Strain identifier

BacDive ID: 23073

Type strain: Yes

Species: Lactiplantibacillus xiangfangensis

Strain Designation: 3.1.1

Strain history: LMG 26013 <-- C. T. Gu; Northeast Agric. Univ., China; 3.1.1.

NCBI tax ID(s): 942150 (species)

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General

@ref: 19139

BacDive-ID: 23073

DSM-Number: 27103

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

description: Lactiplantibacillus xiangfangensis 3.1.1 is a microaerophile, mesophilic, Gram-positive bacterium that was isolated from pickle.

NCBI tax id

  • NCBI tax id: 942150
  • Matching level: species

strain history

@refhistory
19139<- LMG <- C. T. Gu, Northeast Agricultural Univ., Harbin, China
67770LMG 26013 <-- C. T. Gu; Northeast Agric. Univ., China; 3.1.1.

doi: 10.13145/bacdive23073.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Lactobacillales
  • family: Lactobacillaceae
  • genus: Lactiplantibacillus
  • species: Lactiplantibacillus xiangfangensis
  • full scientific name: Lactiplantibacillus xiangfangensis (Gu et al. 2012) Zheng et al. 2020

  • synonyms

    • @ref: 20215
    • synonym: Lactobacillus xiangfangensis

@ref: 19139

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Lactobacillaceae

genus: Lactiplantibacillus

species: Lactiplantibacillus xiangfangensis

full scientific name: Lactiplantibacillus xiangfangensis (Gu et al. 2012) Zheng et al. 2020

strain designation: 3.1.1

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
30238positiverod-shaped
69480no96.955
69480positive100

Culture and growth conditions

culture medium

  • @ref: 19139
  • 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
19139positivegrowth30mesophilic
30238positiveoptimum30mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
19139microaerophile
30238facultative anaerobe

spore formation

@refspore formationconfidence
30238no
69481no100
69480no99.999

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3023815963ribitol+carbon source
3023817057cellobiose+carbon source
3023828757fructose+carbon source
3023828260galactose+carbon source
3023817234glucose+carbon source
3023817306maltose+carbon source
3023829864mannitol+carbon source
3023837684mannose+carbon source
30238506227N-acetylglucosamine+carbon source
3023833942ribose+carbon source
3023817814salicin+carbon source
3023830911sorbitol+carbon source
3023817992sucrose+carbon source
3023827082trehalose+carbon source
3023818222xylose+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
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

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
19139-----------+++----++--+--++++--++------+/-----------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
19139pickleHeilongjiang Province, HarbinChinaCHNAsia
67770Chinese pickleHeilongjiang ProvinceChinaCHNAsia

isolation source categories

  • Cat1: #Engineered
  • Cat2: #Food production
  • Cat3: #Food

Safety information

risk assessment

  • @ref: 19139
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 19139
  • description: Lactobacillus xiangfangensis strain 3.1.1 16S ribosomal RNA gene, partial sequence
  • accession: HM443954
  • length: 1447
  • database: ena
  • NCBI tax ID: 942150

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Lactobacillus xiangfangensis strain LMG 26013942150.3wgspatric942150
66792Lactiplantibacillus xiangfangensis LMG 260132700989271draftimg942150
67770Lactiplantibacillus xiangfangensis LMG 26013GCA_001438845scaffoldncbi942150

GC content

@refGC-contentmethod
1913946.6
6777045.1genome sequence analysis
6777046.6thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno93.876no
flagellatedno97.588no
gram-positiveyes96.208no
anaerobicno86.44no
halophileyes90.323no
spore-formingno94.196yes
glucose-utilyes92.153yes
aerobicno98.357yes
thermophileno99.835no
glucose-fermentyes85.226no

External links

@ref: 19139

culture collection no.: DSM 27103, LMG 26013, NCIMB 14687, JCM 30915, KCTC 21028, NBRC 108914

straininfo link

  • @ref: 87311
  • straininfo: 370880

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny21622835Lactobacillus xiangfangensis sp. nov., isolated from Chinese pickle.Gu CT, Wang F, Li CY, Liu F, Huo GCInt J Syst Evol Microbiol10.1099/ijs.0.031468-02011Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Fermentation, *Food Microbiology, Lactobacillus/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNABiotechnology
Phylogeny23950151Lactobacillus mudanjiangensis sp. nov., Lactobacillus songhuajiangensis sp. nov. and Lactobacillus nenjiangensis sp. nov., isolated from Chinese traditional pickle and sourdough.Gu CT, Li CY, Yang LJ, Huo GCInt J Syst Evol Microbiol10.1099/ijs.0.054296-02013Bacterial Typing Techniques, Base Composition, Bread/microbiology, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Fermentation, *Food Microbiology, Genes, Bacterial, Lactobacillus/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vegetables/microbiologyBiotechnology
Phylogeny32228805Lactobacillus garii sp. nov., isolated from a fermented cassava product.Diaz M, Sayavedra L, Atter A, Mayer MJ, Saha S, Amoa-Awua W, Narbad AInt J Syst Evol Microbiol10.1099/ijsem.0.0041212020Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Fermented Foods/*microbiology, *Food Microbiology, Genes, Bacterial, Ghana, Lactobacillus/*classification/isolation & purification, Manihot/*microbiology, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNABiotechnology

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
19139Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 27103)https://www.dsmz.de/collection/catalogue/details/culture/DSM-27103
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
30238Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2658028776041
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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
87311Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID370880.1StrainInfo: A central database for resolving microbial strain identifiers