Name: Virgibacillus natechei FarD
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 130205

Type strain:

Species: Virgibacillus natechei

Strain Designation: FarD

Culture col. no.: DSM 25609, CCUG 62224

Strain history: <- M. L. Fardeau, Lab. Microbiol. de l'IRD/ESIL, Univ. de Provence et de la Méditerranée, Marseille, France; FarD <- F. Nateche-Metiaz

NCBI tax ID(s): 1216297 (species)

SI-ID 404528

DSM 25609, CCUG 62224

Special Collections

DSMZ
CCUG

Section

When using BacDive for research please cite our paper

Virgibacillus natechei FarD is an aerobe, mesophilic bacterium that was isolated from saline lake.

aerobe
mesophilic
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	*Caryophanales*
	Family	*Bacillaceae*
	Genus	*Virgibacillus*
	Species	**Virgibacillus natechei**
	Full Scientific Name (LPSN)	Virgibacillus natechei Amziane et al. 2016

Information on morphological and physiological properties Morphology

[Ref.: #62806]

Incubation period

3 days

Information on culture and growth conditions Culture and growth conditions

[Ref.: #21985]

Culture medium

FARD MEDIUM (DSMZ Medium 1730)

[Ref.: #21985]

Culture medium growth

[Ref.: #21985]

Culture medium link

Medium recipe at MediaDive

[Ref.: #21985]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #21985]			growth	30 °C
[Ref.: #62806]			growth	30 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #62806]	Oxygen tolerance	aerobe
[Ref.: #125439]	Oxygen tolerance	obligate aerobe Confidence in %96.5

[Ref.: #125439]

Ability of spore formation

yes Confidence in %91.7

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

[Ref.: #21985]	Sample type/isolated from	saline lake
[Ref.: #21985]	Geographic location (country and/or sea, region)	Bechar, Thaghit department (30° 51' 37'' N, 2° 00' 20'' W)
[Ref.: #21985]	Country	Algeria
[Ref.: #21985]	Country ISO 3 Code	DZA
[Ref.: #21985]	Continent	Africa
[Ref.: #21985]	Geographic location	30.8603°/-2.0056°

[Ref.: #62806]	Sample type/isolated from	Salt lake
[Ref.: #62806]	Sampling date	2011-05-01
[Ref.: #62806]	Geographic location (country and/or sea, region)	Taghit
[Ref.: #62806]	Country	Algeria
[Ref.: #62806]	Country ISO 3 Code	DZA
[Ref.: #62806]	Continent	Africa
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Lake (large)
#Condition	#Saline	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence JX435821 (>99% sequence identity) for Virgibacillus natechei subclade from Microbeatlas

Aquatic Samples	1
Soil Samples	2
Animal Samples	16
Plant Samples	1
Total Samples	20

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #21985]

Biosafety level

Risk group (German classification)
According to TRBA 466

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.: #21985]	Virgibacillus natechei strain FarD 16S ribosomal RNA gene, partial sequence	JX435821	1560	GenBank ENA	1216297 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Virgibacillus natechei DSM 25609	GCA_017874115	contig	GenBank ENA	1216297 tax ID	*
[Ref.: #66792]	Virgibacillus natechei strain DSM 25609	1216297.3	wgs	PATRIC	1216297 tax ID	*
[Ref.: #66792]	Virgibacillus natechei DSM 25609	2913446363	draft	JGI IMG/M	1216297 tax ID	*
[Ref.: #66792]	Virgibacillus natechei DSM 25609	GCA_026013645	complete	GenBank ENA	1216297 tax ID	*

[Ref.: #21985]

GC-content

42.1 mol%

high performance liquid chromatography (HPLC)

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: Virgibacillus natechei DSM 25609 NCBI: GCA_026013645.1
[Ref.: #125438]	gram-positive	gram-positiveⓘ	yes	80.944	no
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	96.312	yes
[Ref.: #125438]	aerobic	aerobicⓘ	yes	80.985	yes
[Ref.: #125438]	spore-forming	spore-formingⓘ	yes	83.617	no
[Ref.: #125438]	thermophile	thermophilicⓘ	no	91.12	yes
[Ref.: #125438]	motile2+	flagellatedⓘ	yes	82.872	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Virgibacillus natechei DSM 25609 NCBI: GCA_017874115
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	obligate aerobe	96.5
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	variable	81.8
[Ref.: #125439]	BacteriaNet	motilityⓘ	yes	87.4
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	yes	91.7

Availability in culture collections External links

[Ref.: #21985]

Culture collection no.

DSM 25609, CCUG 62224

[Ref.: #88751]

SI-ID 404528

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Virgibacillus natechei sp. nov., a moderately halophilic bacterium isolated from sediment of a saline lake in southwest of Algeria.	Amziane M, Metiaz F, Darenfed-Bouanane A, Djenane Z, Selama O, Abderrahmani A, Cayol JL, Fardeau ML	Curr Microbiol	10.1007/s00284-012-0300-7	2013	*

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 )

#21985

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 25609

#62806 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 62224

#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 .

#88751

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-ID404528.1 )

#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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Virgibacillus natechei DSM 25609

Virgibacillus natechei DSM 25609

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