Strain identifier

BacDive ID: 132345

Type strain: Yes

Species: Bifidobacterium myosotis

Strain Designation: MRM_5.9

Strain history: P. Mattarelli; Dept. of Agric. Sci., Bologna Univ., Italy; MRM_5.9.

NCBI tax ID(s): 1630166 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 24134

BacDive-ID: 132345

DSM-Number: 100196

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

description: Bifidobacterium myosotis MRM_5.9 is an anaerobe, Gram-positive, rod-shaped bacterium that forms circular colonies and was isolated from faeces of baby common marmosets .

NCBI tax id

  • NCBI tax id: 1630166
  • Matching level: species

strain history

doi: 10.13145/bacdive132345.20220920.7

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

@ref: 24134

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Bifidobacteriales

family: Bifidobacteriaceae

genus: Bifidobacterium

species: Bifidobacterium myosotis

full scientific name: Bifidobacterium myosotis Michelini et al. 2016

strain designation: MRM_5.9

type strain: yes

Morphology

cell morphology

  • @ref: 43839
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 43839
  • type of hemolysis: gamma
  • colony size: 1-2 mm
  • colony color: White
  • colony shape: circular
  • incubation period: 3 days
  • medium used: TPY agar

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
43839TPY agaryes
24134BIFIDOBACTERIUM MEDIUM (DSMZ Medium 58)yeshttps://bacmedia.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
43839positivegrowth25-46
43839positiveoptimum40thermophilic
24134positivegrowth37mesophilic
67770positivegrowth37mesophilic

culture pH

@refabilitytypepH
43839positivegrowth4.5-8
43839positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 43839
  • oxygen tolerance: anaerobe

spore formation

  • @ref: 43839
  • spore formation: no

murein

  • @ref: 24134
  • murein short key: A11.35
  • type: A4alpha L-Lys-L-Ala-L-Glu

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
43839168082-dehydro-D-gluconate-builds acid from
43839581435-dehydro-D-gluconate-builds acid from
4383918305arbutin-builds acid from
4383915963ribitol-builds acid from
4383917108D-arabinose-builds acid from
4383918333D-arabitol-builds acid from
4383928847D-fucose-builds acid from
4383962318D-lyxose-builds acid from
4383916988D-ribose-builds acid from
4383917924D-sorbitol-builds acid from
4383916443D-tagatose-builds acid from
4383916813galactitol-builds acid from
4383917113erythritol-builds acid from
4383928066gentiobiose-builds acid from
4383924265gluconate-builds acid from
4383917754glycerol-builds acid from
4383928087glycogen-builds acid from
4383917268myo-inositol-builds acid from
4383915443inulin-builds acid from
4383918403L-arabitol-builds acid from
4383962345L-rhamnose-builds acid from
4383917266L-sorbose-builds acid from
4383965328L-xylose-builds acid from
43839320061methyl alpha-D-glucopyranoside-builds acid from
4383943943methyl alpha-D-mannoside-builds acid from
43839506227N-acetylglucosamine-builds acid from
4383928017starch-builds acid from
4383927082trehalose-builds acid from
4383917151xylitol-builds acid from
4383917632nitrate-reduction
4383917057cellobiose+builds acid from
4383917634D-glucose+builds acid from
4383965327D-xylose+builds acid from
4383930849L-arabinose+builds acid from
4383917716lactose+builds acid from
4383917306maltose+builds acid from
4383928053melibiose+builds acid from
4383917814salicin+builds acid from
4383917992sucrose+builds acid from
4383927082trehalose+builds acid from
438394853esculin+hydrolysis
4383927613amygdalin+/-builds acid from
4383915824D-fructose+/-builds acid from
4383912936D-galactose+/-builds acid from
4383916899D-mannitol+/-builds acid from
4383916024D-mannose+/-builds acid from
4383928066gentiobiose+/-builds acid from
438396731melezitose+/-builds acid from
4383974863methyl beta-D-xylopyranoside+/-builds acid from
4383932528turanose+/-builds acid from
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
683716731melezitose-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: 43839
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
43839catalase-1.11.1.6
43839cytochrome oxidase-1.9.3.1
43839urease+3.5.1.5
43839arginine dihydrolase+3.5.3.6
43839proline-arylamidase+3.4.11.5
43839leucyl glycin arylamidase+3.4.11.1
43839phenylalanine arylamidase+
43839leucine arylamidase+3.4.11.1
43839tyrosine arylamidase+
43839alanine arylamidase+3.4.11.2
43839glycin arylamidase+
43839histidine arylamidase+
43839serine arylamidase+
43839alkaline phosphatase-3.1.3.1
43839esterase Lipase (C 8)-
43839valine arylamidase-
43839cystine arylamidase-3.4.11.3
43839trypsin-3.4.21.4
43839alpha-chymotrypsin-3.4.21.1
43839beta-glucuronidase-3.2.1.31
43839alpha-mannosidase-3.2.1.24
43839alpha-fucosidase-3.2.1.51
43839alpha-galactosidase-3.2.1.22
438396-phospho-beta-galactosidase-3.2.1.85
43839alpha-glucosidase-3.2.1.20
43839beta-glucosidase-3.2.1.21
43839alpha-arabinosidase-3.2.1.55
43839N-acetyl-beta-glucosaminidase-3.2.1.52

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
24134----+-+---+++--------+-+++++++++---+++-++------+--

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
24134faeces of baby common marmosets (Callithrix jacchus L.)Callithrix jacchusVeronaItalyITAEurope
43839The feaces of common marmosets (Callithrix jacchus L.)
67770Feces of a common marmosets

isolation source categories

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

Safety information

risk assessment

  • @ref: 24134
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 24134
  • description: Bifidobacterium myosotis strain MRM_5.9 16S ribosomal RNA gene, partial sequence
  • accession: KP718941
  • length: 1423
  • database: ena
  • NCBI tax ID: 1630166

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Bifidobacterium myosotis DSM 100196GCA_002259745contigncbi1630166
66792Bifidobacterium myosotis strain DSM 1001961630166.3wgspatric1630166
66792Bifidobacterium myosotis DSM 1001962791355235draftimg1630166

GC content

  • @ref: 24134
  • GC-content: 65.1
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 24134

culture collection no.: DSM 100196, JCM 30796, MRM 5.9, KCTC 15589

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny31180316Bifidobacterium jacchi sp. nov., isolated from the faeces of a baby common marmoset (Callithrix jacchus).Modesto M, Watanabe K, Arita M, Satti M, Oki K, Sciavilla P, Patavino C, Camma C, Michelini S, Sgorbati B, Mattarelli PInt J Syst Evol Microbiol10.1099/ijsem.0.0035182019Animals, Bacterial Typing Techniques, Base Composition, Bifidobacterium/*classification/isolation & purification, Callithrix/*microbiology, DNA, Bacterial/genetics, Fatty Acids/chemistry, Feces/*microbiology, Genes, Bacterial, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNATranscriptome
Phylogeny31585749Characterization of Bifidobacterium species in feaces of the Egyptian fruit bat: Description of B. vespertilionis sp. nov. and B. rousetti sp. nov.Modesto M, Satti M, Watanabe K, Puglisi E, Morelli L, Huang CH, Liou JS, Miyashita M, Tamura T, Saito S, Mori K, Huang L, Sciavilla P, Sandri C, Spiezio C, Vitali F, Cavalieri D, Perpetuini G, Tofalo R, Bonetti A, Arita M, Mattarelli PSyst Appl Microbiol10.1016/j.syapm.2019.1260172019Amino Acids/analysis, Animals, Base Composition, Bifidobacterium/chemistry/*classification/genetics/growth & development, Chiroptera/*microbiology, DNA, Bacterial/genetics, Egypt, Fatty Acids/analysis, Feces/*microbiology, Genes, Essential/genetics, Genetic Variation, Genome, Bacterial/genetics, Nucleic Acid Hybridization, Peptidoglycan/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species SpecificityGenetics

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
24134Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-100196Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 100196)
43839Samanta Michelini, Kaihei Oki, Emiko Yanokura, Yasuhisa Shimakawa, Monica Modesto, Paola Mattarelli, Bruno Biavati, Koichi WatanabeBifidobacterium myosotis sp. nov., Bifidobacterium tissieri sp. nov. and Bifidobacterium hapali sp. nov., isolated from faeces of baby common marmosets (Callithrix jacchus L.)10.1099/ijsem.0.000708IJSEM 66: 255-265 201626515885
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