Strain identifier
BacDive ID: 1721
Type strain:
Species: Bifidobacterium thermophilum
Strain Designation: P2-91
Strain history: CIP <- 1998, DSM <- T. Mitsuoka: strain P2-91
NCBI tax ID(s): 1437596 (strain), 33905 (species)
General
@ref: 8479
BacDive-ID: 1721
DSM-Number: 20210
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-negative, rod-shaped
description: Bifidobacterium thermophilum P2-91 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from pig faeces.
NCBI tax id
NCBI tax id | Matching level |
---|---|
33905 | species |
1437596 | strain |
strain history
@ref | history |
---|---|
8479 | <- T. Mitsuoka, P2-91 |
67770 | ATCC 25525 <-- T. Mitsuoka J18-P2-91. |
123507 | CIP <- 1998, DSM <- T. Mitsuoka: strain P2-91 |
doi: 10.13145/bacdive1721.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Bifidobacteriales
- family: Bifidobacteriaceae
- genus: Bifidobacterium
- species: Bifidobacterium thermophilum
- full scientific name: Bifidobacterium thermophilum corrig. Mitsuoka 1969 (Approved Lists 1980)
synonyms
- @ref: 20215
- synonym: Bifidobacterium thermophilium
@ref: 8479
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Bifidobacteriales
family: Bifidobacteriaceae
genus: Bifidobacterium
species: Bifidobacterium thermophilum
full scientific name: Bifidobacterium thermophilum Mitsuoka 1969 emend. Nouioui et al. 2018
strain designation: P2-91
type strain: yes
Morphology
cell morphology
- @ref: 123507
- gram stain: negative
- cell shape: rod-shaped
- motility: no
colony morphology
- @ref: 123507
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
8479 | BIFIDOBACTERIUM MEDIUM (DSMZ Medium 58) | yes | https://mediadive.dsmz.de/medium/58 | Name: BIFIDOBACTERIUM MEDIUM (DSMZ Medium 58) Composition: Glucose 10.0 g/l Casein peptone 10.0 g/l Bacto Soytone 5.0 g/l Meat extract 5.0 g/l Yeast extract 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l MnSO4 x H2O 0.05 g/l KH2PO4 0.04 g/l K2HPO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Tween 80 Resazurin Distilled water |
39289 | MEDIUM 45 - for Columbia agar with sheep blood | yes | Distilled water make up to (1000.000 ml);Columbia agar (39.000 g);Sheepblood (100.000 ml) | |
123507 | CIP Medium 45 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=45 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
8479 | positive | growth | 37 | mesophilic |
39289 | positive | growth | 37 | mesophilic |
52433 | positive | growth | 37 | mesophilic |
67770 | positive | growth | 37 | mesophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
8479 | anaerobe |
52433 | anaerobe |
murein
- @ref: 8479
- murein short key: A21.06
- type: A4ß L-Orn(L-Lys)-D-Glu
metabolite utilization
@ref | metabolite | utilization activity | kind of utilization tested | Chebi-ID |
---|---|---|---|---|
68371 | Potassium 5-ketogluconate | - | builds acid from | |
68371 | Potassium 2-ketogluconate | - | builds acid from | |
68371 | gluconate | - | builds acid from | 24265 |
68371 | L-arabitol | - | builds acid from | 18403 |
68371 | D-arabitol | - | builds acid from | 18333 |
68371 | L-fucose | - | builds acid from | 18287 |
68371 | D-fucose | - | builds acid from | 28847 |
68371 | D-tagatose | - | builds acid from | 16443 |
68371 | D-lyxose | - | builds acid from | 62318 |
68371 | turanose | - | builds acid from | 32528 |
68371 | gentiobiose | - | builds acid from | 28066 |
68371 | xylitol | - | builds acid from | 17151 |
68371 | glycogen | - | builds acid from | 28087 |
68371 | starch | + | builds acid from | 28017 |
68371 | raffinose | + | builds acid from | 16634 |
68371 | melezitose | - | builds acid from | 6731 |
68371 | inulin | - | builds acid from | 15443 |
68371 | trehalose | - | builds acid from | 27082 |
68371 | sucrose | + | builds acid from | 17992 |
68371 | melibiose | + | builds acid from | 28053 |
68371 | lactose | - | builds acid from | 17716 |
68371 | maltose | + | builds acid from | 17306 |
68371 | cellobiose | - | builds acid from | 17057 |
68371 | salicin | - | builds acid from | 17814 |
68371 | esculin | + | builds acid from | 4853 |
68371 | arbutin | - | builds acid from | 18305 |
68371 | amygdalin | - | builds acid from | 27613 |
68371 | N-acetylglucosamine | - | builds acid from | 59640 |
68371 | methyl alpha-D-glucopyranoside | - | builds acid from | 320061 |
68371 | methyl alpha-D-mannoside | - | builds acid from | 43943 |
68371 | D-sorbitol | - | builds acid from | 17924 |
68371 | D-mannitol | - | builds acid from | 16899 |
68371 | myo-inositol | - | builds acid from | 17268 |
68371 | galactitol | - | builds acid from | 16813 |
68371 | L-rhamnose | - | builds acid from | 62345 |
68371 | L-sorbose | - | builds acid from | 17266 |
68371 | D-mannose | - | builds acid from | 16024 |
68371 | D-fructose | + | builds acid from | 15824 |
68371 | D-glucose | + | builds acid from | 17634 |
68371 | D-galactose | + | builds acid from | 12936 |
68371 | methyl beta-D-xylopyranoside | - | builds acid from | 74863 |
68371 | ribitol | - | builds acid from | 15963 |
68371 | L-xylose | - | builds acid from | 65328 |
68371 | D-xylose | - | builds acid from | 65327 |
68371 | D-ribose | - | builds acid from | 16988 |
68371 | L-arabinose | - | builds acid from | 30849 |
68371 | D-arabinose | - | builds acid from | 17108 |
68371 | erythritol | - | builds acid from | 17113 |
68371 | glycerol | - | builds acid from | 17754 |
123507 | D-fructose | + | degradation | 15824 |
123507 | D-glucose | + | degradation | 17634 |
123507 | D-xylose | - | degradation | 65327 |
123507 | cellobiose | - | degradation | 17057 |
123507 | lactose | - | degradation | 17716 |
123507 | maltose | + | degradation | 17306 |
123507 | salicin | - | degradation | 17814 |
123507 | sucrose | + | degradation | 17992 |
123507 | esculin | - | hydrolysis | 4853 |
123507 | nitrate | - | reduction | 17632 |
123507 | nitrite | - | reduction | 16301 |
123507 | nitrate | + | respiration | 17632 |
metabolite production
- @ref: 123507
- Chebi-ID: 35581
- metabolite: indole
- production: 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 |
123507 | oxidase | - | |
123507 | beta-galactosidase | + | 3.2.1.23 |
123507 | gelatinase | - | |
123507 | amylase | + | |
123507 | DNase | - | |
123507 | caseinase | - | 3.4.21.50 |
123507 | catalase | - | 1.11.1.6 |
123507 | tween esterase | - | |
123507 | lecithinase | - | |
123507 | lipase | - | |
123507 | urease | - | 3.5.1.5 |
fatty acid profile
fatty acids
@ref fatty acid percentage ECL 52433 C10:0 1.3 10 52433 C12:0 3.7 12 52433 C14:0 21.5 14 52433 C16:0 23.2 16 52433 C18:0 2.4 18 52433 C13:0 3OH/C15:1 i I/H 2.1 14.469 52433 C13:1 at 12-13 0.6 12.931 52433 C16:0 3OH 0.5 17.52 52433 C16:1 ω9c 7.6 15.774 52433 C17:1 ω5c ISO 1 16.461 52433 C17:1 ω9c 0.9 16.773 52433 C18:1 ω6c 1 17.858 52433 C18:1 ω9c 17.1 17.769 52433 C18:2 ω6,9c/C18:0 ANTE 5.4 17.724 52433 C19:0 CYCLO ω9c 3.7 18.87 52433 Unidentified 0.5 13.772 52433 Unidentified 0.5 16.238 52433 Unidentified 1.1 18.179 52433 Unidentified 2.5 18.225 52433 Unidentified 2.8 19.323 52433 unknown 12.486 0.5 12.486 - type of FA analysis: whole cell analysis
- method/protocol: CCUG
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
123507 | - | - | + | + | - | + | - | - | - | - | - | + | + | + | - | + | - | - | - | - |
API 50CHac
@ref | Q | GLY | ERY | DARA | LARA | RIB | DXYL | LXYL | ADO | MDX | GAL | GLU | FRU | MNE | SBE | RHA | DUL | INO | MAN | SOR | MDM | MDG | NAG | AMY | ARB | ESC | SAL | CEL | MAL | LAC | MEL | SAC | TRE | INU | MLZ | RAF | AMD | GLYG | XLT | GEN | TUR | LYX | TAG | DFUC | LFUC | DARL | LARL | GNT | 2KG | 5KG |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
8479 | - | - | - | - | - | - | - | - | - | - | + | + | + | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | + | - | + | + | - | - | - | + | + | - | - | - | - | - | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type |
---|---|
8479 | pig faeces |
52433 | Pig feces |
67770 | Swine feces |
123507 | Animal, Pig, feces |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host | #Mammals | #Suidae (Pig,Swine) |
#Host Body Product | #Gastrointestinal tract | #Feces (Stool) |
taxonmaps
- @ref: 69479
- File name: preview.99_2657.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_24;96_607;97_710;98_829;99_2657&stattab=map
- Last taxonomy: Bifidobacterium
- 16S sequence: LC071798
- Sequence Identity:
- Total samples: 25358
- soil counts: 263
- aquatic counts: 756
- animal counts: 24173
- plant counts: 166
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
8479 | 1 | Risk group (German classification) |
123507 | 1 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Bifidobacterium thermophilum ATCC25525 16S-23S intergenic spacer | U09528 | 478 | ena | 33905 |
20218 | Bifidobacterium thermophilum ATCC 25525 16S ribosomal RNA | U10151 | 1453 | ena | 33905 |
20218 | Bifidobacterium thermophilum strain DSM 20210 16S ribosomal RNA gene, partial sequence | GQ487648 | 138 | ena | 33905 |
20218 | Bifidobacterium thermophilum gene for 16S rRNA, partial sequence, strain: JCM 1207 | AB507158 | 666 | ena | 33905 |
20218 | Bifidobacterium thermophilum strain JCM 1207 16S ribosomal RNA gene, partial sequence | GQ227712 | 322 | ena | 33905 |
20218 | Bifidobacterium thermophilum strain KCTC 3225 16S ribosomal RNA gene, partial sequence | GU361834 | 1483 | ena | 33905 |
20218 | Bifidobacterium thermophilum strain LMG 11573 16S ribosomal RNA gene, partial sequence | JX986965 | 1451 | ena | 33905 |
67770 | Bifidobacterium thermophilum gene for 16S ribosomal RNA, partial sequence | AB437364 | 1513 | ena | 33905 |
67770 | Bifidobacterium thermophilum gene for 16S ribosomal RNA, partial sequence, strain: JCM 1207 | LC071798 | 1377 | ena | 33905 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Bifidobacterium thermophilum DSM 20210 | 1437596.3 | wgs | patric | 1437596 |
66792 | Bifidobacterium thermophilum strain JCM 1207 | 33905.21 | wgs | patric | 33905 |
66792 | Bifidobacterium thermophilum JCM 1207 | 2600254976 | draft | img | 33905 |
66792 | Bifidobacterium thermophilum DSM 20210 | 2671180426 | draft | img | 1437596 |
67770 | Bifidobacterium thermophilum DSM 20210 | GCA_000771265 | contig | ncbi | 1437596 |
67770 | Bifidobacterium thermophilum JCM 1207 | GCA_000741495 | contig | ncbi | 33905 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | no | 93.806 | no |
gram-positive | yes | 92.897 | no |
anaerobic | yes | 98.394 | no |
halophile | no | 70.227 | no |
spore-forming | no | 96.073 | no |
thermophile | no | 93.164 | yes |
glucose-util | yes | 85.859 | no |
aerobic | no | 98.569 | yes |
flagellated | no | 96.574 | no |
glucose-ferment | yes | 80.991 | no |
External links
@ref: 8479
culture collection no.: DSM 20210, ATCC 25525, CIP 105420, CCUG 34983, JCM 1207, BCRC 14669, CGMCC 1.2235, HAMBI 111, KCTC 3225, LMG 11573, LMG 21813, NCFB 2253, NCIMB 702253, ISL 118
straininfo link
- @ref: 71368
- straininfo: 217569
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 13130059 | Species identification of genus Bifidobacterium based on partial HSP60 gene sequences and proposal of Bifidobacterium thermacidophilum subsp. porcinum subsp. nov. | Zhu L, Li W, Dong X | Int J Syst Evol Microbiol | 10.1099/ijs.0.02617-0 | 2003 | Bifidobacterium/*classification/*genetics/metabolism, Chaperonin 60/*genetics, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, *Genes, Bacterial, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Species Specificity | Genetics |
26441950 | Glycan cross-feeding activities between bifidobacteria under in vitro conditions. | Turroni F, Ozcan E, Milani C, Mancabelli L, Viappiani A, van Sinderen D, Sela DA, Ventura M | Front Microbiol | 10.3389/fmicb.2015.01030 | 2015 | |||
Phylogeny | 28714841 | Bifidobacterium apri sp. nov., a thermophilic actinobacterium isolated from the digestive tract of wild pigs (Sus scrofa). | Pechar R, Killer J, Salmonova H, Geigerova M, Svejstil R, Svec P, Sedlacek I, Rada V, Benada O | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001956 | 2017 | Aldehyde-Lyases/chemistry, Animals, Bacterial Typing Techniques, Base Composition, Bifidobacterium/*classification/genetics/isolation & purification, Czech Republic, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Intestines/*microbiology, Nucleic Acid Hybridization, Peptidoglycan/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sus scrofa/*microbiology | Transcriptome |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
8479 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20210) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-20210 | |||
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 | |
39289 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/17438 | ||||
52433 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 34983) | https://www.ccug.se/strain?id=34983 | |||
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/ | ||||
68371 | Automatically annotated from API 50CH acid | |||||
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 | |||
71368 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID217569.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
123507 | Curators of the CIP | Collection of Institut Pasteur (CIP 105420) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105420 |