS MEDIUM (DSMZ Medium 10)
- growth: yes
- link: https://mediadive.dsmz.de/medium/10
- composition: Name: ZYMOMONAS MEDIUM (DSMZ Medium 10) Composition: Glucose 20.0 g/l Agar 15.0 g/l Yeast extract 10.0 g/l Bacto peptone 10.0 g/l Distilled water
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
16445 | positive | growth | 28 | mesophilic |
46714 | positive | growth | 28 | mesophilic |
46714 | positive | growth | 30 | mesophilic |
67770 | positive | growth | 30 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 46714
- oxygen tolerance: aerobe
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.997 |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
68368 | 30849 | L-arabinose | + | fermentation |
68368 | 27613 | amygdalin | + | fermentation |
68368 | 28053 | melibiose | + | fermentation |
68368 | 17992 | sucrose | + | fermentation |
68368 | 62345 | L-rhamnose | + | fermentation |
68368 | 30911 | sorbitol | + | fermentation |
68368 | 17268 | myo-inositol | + | fermentation |
68368 | 16899 | D-mannitol | + | fermentation |
68368 | 17634 | D-glucose | + | fermentation |
68368 | 5291 | gelatin | - | hydrolysis |
68368 | 27897 | tryptophan | - | energy source |
68368 | 16199 | urea | - | hydrolysis |
68368 | 16947 | citrate | - | assimilation |
68368 | 18257 | ornithine | - | degradation |
68368 | 25094 | lysine | - | degradation |
68368 | 29016 | arginine | - | hydrolysis |
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
68368 | 15688 | acetoin | no |
68368 | 35581 | indole | no |
68368 | 16136 | hydrogen sulfide | no |
metabolite tests
@ref | Chebi-ID | metabolite | voges-proskauer-test | indole test |
---|---|---|---|---|
68368 | 15688 | acetoin | - | |
68368 | 35581 | indole | - |
enzymes
@ref | value | activity | ec |
---|---|---|---|
68368 | cytochrome oxidase | - | 1.9.3.1 |
68368 | gelatinase | - | |
68368 | tryptophan deaminase | - | 4.1.99.1 |
68368 | urease | - | 3.5.1.5 |
68368 | ornithine decarboxylase | - | 4.1.1.17 |
68368 | lysine decarboxylase | - | 4.1.1.18 |
68368 | arginine dihydrolase | - | 3.5.3.6 |
68368 | beta-galactosidase | - | 3.2.1.23 |
fatty acid profile
fatty acids
@ref fatty acid percentage ECL 46714 C12:0 0.7 12 46714 C14:0 18.9 14 46714 C16:0 7.2 16 46714 C13:0 ISO 2OH 3.3 13.814 46714 C16:1 ω7c 1.5 15.819 46714 C18:1 ω7c /12t/9t 49.2 17.824 46714 C19:0 CYCLO ω8c 9.9 18.9 46714 Unidentified 0.8 9.244 46714 Unidentified 0.7 14.135 46714 Unidentified 4.5 14.283 46714 Unidentified 1.2 16.296 46714 Unidentified 2.1 18.141 - type of FA analysis: whole cell analysis
- method/protocol: CCUG
API 20E
@ref | ONPG | ADH Arg | LDC Lys | ODC | CIT | H2S | URE | TDA Trp | IND | VP | GEL | GLU | MAN | INO | Sor | RHA | SAC | MEL | AMY | ARA | OX |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
16445 | - | - | - | - | - | - | - | - | - | - | - | + | + | + | + | + | + | + | + | + | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | continent | country | origin.country |
---|---|---|---|---|
16445 | spoiled ciders | Europe | ||
46714 | Cider,sick | Europe | United Kingdom | GBR |
67770 | Sick cider | Europe | United Kingdom | GBR |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Engineered | #Food production | #Fermented |
#Environmental | #Microbial community | |
#Engineered | #Food production | #Beverage |
taxonmaps
- @ref: 69479
- File name: preview.99_6472.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_92;96_237;97_259;98_288;99_6472&stattab=map
- Last taxonomy: Zymomonas mobilis subclade
- 16S sequence: AY670649
- Sequence Identity:
- Total samples: 28
- soil counts: 6
- aquatic counts: 9
- animal counts: 7
- plant counts: 6
Safety information
risk assessment
- @ref: 16445
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Zymomonas mobilis strain ATCC 29192 16S-23S internal transcribed spacer, complete sequence | AF329202 | 231 | ena | 579138 |
20218 | Zymomonas mobilis subsp. pomaceae strain LMG 448 16S ribosomal RNA gene, partial sequence | AY670649 | 1343 | ena | 120044 |
20218 | Zymomonas mobilis subsp. pomaceae strain LMG 448 16S-23S ribosomal RNA intergenic spacer, partial sequence; tRNA-Ile and tRNA-Ala genes, complete sequence; and 23S ribosomal RNA gene, partial sequence | AY940088 | 683 | ena | 120044 |
16445 | Zymomonas mobilis strain ATCC29192 16S ribosomal RNA gene, partial sequence | AF281032 | 1452 | ena | 579138 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Zymomonas mobilis subsp. pomaceae ATCC 29192 | GCA_000218875 | complete | ncbi | 579138 |
66792 | Zymomonas mobilis subsp. pomaceae ATCC 29192 | 579138.3 | complete | patric | 579138 |
66792 | Zymomonas mobilis subsp. pomaceae ATCC 29192 | 579138.9 | plasmid | patric | 579138 |
66792 | Zymomonas mobilis subsp. pomaceae ATCC 29192 | 579138.10 | plasmid | patric | 579138 |
66792 | Zymomonas mobilis subsp. pomaceae strain NBRC 13757 | 120044.3 | wgs | patric | 120044 |
66792 | Zymomonas mobilis pomaceae Barker 1, ATCC 29192 | 650716107 | complete | img | 579138 |
66792 | Zymomonas mobilis NBRC 13757 | 2894623999 | draft | img | 542 |
67770 | Zymomonas mobilis subsp. pomaceae NBRC 13757 | GCA_006539385 | contig | ncbi | 120044 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | yes | 78.038 | no |
flagellated | no | 77.677 | no |
gram-positive | no | 96.757 | no |
anaerobic | no | 93.901 | yes |
aerobic | no | 86.246 | yes |
halophile | no | 80.366 | no |
spore-forming | no | 95.158 | no |
thermophile | no | 92.099 | yes |
glucose-util | yes | 75.844 | no |
glucose-ferment | no | 66.195 | yes |
External links
@ref: 16445
culture collection no.: DSM 22645, ATCC 29192, LMG 448, NCIMB 11200, CCUG 17912, Barker I, JCM 10191, CCM 2771, CECT 814, IFO 13757, LMG 449, LMG 453, LMG 464, LMG 465, LMG 466, NBRC 13757, NRRL B-4491
straininfo link
- @ref: 83445
- straininfo: 6513
literature
- topic: Genetics
- Pubmed-ID: 21742897
- title: Genome sequence of the ethanol-producing Zymomonas mobilis subsp. pomaceae lectotype strain ATCC 29192.
- authors: Kouvelis VN, Davenport KW, Brettin TS, Bruce D, Detter C, Han CS, Nolan M, Tapia R, Damoulaki A, Kyrpides NC, Typas MA, Pappas KM
- journal: J Bacteriol
- DOI: 10.1128/JB.05273-11
- year: 2011
- mesh: DNA, Bacterial/*chemistry/*genetics, Ethanol/metabolism, Food Microbiology, *Genome, Bacterial, Molecular Sequence Data, *Sequence Analysis, DNA, United Kingdom, Zymomonas/*genetics/isolation & purification/metabolism
- topic2: Metabolism
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
16445 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22645) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-22645 | |||
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 | |
46714 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 17912) | https://www.ccug.se/strain?id=17912 | |||
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/ | ||||
68368 | Automatically annotated from API 20E | |||||
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 | |||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
83445 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID6513.1 | StrainInfo: A central database for resolving microbial strain identifiers |