Strain identifier
BacDive ID: 12540
Type strain:
Species: Prevotella multiformis
Strain Designation: PPPA21
Strain history: M. Sakamoto PPPA21.
NCBI tax ID(s): 888743 (strain), 282402 (species)
General
@ref: 6518
BacDive-ID: 12540
DSM-Number: 16608
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-negative, rod-shaped
description: Prevotella multiformis PPPA21 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from subgingival plaque of a patient with chronic periodontitis.
NCBI tax id
NCBI tax id | Matching level |
---|---|
282402 | species |
888743 | strain |
strain history
@ref | history |
---|---|
6518 | <- M. Sakamoto; PPPA21 |
67770 | M. Sakamoto PPPA21. |
doi: 10.13145/bacdive12540.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Bacteroidia
- order: Bacteroidales
- family: Prevotellaceae
- genus: Prevotella
- species: Prevotella multiformis
- full scientific name: Prevotella multiformis Sakamoto et al. 2005
@ref: 6518
domain: Bacteria
phylum: Bacteroidetes
class: Bacteroidia
order: Bacteroidales
family: Prevotellaceae
genus: Prevotella
species: Prevotella multiformis
full scientific name: Prevotella multiformis Sakamoto et al. 2005
strain designation: PPPA21
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell width | cell shape | motility |
---|---|---|---|---|---|
31388 | negative | 4.1 µm | 0.65 µm | rod-shaped | no |
68367 | rod-shaped | ||||
68367 | negative |
pigmentation
- @ref: 31388
- production: yes
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
6518 | 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 |
6518 | PYG MEDIUM (MODIFIED) (DSMZ Medium 104) | yes | https://mediadive.dsmz.de/medium/104 | Name: PYG MEDIUM (modified) (DSMZ Medium 104) Composition: Yeast extract 10.0 g/l Peptone 5.0 g/l Trypticase peptone 5.0 g/l Beef extract 5.0 g/l Glucose 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l K2HPO4 0.04 g/l KH2PO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Hemin 0.005 g/l Ethanol 0.0038 g/l Resazurin 0.001 g/l Tween 80 Vitamin K1 NaOH Distilled water |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
6518 | positive | growth | 37 | mesophilic |
59375 | positive | growth | 37 | mesophilic |
67770 | positive | growth | 37 | mesophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
6518 | anaerobe |
31388 | anaerobe |
59375 | anaerobe |
spore formation
@ref | spore formation |
---|---|
31388 | no |
68367 | no |
observation
- @ref: 67770
- observation: quinones: MK-10, MK-11, MK-12, MK-13
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
31388 | 17057 | cellobiose | + | carbon source |
31388 | 17234 | glucose | + | carbon source |
31388 | 17754 | glycerol | + | carbon source |
31388 | 17716 | lactose | + | carbon source |
31388 | 17306 | maltose | + | carbon source |
31388 | 37684 | mannose | + | carbon source |
31388 | 16634 | raffinose | + | carbon source |
31388 | 17992 | sucrose | + | carbon source |
68367 | 16634 | raffinose | + | builds acid from |
68367 | 16024 | D-mannose | + | builds acid from |
68367 | 17057 | cellobiose | + | builds acid from |
68367 | 4853 | esculin | - | hydrolysis |
68367 | 17306 | maltose | + | builds acid from |
68367 | 17992 | sucrose | + | builds acid from |
68367 | 17634 | D-glucose | + | builds acid from |
68367 | 16199 | urea | - | hydrolysis |
68367 | 27897 | tryptophan | - | energy source |
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 |
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
68367 | 35581 | indole | no |
68380 | 35581 | indole | no |
metabolite tests
@ref | Chebi-ID | metabolite | indole test |
---|---|---|---|
68380 | 35581 | indole | - |
68367 | 35581 | indole | - |
enzymes
@ref | value | activity | ec |
---|---|---|---|
68380 | serine arylamidase | - | |
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 | phenylalanine arylamidase | - | |
68380 | leucyl glycin arylamidase | + | 3.4.11.1 |
68380 | proline-arylamidase | - | 3.4.11.5 |
68380 | L-arginine arylamidase | - | |
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 | alpha-glucosidase | + | 3.2.1.20 |
68380 | beta-Galactosidase 6-phosphate | + | |
68380 | beta-galactosidase | + | 3.2.1.23 |
68380 | arginine dihydrolase | - | 3.5.3.6 |
68380 | urease | - | 3.5.1.5 |
68367 | catalase | - | 1.11.1.6 |
68367 | beta-glucosidase | - | 3.2.1.21 |
68367 | urease | - | 3.5.1.5 |
API 20A
@ref | IND | URE | GLU | MAN | LAC | SAC | MAL | SAL | XYL | ARA | GEL | ESC | GLY | CEL | MNE | MLZ | RAF | SOR | RHA | TRE | CAT | SPOR | GRAM | COCC |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
6518 | - | - | + | - | + | + | + | - | - | - | + | - | + | + | + | - | + | - | - | - | - | - | - | - |
6518 | - | - | + | + | +/- | + | + | +/- | +/- | +/- | - | - | +/- | + | + | +/- | + | +/- | +/- | +/- |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
6518 | - | - | + | + | + | + | + | - | - | + | + | + | - | + | - | - | + | - | - | + | - | +/- | - | - | + | - | - | + | - |
6518 | - | - | - | + | + | + | - | - | - | + | + | + | - | + | - | - | + | - | - | + | - | +/- | - | - | + | - | - | + | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | country | origin.country | continent |
---|---|---|---|---|
6518 | subgingival plaque of a patient with chronic periodontitis | Japan | JPN | Asia |
59375 | Human subgingival plaque | |||
67770 | Human subgingival plaque |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Infection | #Inflammation | |
#Infection | #Patient | |
#Host Body-Site | #Oral cavity and airways | #Subgingival plaque |
taxonmaps
- @ref: 69479
- File name: preview.99_4471.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_44;96_2236;97_2707;98_3360;99_4471&stattab=map
- Last taxonomy: Prevotella multiformis subclade
- 16S sequence: AB182483
- Sequence Identity:
- Total samples: 20730
- soil counts: 243
- aquatic counts: 396
- animal counts: 19978
- plant counts: 113
Safety information
risk assessment
- @ref: 6518
- biosafety level: 2
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 6518
- description: Prevotella multiformis gene for 16S rRNA, partial sequence
- accession: AB182483
- length: 1494
- database: ena
- NCBI tax ID: 888743
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Prevotella multiformis DSM 16608 | 888743.3 | wgs | patric | 888743 |
66792 | Prevotella multiformis DSM 16608 | 649989987 | draft | img | 888743 |
67770 | Prevotella multiformis DSM 16608 | GCA_000191065 | scaffold | ncbi | 888743 |
GC content
@ref | GC-content | method |
---|---|---|
6518 | 51.1 | |
67770 | 51.1 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | no | 91.802 | no |
flagellated | no | 96.674 | no |
gram-positive | no | 97.46 | yes |
anaerobic | yes | 98.579 | yes |
halophile | no | 82.619 | no |
spore-forming | no | 95.702 | yes |
thermophile | no | 93.463 | yes |
glucose-util | yes | 87.667 | yes |
aerobic | no | 98.271 | yes |
glucose-ferment | yes | 61.915 | no |
External links
@ref: 6518
culture collection no.: CCUG 51937, DSM 16608, JCM 12541
straininfo link
- @ref: 81757
- straininfo: 138019
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 15774668 | Prevotella multiformis sp. nov., isolated from human subgingival plaque. | Sakamoto M, Huang Y, Umeda M, Ishikawa I, Benno Y | Int J Syst Evol Microbiol | 10.1099/ijs.0.63451-0 | 2005 | Bacteroidaceae Infections/*microbiology, Cellobiose/metabolism, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Dental Plaque/*microbiology, Esculin/metabolism, Fatty Acids/analysis, Genes, rRNA, Gingiva/*microbiology, Humans, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, Prevotella/chemistry/*classification/genetics/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA | Metabolism |
Phylogeny | 19717577 | Prevotella dentasini sp. nov., a black-pigmented species isolated from the oral cavity of donkeys. | Takada K, Hayashi K, Sato Y, Hirasawa M | Int J Syst Evol Microbiol | 10.1099/ijs.0.017020-0 | 2009 | Animals, Base Sequence, Equidae/*microbiology, Molecular Sequence Data, Mouth/*microbiology, Phylogeny, Prevotella/*classification/genetics/isolation & purification/physiology | Genetics |
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
---|---|---|---|---|---|---|
6518 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16608) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-16608 | |||
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 | |||
31388 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 27699 | 28776041 | |
59375 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 51937) | https://www.ccug.se/strain?id=51937 | |||
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/ | ||||
68367 | Automatically annotated from API 20A | |||||
68380 | Automatically annotated from API rID32A | |||||
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 | |||
81757 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID138019.1 | StrainInfo: A central database for resolving microbial strain identifiers |