Workshop and Q&A October 6th

Strain identifier

BacDive ID: 24133

Type strain: Yes

Species: Secundilactobacillus oryzae

Strain history: <- DSM <- M Tohno, National Agriculture and Food Res Org (NARO), Nat. Inst. of Livestock and Grassland Science, Tochigi, Japan, SG293

NCBI tax ID(s): 1202668 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
version 7 (current version):
version 6:
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version 7 (current version)


@ref: 20993

BacDive-ID: 24133

DSM-Number: 26518

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

description: Secundilactobacillus oryzae DSM 26518 is a microaerophile, mesophilic, Gram-positive bacterium that was isolated from fermented rice grains.

NCBI tax id

  • NCBI tax id: 1202668
  • Matching level: species

strain history

doi: 10.13145/bacdive24133.20220920.7

Name and taxonomic classification


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

    • @ref: 20215
    • synonym: Lactobacillus oryzae

@ref: 20993

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Lactobacillaceae

genus: Secundilactobacillus

species: Secundilactobacillus oryzae

full scientific name: Secundilactobacillus oryzae (Tohno et al. 2013) Zheng et al. 2020

type strain: yes


cell morphology

@refgram staincell lengthcell widthcell shapemotility
30984positive5 µm1 µmrod-shapedno


  • @ref: 30984
  • production: yes

Culture and growth conditions

culture medium

33558MEDIUM 40- for Lactobacillus and LeuconostocyesDistilled water make up to (1000.000 ml);Man Rogosa Sharp agar (68.000 g)
20993MRS MEDIUM (DSMZ Medium 11)yesName: 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


culture pH

  • @ref: 30984
  • ability: positive
  • type: growth
  • pH: 5.0-8.0

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
30984facultative anaerobe

spore formation

@refspore formation


  • @ref: 30984
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 04-08 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
30984168082-dehydro-D-gluconate+carbon source
3098424265gluconate+carbon source
3098417234glucose+carbon source
3098417306maltose+carbon source
30984506227N-acetylglucosamine+carbon source
3098433942ribose+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
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


30984acid phosphatase+
30984alkaline phosphatase+

API 50CHac


Isolation, sampling and environmental information


@refsample typegeographic locationcountryorigin.countrycontinenthost species
20993fermented rice grainsTochigi, OhtawaraJapanJPNAsia
67770Fermented rice grain (Oryza sativa L. subsp. japonica)Ohtawara, TochigiJapanJPNAsiaOryza sativa L. subsp. japonica
67771From fermented rice grainsTochigi, OhtawaraJapanJPNAsia

isolation source categories

#Engineered#Food production#Vegetable (incl. Grains)
#Host#Plants#Herbaceous plants (Grass,Crops)
#Engineered#Food production#Fermented

Safety information

risk assessment

  • @ref: 20993
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20993Lactobacillus oryzae gene for 16S ribosomal RNA, partial sequence, strain: SG293AB7316601488ena1291743
67770Lactobacillus oryzae JCM 18671 gene for 16S rRNA, partial sequenceLC5219921502ena1291743

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Schleiferilactobacillus oryzae JCM 18671 SG293GCA_000740055contigncbi1291743
66792Schleiferilactobacillus oryzae JCM 18671 JCM 18671GCA_001311525contigncbi1291743
66792Lactobacillus oryzae JCM 186711291743.4wgspatric1291743
66792Lactobacillus oryzae JCM 186711291743.3wgspatric1291743
66792Secundilactobacillus oryzae JCM 186712728369689draftimg1291743
67771Schleiferilactobacillus oryzae JCM 18671 strain SG293, whole genome shotgun sequencing projectBBJM00000000ncbi1291743

GC content

2099343.4high performance liquid chromatography (HPLC)
6777042.8genome sequence analysis

External links

@ref: 20993

culture collection no.: DSM 26518, JCM 18671, KCTC 21047, SG 293

straininfo link



Phylogeny23378109Lactobacillus oryzae sp. nov., isolated from fermented rice grain (Oryza sativa L. subsp. japonica).Tohno M, Kitahara M, Irisawa T, Inoue H, Uegaki R, Ohkuma M, Tajima KInt J Syst Evol Microbiol10.1099/ijs.0.048918-02013Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/analysis, *Fermentation, Food Microbiology, Japan, Lactobacillus/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Oryza/*microbiology, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNABiotechnology
Genetics25169865Draft Genome Sequence of Lactobacillus oryzae Strain SG293T.Tanizawa Y, Fujisawa T, Mochizuki T, Kaminuma E, Nakamura Y, Tohno MGenome Announc10.1128/genomeA.00861-142014


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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.StrainInfo introduces electronic passports for microorganisms.10.1016/j.syapm.2013.11.002Syst Appl Microbiol. 37: 42-50 201424321274
20993Curators of the DSMZ Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26518)
30984Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172877604127314
33558Curators of the CIP
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)
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 JCM
67771Curators of the KCTC
68371Automatically annotated from API 50CH acid