Strain identifier

BacDive ID: 6465

Type strain: No

Species: Lactobacillus paragasseri

Strain Designation: F 164

Strain history: CIP <- 1993, F. Gasser, Inst. Pasteur, Paris, France: strain VPI 6033, Lactobacillus acidophilus, group B1

NCBI tax ID(s): 2107999 (species)

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General

@ref: 8505

BacDive-ID: 6465

DSM-Number: 20077

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, human pathogen

description: Lactobacillus paragasseri F 164 is an anaerobe, mesophilic human pathogen that was isolated from human faeces.

NCBI tax id

  • NCBI tax id: 2107999
  • Matching level: species

strain history

@refhistory
8505<- G. Reuter, F 164
418351993, F. Gasser, Inst. Pasteur, Paris, France: strain VPI 6033, Lactobacillus acidophilus, group B1
67770DSM 20077 <-- G. Reuter F164 (Lactobacillus acidophilus).
119541CIP <- 1993, F. Gasser, Inst. Pasteur, Paris, France: strain VPI 6033, Lactobacillus acidophilus, group B1

doi: 10.13145/bacdive6465.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Lactobacillales
  • family: Lactobacillaceae
  • genus: Lactobacillus
  • species: Lactobacillus paragasseri
  • full scientific name: Lactobacillus paragasseri Tanizawa et al. 2018

@ref: 8505

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Lactobacillaceae

genus: Lactobacillus

species: Lactobacillus paragasseri

full scientific name: Lactobacillus paragasseri Tanizawa et al. 2018

strain designation: F 164

type strain: no

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no94.417
69480100positive
119541nopositiverod-shaped

colony morphology

  • @ref: 119541
  • hemolysis ability: 1

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8505MRS MEDIUM (DSMZ Medium 11)yeshttps://mediadive.dsmz.de/medium/11Name: 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
41835MEDIUM 40- for Lactobacillus and LeuconostocyesDistilled water make up to (1000.000 ml);Man Rogosa Sharp agar (68.000 g)
119541CIP Medium 40yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=40

culture temp

@refgrowthtypetemperaturerange
8505positivegrowth37mesophilic
41835positivegrowth37mesophilic
55017positivegrowth37mesophilic
67770positivegrowth37mesophilic
119541positivegrowth15-45

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
8505anaerobe
8505microaerophile
55017anaerobe
55017microaerophile
119541facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.978

murein

  • @ref: 8505
  • murein short key: A11.31
  • type: A4alpha L-Lys-D-Asp

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
68371gluconate-builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose+builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose-builds acid from32528
68371raffinose-builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371trehalose+builds acid from27082
68371sucrose+builds acid from17992
68371melibiose-builds acid from28053
68371maltose+builds acid from17306
68371cellobiose+builds acid from17057
68371esculin+builds acid from4853
68371N-acetylglucosamine+builds acid from59640
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371D-mannitol-builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose+builds acid from16024
68371D-fructose+builds acid from15824
68371D-glucose+builds acid from17634
68371D-galactose+builds acid from12936
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose-builds acid from65327
68371D-ribose-builds acid from16988
68371L-arabinose-builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol-builds acid from17754
119541nitrate-reduction17632
119541nitrite-reduction16301
119541nitrate+respiration17632
68381arginine-hydrolysis29016
68381D-ribose-builds acid from16988
68381D-mannitol-builds acid from16899
68381sorbitol-builds acid from30911
68381lactose-builds acid from17716
68381trehalose+builds acid from27082
68381raffinose-builds acid from16634
68381sucrose+builds acid from17992
68381L-arabinose-builds acid from30849
68381D-arabitol-builds acid from18333
68381alpha-cyclodextrin-builds acid from40585
68381hippurate-hydrolysis606565
68381glycogen-builds acid from28087
68381pullulan-builds acid from27941
68381maltose-builds acid from17306
68381melibiose-builds acid from28053
68381melezitose-builds acid from6731
68381methyl beta-D-glucopyranoside+builds acid from320055
68381D-tagatose-builds acid from16443
68381urea-hydrolysis16199

antibiotic resistance

  • @ref: 119541
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

@refChebi-IDmetaboliteproduction
11954135581indoleno
6838115688acetoinyes

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-test
6838115688acetoin+
11954115688acetoin+

enzymes

@refvalueactivityec
68381urease-3.5.1.5
68381beta-mannosidase-3.2.1.25
68381glycyl tryptophan arylamidase-
68381N-acetyl-beta-glucosaminidase-3.2.1.52
68381pyrrolidonyl arylamidase-3.4.19.3
68381beta-galactosidase-3.2.1.23
68381Alanyl-Phenylalanyl-Proline arylamidase-
68381alkaline phosphatase-3.1.3.1
68381alpha-galactosidase-3.2.1.22
68381beta-glucuronidase+3.2.1.31
68381beta-glucosidase+3.2.1.21
68381arginine dihydrolase-3.5.3.6
119541oxidase-
119541alcohol dehydrogenase-1.1.1.1
119541catalase-1.11.1.6
119541lysine decarboxylase-4.1.1.18
119541ornithine decarboxylase-4.1.1.17
119541urease-3.5.1.5

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
8505----------++++--------++++++++-++------+--+-------
8505----------++++--------++++++++-++---+--+--+-------
8505----------++++--------+-+/-+-++--++---+++---+-------
55017----------++++--------++++++++-++---+--+--+-------

API rID32STR

@refADH Argbeta GLUbeta GARbeta GURalpha GALPALRIBMANSORLACTRERAFSACLARADARLCDEXVPAPPAbeta GALPyrAbeta NAGGTAHIPGLYGPULMALMELMLZMbeta DGTAGbeta MANURE
55017-+-+------+-+---+-----------+---

Isolation, sampling and environmental information

isolation

@refsample type
8505human faeces
55017Human feces
67770Human feces
119541Human, Faeces

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body Product#Gastrointestinal tract#Feces (Stool)

taxonmaps

  • @ref: 69479
  • File name: preview.99_840.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_46;96_506;97_581;98_668;99_840&stattab=map
  • Last taxonomy: Lactobacillus
  • 16S sequence: LC374362
  • Sequence Identity:
  • Total samples: 185237
  • soil counts: 4782
  • aquatic counts: 5652
  • animal counts: 173268
  • plant counts: 1535

Safety information

risk assessment

@refpathogenicity humanbiosafety levelbiosafety level comment
8505yes, in single cases1Risk group (German classification)
1195411Risk group (French classification)

Sequence information

16S sequences

  • @ref: 67770
  • description: Lactobacillus paragasseri gene for 16S ribosomal RNA, partial sequence
  • accession: LC374362
  • length: 1495
  • database: ena
  • NCBI tax ID: 2107999

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Lactobacillus gasseri strain JCM 11301596.86wgspatric1596
67770Lactobacillus paragasseri JCM 1130GCA_003307255scaffoldncbi2107999

GC content

@refGC-content
850533.0
6777033
6777034.9

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno96.268no
gram-positiveyes96.336no
anaerobicno62.126no
aerobicno97.733no
halophileyes88.762no
spore-formingno95.846no
thermophileno99.44yes
glucose-utilyes93.644no
flagellatedno97.773no
glucose-fermentyes91.118no

External links

@ref: 8505

culture collection no.: DSM 20077, ATCC 19992, WDCM 00103, CCUG 39972, CIP 103699, JCM 1130, KCTC 3162, VPI 6033, LMG 13047, NCIMB 13081, CECT 8109, NCTC 13643

straininfo link

  • @ref: 75937
  • straininfo: 125771

literature

  • topic: Phylogeny
  • Pubmed-ID: 30226464
  • title: Lactobacillus paragasseri sp. nov., a sister taxon of Lactobacillus gasseri, based on whole-genome sequence analyses.
  • authors: Tanizawa Y, Tada I, Kobayashi H, Endo A, Maeno S, Toyoda A, Arita M, Nakamura Y, Sakamoto M, Ohkuma M, Tohno M
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.003020
  • year: 2018
  • mesh: Bacterial Typing Techniques, DNA, Bacterial/genetics, DNA-Directed RNA Polymerases/genetics, Fatty Acids/chemistry, *Genome, Bacterial, Lactobacillus/*classification/genetics, Lactobacillus gasseri, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitle
8505Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20077)https://www.dsmz.de/collection/catalogue/details/culture/DSM-20077
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
41835Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/15525
55017Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 39972)https://www.ccug.se/strain?id=39972
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
68381Automatically annotated from API rID32STR
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
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
75937Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID125771.1StrainInfo: A central database for resolving microbial strain identifiers
119541Curators of the CIPCollection of Institut Pasteur (CIP 103699)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103699