Strain identifier

BacDive ID: 1691

Type strain: No

Species: Bifidobacterium bifidum

Strain Designation: E319f (Variant a), 319f

Strain history: CIP <- 1964, Lab. Ident. Inst. Pasteur, Paris, France <- M. Sebald, Inst. Pasteur, Paris, France <- H. Werner <- G. Reuter: strain 319f

NCBI tax ID(s): 398514 (strain), 1681 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 9.3 (current version):
version 9.2:
version 9.1:
version 9:
version 8.1:
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 9.3 (current version)

General

@ref: 8509

BacDive-ID: 1691

DSM-Number: 20082

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-positive, rod-shaped

description: Bifidobacterium bifidum E319f is an anaerobe, mesophilic, Gram-positive bacterium that was isolated from intestine of adult.

NCBI tax id

NCBI tax idMatching level
1681species
398514strain

strain history

@refhistory
8509<- G. Reuter, E319f (Variant a)
67770DSM 20082 <-- G. Reuter E319f (Variant a).
116807CIP <- 1964, Lab. Ident. Inst. Pasteur, Paris, France <- M. Sebald, Inst. Pasteur, Paris, France <- H. Werner <- G. Reuter: strain 319f

doi: 10.13145/bacdive1691.20250331.9.3

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 bifidum
  • full scientific name: Bifidobacterium bifidum (Tissier 1900) Orla-Jensen 1924 (Approved Lists 1980)

  • synonyms

    @refsynonym
    20215Bacterium bifidum
    20215Bacillus bifidus

@ref: 8509

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Bifidobacteriales

family: Bifidobacteriaceae

genus: Bifidobacterium

species: Bifidobacterium bifidum

full scientific name: Bifidobacterium bifidum (Tissier 1900) Orla-Jensen 1924 emend. Nouioui et al. 2018

strain designation: E319f (Variant a), 319f

type strain: no

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
116807positiverod-shapedno
125438no96

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8509BIFIDOBACTERIUM MEDIUM (DSMZ Medium 58)yeshttps://mediadive.dsmz.de/medium/58Name: 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
36043MEDIUM 20 - for Anaerobic bacteriayesAgar (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)
116807CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
116807CIP Medium 20yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=20

culture temp

@refgrowthtypetemperature
8509positivegrowth37
36043positivegrowth37
67770positivegrowth37

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
8509anaerobe
116807anaerobe

spore formation

@refspore formationconfidence
125438no91.266
125439no96.6

murein

  • @ref: 8509
  • murein short key: A21.08
  • type: A4ß L-Orn(L-Lys)-D-Ser-D-Asp

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
11680717632nitrate-reduction
11680716301nitrite-reduction
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837112936D-galactose-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837132528turanose-builds acid from
6837128066gentiobiose-builds acid from
6837117151xylitol-builds acid from
6837128087glycogen-builds acid from
6837128017starch-builds acid from
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837127082trehalose-builds acid from
6837117992sucrose-builds acid from
6837128053melibiose-builds acid from
6837117306maltose-builds acid from
6837117057cellobiose-builds acid from
6837117814salicin-builds acid from
683714853esculin-builds acid from
6837118305arbutin-builds acid from
6837127613amygdalin-builds acid from
6837159640N-acetylglucosamine-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837116899D-mannitol-builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose-builds acid from
6837117634D-glucose-builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose-builds acid from
6837116988D-ribose-builds acid from
6837130849L-arabinose-builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
6837117754glycerol-builds acid from

metabolite production

  • @ref: 116807
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382alpha-glucosidase-3.2.1.20
68382beta-glucosidase-3.2.1.21
68382beta-galactosidase+3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-galactosidase+3.2.1.22
68382naphthol-AS-BI-phosphohydrolase-
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382valine arylamidase-
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase-3.1.3.1
116807oxidase-
116807catalase-1.11.1.6
116807urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
116807--++-+----+-++---+--

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
116807-----------+/-----------------+/--------------------+/-

Isolation, sampling and environmental information

isolation

@refsample type
8509intestine of adult
67770Intestine of adult
116807Human, Intestine of adult

isolation source categories

  • Cat1: #Host Body-Site
  • Cat2: #Gastrointestinal tract

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
85091Risk group (German classification)
1168071Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Bifidobacterium bifidum gene for 16S rRNA, partial sequence, strain: JCM 1254AB116282478nuccore398514
20218Bifidobacterium bifidum gene for 16S rRNA, partial sequence, strain: JCM 1254AB507077687nuccore398514
20218Bifidobacterium bifidum strain DSM 20082 16S ribosomal RNA gene and 16S-23S ribosomal RNA intergenic spacer, partial sequenceJQ347258743nuccore1681

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Bifidobacterium bifidum JCM 1254398514.4wgspatric398514
66792Bifidobacterium bifidum JCM 12542675903332draftimg398514
67770Bifidobacterium bifidum JCM 1254GCA_001311705contigncbi398514
66792Bifidobacterium bifidum JCM 1254GCA_024341745contigncbi398514

GC content

@refGC-contentmethod
850961.6
6777061.1thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingyes86.854no
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)yes78.066no
125438spore-formingspore-formingAbility to form endo- or exosporesno91.266no
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no90.096no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno93.966yes
125438motile2+flagellatedAbility to perform flagellated movementno96no
125439BacteriaNetspore_formationAbility to form endo- or exosporesno96.6
125439BacteriaNetmotilityAbility to perform movementno52.6
125439BacteriaNetgram_stainReaction to gram-stainingpositive85
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthanaerobe80.8

External links

@ref: 8509

culture collection no.: DSM 20082, JCM 1254, BCRC 11844, CIP 64.64, KCTC 3440, CCUG 45218

straininfo link

  • @ref: 71338
  • straininfo: 7403

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Metabolism1285646High-affinity oxygen uptake by Bifidobacterium bifidum.Cox RP, Marling NAntonie Van Leeuwenhoek10.1007/BF005725971992Bifidobacterium/*metabolism, Kinetics, Multienzyme Complexes/*metabolism, Myoglobin/metabolism, NADH, NADPH Oxidoreductases/*metabolism, Oxidation-Reduction, *Oxygen Consumption, Spectrophotometry, UltravioletEnzymology
Metabolism8640105Characterization of the lactose transport system in the strain Bifidobacterium bifidum DSM 20082.Krzewinski F, Brassart C, Gavini F, Bouquelet SCurr Microbiol10.1007/s0028499000541996Bifidobacterium/enzymology/growth & development/*metabolism, Biological Transport/drug effects, Carbonyl Cyanide m-Chlorophenyl Hydrazone/pharmacology, Culture Media/chemistry, Dicyclohexylcarbodiimide/pharmacology, Enzyme Induction, Enzyme Inhibitors/*pharmacology, Lactose/*metabolism, Sodium Fluoride/pharmacology, beta-Galactosidase/biosynthesisEnzymology
Metabolism9236301Glucose and galactose transport in Bifidobacterium bifidum DSM 20082.Krzewinski F, Brassart C, Gavini F, Bouquelet SCurr Microbiol10.1007/s0028499002341997Bifidobacterium/*metabolism, Biological Transport, Galactose/*metabolism, Glucose/*metabolism, Phosphorylation
Metabolism9889079Beta-1,3-galactosyl-N-acetylhexosamine phosphorylase from Bifidobacterium bifidum DSM 20082: characterization, partial purification and relation to mucin degradation.Derensy-Dron D, Krzewinski F, Brassart C, Bouquelet SBiotechnol Appl Biochem1999Animals, Bacterial Proteins/isolation & purification/metabolism, Bifidobacterium/*enzymology, Carbohydrate Conformation, Carbohydrate Sequence, Disaccharides/metabolism, Galactosephosphates/chemistry/metabolism, Galactosyltransferases/chemistry/*isolation & purification/*metabolism, Hydrogen-Ion Concentration, Molecular Sequence Data, Mucins/*metabolism, Phosphorylation, Substrate Specificity, Swine, TemperatureEnzymology
Cultivation10361675Complementary effects of bifidogenic growth stimulators and ammonium sulfate in natural rubber serum powder on Bifidobacterium bifidum.Etoh S, Sonomoto K, Ishizaki ABiosci Biotechnol Biochem10.1271/bbb.63.6271999Ammonium Sulfate/*pharmacology, Bifidobacterium/drug effects/*growth & development/*metabolism, Carbohydrates/*pharmacology, Chromatography, High Pressure Liquid, Culture Media, Molecular Weight, Powders, Proteins/*pharmacology, Rubber, Stimulation, Chemical, Ultrafiltration, Vitamin B 12/pharmacologyPathogenicity
Enzymology11129579Purification and identification of a growth-stimulating peptide for Bifidobacterium bifidum from natural rubber serum powder.Etoh S, Asamura K, Obu A, Sonomoto K, Ishizaki ABiosci Biotechnol Biochem10.1271/bbb.64.20832000Amino Acid Sequence, Bifidobacterium/*chemistry, Chromatography, Gel, Growth Substances/chemistry/*isolation & purification, Peptides/chemistry/*isolation & purification, Rubber/*chemistry, Spectrometry, Mass, Matrix-Assisted Laser Desorption-IonizationPhylogeny
Enzymology17587697Identification of the putative proton donor residue of lacto-N-biose phosphorylase (EC 2.4.1.211).Nishimoto M, Kitaoka MBiosci Biotechnol Biochem10.1271/bbb.700642007Amino Acids, Bifidobacterium/*enzymology/genetics, Cloning, Molecular, Conserved Sequence, Isoenzymes, Molecular Sequence Data, Mutation, Phosphorylases/*genetics/metabolism, ProtonsGenetics
Metabolism17943273Characterisation of glutamine fructose-6-phosphate amidotransferase (EC 2.6.1.16) and N-acetylglucosamine metabolism in Bifidobacterium.Foley S, Stolarczyk E, Mouni F, Brassart C, Vidal O, Aissi E, Bouquelet S, Krzewinski FArch Microbiol10.1007/s00203-007-0307-92007Acetylglucosamine/*metabolism, Amino Acid Sequence, Bacterial Proteins/chemistry/genetics/isolation & purification/*metabolism, Bifidobacterium/*enzymology/genetics/*metabolism, Catalytic Domain, Cloning, Molecular, Conserved Sequence, Enzyme Stability, Escherichia coli/genetics, Fructosephosphates/metabolism, Gene Expression, Glucosamine/analogs & derivatives/metabolism, Glucose-6-Phosphate/analogs & derivatives/metabolism, Glutamic Acid/metabolism, Glutaminase/metabolism, Glutamine/metabolism, Hydrogen-Ion Concentration, Metabolic Networks and Pathways, Models, Biological, Molecular Sequence Data, Sequence Analysis, DNA, Sequence Homology, Amino Acid, TemperatureEnzymology
Metabolism18469123Bifidobacterium bifidum lacto-N-biosidase, a critical enzyme for the degradation of human milk oligosaccharides with a type 1 structure.Wada J, Ando T, Kiyohara M, Ashida H, Kitaoka M, Yamaguchi M, Kumagai H, Katayama T, Yamamoto KAppl Environ Microbiol10.1128/AEM.00149-082008Amino Acid Sequence, Bacterial Proteins/chemistry/genetics/metabolism, Bifidobacterium/classification/*enzymology, DNA, Bacterial/analysis/isolation & purification, Glycoside Hydrolases/chemistry/genetics/*metabolism, Humans, Mass Spectrometry/methods, Milk, Human/chemistry/*metabolism, Molecular Sequence Data, Oligosaccharides/chemistry/*metabolism, Recombinant Proteins/genetics/metabolism, Sequence Analysis, DNA, Substrate SpecificityEnzymology
Metabolism19172489Effect of Bifidobacterium bifidum DSM 20082 cytoplasmic fraction on human immune cells.Mouni F, Aissi E, Hernandez J, Gorocica P, Bouquelet S, Zenteno E, Lascurain R, Garfias YImmunol Invest10.1080/088201308026083032009Apoptosis/immunology, Bifidobacterium/immunology/*metabolism/ultrastructure, CD4 Antigens/genetics/immunology/*metabolism, CD8 Antigens/genetics/immunology/*metabolism, CD8-Positive T-Lymphocytes/cytology/immunology/*metabolism, Cell Fractionation, Cell Proliferation, Cell Separation, Cytoplasm/immunology/metabolism, Cytotoxicity, Immunologic/drug effects, Dose-Response Relationship, Immunologic, Flow Cytometry, Humans, Peanut Agglutinin/metabolism, Plant Preparations/pharmacologyPathogenicity
Enzymology19520709Two distinct alpha-L-fucosidases from Bifidobacterium bifidum are essential for the utilization of fucosylated milk oligosaccharides and glycoconjugates.Ashida H, Miyake A, Kiyohara M, Wada J, Yoshida E, Kumagai H, Katayama T, Yamamoto KGlycobiology10.1093/glycob/cwp0822009Animals, Bifidobacterium/*enzymology, Chromatography, Affinity, Electrophoresis, Polyacrylamide Gel, Fucose/*metabolism, Glycoconjugates/*metabolism, Isoenzymes/isolation & purification/*metabolism, *Milk, Oligosaccharides/*metabolism, Substrate Specificity, alpha-L-Fucosidase/isolation & purification/*metabolismMetabolism
Metabolism21036948An exo-alpha-sialidase from bifidobacteria involved in the degradation of sialyloligosaccharides in human milk and intestinal glycoconjugates.Kiyohara M, Tanigawa K, Chaiwangsri T, Katayama T, Ashida H, Yamamoto KGlycobiology10.1093/glycob/cwq1752010Amino Acid Sequence, Bifidobacterium/*enzymology, Cloning, Molecular, Enzyme Assays, Enzyme Stability, Glycosylation, Humans, Milk, Human/*metabolism, Molecular Sequence Data, N-Acetylneuraminic Acid/metabolism, Neuraminidase/*chemistry/genetics/metabolism, Oligosaccharides/*metabolism, Phylogeny, Recombinant Proteins/*chemistry/genetics/metabolism, Sequence Alignment, Substrate Specificity, TemperatureEnzymology
Metabolism21832085Physiology of consumption of human milk oligosaccharides by infant gut-associated bifidobacteria.Asakuma S, Hatakeyama E, Urashima T, Yoshida E, Katayama T, Yamamoto K, Kumagai H, Ashida H, Hirose J, Kitaoka MJ Biol Chem10.1074/jbc.M111.2481382011Adult, Bifidobacteriales Infections/microbiology, Bifidobacterium/*metabolism, Carbohydrates/chemistry, Chromatography, High Pressure Liquid/methods, Female, Gastrointestinal Tract/microbiology, Humans, Infant, Newborn, Intestines/*microbiology, Japan, Milk, Human/*metabolism, Molecular Sequence Data, Monosaccharides, Oligosaccharides/chemistry/*metabolism, Time FactorsPathogenicity
Enzymology22090027alpha-N-acetylgalactosaminidase from infant-associated bifidobacteria belonging to novel glycoside hydrolase family 129 is implicated in alternative mucin degradation pathway.Kiyohara M, Nakatomi T, Kurihara S, Fushinobu S, Suzuki H, Tanaka T, Shoda SI, Kitaoka M, Katayama T, Yamamoto K, Ashida HJ Biol Chem10.1074/jbc.M111.2773842011Bifidobacterium/cytology/*enzymology/genetics, Biocatalysis, Carbohydrate Sequence, Cloning, Molecular, Humans, Infant, Intracellular Space/enzymology, Molecular Sequence Data, Mucins/*metabolism, Phylogeny, *Proteolysis, alpha-N-Acetylgalactosaminidase/genetics/*metabolismMetabolism
Enzymology23089618Bifidobacterial alpha-galactosidase with unique carbohydrate-binding module specifically acts on blood group B antigen.Wakinaka T, Kiyohara M, Kurihara S, Hirata A, Chaiwangsri T, Ohnuma T, Fukamizo T, Katayama T, Ashida H, Yamamoto KGlycobiology10.1093/glycob/cws1422012ABO Blood-Group System/metabolism, Bifidobacterium/*enzymology, Blood Group Antigens/isolation & purification/metabolism, Escherichia coli/*enzymology, Humans, Infant, Infant, Newborn, Intestines/microbiology, Milk, Human/enzymology, Mucins/chemistry/metabolism, *Polysaccharides/chemistry/metabolism, Receptors, Cell Surface/genetics/isolation & purification, *alpha-Galactosidase/genetics/isolation & purification, beta-Galactosidase/chemistry/metabolismMetabolism
Enzymology23231860Hypolipidemic effects of lactic acid bacteria fermented cereal in rats.Banjoko IO, Adeyanju MM, Ademuyiwa O, Adebawo OO, Olalere RA, Kolawole MO, Adegbola IA, Adesanmi TA, Oladunjoye TO, Ogunnowo AA, Shorinola AA, Daropale O, Babatope EB, Osibogun AO, Ogunfowokan DT, Jentegbe TA, Apelehin TG, Ogunnowo O, Olokodana O, Fetuga FY, Omitola M, Okafor LA, Ebohon CL, Ita JO, Disu KA, Ogherebe O, Eriobu SU, Bakare AALipids Health Dis10.1186/1476-511X-11-1702012Animals, Bifidobacterium/enzymology, Diet, High-Fat, *Dyslipidemias/blood/drug therapy, Edible Grain/*chemistry, *Fermentation, Food Analysis, *Hypolipidemic Agents/chemistry/pharmacology, Lactic Acid/biosynthesis, Lactobacillus acidophilus/enzymology, Lactobacillus helveticus/enzymology, *Lipids/analysis/blood/chemistry, Rats
Metabolism23479733Crystal structures of a glycoside hydrolase family 20 lacto-N-biosidase from Bifidobacterium bifidum.Ito T, Katayama T, Hattie M, Sakurama H, Wada J, Suzuki R, Ashida H, Wakagi T, Yamamoto K, Stubbs KA, Fushinobu SJ Biol Chem10.1074/jbc.M112.4201092013Bacterial Proteins/*chemistry/metabolism, Bifidobacterium/*enzymology, Crystallography, X-Ray, Glycoside Hydrolases/*chemistry/metabolism, Humans, *Models, Molecular, *Protein Folding, Protein Structure, Secondary, Protein Structure, TertiaryPathogenicity
Metabolism25381911alpha-N-Acetylglucosaminidase from Bifidobacterium bifidum specifically hydrolyzes alpha-linked N-acetylglucosamine at nonreducing terminus of O-glycan on gastric mucin.Shimada Y, Watanabe Y, Wakinaka T, Funeno Y, Kubota M, Chaiwangsri T, Kurihara S, Yamamoto K, Katayama T, Ashida HAppl Microbiol Biotechnol10.1007/s00253-014-6201-x2014Acetylglucosamine/*metabolism, Acetylglucosaminidase/*metabolism, Bifidobacterium/*enzymology, Binding Sites, Gastric Mucins/*metabolismEnzymology
Enzymology27422836Efficient and Regioselective Synthesis of beta-GalNAc/GlcNAc-Lactose by a Bifunctional Transglycosylating beta-N-Acetylhexosaminidase from Bifidobacterium bifidum.Chen X, Xu L, Jin L, Sun B, Gu G, Lu L, Xiao MAppl Environ Microbiol10.1128/AEM.01325-162016Acetylgalactosamine/*metabolism, Acetylglucosamine/*metabolism, Bacteroides fragilis/enzymology/genetics, Bifidobacterium bifidum/*enzymology/genetics, Cloning, Molecular, Clostridium perfringens/enzymology/genetics, Enzyme Stability, Escherichia coli/genetics/metabolism, Gene Expression, Hydrogen-Ion Concentration, Kinetics, Lactose/*metabolism, Molecular Docking Simulation, Recombinant Proteins/chemistry/genetics/isolation & purification/metabolism, Temperature, beta-N-Acetylhexosaminidases/chemistry/genetics/isolation & purification/*metabolismMetabolism
Metabolism27832720Application study of 1,2-alpha-l-fucosynthase: introduction of Fucalpha1-2Gal disaccharide structures on N-glycan, ganglioside, and xyloglucan oligosaccharide.Sugiyama Y, Katoh T, Honda Y, Gotoh A, Ashida H, Kurihara S, Yamamoto K, Katayama TBiosci Biotechnol Biochem10.1080/09168451.2016.12545322016Asialoglycoproteins/metabolism, Bifidobacterium/enzymology, Disaccharides/*chemistry/*metabolism, Fetuins/metabolism, Fucose/*chemistry/metabolism, Gangliosides/*chemistry/metabolism, Glucans/*chemistry/metabolism, Glycolipids/chemistry/metabolism, Mutation, Oligosaccharides/*chemistry/metabolism, Plants/chemistry, Protein Engineering, Xylans/*chemistry/metabolism, alpha-L-Fucosidase/genetics/*metabolismEnzymology
Enzymology29678922Enzymatic Synthesis of 6'-Sialyllactose, a Dominant Sialylated Human Milk Oligosaccharide, by a Novel exo-alpha-Sialidase from Bacteroides fragilis NCTC9343.Guo L, Chen X, Xu L, Xiao M, Lu LAppl Environ Microbiol10.1128/AEM.00071-182018Bacteroides fragilis/*enzymology/*genetics, Bifidobacterium bifidum/enzymology/genetics, Cloning, Molecular, Clostridium perfringens/enzymology/genetics, Escherichia coli/genetics, Gene Expression Regulation, Bacterial, Humans, Hydrogen-Ion Concentration, Infant Formula, Lactose/*analogs & derivatives/biosynthesis/metabolism, Milk, Human/*chemistry, Models, Molecular, Molecular Weight, Neuraminidase/*genetics/isolation & purification/*metabolism, Oligosaccharides/*metabolism, Protein Domains, Recombinant Proteins, Sequence Alignment, Sequence Analysis, Sialic Acids/metabolism, Substrate Specificity, Temperature, Time FactorsMetabolism
Metabolism30919101The antioxidant and prebiotic properties of lactobionic acid.Goderska KAppl Microbiol Biotechnol10.1007/s00253-019-09754-72019Antioxidants/*chemistry/*metabolism, Disaccharides/*chemistry/*metabolism, Hot Temperature, Lactobacillus fermentum/growth & development/metabolism, Oxidation-Reduction, Peroxides/chemistry, Prebiotics/*analysis, Pseudomonas/*metabolism, Rapeseed Oil/chemistry, Whey/metabolism/*microbiology, Whey Proteins/metabolismStress
Enzymology31822984Converting a beta-N-acetylhexosaminidase into two trans-beta-N-acetylhexosaminidases by domain-targeted mutagenesis.Chen X, Jin L, Jiang X, Guo L, Gu G, Xu L, Lu L, Wang F, Xiao MAppl Microbiol Biotechnol10.1007/s00253-019-10253-y2019Bifidobacterium bifidum/*enzymology/genetics, Directed Molecular Evolution, Kinetics, Magnetic Resonance Spectroscopy, *Mutagenesis, Mutant Proteins/chemistry/*genetics/*metabolism, beta-N-Acetylhexosaminidases/chemistry/*genetics/*metabolismMetabolism
Pathogenicity32625197Bifidobacterium bifidum Suppresses Gut Inflammation Caused by Repeated Antibiotic Disturbance Without Recovering Gut Microbiome Diversity in Mice.Ojima MN, Gotoh A, Takada H, Odamaki T, Xiao JZ, Katoh T, Katayama TFront Microbiol10.3389/fmicb.2020.013492020
Metabolism33461001Influence of fucosidase-producing bifidobacteria on the HBGA antigenicity of oyster digestive tissue and the associated norovirus binding.Eshaghi Gorji M, Tan MTH, Li DInt J Food Microbiol10.1016/j.ijfoodmicro.2021.1090582021Animals, Antibodies, Monoclonal, Bifidobacterium/*enzymology/physiology, Blood Group Antigens/immunology/*metabolism, Humans, Intestines/immunology/virology, Norovirus/*metabolism, Ostreidae/immunology/*virology, Shellfish/*virology, alpha-L-Fucosidase/*metabolismPathogenicity
34282567Evaluation of Microencapsulated Synbiotic Preparations Containing Lactobionic Acid.Goderska K, Kozlowski PAppl Biochem Biotechnol10.1007/s12010-021-03622-92021*Bifidobacterium bifidum, Capsules, Disaccharides/*chemistry, *Lactobacillales, Probiotics/*chemistry, *Synbiotics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
8509Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20082)https://www.dsmz.de/collection/catalogue/details/culture/DSM-20082
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
36043Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/10169
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
71338Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID7403.1StrainInfo: A central database for resolving microbial strain identifiers
116807Curators of the CIPCollection of Institut Pasteur (CIP 64.64)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2064.64
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann10.1101/2024.08.12.607695Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardyhttps://github.com/GenomeNet/deepGdeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1