Strain identifier

BacDive ID: 1717

Type strain: Yes

Species: Bifidobacterium pseudolongum

Strain Designation: PNC-2-9G (Biotype a), PNC-2-9G

Strain history: CIP <- 1998, ATCC <- T. Mitsuoka: strain PNC-2-9G

NCBI tax ID(s): 1694 (species)

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General

@ref: 8525

BacDive-ID: 1717

DSM-Number: 20099

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

description: Bifidobacterium pseudolongum PNC-2-9G is an anaerobe, mesophilic, Gram-positive bacterium that was isolated from pig faeces.

NCBI tax id

  • NCBI tax id: 1694
  • Matching level: species

strain history

@refhistory
8525<- T. Mitsuoka, PNC-2-9G (Biotype a)
67770ATCC 25526 <-- T. Mitsuoka PNC-2-9G (biotype a).
121991CIP <- 1998, ATCC <- T. Mitsuoka: strain PNC-2-9G

doi: 10.13145/bacdive1717.20230509.8.1

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 pseudolongum
  • full scientific name: Bifidobacterium pseudolongum Mitsuoka 1969 (Approved Lists 1980)

@ref: 8525

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Bifidobacteriales

family: Bifidobacteriaceae

genus: Bifidobacterium

species: Bifidobacterium pseudolongum

full scientific name: Bifidobacterium pseudolongum Mitsuoka 1969 emend. Nouioui et al. 2018

strain designation: PNC-2-9G (Biotype a), PNC-2-9G

type strain: yes

Morphology

cell morphology

  • @ref: 121991
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 121991

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8525BIFIDOBACTERIUM 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
35803MEDIUM 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)
121991CIP Medium 20yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=20

culture temp

@refgrowthtypetemperaturerange
8525positivegrowth37mesophilic
35803positivegrowth37mesophilic
52431positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
8525anaerobe
52431anaerobe

murein

  • @ref: 8525
  • murein short key: A21.02
  • type: A3ß L-Orn(L-Lys)-L-Ala2-3

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
68371arbutin-builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine-builds acid from59640
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-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
68371D-ribose+builds acid from16988
68371L-arabinose+builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol-builds acid from17754
121991esculin+hydrolysis4853
121991nitrate-reduction17632
121991nitrite-reduction16301
121991nitrate+respiration17632

metabolite production

  • @ref: 121991
  • 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
121991oxidase-
121991beta-galactosidase-3.2.1.23
121991gelatinase-
121991amylase+
121991DNase-
121991caseinase-3.4.21.50
121991catalase-1.11.1.6
121991tween esterase-
121991lecithinase-
121991lipase-
121991urease-3.5.1.5

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    52431C12:03.912
    52431C14:018.314
    52431C16:031.616
    52431C18:03.118
    52431C13:0 3OH/C15:1 i I/H2.814.469
    52431C16:1 ω9c4.315.774
    52431C17:0 iso 3OH1.318.161
    52431C17:1 ω5c ISO1.216.461
    52431C18:1 ω6c1.617.858
    52431C18:1 ω9c15.317.769
    52431C18:2 ω6,9c/C18:0 ANTE6.317.724
    52431C19:0 CYCLO ω9c1.518.87
    52431Unidentified8.819.321
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
121991--++-+-+--++++-++---

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
8525----+++---+++--------+---+--++++---+++--+---------
121991---+++---++----------------++++---+++--+---------

Isolation, sampling and environmental information

isolation

@refsample type
8525pig faeces
52431Pig feces
67770Swine feces

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_3954.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_24;96_1232;97_1460;98_1781;99_3954&stattab=map
  • Last taxonomy: Bifidobacterium pseudolongum subclade
  • 16S sequence: LC071797
  • Sequence Identity:
  • Total samples: 32537
  • soil counts: 398
  • aquatic counts: 229
  • animal counts: 31773
  • plant counts: 137

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
85251Risk group (German classification)
1219911Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Bifidobacterium pseudolongum 16S ribosomal RNAM587421475ena1694
20218Bifidobacterium pseudolongum ATCC 25526 16S rRNA-23S rRNA intergenic spacerU09879541ena1694
20218Bifidobacterium pseudolongum subsp. pseudolongum strain DSM 20099 16S ribosomal RNA gene, partial sequenceGQ487642151ena31954
20218Bifidobacterium pseudolongum subsp. pseudolongum gene for 16S rRNA, partial sequence, strain: JCM 1205AB116335472ena31954
20218Bifidobacterium pseudolongum subsp. pseudolongum gene for 16S rRNA, partial sequence, strain: JCM 1205AB507141671ena31954
20218Bifidobacterium pseudolongum subsp. pseudolongum gene for 16S rRNA, partial sequence, strain: JCM 1205D861951527ena31954
20218Bifidobacterium pseudolongum subsp. pseudolongum strain KCTC 3224 16S ribosomal RNA gene, partial sequenceGU3618291490ena31954
20218Bifidobacterium pseudolongum subsp. pseudolongum strain LMG11571 16S ribosomal RNA gene and 16S-23S ribosomal RNA intergenic spacer, partial sequenceFJ231745812ena31954
67770Bifidobacterium pseudolongum subsp. pseudolongum gene for 16S ribosomal RNA, partial sequence, strain: JCM 1205LC0717971404ena31954

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Bifidobacterium pseudolongum subsp. pseudolongum DSM 200991437595.3wgspatric1437595
66792Bifidobacterium pseudolongum subsp. pseudolongum strain LMG 1157131954.3wgspatric31954
66792Bifidobacterium pseudolongum pseudolongum LMG 115712597490262draftimg31954
66792Bifidobacterium pseudolongum pseudolongum DSM 200992663763404draftimg1437595
67770Bifidobacterium pseudolongum subsp. pseudolongum DSM 20099GCA_000771225contigncbi1437595
67770Bifidobacterium pseudolongum subsp. pseudolongum LMG 11571GCA_000741325contigncbi31954
66792Bifidobacterium pseudolongum subsp. pseudolongum ATCC 25526GCA_022691205chromosomencbi31954

GC content

@refGC-contentmethod
852559.5
6777059.5thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedno96.97no
gram-positiveyes91.485no
anaerobicyes96.742no
aerobicno97.34yes
halophileno65.547no
spore-formingno96.475no
motileno93.441no
glucose-fermentyes80.722no
thermophileno96.524yes
glucose-utilyes83.467no

External links

@ref: 8525

culture collection no.: DSM 20099, ATCC 25526, CCUG 34981, CCM 7207, JCM 1205, BCRC 14673, CGMCC 1.2185, CIP 105352, KCTC 3224, LMG 11571, NCFB 2244

straininfo link

  • @ref: 71364
  • straininfo: 9647

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Biotechnology11472921Adhesion of bifidobacteria to granular starch and its implications in probiotic technologies.Crittenden R, Laitila A, Forssell P, Matto J, Saarela M, Mattila-Sandholm T, Myllarinen PAppl Environ Microbiol10.1128/AEM.67.8.3469-3475.20012001*Bacterial Adhesion, Bifidobacterium/*physiology, Biotechnology/methods, *Probiotics, Starch/*metabolism, Surface PropertiesMetabolism
33754306Investigation of Antibacterial Activity and Probiotic Properties of Strains Belonging to Lactobacillus and Bifidobacterium Genera for Their Potential Application in Functional Food and Feed Products.Cizeikiene D, Jagelaviciute JProbiotics Antimicrob Proteins10.1007/s12602-021-09777-52021Animal Feed, *Bifidobacterium, *Functional Food, *Lactobacillus, *Probiotics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
8525Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20099)https://www.dsmz.de/collection/catalogue/details/culture/DSM-20099
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
35803Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/17362
52431Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 34981)https://www.ccug.se/strain?id=34981
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
71364Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID9647.1StrainInfo: A central database for resolving microbial strain identifiers
121991Curators of the CIPCollection of Institut Pasteur (CIP 105352)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105352