Strain identifier

BacDive ID: 6862

Type strain: Yes

Species: Fructobacillus ficulneus

Strain Designation: FS-1

Strain history: CIP <- 2002, M. S. Da Costa, Coimbra Univ., Coimbra, Portugal: strain FS-1

NCBI tax ID(s): 157463 (species)

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General

@ref: 5114

BacDive-ID: 6862

DSM-Number: 13613

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic

description: Fructobacillus ficulneus FS-1 is an obligate aerobe, mesophilic bacterium that was isolated from ripe fig.

NCBI tax id

  • NCBI tax id: 157463
  • Matching level: species

strain history

@refhistory
5114<- M.S. da Costa; FS-1
67770DSM 13613 <-- M. S. da Costa FS-1.
119343CIP <- 2002, M. S. Da Costa, Coimbra Univ., Coimbra, Portugal: strain FS-1

doi: 10.13145/bacdive6862.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Lactobacillales
  • family: Lactobacillaceae
  • genus: Fructobacillus
  • species: Fructobacillus ficulneus
  • full scientific name: Fructobacillus ficulneus (Antunes et al. 2002) Endo and Okada 2008

  • synonyms

    • @ref: 20215
    • synonym: Leuconostoc ficulneum

@ref: 5114

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Leuconostocaceae

genus: Fructobacillus

species: Fructobacillus ficulneus

full scientific name: Fructobacillus ficulneus (Antunes et al. 2002) Endo and Okada 2008

strain designation: FS-1

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no96.022
69480100positive
119343nopositiverod-shaped

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5114MRS MEDIUM (DSMZ Medium 11)yeshttps://mediadive.dsmz.de/medium/11Name: MRS MEDIUM (DSMZ Medium 11; with strain-specific modifications) Composition: Glucose 20.0 g/l Fructose 10.0 g/l Meat extract 10.0 g/l Casein peptone 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
40712MEDIUM 40- for Lactobacillus and LeuconostocyesDistilled water make up to (1000.000 ml);Man Rogosa Sharp agar (68.000 g)
119343CIP Medium 40yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=40

culture temp

@refgrowthtypetemperaturerange
5114positivegrowth30mesophilic
40712positivegrowth30mesophilic
67770positivegrowth30mesophilic
119343positivegrowth15-37
119343nogrowth10psychrophilic
119343nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 119343
  • oxygen tolerance: obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.999

murein

  • @ref: 5114
  • murein short key: A11.04
  • type: A3alpha L-Lys-L-Ala

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
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
68371gentiobiose-builds acid from28066
68371xylitol-builds acid from17151
68371glycogen-builds acid from28087
68371starch-builds acid from28017
68371raffinose-builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371melibiose-builds acid from28053
68371lactose-builds acid from17716
68371maltose-builds acid from17306
68371cellobiose-builds acid from17057
68371salicin-builds acid from17814
68371esculin-builds acid from4853
68371arbutin-builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine-builds acid from59640
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
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-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
119343nitrate-reduction17632
119343nitrite-reduction16301
119343nitrate-respiration17632

antibiotic resistance

  • @ref: 119343
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite tests

  • @ref: 119343
  • Chebi-ID: 15688
  • metabolite: acetoin
  • voges-proskauer-test: -

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase+3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)-
68382esterase (C 4)-
68382alkaline phosphatase-3.1.3.1
119343oxidase-
119343alcohol dehydrogenase+1.1.1.1
119343catalase-1.11.1.6
119343lysine decarboxylase+4.1.1.18
119343ornithine decarboxylase-4.1.1.17

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
119343-----+----++---+----

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
5114-----------++-----+------------++-------+------+--
119343----------+/-+/------+/-------------+/-+/--------+/-------+/---

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic locationisolation date
5114ripe figPortugalPRTEurope
67770Ripe fig boughtPortugalPRTEurope
119343Ripe figPortugalPRTEuropeCoimbra2000

isolation source categories

  • Cat1: #Host Body-Site
  • Cat2: #Plant
  • Cat3: #Fruit (Seed)

taxonmaps

  • @ref: 69479
  • File name: preview.99_4212.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_22;96_1366;97_1622;98_1973;99_4212&stattab=map
  • Last taxonomy: Fructobacillus ficulneus
  • 16S sequence: LC145569
  • Sequence Identity:
  • Total samples: 2564
  • soil counts: 62
  • aquatic counts: 181
  • animal counts: 2252
  • plant counts: 69

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
51141Risk group (German classification)
1193431Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
5114Leuconostoc ficulneus 16S ribosomal RNA gene, partial sequenceAF3607361475ena157463
67770Fructobacillus ficulneus gene for 16S ribosomal RNA, partial sequence, strain: JCM 12225LC1455691488ena157463

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Fructobacillus ficulneus strain JCM 12225157463.3wgspatric157463
66792Fructobacillus ficulneus JCM 122252775506870draftimg157463
67770Fructobacillus ficulneus JCM 12225GCA_001047075scaffoldncbi157463

GC content

@refGC-contentmethod
511443.4high performance liquid chromatography (HPLC)
6777042.6high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno96.605no
gram-positiveyes94.728no
anaerobicno84.963no
aerobicno96.502no
halophileyes88.587no
spore-formingno95.402no
glucose-utilyes84.634no
flagellatedno98.376no
thermophileno99.482yes
glucose-fermentyes86.372no

External links

@ref: 5114

culture collection no.: DSM 13613, JCM 12225, LMG 21928, NRRL B-23447, BCRC 81231, CIP 107593

straininfo link

  • @ref: 76327
  • straininfo: 100733

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny11931179Leuconostoc ficulneum sp. nov., a novel lactic acid bacterium isolated from a ripe fig, and reclassification of Lactobacillus fructosus as Leuconostoc fructosum comb. nov.Antunes A, Rainey FA, Nobre MF, Schumann P, Ferreira AM, Ramos A, Santos H, da Costa MSInt J Syst Evol Microbiol10.1099/00207713-52-2-6472002Carbohydrate Metabolism, Catalase/metabolism, DNA, Bacterial/chemistry, Fatty Acids/analysis, Fruit/*microbiology, Lactobacillus/*classification/physiology, Leuconostoc/*classification/isolation & purification/physiology, Molecular Sequence Data, Nucleic Acid Denaturation, Phylogeny, RNA, Bacterial/chemistry, RNA, Ribosomal, 16S/chemistry, Time FactorsMetabolism
Phylogeny18768629Reclassification of the genus Leuconostoc and proposals of Fructobacillus fructosus gen. nov., comb. nov., Fructobacillus durionis comb. nov., Fructobacillus ficulneus comb. nov. and Fructobacillus pseudoficulneus comb. nov.Endo A, Okada SInt J Syst Evol Microbiol10.1099/ijs.0.65609-02008Acetic Acid/metabolism, Bacterial Proteins/genetics, Bacterial Typing Techniques, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, DNA, Ribosomal Spacer/chemistry/genetics, DNA-Directed RNA Polymerases/genetics, Ethanol/metabolism, Genes, rRNA, Genotype, Glucose/metabolism, Leuconostoc/*classification/cytology/genetics/metabolism, Microscopy, Electron, Scanning, Molecular Sequence Data, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Rec A Recombinases/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic AcidMetabolism

Reference

@idauthorscataloguedoi/urltitle
5114Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 13613)https://www.dsmz.de/collection/catalogue/details/culture/DSM-13613
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
40712Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5045
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
68382Automatically annotated from API zym
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
76327Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID100733.1StrainInfo: A central database for resolving microbial strain identifiers
119343Curators of the CIPCollection of Institut Pasteur (CIP 107593)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107593