Strain identifier

BacDive ID: 158785

Type strain: Yes

Species: Veillonella infantium

Strain Designation: TSD-88, T11011-4

Strain history: I. Mashima; Sch. of Dentistry, Health Sci. Univ. of Hokkaido, Japan; T11011-4.

NCBI tax ID(s): 1911679 (species)

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General

@ref: 65539

BacDive-ID: 158785

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-negative, coccus-shaped, colony-forming

description: Veillonella infantium TSD-88 is an anaerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from tongue biofilm of a healthy Thai child aged 10 years.

NCBI tax id

  • NCBI tax id: 1911679
  • Matching level: species

strain history

  • @ref: 67770
  • history: I. Mashima; Sch. of Dentistry, Health Sci. Univ. of Hokkaido, Japan; T11011-4.

doi: 10.13145/bacdive158785.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Negativicutes
  • order: Veillonellales
  • family: Veillonellaceae
  • genus: Veillonella
  • species: Veillonella infantium
  • full scientific name: Veillonella infantium Mashima et al. 2018

@ref: 65539

domain: Bacteria

phylum: Firmicutes

class: Negativicutes

order: Veillonellales

family: Veillonellaceae

genus: Veillonella

species: Veillonella infantium

strain designation: TSD-88, T11011-4

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell shapemotilityconfidence
65539negative0.3-0.5 µmcoccus-shapedno
69480no92.141
69480negative99.97

colony morphology

  • @ref: 65539
  • colony size: 0.5-2 mm
  • colony color: greyish white
  • colony shape: circular
  • incubation period: 5 days
  • medium used: BHI blood agar

Culture and growth conditions

culture medium

@refnamegrowth
65539TGYyes
65539TYHyes
65539TGYHyes
65539BHI blood agaryes
65539TFYHyes

culture temp

  • @ref: 67770
  • growth: positive
  • type: growth
  • temperature: 37
  • range: mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
65539anaerobe
69480anaerobe98.996

spore formation

@refspore formationconfidence
65539no
69480no99.987
69481no100

observation

  • @ref: 65539
  • observation: decolorization of basic fuchsin in Veillonella agar selective medium

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6553924996lactate+fermentation
6553917632nitrate+reduction

enzymes

@refvalueactivityec
65539catalase-1.11.1.6
65539pyroglutamic acid arylamidase+
65539esterase (C 4)+
65539esterase Lipase (C 8)+
65539acid phosphatase+3.1.3.2
65539naphthol-AS-BI-phosphohydrolase+

Isolation, sampling and environmental information

isolation

@refsample typesampling dategeographic locationcountryorigin.countrycontinentenrichment cultureenrichment culture compositionenrichment culture durationenrichment culture temperatureisolation procedure
65539tongue biofilm of a healthy Thai child aged 10 years2015Mahidol University Faculty of DentistryThailandTHAAsiabrain heart infusionsupplemented with 5 %(w/v) defibrinated sheep blood5 days37anaerobic
67770Tongue biofilm of a Thai child

isolation source categories

Cat1Cat2Cat3
#Host#Human#Child
#Environmental#Biofilm
#Host Body-Site#Oral cavity and airways

taxonmaps

  • @ref: 69479
  • File name: preview.99_1576.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_39;96_80;97_84;98_1243;99_1576&stattab=map
  • Last taxonomy: Veillonella
  • 16S sequence: LC191258
  • Sequence Identity:
  • Total samples: 5887
  • soil counts: 4
  • aquatic counts: 15
  • animal counts: 5852
  • plant counts: 16

Sequence information

16S sequences

  • @ref: 65539
  • description: 16S rRNA gene sequence
  • accession: LC191258
  • database: nuccore

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Veillonella infantium T11011-4GCA_002959895contigncbi1911679
66792Veillonella infantium strain T11011-41911679.3wgspatric1911679
66792Veillonella infantium T11011-42882408160draftimg1911679

GC content

  • @ref: 65539
  • GC-content: 38.6

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno91.316yes
gram-positiveno93.958yes
anaerobicyes99.556yes
aerobicno97.853yes
halophileno80.451no
spore-formingno91.248yes
glucose-utilyes52.715no
flagellatedno96.79yes
thermophileno97.856no
glucose-fermentyes53.547no

External links

@ref: 65539

culture collection no.: JCM 31738, ATCC TSD-88

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny29458564Veillonella infantium sp. nov., an anaerobic, Gram-stain-negative coccus isolated from tongue biofilm of a Thai child.Mashima I, Liao YC, Miyakawa H, Theodorea CF, Thawboon B, Thaweboon S, Scannapieco FA, Nakazawa FInt J Syst Evol Microbiol10.1099/ijsem.0.0026322018Bacterial Typing Techniques, *Biofilms, Child, DNA, Bacterial/genetics, Genes, Bacterial, Humans, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Thailand, Tongue/*microbiology, Veillonella/*classification/genetics/isolation & purificationPathogenicity
Phylogeny29902516Establishment of a species-specific primer pair for detecting Veillonella infantium based on the 70kDa heat shock protein gene dnaK.Mashima I, Djais AA, Haase EM, Scannapieco FA, Otomo M, Saitoh M, Nakazawa FAnaerobe10.1016/j.anaerobe.2018.06.0042018Bacterial Proteins/genetics, Child, Child, Preschool, DNA Primers/*genetics, Female, Gram-Negative Bacterial Infections/*microbiology, HSP70 Heat-Shock Proteins/*genetics, Humans, Male, Phylogeny, Polymerase Chain Reaction, Species Specificity, Veillonella/classification/genetics/*isolation & purificationPathogenicity
Phylogeny33263509Veillonella nakazawae sp. nov., an anaerobic Gram-negative coccus isolated from the oral cavity of Japanese children.Mashima I, Theodorea CF, Djais AA, Kunihiro T, Kawamura Y, Otomo M, Saitoh M, Tamai R, Kiyoura YInt J Syst Evol Microbiol10.1099/ijsem.0.0045832020Bacterial Typing Techniques, Base Composition, Child, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Humans, Japan, Mouth/*microbiology, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Veillonella/*classification/isolation & purificationPathogenicity

Reference

@idauthorstitledoi/urljournalpubmed
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
65539Izumi Mashima, Yu-Chieh Liao, Hiroshi Miyakawa, Citra F. Theodorea, Boonyanit Thawboon, Sroisiri Thaweboon, Frank A. Scannapieco and Futoshi NakazawaVeillonella infantium sp. nov., an anaerobic, Gram-stain-negative coccus isolated from tongue biofilm of a Thai child10.1099/ijsem.0.002632IJSEM 68: 1101-1106 201829458564
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/
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