Strain identifier

BacDive ID: 24134

Type strain: Yes

Species: Loigolactobacillus iwatensis

Strain Designation: IWT246

Strain history: <- DSM <- M Tohno, National Agriculture and Food Res Org (NARO), Nat Inst of Livestock and Grassland Science, Tochigi, Japan, IWT246

NCBI tax ID(s): 1267156 (species)

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General

@ref: 20994

BacDive-ID: 24134

DSM-Number: 26942

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

description: Loigolactobacillus iwatensis IWT246 is a microaerophile, mesophilic, Gram-positive bacterium that was isolated from orchardgrass silage.

NCBI tax id

  • NCBI tax id: 1267156
  • Matching level: species

strain history

@refhistory
20994<- M. Tohno, National Agriculture and Food Res. Org. (NARO), Nat. Inst. of Livestock and Grassland Science, Tochigi, Japan; IWT246
67770M. Tohno IWT246.
67771<- DSM <- M Tohno, National Agriculture and Food Res Org (NARO), Nat Inst of Livestock and Grassland Science, Tochigi, Japan, IWT246

doi: 10.13145/bacdive24134.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Lactobacillales
  • family: Lactobacillaceae
  • genus: Loigolactobacillus
  • species: Loigolactobacillus iwatensis
  • full scientific name: Loigolactobacillus iwatensis (Tohno et al. 2013) Zheng et al. 2020

  • synonyms

    • @ref: 20215
    • synonym: Lactobacillus iwatensis

@ref: 20994

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Lactobacillaceae

genus: Loigolactobacillus

species: Loigolactobacillus iwatensis

full scientific name: Loigolactobacillus iwatensis (Tohno et al. 2013) Zheng et al. 2020

strain designation: IWT246

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
31094positive1.85 µm1 µmrod-shapedno
67771rod-shapedno
67771positive
69480no92.286
69480positive100

pigmentation

  • @ref: 31094
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 20994
  • name: MRS MEDIUM (DSMZ Medium 11)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/11
  • composition: Name: MRS MEDIUM (DSMZ Medium 11) Composition: Glucose 20.0 g/l Casein peptone 10.0 g/l Meat extract 10.0 g/l Na-acetate 5.0 g/l Yeast extract 5.0 g/l (NH4)3 citrate 2.0 g/l K2HPO4 2.0 g/l Tween 80 1.0 g/l MgSO4 x 7 H2O 0.2 g/l MnSO4 x H2O 0.05 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
20994positivegrowth30mesophilic
31094positivegrowth04-37
31094positiveoptimum30mesophilic
67770positivegrowth30mesophilic
67771positivegrowth30mesophilic

culture pH

  • @ref: 31094
  • ability: positive
  • type: growth
  • pH: 3.5-7.0
  • PH range: acidophile

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
20994microaerophile
31094facultative anaerobe
67771anaerobe

spore formation

@refspore formationconfidence
31094no
67771no
69481no100
69480no99.996

halophily

  • @ref: 31094
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 4.0-6.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3109428757fructose+carbon source
3109417234glucose+carbon source
3109429864mannitol+carbon source
3109437684mannose+carbon source
31094506227N-acetylglucosamine+carbon source
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
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
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

enzymes

  • @ref: 31094
  • value: acid phosphatase
  • activity: +
  • ec: 3.1.3.2

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
20994-----------+++----+---+--+------------------------
20994-----------+++--------+---------------------------

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
20994orchardgrass (Dactylis glomerata L.) silageDactylis glomerataIwate, HachimantaiJapanJPNAsia
67770Orchardgrass (Dactylis glomerata L.) silageDactylis glomerataIwateJapanJPNAsia
67771From orchardgrass, `Dactylis glomerata` L., silageIwate, HachimantaiJapanJPNAsia

isolation source categories

  • Cat1: #Host
  • Cat2: #Plants
  • Cat3: #Herbaceous plants (Grass,Crops)

taxonmaps

  • @ref: 69479
  • File name: preview.99_4331.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_45;96_2172;97_2628;98_3258;99_4331&stattab=map
  • Last taxonomy: Loigolactobacillus
  • 16S sequence: LC589207
  • Sequence Identity:
  • Total samples: 10605
  • soil counts: 1069
  • aquatic counts: 963
  • animal counts: 8029
  • plant counts: 544

Safety information

risk assessment

  • @ref: 20994
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20994Lactobacillus iwatensis gene for 16S ribosomal RNA, partial sequenceAB7734281491ena1267156
67770Loigolactobacillus iwatensis JCM 18838 gene for 16S rRNA, partial sequenceLC5892071505ena1267156

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Lactobacillus iwatensis strain JCM 188381267156.3wgspatric1267156
66792Loigolactobacillus iwatensis JCM 188382881701018draftimg1267156
67771Loigolactobacillus iwatensis JCM 18838GCA_003950295contigncbi1267156

GC content

@refGC-contentmethod
2099441.3high performance liquid chromatography (HPLC)
3109441.3
6777040.6genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno95.208yes
gram-positiveyes95.972yes
anaerobicno95.421no
aerobicno98.259yes
halophileyes88.552no
spore-formingno93.804yes
glucose-utilyes88.091yes
flagellatedno98.316no
thermophileno99.262no
glucose-fermentyes87.373no

External links

@ref: 20994

culture collection no.: DSM 26942, JCM 18838, KCTC 21046

straininfo link

  • @ref: 88092
  • straininfo: 390910

literature

  • topic: Phylogeny
  • Pubmed-ID: 23687059
  • title: Description of Lactobacillus iwatensis sp. nov., isolated from orchardgrass (Dactylis glomerata L.) silage, and Lactobacillus backii sp. nov.
  • authors: Tohno M, Kitahara M, Irisawa T, Masuda T, Uegaki R, Ohkuma M, Tajima K
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.051920-0
  • year: 2013
  • mesh: Bacterial Typing Techniques, Cell Wall/chemistry, DNA, Bacterial/genetics, Dactylis/*microbiology, Fatty Acids/analysis, Japan, Lactobacillus/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Silage/*microbiology
  • topic2: Genetics

Reference

@idauthorstitledoi/urlcatalogueID_cross_referencepubmed
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
20994Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-26942Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26942)
31094Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172742328776041
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
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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
88092Reimer, 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-ID390910.1