Strain identifier

BacDive ID: 1746

Type strain: Yes

Species: Bifidobacterium longum subsp. suis

Strain Designation: SU859, SU 859

Strain history: CIP <- 1990, DSM, Bifidobacterium suis <- V. Scardovi <- D. Matteuzzi: strain SU 859

NCBI tax ID(s): 1437597 (strain), 1695 (subspecies)

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General

@ref: 8480

BacDive-ID: 1746

DSM-Number: 20211

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic

description: Bifidobacterium longum subsp. suis SU859 is an anaerobe, mesophilic bacterium that was isolated from pig faeces.

NCBI tax id

NCBI tax idMatching level
1437597strain
1695subspecies

strain history

@refhistory
8480<- V. Scardovi, SU859
67770ATCC 27533 <-- D. Matteuzzi SU 859.
120650CIP <- 1990, DSM, Bifidobacterium suis <- V. Scardovi <- D. Matteuzzi: strain SU 859

doi: 10.13145/bacdive1746.20230509.8.1

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 longum subsp. suis
  • full scientific name: Bifidobacterium longum subsp. suis (Matteuzzi et al. 1971) Mattarelli et al. 2008

  • synonyms

    • @ref: 20215
    • synonym: Bifidobacterium suis

@ref: 8480

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Bifidobacteriales

family: Bifidobacteriaceae

genus: Bifidobacterium

species: Bifidobacterium longum subsp. suis

full scientific name: Bifidobacterium longum subsp. suis (Matteuzzi et al. 1971) Mattarelli et al. 2008 emend. Nouioui et al. 2018

strain designation: SU859, SU 859

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no94.161
69480100positive
120650nopositiverod-shaped

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8480BIFIDOBACTERIUM 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
40625MEDIUM 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)
120650CIP Medium 20yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=20

culture temp

@refgrowthtypetemperaturerange
8480positivegrowth37mesophilic
40625positivegrowth37mesophilic
52614positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
8480anaerobe
52614anaerobe
69480anaerobe99.651
120650anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.993

murein

  • @ref: 8480
  • murein short key: A21.03
  • type: A3ß L-Orn-L-Ser-L-Ala-L-Thr-L-Ala

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
68371gluconate-builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose+builds acid from32528
68371gentiobiose-builds acid from28066
68371xylitol-builds acid from17151
68371glycogen-builds acid from28087
68371starch-builds acid from28017
68371raffinose+builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371trehalose-builds acid from27082
68371sucrose+builds acid from17992
68371melibiose+builds acid from28053
68371lactose+builds acid from17716
68371maltose+builds acid from17306
68371cellobiose-builds acid from17057
68371salicin-builds acid from17814
68371esculin+builds acid from4853
68371arbutin-builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine+builds acid from59640
68371methyl alpha-D-glucopyranoside+builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371D-mannitol-builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose+builds acid from16024
68371D-fructose+builds acid from15824
68371D-glucose+builds acid from17634
68371D-galactose+builds acid from12936
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose+builds acid from65327
68371L-arabinose+builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol-builds acid from17754
120650nitrate-reduction17632
120650nitrite-reduction16301

metabolite production

  • @ref: 120650
  • 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
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase+3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase+3.2.1.23
68382alpha-galactosidase+3.2.1.22
68382naphthol-AS-BI-phosphohydrolase-
68382acid phosphatase-3.1.3.2
68382alpha-chymotrypsin+3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)-
68382esterase (C 4)-
68382alkaline phosphatase-3.1.3.1
120650oxidase-
120650catalase-1.11.1.6
120650urease-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
120650-----+---+--++-+----

API 50CHac

@refQGLYERYDARALARADXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
8480----++---++++-------++--+--++++---+----+---------

Isolation, sampling and environmental information

isolation

@refsample type
8480pig faeces
52614Pig feces
67770Pig feces
120650Animal, Pig, feces

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Suidae (Pig,Swine)
#Host Body Product#Gastrointestinal tract#Feces (Stool)

taxonmaps

  • @ref: 69479
  • File name: preview.99_48.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_24;96_39;97_41;98_45;99_48&stattab=map
  • Last taxonomy: Bifidobacterium longum subclade
  • 16S sequence: LC071805
  • Sequence Identity:
  • Total samples: 207055
  • soil counts: 1795
  • aquatic counts: 7450
  • animal counts: 197025
  • plant counts: 785

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
84801Risk group (German classification)
1206501Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Bifidobacterium longum subsp. suis strain ATCC 27533 16S ribosomal RNA gene, partial sequenceM587431470ena1695
20218Bifidobacterium longum 16S-23S ribosomal RNA intergenic spacer, culture collection DSM 20211AM991324480ena216816
20218Bifidobacterium longum subsp. suis strain DSM 20211 16S ribosomal RNA gene, partial sequenceGQ487646142ena1695
20218Bifidobacterium longum subsp. suis gene for 16S rRNA, partial sequence, strain: JCM 1269AB116353472ena1695
20218Bifidobacterium longum gene for 16S rRNA, partial sequence, strain: JCM 1269AB507104659ena216816
67770Bifidobacterium longum subsp. suis gene for 16S ribosomal RNA, partial sequenceAB4373601506ena1695
67770Bifidobacterium longum subsp. suis gene for 16S ribosomal RNA, partial sequence, strain: JCM 1269LC0718051424ena1695

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Bifidobacterium longum Su859GCA_900103055chromosomencbi216816
66792Bifidobacterium longum strain Su859216816.127completepatric216816
66792Bifidobacterium longum subsp. suis DSM 202111437597.3wgspatric1437597
66792Bifidobacterium longum subsp. suis strain LMG 218141695.3wgspatric1695
66792Bifidobacterium longum suis LMG 218142600254974draftimg1695
66792Bifidobacterium longum suis DSM 202112636416037draftimg1437597
66792Bifidobacterium longum suis DSM 202112690315693draftimg1437597
67770Bifidobacterium longum subsp. suis DSM 20211GCA_000771285contigncbi1437597
67770Bifidobacterium longum subsp. suis LMG 21814GCA_000741625contigncbi1695

GC content

@refGC-contentmethod
848063.3
6777063.3thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno93.853no
gram-positiveyes91.134no
anaerobicyes97.73yes
aerobicno94.762no
halophileno72.978no
spore-formingno96.258no
glucose-utilyes85.579no
thermophileno98.809yes
flagellatedno95.729no
glucose-fermentyes86.341no

External links

@ref: 8480

culture collection no.: DSM 20211, ATCC 27533, JCM 1269, CCUG 35234, BCRC 14671, CGMCC 1.2184, CIP 103377, HAMBI 1381, KCTC 3229, LMG 11598, LMG 21814, NRRL B-41407, VTT E-021921

straininfo link

  • @ref: 71393
  • straininfo: 9651

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny18398167Proposal to reclassify the three biotypes of Bifidobacterium longum as three subspecies: Bifidobacterium longum subsp. longum subsp. nov., Bifidobacterium longum subsp. infantis comb. nov. and Bifidobacterium longum subsp. suis comb. nov.Mattarelli P, Bonaparte C, Pot B, Biavati BInt J Syst Evol Microbiol10.1099/ijs.0.65319-02008Bacterial Proteins/genetics, Bacterial Typing Techniques, Bifidobacterium/*classification/*genetics/metabolism, Carbohydrate Metabolism, Chaperonin 60/genetics, DNA, Bacterial/genetics, Fermentation, Genes, Bacterial, Genotype, Nucleic Acid Hybridization, Phenotype, Plasmids/genetics, Polymerase Chain Reaction, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Ribotyping, Species Specificity, Terminology as TopicMetabolism
35477272Genomic Island-Mediated Horizontal Transfer of the Erythromycin Resistance Gene erm(X) among Bifidobacteria.Li B, Chen D, Lin F, Wu C, Cao L, Chen H, Hu Y, Yin YAppl Environ Microbiol10.1128/aem.00410-222022Anti-Bacterial Agents/pharmacology, Bifidobacterium/genetics, *Erythromycin/pharmacology, *Genomic Islands

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
8480Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20211)https://www.dsmz.de/collection/catalogue/details/culture/DSM-20211
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
40625Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/15168
52614Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 35234)https://www.ccug.se/strain?id=35234
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
69479João 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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
71393Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID9651.1StrainInfo: A central database for resolving microbial strain identifiers
120650Curators of the CIPCollection of Institut Pasteur (CIP 103377)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103377