Name: Vagococcus hydrophili or JCM 33683
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 166679

Type strain:

Species: Vagococcus hydrophili

Strain Designation: or JCM 33683, also known as KACC 21345, HDW17B

Culture col. no.: KCTC 43113, JCM 33683, KACC 21345

NCBI tax ID(s): 2714947 (species)

Special Collections

JCM
KCTC

When using BacDive for research please cite our paper

Vagococcus hydrophili or JCM 33683 is a bacterium of the family Enterococcaceae.

16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Bacillota*
	Class	*Bacilli*
	Order	*Lactobacillales*
	Family	*Enterococcaceae*
	Genus	*Vagococcus*
	Species	**Vagococcus hydrophili**
	Full Scientific Name (LPSN)	Vagococcus hydrophili Hyun et al. 2022

Information on physiology and metabolism Physiology and metabolism

[Ref.: #125439]

Oxygen tolerance

microaerophile Confidence in %95

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #20215]	Vagococcus hydrophili strain HDW17B 16S ribosomal RNA gene, partial sequence	MN099420	1483	GenBank ENA	2714947 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Vagococcus hydrophili HDW17B	GCA_011304195	complete	GenBank ENA	2714947 tax ID	*
[Ref.: #66792]	Vagococcus sp. HDW17B	2714947.3	complete	PATRIC	2714947 tax ID	*

Data predicted using genome information as a basis Genome-based predictions

	Model	Trait	Prediction	Confidence in %	In training data
	Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Vagococcus hydrophili HDW17B NCBI: GCA_011304195.1
[Ref.: #125438]	gram-positive	gram-positiveⓘ	yes	83.882	no
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	86.412	no
[Ref.: #125438]	aerobic	aerobicⓘ	no	87.95	no
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	64.399	no
[Ref.: #125438]	thermophile	thermophilicⓘ	no	94.995	no
[Ref.: #125438]	motile2+	flagellatedⓘ	yes	58.1	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Vagococcus hydrophili HDW17B NCBI: GCA_011304195
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	no	63.7
[Ref.: #125439]	BacteriaNet	motilityⓘ	no	58.1
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	positive	80.9
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	microaerophile	95

Availability in culture collections External links

[Ref.: #20215]

Culture collection no.

KCTC 43113, JCM 33683, KACC 21345

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Description of Vagococcus coleopterorum sp. nov., isolated from the intestine of the diving beetle, Cybister lewisianus, and Vagococcus hydrophili sp. nov., isolated from the intestine of the dark diving beetle, Hydrophilus acuminatus, and emended description of the genus Vagococcus.	Hyun DW, Tak EJ, Kim PS, Bae JW	J Microbiol	10.1007/s12275-021-0485-1	2020	*

References

#20215

Parte, 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 DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 )

#66792

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#125438

Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )

#125439

Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .

* These data were automatically processed and therefore are not curated

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Vagococcus hydrophili HDW17B

Vagococcus hydrophili HDW17B

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