Strain identifier
BacDive ID: 95
Type strain:
Species: Komagataeibacter sucrofermentans
Strain history: CIP <- 1999, JCM <- T. Tsuchida: strain BPR2001
NCBI tax ID(s): 1307942 (strain), 1053551 (species)
General
@ref: 6212
BacDive-ID: 95
DSM-Number: 15973
keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, Gram-negative, polysaccharide production
description: Komagataeibacter sucrofermentans DSM 15973 is an obligate aerobe, mesophilic, Gram-negative bacterium that produces polysaccharides and was isolated from black cherry.
NCBI tax id
NCBI tax id | Matching level |
---|---|
1053551 | species |
1307942 | strain |
strain history
@ref | history |
---|---|
6212 | <- JCM; JCM 9730 <- T. Tsuchida, Bio-Polymer Research Co., Ltd., Takatsu-ku, Kawasaki 213, Japan; BPR 2001 |
67770 | T. Tsuchida BPR2001. |
123370 | CIP <- 1999, JCM <- T. Tsuchida: strain BPR2001 |
doi: 10.13145/bacdive95.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Rhodospirillales
- family: Acetobacteraceae
- genus: Komagataeibacter
- species: Komagataeibacter sucrofermentans
- full scientific name: Komagataeibacter sucrofermentans (Toyosaki et al. 1996) Yamada et al. 2013
synonyms
@ref synonym 20215 Komagatabacter sucrofermentans 20215 Gluconacetobacter sucrofermentans 20215 Acetobacter xylinum subsp. sucrofermentans 20215 Acetobacter xylinus subsp. sucrofermentans
@ref: 6212
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Acetobacteraceae
genus: Komagataeibacter
species: Komagataeibacter sucrofermentans
full scientific name: Komagataeibacter sucrofermentans (Toyosaki et al. 1996) Yamada et al. 2013
type strain: yes
Morphology
cell morphology
@ref | gram stain | confidence | cell shape | motility |
---|---|---|---|---|
69480 | negative | 99.965 | ||
123370 | negative | rod-shaped | no |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
6212 | GLUCONOBACTER OXYDANS MEDIUM (DSMZ Medium 105) | yes | https://mediadive.dsmz.de/medium/105 | Name: GLUCONOBACTER OXYDANS MEDIUM (DSMZ Medium 105; with strain-specific modifications) Composition: Glucose 100.0 g/l CaCO3 30.0 g/l Agar 15.0 g/l Yeast extract 10.0 g/l Distilled water |
39824 | MEDIUM 1 - for Acetobacter, Azotobacter, Gluconobacter, Gluconacetobacter, Mesorhizodium ciceri and Pseudomonas doudoroffii | yes | Distilled water make up to (1000.000 ml);Agar (15.000 g);Yeast extract (5.000 g);Peptone (3.000 g);Mannitol (25.000 g) | |
123370 | CIP Medium 314 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=314 | |
123370 | CIP Medium 1 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=1 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
6212 | positive | growth | 28 | mesophilic |
39824 | positive | growth | 30 | mesophilic |
67770 | positive | growth | 28 | mesophilic |
123370 | positive | growth | 22-37 | |
123370 | no | growth | 10 | psychrophilic |
123370 | no | growth | 41 | thermophilic |
123370 | no | growth | 45 | thermophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 123370
- oxygen tolerance: obligate aerobe
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.996 |
compound production
- @ref: 6212
- compound: cellulose
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
123370 | NaCl | positive | growth | 0 % |
123370 | NaCl | no | growth | 2 % |
123370 | NaCl | no | growth | 4 % |
123370 | NaCl | no | growth | 6 % |
123370 | NaCl | no | growth | 8 % |
123370 | NaCl | no | growth | 10 % |
observation
- @ref: 67770
- observation: quinones: Q-10
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
123370 | 606565 | hippurate | - | hydrolysis |
123370 | 17632 | nitrate | - | reduction |
123370 | 16301 | nitrite | - | reduction |
antibiotic resistance
- @ref: 123370
- metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
- is antibiotic: yes
- is sensitive: no
- is resistant: yes
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
67770 | 62968 | cellulose | yes |
123370 | 35581 | indole | no |
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 |
123370 | oxidase | - | |
123370 | beta-galactosidase | - | 3.2.1.23 |
123370 | gelatinase | - | |
123370 | catalase | + | 1.11.1.6 |
123370 | gamma-glutamyltransferase | - | 2.3.2.2 |
123370 | 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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
123370 | - | - | + | + | - | - | - | - | - | - | - | + | - | - | - | - | - | + | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
6212 | black cherry | Tokyo | Japan | JPN | Asia |
67770 | Cherry | ||||
123370 | Black cherry | Tokyo | Japan | JPN | Asia |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host | #Plants | #Tree |
#Climate | #Temperate |
taxonmaps
- @ref: 69479
- File name: preview.99_79.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_29;96_64;97_67;98_72;99_79&stattab=map
- Last taxonomy: Komagataeibacter
- 16S sequence: AJ007698
- Sequence Identity:
- Total samples: 4067
- soil counts: 662
- aquatic counts: 523
- animal counts: 2327
- plant counts: 555
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
6212 | 1 | Risk group (German classification) |
123370 | 1 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Gluconacetobacter sucrofermentans gene for 16S rRNA, partial sequence, strain: JCM 9730 | AB205217 | 1445 | ena | 1307942 |
20218 | Gluconacetobacter sucrofermentans gene for 16S rRNA, partial sequence, strain: JCM 9730 | AB598742 | 1411 | ena | 1307942 |
20218 | Gluconacetobacter sucrofermentans gene for 16S rRNA, partial sequence, strain: JCM 9730 | AB645735 | 1411 | ena | 1307942 |
6212 | Gluconacetobacter sucrofermentans partial 16S rRNA gene, type strain BPR 2001T | AJ007698 | 1463 | ena | 1307942 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Komagataeibacter sucrofermentans strain LMG 18788 | 1053551.5 | wgs | patric | 1053551 |
66792 | Komagataeibacter sucrofermentans LMG 18788 | 2846444558 | draft | img | 1053551 |
67770 | Komagataeibacter sucrofermentans LMG 18788 | GCA_003207865 | contig | ncbi | 1053551 |
GC content
@ref | GC-content | method |
---|---|---|
6212 | 62.7 | high performance liquid chromatography (HPLC) |
67770 | 62.3 | high performance liquid chromatography (HPLC) |
67770 | 62.4 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | no | 86.66 | no |
flagellated | no | 96.952 | no |
gram-positive | no | 97.13 | no |
anaerobic | no | 98.593 | no |
aerobic | yes | 81.277 | no |
halophile | no | 93.132 | no |
spore-forming | no | 95.899 | no |
thermophile | no | 94.319 | no |
glucose-util | yes | 92.958 | no |
glucose-ferment | no | 85.774 | no |
External links
@ref: 6212
culture collection no.: DSM 15973, BCC 7227, JCM 9730, LMG 18788, BPR 2001, ATCC 700178, BCRC 80162, CECT 7291, CIP 106078
straininfo link
- @ref: 69778
- straininfo: 12433
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 19915110 | Phylogeny and differentiation of species of the genus Gluconacetobacter and related taxa based on multilocus sequence analyses of housekeeping genes and reclassification of Acetobacter xylinus subsp. sucrofermentans as Gluconacetobacter sucrofermentans (Toyosaki et al. 1996) sp. nov., comb. nov. | Cleenwerck I, De Vos P, De Vuyst L | Int J Syst Evol Microbiol | 10.1099/ijs.0.018465-0 | 2009 | Amplified Fragment Length Polymorphism Analysis, Bacterial Proteins/genetics, Bacterial Typing Techniques, Chaperonin 60/genetics, Cluster Analysis, DNA Fingerprinting, DNA, Bacterial/chemistry/genetics, DNA-Directed RNA Polymerases/genetics, Gluconacetobacter/*classification/*genetics, Gluconacetobacter xylinus/*classification/*genetics, Molecular Chaperones/genetics, Molecular Sequence Data, Multilocus Sequence Typing, Phylogeny, Sequence Analysis, DNA | Genetics |
Metabolism | 25458287 | Characterization of purified bacterial cellulose focused on its use on paper restoration. | Santos SM, Carbajo JM, Quintana E, Ibarra D, Gomez N, Ladero M, Eugenio ME, Villar JC | Carbohydr Polym | 10.1016/j.carbpol.2014.03.064 | 2014 | Cellulose/*chemistry/isolation & purification/metabolism, Ethanol/chemistry, Gluconacetobacter/metabolism, Hot Temperature, *Paper, Porosity, Spectroscopy, Fourier Transform Infrared, Viscosity, X-Ray Diffraction | Stress |
31459164 | Synthesis and Characterization of Bacterial Cellulose from Citrus-Based Sustainable Resources. | Andritsou V, de Melo EM, Tsouko E, Ladakis D, Maragkoudaki S, Koutinas AA, Matharu AS | ACS Omega | 10.1021/acsomega.8b01315 | 2018 | |||
34443747 | Influence of Drying Method and Argon Plasma Modification of Bacterial Nanocellulose on Keratinocyte Adhesion and Growth. | Kutova A, Stankova L, Vejvodova K, Kvitek O, Vokata B, Fajstavr D, Kolska Z, Broz A, Bacakova L, Svorcik V | Nanomaterials (Basel) | 10.3390/nano11081916 | 2021 |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
6212 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15973) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-15973 | |||
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 | |
39824 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/18168 | ||||
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/ | ||||
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 | |||
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 | |||
69778 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID12433.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
123370 | Curators of the CIP | Collection of Institut Pasteur (CIP 106078) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106078 |