Strain identifier
BacDive ID: 12497
Type strain:
Species: Parabacteroides distasonis
Strain Designation: 10159
Strain history: CIP <- 1994, J.P. Carlier, Inst. Pasteur, Paris, France: strain 10159 <- NCTC <- ATCC <- A.H. Eggerth
NCBI tax ID(s): 435591 (strain), 823 (species)
General
@ref: 8779
BacDive-ID: 12497
DSM-Number: 20701
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic
description: Parabacteroides distasonis 10159 is an anaerobe, mesophilic bacterium that was isolated from Human feces.
NCBI tax id
NCBI tax id | Matching level |
---|---|
435591 | strain |
823 | species |
strain history
@ref | history |
---|---|
8779 | <- NCTC; NCTC 11152 <- ATCC; ATCC 8503 <- A. H. Eggerth; |
67770 | ATCC 8503 <-- A. H. Eggerth. |
118948 | CIP <- 1994, J.P. Carlier, Inst. Pasteur, Paris, France: strain 10159 <- NCTC <- ATCC <- A.H. Eggerth |
doi: 10.13145/bacdive12497.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Bacteroidia
- order: Bacteroidales
- family: Tannerellaceae
- genus: Parabacteroides
- species: Parabacteroides distasonis
- full scientific name: Parabacteroides distasonis (Eggerth and Gagnon 1933) Sakamoto and Benno 2006
synonyms
- @ref: 20215
- synonym: Bacteroides distasonis
@ref: 8779
domain: Bacteria
phylum: Bacteroidetes
class: Bacteroidia
order: Bacteroidales
family: Tannerellaceae
genus: Parabacteroides
species: Parabacteroides distasonis
full scientific name: Parabacteroides distasonis (Eggerth and Gagnon 1933) Sakamoto and Benno 2006 emend. Hahnke et al. 2016
strain designation: 10159
type strain: yes
Morphology
cell morphology
@ref | motility | confidence | gram stain | cell shape |
---|---|---|---|---|
69480 | no | 93.981 | ||
69480 | 99.999 | negative | ||
118948 | no | negative | rod-shaped |
colony morphology
- @ref: 8779
- incubation period: 1-2 days
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
8779 | 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 |
8779 | FASTIDIOUS ANAEROBE BROTH (DSMZ Medium 1203a) | yes | https://mediadive.dsmz.de/medium/1203a | Name: FASTIDIOUS ANAEROBE BROTH (DSMZ Medium 1203a) Composition: Fastidious Anaerobe Basal Broth 35.4 g/l Distilled water |
8779 | CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110) | yes | https://mediadive.dsmz.de/medium/110 | Name: CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l K2HPO4 5.0 g/l Yeast extract 5.0 g/l D-Glucose 4.0 g/l Starch 1.0 g/l Maltose 1.0 g/l Cellobiose 1.0 g/l L-Cysteine HCl 0.5 g/l Ethanol 0.19 g/l Vitamin K3 0.05 g/l Hemin 0.005 g/l Sodium resazurin 0.0005 g/l Vitamin K1 NaOH Distilled water |
41097 | MEDIUM 20 - for Anaerobic bacteria | yes | Agar (15.000 g);Glucose (5.000 g);Yeast extract (20.000 g);Tryptone (30.000 g);Cysteine hydrochloride (0.500 g);distilled water (1000.000 ml);Hemin solution -M00149 (25.000 ml) | |
118948 | CIP Medium 20 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=20 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
8779 | positive | growth | 37 | mesophilic |
41097 | positive | growth | 37 | mesophilic |
44811 | positive | growth | 37 | mesophilic |
67770 | positive | growth | 37 | mesophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance | confidence |
---|---|---|
8779 | anaerobe | |
44811 | anaerobe | |
69480 | anaerobe | 99.447 |
118948 | anaerobe |
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.945 |
compound production
@ref | compound |
---|---|
8779 | catalase |
8779 | superoxide dismutase |
observation
- @ref: 67770
- observation: quinones: MK-9, MK-10
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
118948 | 17632 | nitrate | - | reduction |
118948 | 16301 | nitrite | - | reduction |
68380 | 16199 | urea | - | hydrolysis |
68380 | 29016 | arginine | - | hydrolysis |
68380 | 16024 | D-mannose | + | fermentation |
68380 | 29985 | L-glutamate | + | degradation |
68380 | 17632 | nitrate | - | reduction |
68380 | 27897 | tryptophan | - | energy source |
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
118948 | 35581 | indole | no |
68380 | 35581 | indole | no |
metabolite tests
- @ref: 68380
- Chebi-ID: 35581
- metabolite: indole
- indole test: -
enzymes
@ref | value | activity | ec |
---|---|---|---|
68380 | glutamyl-glutamate arylamidase | + | |
68380 | glycin arylamidase | + | |
68380 | alanine arylamidase | + | 3.4.11.2 |
68380 | leucine arylamidase | + | 3.4.11.1 |
68380 | leucyl glycin arylamidase | + | 3.4.11.1 |
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 | beta-glucosidase | + | 3.2.1.21 |
68380 | alpha-glucosidase | + | 3.2.1.20 |
68380 | beta-galactosidase | + | 3.2.1.23 |
68380 | alpha-galactosidase | + | 3.2.1.22 |
68380 | arginine dihydrolase | - | 3.5.3.6 |
68380 | urease | - | 3.5.1.5 |
67770 | catalase | 1.11.1.6 | |
67770 | superoxide dismutase | 1.15.1.1 | |
118948 | oxidase | - | |
118948 | catalase | + | 1.11.1.6 |
118948 | urease | - | 3.5.1.5 |
68382 | alkaline phosphatase | + | 3.1.3.1 |
68382 | esterase (C 4) | - | |
68382 | esterase lipase (C 8) | + | |
68382 | lipase (C 14) | - | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | valine arylamidase | - | |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | trypsin | - | 3.4.21.4 |
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 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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
118948 | - | + | - | + | - | + | - | - | - | - | + | - | + | + | - | + | + | + | - | - |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
8779 | - | - | + | + | - | + | + | + | - | + | + | + | + | - | - | - | + | + | +/- | + | + | + | + | + | + | + | + | + | - |
8779 | - | - | + | + | - | + | + | - | - | + | + | - | + | - | - | - | + | + | - | + | + | + | + | +/- | + | + | + | + | - |
8779 | - | - | + | + | - | + | + | + | - | + | + | + | + | - | - | - | + | + | - | + | - | + | - | - | + | + | - | + | - |
8779 | - | - | + | + | - | + | + | + | - | + | + | + | + | - | - | - | + | + | - | + | + | + | + | + | + | + | + | + | - |
8779 | - | - | + | + | + | + | + | + | - | + | + | + | + | - | - | - | + | + | - | + | + | + | + | + | + | + | + | + | +/- |
Isolation, sampling and environmental information
isolation
@ref | sample type | isolation date |
---|---|---|
44811 | Human feces | |
67770 | Human feces | |
118948 | 1942 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host | #Human | |
#Host Body Product | #Gastrointestinal tract | #Feces (Stool) |
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
8779 | 2 | Risk group (German classification) |
118948 | 2 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Parabacteroides distasonis gene for 16S ribosomal RNA, partial sequence, strain: JCM 5825 | AB238922 | 1488 | ena | 823 |
20218 | Bacteroides distasonis 16S-23S rDNA intergenic spacer region | AF176689 | 411 | ena | 435591 |
20218 | Bacteroides distasonis strain ATCC 8503 16S-23S ribosomal RNA intergenic spacer, partial sequence | AY546490 | 519 | ena | 435591 |
20218 | Parabacteroides distasonis strain JCM5825 16S ribosomal RNA gene, partial sequence | EU136681 | 1911 | ena | 823 |
20218 | Parabacteroides distasonis culture-collection DSM:20701 16S ribosomal RNA gene, partial sequence | HQ131775 | 933 | ena | 823 |
20218 | Bacteroides distasonis 16S ribosomal RNA | M86695 | 1539 | ena | 823 |
8779 | Parabacteroides distasonis strain JCM 5825 16S ribosomal RNA, partial sequence | NR_041342 | 1488 | nuccore | 823 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Parabacteroides distasonis ATCC 8503 | GCA_000012845 | complete | ncbi | 435591 |
66792 | Parabacteroides distasonis ATCC 8503 Parabacteroides distasonis 82G9 | GCA_900683725 | complete | ncbi | 435591 |
66792 | Parabacteroides distasonis ATCC 8503 | 435591.13 | complete | patric | 435591 |
66792 | Parabacteroides distasonis ATCC 8503 strain Parabacteroides distasonis 82G9 | 435591.48 | complete | patric | 435591 |
66792 | Parabacteroides distasonis strain NCTC11152 | 823.244 | wgs | patric | 823 |
66792 | Parabacteroides distasonis ATCC 8503 | 640753039 | complete | img | 435591 |
66792 | Parabacteroides distasonis NCTC 11152 | 2870967820 | draft | img | 823 |
66792 | Parabacteroides distasonis ATCC 8503 | 2841273300 | complete | img | 435591 |
67770 | Parabacteroides distasonis NCTC11152 | GCA_900445525 | contig | ncbi | 823 |
66792 | Parabacteroides distasonis strain FDAARGOS_1565 | 823.3784 | complete | patric | 823 |
66792 | Parabacteroides distasonis strain FDAARGOS_1565 | 823.3764 | complete | patric | 823 |
GC content
@ref | GC-content | method |
---|---|---|
8779 | 44.0 | |
8779 | 45.1 | sequence analysis |
67770 | 44 | thermal denaturation, midpoint method (Tm) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | no | 90.645 | no |
flagellated | no | 97.884 | no |
gram-positive | no | 97.234 | no |
anaerobic | yes | 97.725 | yes |
halophile | no | 81.122 | no |
spore-forming | no | 96.31 | no |
thermophile | no | 99.105 | no |
glucose-util | yes | 86.194 | no |
aerobic | no | 98.335 | no |
glucose-ferment | yes | 65.183 | no |
External links
@ref: 8779
culture collection no.: CIP 104284, DSM 20701, ATCC 8503, CCUG 4941, JCM 5825, NCTC 11152
straininfo link
- @ref: 81716
- straininfo: 34972
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Metabolism | 845116 | Production and some properties of catalase and superoxide dismutase from the anaerobe Bacteroides distasonis. | Gregory EM, Kowalski JB, Holdeman LV | J Bacteriol | 10.1128/jb.129.3.1298-1302.1977 | 1977 | Azides/pharmacology, Bacteroides/*enzymology, Catalase/*metabolism, Culture Media, Cyanides/pharmacology, Freezing, Hemin/pharmacology, Molecular Weight, Superoxide Dismutase/*metabolism, Vitamin K 1/pharmacology | Cultivation |
Cultivation | 6643389 | Effect of heme on Bacteroides distasonis catalase and aerotolerance. | Gregory EM, Fanning DD | J Bacteriol | 10.1128/jb.156.3.1012-1018.1983 | 1983 | Bacteroides/drug effects/enzymology/*physiology, Catalase/*metabolism, Chloramphenicol/pharmacology, Culture Media, Heme/*analogs & derivatives, Hemin/*pharmacology, Hydrogen Peroxide/pharmacology, Oxygen/*pharmacology, Rifampin/pharmacology | Enzymology |
Pathogenicity | 12650667 | Growth inhibition of intestinal bacteria and mutagenicity of 2-, 3-, 4-aminobiphenyls, benzidine, and biphenyl. | Chung KT, Adris P | Toxicol In Vitro | 10.1016/s0887-2333(02)00131-5 | 2003 | Aminobiphenyl Compounds/*toxicity, Benzidines/*toxicity, Biphenyl Compounds/*toxicity, Gram-Negative Bacteria/drug effects/growth & development, Gram-Positive Bacteria/drug effects/growth & development, Humans, Intestines/*microbiology, Mutagenicity Tests, Mutagens/*toxicity | |
Phylogeny | 16825636 | Reclassification of Bacteroides distasonis, Bacteroides goldsteinii and Bacteroides merdae as Parabacteroides distasonis gen. nov., comb. nov., Parabacteroides goldsteinii comb. nov. and Parabacteroides merdae comb. nov. | Sakamoto M, Benno Y | Int J Syst Evol Microbiol | 10.1099/ijs.0.64192-0 | 2006 | Bacterial Typing Techniques, Bacteroides/chemistry/*classification/genetics/physiology, Bacteroidetes/chemistry/*classification/genetics/metabolism, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis/chemistry, Genes, rRNA/genetics, Molecular Sequence Data, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Vitamin K 2/analysis/chemistry | Genetics |
Enzymology | 21092234 | Identification and characterization of a novel fumarase gene by metagenome expression cloning from marine microorganisms. | Jiang C, Wu LL, Zhao GC, Shen PH, Jin K, Hao ZY, Li SX, Ma GF, Luo FF, Hu GQ, Kang WL, Qin XM, Bi YL, Tang XL, Wu B | Microb Cell Fact | 10.1186/1475-2859-9-91 | 2010 | Amino Acid Sequence, Aquatic Organisms/enzymology/genetics, Cloning, Molecular, Computational Biology, Fumarate Hydratase/chemistry/classification/*genetics, Fumarates/metabolism, Kinetics, Malates/metabolism, Metagenome, Molecular Sequence Data, Phylogeny, Recombinant Proteins/chemistry/isolation & purification/metabolism, Sequence Alignment, Temperature | Phylogeny |
Phylogeny | 30652964 | Parabacteroides acidifaciens sp. nov., isolated from human faeces. | Wang YJ, Xu XJ, Zhou N, Sun Y, Liu C, Liu SJ, You X | Int J Syst Evol Microbiol | 10.1099/ijsem.0.003230 | 2019 | Bacterial Typing Techniques, Bacteroidetes/*classification/isolation & purification, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Feces/*microbiology, Fermentation, Humans, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry | Pathogenicity |
Metabolism | 31177942 | The 'in vivo lifestyle' of bile acid 7alpha-dehydroxylating bacteria: comparative genomics, metatranscriptomic, and bile acid metabolomics analysis of a defined microbial community in gnotobiotic mice. | Ridlon JM, Devendran S, Alves JM, Doden H, Wolf PG, Pereira GV, Ly L, Volland A, Takei H, Nittono H, Murai T, Kurosawa T, Chlipala GE, Green SJ, Hernandez AG, Fields CJ, Wright CL, Kakiyama G, Cann I, Kashyap P, McCracken V, Gaskins HR | Gut Microbes | 10.1080/19490976.2019.1618173 | 2019 | Animals, Bacteria, Anaerobic/*genetics/*metabolism, Bacteroides/genetics/metabolism, Bile Acids and Salts/*metabolism, Bilophila/genetics/metabolism, Cecum/*microbiology, Cholic Acids/metabolism, Clostridium/genetics/metabolism, Gene Expression Regulation, Bacterial, Genome, Bacterial, Genomics, Germ-Free Life, Humans, *Metabolome, Mice, Mice, Inbred C57BL, Microbiota, Operon, RNA-Seq, *Transcriptome, Up-Regulation | Genetics |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
8779 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20701) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-20701 | |||
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 | |
41097 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/16175 | ||||
44811 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 4941) | https://www.ccug.se/strain?id=4941 | |||
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) | |||
66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
68380 | Automatically annotated from API rID32A | |||||
68382 | Automatically annotated from API zym | |||||
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 | |||
81716 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID34972.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
118948 | Curators of the CIP | Collection of Institut Pasteur (CIP 104284) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104284 |