Name: Varibaculum massiliense DSM 103074
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 132593

Type strain:

Species: Varibaculum massiliense

Culture col. no.: DSM 103074, CSUR P2802, Marseille-P2802

Strain history: <- F. Cadoret, CHU Hopital de la Timone, Fédération de Bactériologie Virologie Hygiène Hospitalière; Marseille-P2802

NCBI tax ID(s): 1895474 (species)

SI-ID 401779

DSM 103074

Section

Varibaculum massiliense DSM 103074 is a mesophilic bacterium that was isolated from urine, 59-year-old man with endstage renal disease.

mesophilic
16S sequence
Bacteria
genome sequence

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

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Actinomycetales*
	Family	*Actinomycetaceae*
	Genus	*Varibaculum*
	Species	**Varibaculum massiliense**
	Full Scientific Name (LPSN)	Varibaculum massiliense Niang et al. 2021

Synonym

"Varibaculum massiliense"

Information on culture and growth conditions Culture and growth conditions

[Ref.: #24382]

Culture medium

PYG MEDIUM (MODIFIED) (DSMZ Medium 104)

[Ref.: #24382]

Culture medium growth

[Ref.: #24382]

Culture medium link

Medium recipe at MediaDive

[Ref.: #24382]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #24382]			growth	37 °C

[Ref.: #24382]

Temperature range

mesophilic

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #24382]	Sample type/isolated from	urine, 59-year-old man with endstage renal disease
[Ref.: #24382]	Geographic location (country and/or sea, region)	Marseille
[Ref.: #24382]	Country	France
[Ref.: #24382]	Country ISO 3 Code	FRA
[Ref.: #24382]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Infection	#Patient	-
#Host Body-Site	#Urogenital tract	#Kidney
#Host Body Product	#Fluids	#Urine
#Host	#Human	#Male

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence LT576396 (>99% sequence identity) for Varibaculum massiliense from Microbeatlas

Aquatic Samples	103
Soil Samples	58
Animal Samples	7075
Plant Samples	11
Total Samples	7247

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.: #24382]	Varibaculum sp. Marseille-P2802 partial 16S rRNA gene, strain Marseille-P2802	LT576396	1504	ENA	1852372 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Varibaculum massiliense Marseille-P2802T	GCA_900106855	contig	GenBank	1852372 tax ID	*
[Ref.: #66792]	Varibaculum massiliense Marseille-P2802	2835044153	draft	JGI IMG/M	1852372 tax ID	*

Availability in culture collections External links

[Ref.: #24382]

Culture collection no.

DSM 103074, CSUR P2802, Marseille-P2802

[Ref.: #90910]

SI-ID 401779

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Varibaculum massiliense sp. nov., a new bacterium isolated from human urine with culturomics.	Niang EHA, Lo CI, Brahimi S, Armstrong N, Raoult D, Fournier PE, Fenollar F	New Microbes New Infect	10.1016/j.nmni.2019.100591	2019	*
Phylogeny	"Varibaculum massiliense" sp. nov., a new bacterial species isolated from human urine.	Brahimi SE, Khelaifia S, Raoult D, Moal V	New Microbes New Infect	10.1016/j.nmni.2016.06.011	2016	*

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 )

#24382

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 103074

#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) .

#69479

João 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 beta .

#90910

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID401779.1 )

* These data were automatically processed and therefore are not curated

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