Strain identifier

BacDive ID: 132454

Type strain: Yes

Species: Bifidobacterium eulemuris

Strain Designation: LMM_E3

Strain history: P. Mattarelli; Dept. of Agric. Sci., Bologna Univ., Italy; LMM_E3.

NCBI tax ID(s): 1765219 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
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 8.1 (current version)

General

@ref: 24243

BacDive-ID: 132454

DSM-Number: 100216

keywords: genome sequence, 16S sequence, Bacteria, microaerophile, Gram-positive, rod-shaped, colony-forming

description: Bifidobacterium eulemuris LMM_E3 is a microaerophile, Gram-positive, rod-shaped bacterium that forms circular colonies and was isolated from fresh faeces of black lemurs Eulemur macaco housed under semi-natural conditions.

NCBI tax id

  • NCBI tax id: 1765219
  • Matching level: species

strain history

@refhistory
24243<- P. Mattarelli, Univ. Bologna, Italy; LMM_E3 <- M. Modesto
67770P. Mattarelli; Dept. of Agric. Sci., Bologna Univ., Italy; LMM_E3.

doi: 10.13145/bacdive132454.20230509.8.1

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 eulemuris
  • full scientific name: Bifidobacterium eulemuris Michelini et al. 2016

@ref: 24243

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Bifidobacteriales

family: Bifidobacteriaceae

genus: Bifidobacterium

species: Bifidobacterium eulemuris

full scientific name: Bifidobacterium eulemuris Michelini et al. 2016

strain designation: LMM_E3

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
43709positiverod-shapedno
69480no90.094
69480positive100

colony morphology

  • @ref: 43709
  • type of hemolysis: gamma
  • colony size: 1-2.5 mm
  • colony color: White
  • colony shape: circular
  • incubation period: 3 days
  • medium used: TPY agar

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
43709TPY agaryes
24243BIFIDOBACTERIUM 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

culture temp

@refgrowthtypetemperaturerange
43709positivegrowth35-42
43709positivegrowth30mesophilic
43709positivegrowth47thermophilic
43709positiveoptimum37-42
24243positivegrowth37mesophilic
67770positivegrowth37mesophilic

culture pH

@refabilitytypepH
43709positivegrowth5.5-7
43709positiveoptimum6.5-7

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
43709microaerophile
69480anaerobe99.999

spore formation

@refspore formationconfidence
69481no100
69480no99.994

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4370917057cellobiose-builds acid from
4370917108D-arabinose-builds acid from
4370912936D-galactose-builds acid from
4370928087glycogen-builds acid from
4370917266L-sorbose-builds acid from
4370965328L-xylose-builds acid from
437096731melezitose-builds acid from
4370943943methyl alpha-D-mannoside-builds acid from
4370932032potassium gluconate-builds acid from
4370917057cellobiose-fermentation
4370917108D-arabinose-fermentation
4370912936D-galactose-fermentation
4370928087glycogen-fermentation
437096731melezitose-fermentation
4370932032potassium gluconate-fermentation
4370917632nitrate-reduction
4370927613amygdalin+builds acid from
4370918305arbutin+builds acid from
4370917634D-glucose+builds acid from
4370916899D-mannitol+builds acid from
4370916024D-mannose+builds acid from
4370916988D-ribose+builds acid from
4370917924D-sorbitol+builds acid from
4370965327D-xylose+builds acid from
4370928066gentiobiose+builds acid from
4370928053melibiose+builds acid from
43709320061methyl alpha-D-glucopyranoside+builds acid from
4370974863methyl beta-D-xylopyranoside+builds acid from
43709potassium 5-dehydro-D-gluconate+builds acid from
4370916634raffinose+builds acid from
4370917814salicin+builds acid from
4370932528turanose+builds acid from
4370927613amygdalin+fermentation
4370916899D-mannitol+fermentation
4370917924D-sorbitol+fermentation
4370965327D-xylose+fermentation
43709320061methyl alpha-D-glucopyranoside+fermentation
4370974863methyl beta-D-xylopyranoside+fermentation
43709potassium 5-dehydro-D-gluconate+fermentation
4370932528turanose+fermentation
43709milk+growth
437094853esculin+hydrolysis
4370915963ribitol+/-builds acid from
4370915824D-fructose+/-builds acid from
4370917754glycerol+/-builds acid from
4370930849L-arabinose+/-builds acid from
4370917716lactose+/-builds acid from
43709506227N-acetylglucosamine+/-builds acid from
43709potassium 2-dehydro-D-gluconate+/-builds acid from
4370927082trehalose+/-builds acid from
4370915963ribitol+/-fermentation
4370915824D-fructose+/-fermentation
4370917754glycerol+/-fermentation
4370930849L-arabinose+/-fermentation
4370917716lactose+/-fermentation
43709506227N-acetylglucosamine+/-fermentation
43709potassium 2-dehydro-D-gluconate+/-fermentation
4370927082trehalose+/-fermentation
68371Potassium 5-ketogluconate+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
6837115443inulin-builds acid from
6837127082trehalose+builds acid from
6837117992sucrose+builds acid from
6837128053melibiose+builds acid from
6837117716lactose-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
68371320061methyl alpha-D-glucopyranoside+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
6837115824D-fructose+builds acid from
6837117634D-glucose+builds acid from
6837112936D-galactose+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: 43709
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
43709alpha-glucosidase+3.2.1.20
43709beta-glucosidase+3.2.1.21
43709alpha-galactosidase+3.2.1.22
43709beta-galactosidase+3.2.1.23
43709leucine arylamidase+3.4.11.1
43709arginine arylamidase+
43709proline-arylamidase+3.4.11.5
43709tyrosine arylamidase+
43709phenylalanine arylamidase+
43709glycin arylamidase+
43709histidine arylamidase+
43709serine arylamidase+
43709leucyl glycin arylamidase+/-3.4.11.1
43709urease-3.5.1.5
43709arginine dihydrolase-3.5.3.6
43709alpha-arabinosidase-3.2.1.55
43709beta-glucuronidase-3.2.1.31
43709N-acetyl-beta-glucosaminidase-3.2.1.52
43709alpha-fucosidase-3.2.1.51
43709alkaline phosphatase-3.1.3.1
43709pyroglutamic acid arylamidase-
43709glutamyl-glutamate arylamidase-
43709catalase-1.11.1.6
43709cytochrome oxidase-1.9.3.1

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
24243----+++--+++++----+--++++++++-+++-+/-+---++--------+

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinentisolation date
24243fresh faeces of black lemurs Eulemur macaco housed under semi-natural conditionsEulemur macacoVerona, Parco Natura VivaItalyITAEurope
43709Fresh fecal sample of an adult black lemur (Eulemur macaco) that was housed under semi-natural conditionsParco Natura Viva, VeronaItalyITAEurope2014-02
67770Fecal sample of an adult black lemur (Eulemur macaco) housed under semi-natural conditions in the Parco Natura VivaEulemur macacoVerona, northern ItalyItalyITAEurope

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Primates
#Host Body Product#Gastrointestinal tract#Feces (Stool)

taxonmaps

  • @ref: 69479
  • File name: preview.99_3367.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_24;96_39;97_2102;98_2580;99_3367&stattab=map
  • Last taxonomy: Bifidobacterium
  • 16S sequence: KP979748
  • Sequence Identity:
  • Total samples: 24957
  • soil counts: 177
  • aquatic counts: 530
  • animal counts: 24203
  • plant counts: 47

Safety information

risk assessment

  • @ref: 24243
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 24243
  • description: Bifidobacterium eulemuris strain LMM_E3 16S ribosomal RNA gene, partial sequence
  • accession: KP979748
  • length: 1398
  • database: ena
  • NCBI tax ID: 1765219

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Bifidobacterium eulemuris DSM 100216GCA_014898155completencbi1765219
66792Bifidobacterium eulemuris DSM 100216GCA_002259685contigncbi1765219
66792Bifidobacterium eulemuris strain DSM 1002161765219.7completepatric1765219
66792Bifidobacterium eulemuris strain DSM 1002161765219.3wgspatric1765219
66792Bifidobacterium eulemuris DSM 1002162791355248draftimg1765219

GC content

  • @ref: 24243
  • GC-content: 62.3
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno97.331yes
gram-positiveyes92.666yes
anaerobicyes96.873no
aerobicno96.665yes
halophileno86.356no
spore-formingno95.495no
glucose-utilyes89.42no
thermophileno97.798no
motileno94.525yes
glucose-fermentyes79.963no

External links

@ref: 24243

culture collection no.: DSM 100216, JCM 30801

straininfo link

  • @ref: 90792
  • straininfo: 400372

literature

  • topic: Phylogeny
  • Pubmed-ID: 26823373
  • title: Bifidobacterium eulemuris sp. nov., isolated from faeces of black lemurs (Eulemur macaco).
  • authors: Michelini S, Modesto M, Pisi AM, Filippini G, Sandri C, Spiezio C, Biavati B, Sgorbati B, Mattarelli P
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.000924
  • year: 2016

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
20215Parte, 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 DSMZ10.1099/ijsem.0.004332
24243Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-100216Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 100216)
43709Samanta Michelini, Monica Modesto, Anna Maria Pisi, Gianfranco Filippini, Camillo Sandri, Caterina Spiezio, Bruno Biavati, Barbara Sgorbati, Paola MattarelliBifidobacterium eulemuris sp. nov., isolated from faeces of black lemurs (Eulemur macaco)10.1099/ijsem.0.000924IJSEM 66: 1567-1576 201626823373
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa1025Nucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68371Automatically annotated from API 50CH acid
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions 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
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
90792Reimer, 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 identifiers10.60712/SI-ID400372.1