Strain identifier
BacDive ID: 132348
Type strain:
Species: Bifidobacterium tissieri
Strain Designation: MRM_5.18
Strain history: P. Mattarelli; Dept. of Agric. Sci., Bologna Univ., Italy; MRM_5.18.
NCBI tax ID(s): 1630162 (species)
General
@ref: 24137
BacDive-ID: 132348
DSM-Number: 100201
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, Gram-positive, rod-shaped, colony-forming
description: Bifidobacterium tissieri MRM_5.18 is an anaerobe, Gram-positive, rod-shaped bacterium that forms circular colonies and was isolated from faeces of baby common marmosets .
NCBI tax id
- NCBI tax id: 1630162
- Matching level: species
strain history
@ref | history |
---|---|
24137 | <- P. Mattarelli, Univ. Bologna, Italy; MRM_5.18 <- M. Modesto |
67770 | P. Mattarelli; Dept. of Agric. Sci., Bologna Univ., Italy; MRM_5.18. |
doi: 10.13145/bacdive132348.20230509.8.1
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 tissieri
- full scientific name: Bifidobacterium tissieri corrig. Michelini et al. 2016
synonyms
- @ref: 20215
- synonym: Bifidobacterium tissierii
@ref: 24137
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Bifidobacteriales
family: Bifidobacteriaceae
genus: Bifidobacterium
species: Bifidobacterium tissieri
full scientific name: Bifidobacterium tissieri Michelini et al. 2016
strain designation: MRM_5.18
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell shape | motility | confidence |
---|---|---|---|---|
43839 | positive | rod-shaped | no | |
69480 | no | 94.628 | ||
69480 | positive | 100 |
colony morphology
- @ref: 43839
- type of hemolysis: gamma
- colony size: 1-2.5 mm
- colony color: White
- colony shape: circular
- incubation period: 2 days
- medium used: TPY
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
43839 | TPY | yes | ||
24137 | 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 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
43839 | positive | growth | 25-40 | |
43839 | positive | optimum | 35 | mesophilic |
24137 | positive | growth | 37 | mesophilic |
67770 | positive | growth | 37 | mesophilic |
culture pH
@ref | ability | type | pH |
---|---|---|---|
43839 | positive | growth | 5.5-7.5 |
43839 | positive | optimum | 6.5 |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance | confidence |
---|---|---|
43839 | anaerobe | |
69480 | anaerobe | 98.365 |
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 92 |
69480 | no | 99.985 |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
43839 | 58143 | 5-dehydro-D-gluconate | - | fermentation |
43839 | 27613 | amygdalin | - | fermentation |
43839 | 18305 | arbutin | - | fermentation |
43839 | 15963 | ribitol | - | fermentation |
43839 | 17108 | D-arabinose | - | fermentation |
43839 | 18333 | D-arabitol | - | fermentation |
43839 | 28847 | D-fucose | - | fermentation |
43839 | 16988 | D-ribose | - | fermentation |
43839 | 17924 | D-sorbitol | - | fermentation |
43839 | 16443 | D-tagatose | - | fermentation |
43839 | 16813 | galactitol | - | fermentation |
43839 | 17113 | erythritol | - | fermentation |
43839 | 28066 | gentiobiose | - | fermentation |
43839 | 24265 | gluconate | - | fermentation |
43839 | 28087 | glycogen | - | fermentation |
43839 | 17268 | myo-inositol | - | fermentation |
43839 | 15443 | inulin | - | fermentation |
43839 | 18403 | L-arabitol | - | fermentation |
43839 | 17266 | L-sorbose | - | fermentation |
43839 | 65328 | L-xylose | - | fermentation |
43839 | 28053 | melibiose | - | fermentation |
43839 | 43943 | methyl alpha-D-mannoside | - | fermentation |
43839 | 74863 | methyl beta-D-xylopyranoside | - | fermentation |
43839 | 28017 | starch | - | fermentation |
43839 | 32528 | turanose | - | fermentation |
43839 | 17151 | xylitol | - | fermentation |
43839 | 16808 | 2-dehydro-D-gluconate | + | builds acid from |
43839 | 17057 | cellobiose | + | builds acid from |
43839 | 15824 | D-fructose | + | builds acid from |
43839 | 12936 | D-galactose | + | builds acid from |
43839 | 17634 | D-glucose | + | builds acid from |
43839 | 16024 | D-mannose | + | builds acid from |
43839 | 65327 | D-xylose | + | builds acid from |
43839 | 17754 | glycerol | + | builds acid from |
43839 | 30849 | L-arabinose | + | builds acid from |
43839 | 62345 | L-rhamnose | + | builds acid from |
43839 | 17716 | lactose | + | builds acid from |
43839 | 17306 | maltose | + | builds acid from |
43839 | 320061 | methyl alpha-D-glucopyranoside | + | builds acid from |
43839 | 16634 | raffinose | + | builds acid from |
43839 | 17814 | salicin | + | builds acid from |
43839 | 17992 | sucrose | + | builds acid from |
43839 | 27082 | trehalose | + | builds acid from |
43839 | 4853 | esculin | + | hydrolysis |
43839 | 16899 | D-mannitol | +/- | builds acid from |
43839 | 6731 | melezitose | +/- | builds acid from |
43839 | 506227 | N-acetylglucosamine | +/- | builds acid from |
68371 | Potassium 5-ketogluconate | + | builds acid from | |
68371 | Potassium 2-ketogluconate | + | builds acid from | |
68371 | 24265 | gluconate | - | builds acid from |
68371 | 18403 | L-arabitol | - | builds acid from |
68371 | 18333 | D-arabitol | - | builds acid from |
68371 | 18287 | L-fucose | - | builds acid from |
68371 | 28847 | D-fucose | - | builds acid from |
68371 | 16443 | D-tagatose | - | builds acid from |
68371 | 62318 | D-lyxose | - | builds acid from |
68371 | 32528 | turanose | + | builds acid from |
68371 | 28066 | gentiobiose | + | builds acid from |
68371 | 17151 | xylitol | - | builds acid from |
68371 | 28087 | glycogen | - | builds acid from |
68371 | 28017 | starch | - | builds acid from |
68371 | 6731 | melezitose | - | builds acid from |
68371 | 15443 | inulin | - | builds acid from |
68371 | 27082 | trehalose | + | builds acid from |
68371 | 17992 | sucrose | + | builds acid from |
68371 | 28053 | melibiose | + | builds acid from |
68371 | 17716 | lactose | + | builds acid from |
68371 | 17306 | maltose | + | builds acid from |
68371 | 17057 | cellobiose | + | builds acid from |
68371 | 17814 | salicin | + | builds acid from |
68371 | 4853 | esculin | + | builds acid from |
68371 | 18305 | arbutin | + | builds acid from |
68371 | 27613 | amygdalin | + | builds acid from |
68371 | 59640 | N-acetylglucosamine | + | builds acid from |
68371 | 320061 | methyl alpha-D-glucopyranoside | + | builds acid from |
68371 | 43943 | methyl alpha-D-mannoside | - | builds acid from |
68371 | 17924 | D-sorbitol | - | builds acid from |
68371 | 16899 | D-mannitol | + | builds acid from |
68371 | 17268 | myo-inositol | - | builds acid from |
68371 | 16813 | galactitol | - | builds acid from |
68371 | 62345 | L-rhamnose | - | builds acid from |
68371 | 17266 | L-sorbose | + | builds acid from |
68371 | 16024 | D-mannose | + | builds acid from |
68371 | 15824 | D-fructose | + | builds acid from |
68371 | 17634 | D-glucose | + | builds acid from |
68371 | 12936 | D-galactose | + | builds acid from |
68371 | 74863 | methyl beta-D-xylopyranoside | - | builds acid from |
68371 | 15963 | ribitol | - | builds acid from |
68371 | 65328 | L-xylose | - | builds acid from |
68371 | 65327 | D-xylose | + | builds acid from |
68371 | 16988 | D-ribose | + | builds acid from |
68371 | 30849 | L-arabinose | + | builds acid from |
68371 | 17108 | D-arabinose | - | builds acid from |
68371 | 17113 | erythritol | - | builds acid from |
68371 | 17754 | glycerol | - | builds acid from |
metabolite production
- @ref: 43839
- Chebi-ID: 35581
- metabolite: indole
- production: no
enzymes
@ref | value | activity | ec |
---|---|---|---|
43839 | catalase | - | 1.11.1.6 |
43839 | cytochrome oxidase | - | 1.9.3.1 |
43839 | urease | + | 3.5.1.5 |
43839 | arginine dihydrolase | + | 3.5.3.6 |
43839 | proline-arylamidase | + | 3.4.11.5 |
43839 | leucyl glycin arylamidase | + | 3.4.11.1 |
43839 | leucine arylamidase | + | 3.4.11.1 |
43839 | tyrosine arylamidase | + | |
43839 | phenylalanine arylamidase | + | |
43839 | glycin arylamidase | + | |
43839 | histidine arylamidase | + | |
43839 | esterase Lipase (C 8) | - | |
43839 | lipase (C 14) | - | |
43839 | valine arylamidase | - | |
43839 | cystine arylamidase | - | 3.4.11.3 |
43839 | trypsin | - | 3.4.21.4 |
43839 | alpha-chymotrypsin | - | 3.4.21.1 |
43839 | beta-glucuronidase | - | 3.2.1.31 |
43839 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
43839 | alpha-mannosidase | - | 3.2.1.24 |
43839 | alpha-fucosidase | - | 3.2.1.51 |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
24137 | - | - | - | - | + | + | + | - | - | - | + | + | + | + | + | - | - | - | + | - | - | + | + | + | + | + | + | + | + | + | + | + | + | - | - | +/- | - | - | - | + | + | - | - | - | - | - | - | - | + | + |
Isolation, sampling and environmental information
isolation
@ref | sample type | host species | geographic location | country | origin.country | continent |
---|---|---|---|---|---|---|
24137 | faeces of baby common marmosets (Callithrix jacchus L.) | Callithrix jacchus | Verona | Italy | ITA | Europe |
43839 | The feaces of common marmosets (Callithrix jacchus L.) | |||||
67770 | Feces of a common marmosets |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host | #Mammals | #Primates |
#Host Body Product | #Gastrointestinal tract | #Feces (Stool) |
taxonmaps
- @ref: 69479
- File name: preview.99_160159.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_24;96_60312;97_78077;98_105430;99_160159&stattab=map
- Last taxonomy: Bifidobacterium tissieri subclade
- 16S sequence: KP718951
- Sequence Identity:
- Total samples: 41415
- soil counts: 398
- aquatic counts: 877
- animal counts: 39956
- plant counts: 184
Safety information
risk assessment
- @ref: 24137
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 24137
- description: Bifidobacterium tissieri strain MRM_5.18 16S ribosomal RNA gene, partial sequence
- accession: KP718951
- length: 1509
- database: ena
- NCBI tax ID: 1630162
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Bifidobacterium tissieri DSM 100201 | GCA_002259645 | contig | ncbi | 1630162 |
66792 | Bifidobacterium tissieri strain DSM 100201 | 1630162.3 | wgs | patric | 1630162 |
66792 | Bifidobacterium tissieri DSM 100201 | 2791355236 | draft | img | 1630162 |
GC content
- @ref: 24137
- GC-content: 63.7
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 92 | no |
motile | no | 93.919 | no |
gram-positive | yes | 91.515 | no |
anaerobic | yes | 89.337 | yes |
aerobic | no | 93.386 | yes |
halophile | no | 72.269 | no |
spore-forming | no | 93.805 | no |
glucose-util | yes | 90.467 | no |
flagellated | no | 95.391 | no |
thermophile | no | 97.896 | yes |
glucose-ferment | yes | 83.368 | no |
External links
@ref: 24137
culture collection no.: DSM 100201, JCM 30798, MRM 5.18, KCTC 15590
straininfo link
- @ref: 90694
- straininfo: 401840
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 26515885 | Bifidobacterium myosotis sp. nov., Bifidobacterium tissieri sp. nov. and Bifidobacterium hapali sp. nov., isolated from faeces of baby common marmosets (Callithrix jacchus L.). | Michelini S, Oki K, Yanokura E, Shimakawa Y, Modesto M, Mattarelli P, Biavati B, Watanabe K | Int J Syst Evol Microbiol | 10.1099/ijsem.0.000708 | 2015 | Aldehyde-Lyases/metabolism, Animals, Bacterial Proteins/genetics, Bacterial Typing Techniques, Base Composition, Bifidobacterium/classification/genetics/isolation & purification, Callithrix/*microbiology, Chaperonin 60/genetics, DNA, Bacterial/genetics, Fatty Acids/chemistry, Feces/*microbiology, Heat-Shock Proteins/genetics, Molecular Sequence Data, Peptidoglycan/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA | Genetics |
Phylogeny | 28893355 | Bifidobacterium vansinderenii sp. nov., isolated from faeces of emperor tamarin (Saguinus imperator). | Duranti S, Mangifesta M, Lugli GA, Turroni F, Anzalone R, Milani C, Mancabelli L, Ossiprandi MC, Ventura M | Int J Syst Evol Microbiol | 10.1099/ijsem.0.002243 | 2017 | Aldehyde-Lyases/genetics, Animals, Bacterial Typing Techniques, Base Composition, Bifidobacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Feces/microbiology, Genes, Bacterial, *Phylogeny, RNA, Ribosomal, 16S/genetics, Saguinus/*microbiology, Sequence Analysis, DNA | Transcriptome |
Phylogeny | 29300153 | Bifidobacterium catulorum sp. nov., a novel taxon from the faeces of the baby common marmoset (Callithrix jacchus). | Modesto M, Michelini S, Oki K, Biavati B, Watanabe K, Mattarelli P | Int J Syst Evol Microbiol | 10.1099/ijsem.0.002545 | 2018 | Aldehyde-Lyases/genetics, Animals, Bacterial Typing Techniques, Base Composition, Bifidobacterium/*classification/genetics/isolation & purification, Callithrix/*microbiology, Chaperonin 60/genetics, DNA, Bacterial/genetics, Feces/microbiology, Genes, Bacterial, Peptidoglycan/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA | Transcriptome |
Phylogeny | 30150092 | Bifidobacterium primatium sp. nov., Bifidobacterium scaligerum sp. nov., Bifidobacterium felsineum sp. nov. and Bifidobacterium simiarum sp. nov.: Four novel taxa isolated from the faeces of the cotton top tamarin (Saguinus oedipus) and the emperor tamarin (Saguinus imperator). | Modesto M, Puglisi E, Bonetti A, Michelini S, Spiezio C, Sandri C, Sgorbati B, Morelli L, Mattarelli P | Syst Appl Microbiol | 10.1016/j.syapm.2018.07.005 | 2018 | Aldehyde-Lyases/genetics, Animals, Animals, Zoo/microbiology, Bacterial Typing Techniques, Bifidobacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Feces/*microbiology, Italy, Peptidoglycan/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Saguinus/*microbiology, Sequence Analysis, DNA | Transcriptome |
Phylogeny | 31585749 | Characterization of Bifidobacterium species in feaces of the Egyptian fruit bat: Description of B. vespertilionis sp. nov. and B. rousetti sp. nov. | Modesto M, Satti M, Watanabe K, Puglisi E, Morelli L, Huang CH, Liou JS, Miyashita M, Tamura T, Saito S, Mori K, Huang L, Sciavilla P, Sandri C, Spiezio C, Vitali F, Cavalieri D, Perpetuini G, Tofalo R, Bonetti A, Arita M, Mattarelli P | Syst Appl Microbiol | 10.1016/j.syapm.2019.126017 | 2019 | Amino Acids/analysis, Animals, Base Composition, Bifidobacterium/chemistry/*classification/genetics/growth & development, Chiroptera/*microbiology, DNA, Bacterial/genetics, Egypt, Fatty Acids/analysis, Feces/*microbiology, Genes, Essential/genetics, Genetic Variation, Genome, Bacterial/genetics, Nucleic Acid Hybridization, Peptidoglycan/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species Specificity | Genetics |
Reference
@id | authors | title | doi/url | catalogue | journal | pubmed |
---|---|---|---|---|---|---|
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | 10.1099/ijsem.0.004332 | |||
24137 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-100201 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 100201) | |||
43839 | Samanta Michelini, Kaihei Oki, Emiko Yanokura, Yasuhisa Shimakawa, Monica Modesto, Paola Mattarelli, Bruno Biavati, Koichi Watanabe | Bifidobacterium myosotis sp. nov., Bifidobacterium tissieri sp. nov. and Bifidobacterium hapali sp. nov., isolated from faeces of baby common marmosets (Callithrix jacchus L.) | 10.1099/ijsem.0.000708 | IJSEM 66: 255-265 2016 | 26515885 | |
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |||
66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 10.1093/nar/gkaa1025 | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
68371 | Automatically annotated from API 50CH acid | |||||
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. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ | |||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 | |||
90694 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | StrainInfo: A central database for resolving microbial strain identifiers | 10.60712/SI-ID401840.1 |