Name: Xenorhabdus vietnamensis VN01
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 5208

Type strain:

Species: Xenorhabdus vietnamensis

Strain Designation: VN01

Culture col. no.: DSM 22392, CIP 109945

Strain history: CIP <- 2009, P. Tailliez, EMIP-UMII INRA, Montpellier Univ., Montpellier, France: strain VN01

NCBI tax ID(s): 351656 (species)

SI-ID 370416

CIP 109945, DSM 22392, LMG 29447

Section

Xenorhabdus vietnamensis VN01 is a facultative anaerobe, mesophilic, motile animal pathogen that was isolated from nematode Steinernema sangi.

motile
animal pathogen
facultative anaerobe
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	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Enterobacterales*
	Family	*Morganellaceae*
	Genus	*Xenorhabdus*
	Species	**Xenorhabdus vietnamensis**
	Full Scientific Name (LPSN)	Xenorhabdus vietnamensis Tailliez et al. 2010

Information on morphological and physiological properties Morphology

[Ref.: #123839]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.953

[Ref.: #123839]	Cell shape	rod-shaped

[Ref.: #123839]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %98.943

Information on culture and growth conditions Culture and growth conditions

[Ref.: #16256]

Culture medium

TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)

[Ref.: #16256]

Culture medium growth

[Ref.: #16256]

Culture medium link

Medium recipe at MediaDive

[Ref.: #16256]

Culture medium composition

expand / minimize

[Ref.: #37880]

Culture medium

MEDIUM 72- for trypto casein soja agar

[Ref.: #37880]

Culture medium growth

[Ref.: #37880]

Culture medium composition

expand / minimize

[Ref.: #123839]

Culture medium

CIP Medium 72

[Ref.: #123839]

Culture medium growth

[Ref.: #123839]

Culture medium link

Medium recipe provided by DSMZ

	Temperatures	Kind of temperature		Temperature
[Ref.: #16256]			growth	28 °C
[Ref.: #37880]			growth	30 °C

[Ref.: #16256]	Temperature range	mesophilic
[Ref.: #37880]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #123839]

Oxygen tolerance

facultative anaerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.434

	Metabolite utilization	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #123839]		nitrate ChEBI	-	reduction
[Ref.: #123839]		nitrite ChEBI	-	reduction

	Metabolite production	Metabolite	Production
[Ref.: #123839]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	+	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	+	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #123839]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #68382]	esterase (C 4)	-		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	+	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #123839]	oxidase	-
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #123839]	urease	-	3.5.1.5
[Ref.: #68382]	valine arylamidase	+		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® zym:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #123839]	12241	-	+	-	+	-	+	+	-	+	-	+	+	-	-	-	+	+	+	-	-

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

[Ref.: #16256]	Sample type/isolated from	nematode Steinernema sangi
[Ref.: #16256]	Host species	Steinernema sangi
[Ref.: #16256]	Country	Vietnam
[Ref.: #16256]	Country ISO 3 Code	VNM
[Ref.: #16256]	Continent	Asia

[Ref.: #123839]	Sample type/isolated from	Animal, Nematode, Steinernema sangi
[Ref.: #123839]	Country	Vietnam
[Ref.: #123839]	Country ISO 3 Code	VNM
[Ref.: #123839]	Continent	Asia
[Ref.: #123839]	Isolation date	2004
* marker position based on {}

Isolation sources categories

#Host

#Invertebrates (Other)

#Nematoda

What are isolation sources categories?

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

[Ref.: #16256]	Pathogenicity (animal)	yes
[Ref.: #16256]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #123839]	Biosafety level	1	Risk group (French classification)

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.: #16256]	Xenorhabdus sp. VN01 16S ribosomal RNA gene, partial sequence	DQ205447	1467	ENA	351656 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Xenorhabdus vietnamensis DSM 22392	GCA_002127535	scaffold	GenBank	351656 tax ID	*
[Ref.: #66792]	Xenorhabdus vietnamensis strain DSM 22392	351656.5	wgs	PATRIC	351656 tax ID	*
[Ref.: #66792]	Xenorhabdus vietnamensis DSM 22392	2895364164	draft	JGI IMG/M	351656 tax ID	*

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Xenorhabdus vietnamensis DSM 22392 NCBI: GCA_002127535.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Xenorhabdus vietnamensis DSM 22392 NCBI: GCA_002127535.1
[Ref.: #69480]	flagellated	yes	57.235	no
[Ref.: #69480]	gram-positive	no	98.441	no
[Ref.: #69480]	anaerobic	no	98.109	no
[Ref.: #69480]	halophile	no	87.05	no
[Ref.: #69480]	spore-forming	no	94.102	no
[Ref.: #69480]	glucose-util	yes	90.87	no
[Ref.: #69480]	aerobic	yes	86.233	no
[Ref.: #69480]	thermophile	no	98.688	yes
[Ref.: #69480]	motile	yes	89.235	no
[Ref.: #69480]	glucose-ferment	yes	86.927	no

Availability in culture collections External links

[Ref.: #16256]

Culture collection no.

DSM 22392, CIP 109945

[Ref.: #74700]

SI-ID 370416

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Phylogeny of Photorhabdus and Xenorhabdus based on universally conserved protein-coding sequences and implications for the taxonomy of these two genera. Proposal of new taxa: X. vietnamensis sp. nov., P. luminescens subsp. caribbeanensis subsp. nov., P. luminescens subsp. hainanensis subsp. nov., P. temperata subsp. khanii subsp. nov., P. temperata subsp. tasmaniensis subsp. nov., and the reclassification of P. luminescens subsp. thracensis as P. temperata subsp. thracensis comb. nov.	Tailliez P, Laroui C, Ginibre N, Paule A, Pages S, Boemare N	Int J Syst Evol Microbiol	10.1099/ijs.0.014308-0	2009	*

References

#16256

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 22392

#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 )

#37880 ; Curators of the CIP;

#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) .

#68382

Automatically annotated from API zym .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#74700

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-ID370416.1 )

#123839 Collection of Institut Pasteur ; Curators of the CIP; CIP 109945
* These data were automatically processed and therefore are not curated

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Xenorhabdus vietnamensis DSM 22392

Xenorhabdus vietnamensis DSM 22392

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