Strain identifier
BacDive ID: 2893
Type strain:
Species: Acidovorax konjaci
Strain Designation: K2
Strain history: CIP <- 2000, CCUG <- 1985, LMG, Pseudomonas pseudoalcaligenes konjaci <- 1983, PDDC: strain 7733 <- M. Goto: strain K2
NCBI tax ID(s): 32040 (species)
General
@ref: 3180
BacDive-ID: 2893
DSM-Number: 7481
keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, motile, plant pathogen
description: Acidovorax konjaci K2 is an obligate aerobe, mesophilic, motile plant pathogen that was isolated from Amorphophallus rivieri cv. konjaci.
NCBI tax id
- NCBI tax id: 32040
- Matching level: species
strain history
@ref | history |
---|---|
3180 | <- ATCC <- M. Goto; K2 |
67770 | M. Goto strain K2. |
120463 | CIP <- 2000, CCUG <- 1985, LMG, Pseudomonas pseudoalcaligenes konjaci <- 1983, PDDC: strain 7733 <- M. Goto: strain K2 |
doi: 10.13145/bacdive2893.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Burkholderiales
- family: Comamonadaceae
- genus: Acidovorax
- species: Acidovorax konjaci
- full scientific name: Acidovorax konjaci (Goto 1983) Willems et al. 1992
synonyms
@ref synonym 20215 Paracidovorax konjaci 20215 Pseudomonas pseudoalcaligenes subsp. konjaci 20215 Pseudomonas avenae subsp. konjaci
@ref: 3180
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Burkholderiales
family: Comamonadaceae
genus: Acidovorax
species: Acidovorax konjaci
full scientific name: Acidovorax konjaci (Goto 1983) Willems et al. 1992
strain designation: K2
type strain: yes
Morphology
cell morphology
@ref | motility | confidence | gram stain | cell shape |
---|---|---|---|---|
69480 | yes | 98.918 | ||
69480 | 99.997 | negative | ||
120463 | yes | negative | rod-shaped |
pigmentation
- @ref: 120463
- production: no
- name: Pyocyanin
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
3180 | NUTRIENT AGAR (DSMZ Medium 1) | yes | https://mediadive.dsmz.de/medium/1 | Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water |
39525 | MEDIUM 3 - Columbia agar | yes | Columbia agar (39.000 g);distilled water (1000.000 ml) | |
120463 | CIP Medium 3 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3 | |
120463 | CIP Medium 35 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=35 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
3180 | positive | growth | 28 | mesophilic |
39525 | positive | growth | 30 | mesophilic |
67770 | positive | growth | 28 | mesophilic |
120463 | positive | growth | 25-37 | mesophilic |
120463 | no | growth | 5 | psychrophilic |
120463 | no | growth | 10 | psychrophilic |
120463 | no | growth | 41 | thermophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 120463
- oxygen tolerance: obligate aerobe
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.996 |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
120463 | NaCl | positive | growth | 2 % |
120463 | NaCl | no | growth | 4 % |
120463 | NaCl | no | growth | 6 % |
120463 | NaCl | no | growth | 8 % |
120463 | NaCl | no | growth | 10 % |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
68369 | 25115 | malate | + | assimilation |
68369 | 17128 | adipate | + | assimilation |
68369 | 27689 | decanoate | + | assimilation |
68369 | 24265 | gluconate | + | assimilation |
68369 | 17306 | maltose | + | assimilation |
68369 | 59640 | N-acetylglucosamine | + | assimilation |
68369 | 16899 | D-mannitol | + | assimilation |
68369 | 16024 | D-mannose | + | assimilation |
68369 | 30849 | L-arabinose | + | assimilation |
68369 | 17634 | D-glucose | + | assimilation |
68369 | 5291 | gelatin | - | hydrolysis |
68369 | 4853 | esculin | - | hydrolysis |
68369 | 16199 | urea | - | hydrolysis |
68369 | 29016 | arginine | - | hydrolysis |
68369 | 17634 | D-glucose | - | fermentation |
68369 | 27897 | tryptophan | - | energy source |
68369 | 17632 | nitrate | + | reduction |
120463 | 16947 | citrate | - | carbon source |
120463 | 4853 | esculin | - | hydrolysis |
120463 | 17632 | nitrate | + | reduction |
120463 | 16301 | nitrite | - | reduction |
120463 | 17632 | nitrate | - | respiration |
antibiotic resistance
- @ref: 120463
- 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 |
---|---|---|---|
68369 | 35581 | indole | no |
120463 | 35581 | indole | no |
metabolite tests
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- indole 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 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | trypsin | - | 3.4.21.4 |
68382 | valine arylamidase | - | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | lipase (C 14) | - | |
68382 | esterase lipase (C 8) | + | |
68382 | esterase (C 4) | + | |
68369 | cytochrome oxidase | + | 1.9.3.1 |
68369 | gelatinase | - | |
68369 | beta-glucosidase | - | 3.2.1.21 |
68369 | urease | - | 3.5.1.5 |
68369 | arginine dihydrolase | - | 3.5.3.6 |
120463 | oxidase | + | |
120463 | beta-galactosidase | - | 3.2.1.23 |
120463 | alcohol dehydrogenase | - | 1.1.1.1 |
120463 | gelatinase | - | |
120463 | amylase | - | |
120463 | DNase | - | |
120463 | caseinase | - | 3.4.21.50 |
120463 | catalase | + | 1.11.1.6 |
120463 | tween esterase | - | |
120463 | lecithinase | - | |
120463 | lipase | - | |
120463 | lysine decarboxylase | - | 4.1.1.18 |
120463 | ornithine decarboxylase | - | 4.1.1.17 |
120463 | protease | - | |
120463 | tryptophan deaminase | - | |
120463 | 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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
46608 | - | - | + | + | - | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
120463 | - | + | + | + | - | + | - | + | - | - | + | - | - | - | - | - | - | - | - | - |
API 20NE
@ref | NO3 | TRP | GLU_ Ferm | ADH Arg | URE | ESC | GEL | PNPG | GLU_ Assim | ARA | MNE | MAN | NAG | MAL | GNT | CAP | ADI | MLT | CIT | PAC | OX |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
46608 | + | - | - | - | - | - | - | - | + | + | + | + | + | + | + | + | + | + | + | - | + |
API biotype100
@ref | GLU | FRU | GAL | TRE | MNE | SBE | MEL | SAC | RAF | MTE | MAL | LAC | LTE | MbGa | MaGa | CEL | GEN | MbGu | ESC | RIB | ARA | XYL | PLE | RHA | FUC | MLZ | DARL | LARL | XLT | DUL | TAG | GLY | INO | MAN | MTL | TUR | SOR | ADO | HBG | LYX | ERY | MDG | 3MDG | SAT | MUC | LTAT | DTAT | MTAT | DMLT | LMLT | CATE | TATE | TTE | CIT | GRT | GAT | 2KG | 5KG | TRY | NAG | GNT | PAC | PAT | pOBE | QAT | GTE | mOBE | BAT | PPAT | CMT | TGE | BET | PCE | ABT | HIN | LAT | CAP | CYT | HIS | SUC | FUM | GRE | GYT | AVT | ETN | TTN | GLN | ITA | 3OBU | APT | GTT | PRO | DALA | LALA | SER | MNT | PROP | TYR | 2KT |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
120463 | - | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | - | - | + | - | - | - | - | + | - | + | - | - | - | - | - | - | - | - | - | + | - | - | + | + | + | + | - | - | - | - | + | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - | - | - | - | + | - | + | + | - | - | + | + | + | + | - | - | - | - | - | + | + | + | + | + | + | + | + | + | + | + |
Isolation, sampling and environmental information
isolation
@ref | sample type | host species | geographic location | country | origin.country | continent | sampling date | isolation date |
---|---|---|---|---|---|---|---|---|
3180 | Amorphophallus rivieri cv. konjaci | Amorphophallus rivieri | Shizuoka | Japan | JPN | Asia | ||
46608 | Amorphophallus rivieri cv. Konjac | Japan | JPN | Asia | 1977 | |||
67770 | Amorphophalus rivieri cv. Konjac | Amorphophalus rivieri | ||||||
120463 | Amorphophallus rivieri cv. Konjac | Japan | JPN | Asia | 1977 |
isolation source categories
- Cat1: #Host
- Cat2: #Plants
- Cat3: #Herbaceous plants (Grass,Crops)
taxonmaps
- @ref: 69479
- File name: preview.99_10865.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_1;96_491;97_560;98_8087;99_10865&stattab=map
- Last taxonomy: Acidovorax konjaci
- 16S sequence: AF078760
- Sequence Identity:
- Total samples: 943
- soil counts: 195
- aquatic counts: 153
- animal counts: 30
- plant counts: 565
Safety information
risk assessment
@ref | pathogenicity plant | biosafety level | biosafety level comment |
---|---|---|---|
3180 | yes | 1 | Risk group (German classification) |
120463 | 1 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Acidovorax konjaci 16S ribosomal RNA gene, partial sequence | AF078760 | 1513 | ena | 32040 |
20218 | Mycobacterium goodii strain CIP 106349 16S ribosomal RNA gene, partial sequence | AF547930 | 544 | ena | 134601 |
20218 | Acidovorax konjaci 16S rRNA gene, strain DSM 7481 | AJ420325 | 1490 | ena | 32040 |
20218 | Acidovorax konjaci 16S ribosomal RNA gene, partial sequence | AF137507 | 1481 | ena | 32040 |
20218 | Acidovorax konjaci strain ICMP 7733 16S ribosomal RNA gene, partial sequence; 16S-23S ribosomal RNA intergenic spacer, complete sequence; and 23S ribosomal RNA gene, partial sequence | GU339095 | 871 | ena | 32040 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Acidovorax konjaci strain DSM 7481 | 32040.4 | wgs | patric | 32040 |
66792 | Acidovorax konjaci DSM 7481 | 2634166315 | draft | img | 32040 |
67770 | Paracidovorax konjaci DSM 7481 | GCA_900112675 | scaffold | ncbi | 32040 |
GC content
- @ref: 3180
- GC-content: 68.4
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
gram-positive | no | 98.871 | no |
anaerobic | no | 98.436 | no |
halophile | no | 97.189 | no |
spore-forming | no | 92.528 | no |
glucose-util | yes | 72.057 | yes |
flagellated | yes | 62.164 | no |
thermophile | no | 98.546 | yes |
aerobic | yes | 95.839 | no |
motile | yes | 87.427 | no |
glucose-ferment | no | 91.103 | yes |
External links
@ref: 3180
culture collection no.: DSM 7481, ATCC 33996, CCUG 17394, ICMP 7733, LMG 5691, JCM 2397, CIP 106439, CFBP 4460, NCPPB 3698
straininfo link
- @ref: 72416
- straininfo: 140
literature
- topic: Phylogeny
- Pubmed-ID: 28553696
- title: Acidovorax lacteus sp. nov., isolated from a culture of a bloom-forming cyanobacterium (Microcystis sp.).
- authors: Chun SJ, Cui Y, Ko SR, Lee HG, Srivastava A, Oh HM, Ahn CY
- journal: Antonie Van Leeuwenhoek
- DOI: 10.1007/s10482-017-0892-9
- year: 2017
- mesh: Base Composition, Comamonadaceae/chemistry/*classification/genetics/physiology, Enzymes/analysis, Eutrophication, Lakes/*microbiology, Microcystis/chemistry/classification/genetics/physiology, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Species Specificity
- topic2: Enzymology
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
3180 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 7481) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-7481 | |||
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 | |
39525 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/18570 | ||||
46608 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 17394) | https://www.ccug.se/strain?id=17394 | |||
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/ | ||||
68369 | Automatically annotated from API 20NE | |||||
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 | |||
72416 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID140.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
120463 | Curators of the CIP | Collection of Institut Pasteur (CIP 106439) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106439 |