Strain identifier
BacDive ID: 9984
Type strain:
Species: Myxococcus xanthus
Strain Designation: FB
Strain history: CIP <- 2001, CCUG <- 1972, NCIMB <- P.H.A. Sneath <- M. Dworkin: strain FB <- E.J. Ordal
NCBI tax ID(s): 34 (species)
General
@ref: 6391
BacDive-ID: 9984
DSM-Number: 16526
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative, rod-shaped
description: Myxococcus xanthus FB is a mesophilic, Gram-negative, rod-shaped bacterium that was isolated from soil.
NCBI tax id
- NCBI tax id: 34
- Matching level: species
strain history
@ref | history |
---|---|
6391 | <- ATCC <- M. Dworkin; FB <- E. J. Ordal according to ATCC catalogue, culture collection Department of Bacteriology, University of California, Berkeley, USA according to reference Voelz and Dworkin 1962 |
123970 | CIP <- 2001, CCUG <- 1972, NCIMB <- P.H.A. Sneath <- M. Dworkin: strain FB <- E.J. Ordal |
doi: 10.13145/bacdive9984.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Deltaproteobacteria
- order: Myxococcales
- family: Myxococcaceae
- genus: Myxococcus
- species: Myxococcus xanthus
- full scientific name: Myxococcus xanthus Beebe 1941 (Approved Lists 1980)
@ref: 6391
domain: Bacteria
phylum: Proteobacteria
class: Deltaproteobacteria
order: Myxococcales
family: Myxococcaceae
genus: Myxococcus
species: Myxococcus xanthus
full scientific name: Myxococcus xanthus Beebe 1941
strain designation: FB
type strain: yes
Morphology
cell morphology
- @ref: 123970
- gram stain: negative
- cell shape: rod-shaped
- motility: no
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
6391 | VY/2 AGAR (DSMZ Medium 9) | yes | https://mediadive.dsmz.de/medium/9 | Name: VY/2 AGAR (DSMZ Medium 9) Composition: Agar 15.0 g/l Baker's yeast 5.0 g/l CaCl2 x 2 H2O 1.36 g/l Vitamin B12 0.0005 g/l Distilled water |
35225 | MEDIUM 72- for trypto casein soja agar | yes | Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g) | |
123970 | CIP Medium 72 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72 | |
123970 | CIP Medium 29 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=29 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
6391 | positive | growth | 30 | mesophilic |
35225 | positive | growth | 30 | mesophilic |
44476 | positive | growth | 30 | mesophilic |
123970 | positive | growth | 25-37 | mesophilic |
123970 | no | growth | 5 | psychrophilic |
123970 | no | growth | 10 | psychrophilic |
123970 | no | growth | 15 | psychrophilic |
123970 | no | growth | 41 | thermophilic |
Physiology and metabolism
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
123970 | NaCl | positive | growth | 0-2 % |
123970 | NaCl | no | growth | 4 % |
123970 | NaCl | no | growth | 6 % |
123970 | NaCl | no | growth | 8 % |
123970 | NaCl | no | growth | 10 % |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
123970 | 4853 | esculin | - | hydrolysis |
123970 | 17632 | nitrate | + | reduction |
123970 | 16301 | nitrite | + | reduction |
68379 | 17632 | nitrate | - | reduction |
68379 | 4853 | esculin | + | hydrolysis |
68379 | 16199 | urea | - | hydrolysis |
68379 | 5291 | gelatin | + | hydrolysis |
68379 | 17634 | D-glucose | - | fermentation |
68379 | 16988 | D-ribose | - | fermentation |
68379 | 65327 | D-xylose | - | fermentation |
68379 | 16899 | D-mannitol | - | fermentation |
68379 | 17306 | maltose | - | fermentation |
68379 | 17716 | lactose | - | fermentation |
68379 | 17992 | sucrose | - | fermentation |
68379 | 28087 | glycogen | - | fermentation |
metabolite production
- @ref: 123970
- Chebi-ID: 35581
- metabolite: indole
- production: no
enzymes
@ref | value | activity | ec |
---|---|---|---|
68379 | catalase | - | 1.11.1.6 |
68379 | gelatinase | + | |
68379 | urease | - | 3.5.1.5 |
68379 | beta-glucosidase | + | 3.2.1.21 |
68379 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68379 | alpha-glucosidase | - | 3.2.1.20 |
68379 | beta-galactosidase | - | 3.2.1.23 |
68379 | beta-glucuronidase | - | 3.2.1.31 |
68379 | alkaline phosphatase | + | 3.1.3.1 |
68379 | pyrrolidonyl arylamidase | - | 3.4.19.3 |
68379 | pyrazinamidase | + | 3.5.1.B15 |
123970 | oxidase | - | |
123970 | beta-galactosidase | + | 3.2.1.23 |
123970 | alcohol dehydrogenase | - | 1.1.1.1 |
123970 | gelatinase | + | |
123970 | amylase | - | |
123970 | DNase | + | |
123970 | caseinase | + | 3.4.21.50 |
123970 | catalase | + | 1.11.1.6 |
123970 | tween esterase | + | |
123970 | gamma-glutamyltransferase | + | 2.3.2.2 |
123970 | lecithinase | - | |
123970 | lipase | + | |
123970 | lysine decarboxylase | - | 4.1.1.18 |
123970 | ornithine decarboxylase | - | 4.1.1.17 |
123970 | protease | + | |
123970 | tryptophan deaminase | - | |
123970 | urease | - | 3.5.1.5 |
68382 | alkaline phosphatase | + | 3.1.3.1 |
68382 | esterase (C 4) | + | |
68382 | esterase lipase (C 8) | + | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | valine arylamidase | + | |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | acid phosphatase | + | 3.1.3.2 |
68382 | naphthol-AS-BI-phosphohydrolase | + | |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | beta-galactosidase | - | 3.2.1.23 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | alpha-glucosidase | - | 3.2.1.20 |
68382 | beta-glucosidase | - | 3.2.1.21 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | alpha-fucosidase | - | 3.2.1.51 |
API coryne
@ref | NIT | PYZ | PYRA | PAL | beta GUR | beta GAL | alpha GLU | beta NAG | ESC | URE | GEL | Control | GLU | RIB | XYL | MAN | MAL | LAC | SAC | GLYG | CAT |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
44476 | - | + | - | + | - | - | - | - | + | - | + | - | - | - | - | - | - | - | - | - | - |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
44476 | - | + | + | + | - | + | + | - | - | - | + | + | - | - | - | - | - | - | - | - |
123970 | - | + | + | + | + | + | + | - | + | - | + | + | - | - | - | - | - | - | - | - |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
123970 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
- @ref: 6391
- sample type: soil
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
taxonmaps
- @ref: 69479
- File name: preview.99_1275.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_211;96_740;97_863;98_1007;99_1275&stattab=map
- Last taxonomy: Myxococcaceae
- 16S sequence: KC169882
- Sequence Identity:
- Total samples: 8929
- soil counts: 6158
- aquatic counts: 816
- animal counts: 759
- plant counts: 1196
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
6391 | 1 | Risk group (German classification) |
123970 | 1 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Myxococcus xanthus strain DSM16526 16S ribosomal RNA gene, partial sequence | KC169882 | 1385 | ena | 34 |
20218 | Myxococcus xanthus gene for 16S rRNA, partial sequence, strain: NBRC 13542 | AB218205 | 1463 | ena | 34 |
20218 | Myxococcus xanthus gene for 16S-23S rRNA internal transcribed spacer regions, partial sequence, strain: NBRC 13542 | AB218234 | 729 | ena | 34 |
20218 | Myxococcus xanthus gene for 16S-23S rRNA internal transcribed spacer regions, partial sequence, strain: NBRC 13542 | AB218235 | 634 | ena | 34 |
6391 | Myxococcus xanthus strain ATCC 25232 16S ribosomal RNA gene, partial sequence | DQ768116 | 1493 | ena | 34 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Myxococcus xanthus strain DSM 16526 | 34.40 | wgs | patric | 34 |
66792 | Myxococcus xanthus DSM 16526 | 2693429903 | draft | img | 34 |
66792 | Myxococcus xanthus DSM 16526 | GCA_900106535 | scaffold | ncbi | 34 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | no | 56.391 | no |
glucose-ferment | no | 88.36 | no |
flagellated | no | 88.674 | no |
gram-positive | no | 96.169 | no |
anaerobic | no | 97.63 | no |
aerobic | yes | 79.77 | no |
halophile | no | 90.153 | no |
spore-forming | no | 81.951 | no |
thermophile | no | 98.171 | no |
glucose-util | yes | 71.962 | no |
External links
@ref: 6391
culture collection no.: DSM 16526, ATCC 25232, CCUG 2079, CIP 107069, IFO 13542, NBRC 13542, NCIMB 9412, ATCC 19368
straininfo link
- @ref: 79363
- straininfo: 8219
literature
- topic: Metabolism
- Pubmed-ID: 30217842
- title: Engineering Pseudochelin Production in Myxococcus xanthus.
- authors: Korp J, Winand L, Sester A, Nett M
- journal: Appl Environ Microbiol
- DOI: 10.1128/AEM.01789-18
- year: 2018
- mesh: Amidohydrolases/genetics/metabolism, Bacterial Proteins/genetics/metabolism, Biosynthetic Pathways, Catechols/chemistry/metabolism, Gene Expression Regulation, Bacterial, Genetic Engineering, Lysine/*analogs & derivatives/biosynthesis/chemistry, Myxococcus xanthus/genetics/*metabolism, Plasmids/genetics/metabolism, Promoter Regions, Genetic, Regulon
- topic2: Biotechnology
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
6391 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16526) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-16526 | |||
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 | |
35225 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/19269 | ||||
44476 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 2079) | https://www.ccug.se/strain?id=2079 | |||
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) | |||
68379 | Automatically annotated from API Coryne | |||||
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 | |||
79363 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID8219.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
123970 | Curators of the CIP | Collection of Institut Pasteur (CIP 107069) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107069 |