Name: Xenorhabdus khoisanae SF87
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 23970

Type strain:

Species: Xenorhabdus khoisanae

Strain Designation: SF87

Culture col. no.: DSM 25463, ATCC BAA-2406, LMG 29522

Strain history: <- C. A. Van Reenen, Dept. Microbiology, Stellenbosch Univ., South Africa; SF87 <- T. Ferreira, Department of Conservation Ecology and Entomology, University of Stellenbosch

NCBI tax ID(s): 880157 (species)

SI-ID 404635

DSM 25463

Other strains from Xenorhabdus khoisanae

X. khoisanae 106-C, SF106-C, DSM 26373
X. khoisanae SF362, DSM 26374
X. khoisanae SF80, DSM 26378

Section

Xenorhabdus khoisanae SF87 is an aerobe, mesophilic, Gram-negative animal pathogen that was isolated from nematode Steinernema khoisanae.

Gram-negative
rod-shaped
aerobe
animal pathogen
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 khoisanae**
	Full Scientific Name (LPSN)	Xenorhabdus khoisanae Ferreira et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #30988]	Gram stain	negative

[Ref.: #30988]	Cell length	2.5 µm

[Ref.: #30988]	Cell width	0.45 µm

[Ref.: #30988]	Cell shape	rod-shaped

[Ref.: #30988]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #20910]

Culture medium

TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)

[Ref.: #20910]

Culture medium growth

[Ref.: #20910]

Culture medium link

Medium recipe at MediaDive

[Ref.: #20910]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #20910]			growth	28 °C

[Ref.: #20910]

Temperature range

mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30988]

Oxygen tolerance

aerobe

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30988]	gluconate ChEBI	+	carbon source
[Ref.: #30988]	glucose ChEBI	+	carbon source
[Ref.: #30988]	maltose ChEBI	+	carbon source
[Ref.: #30988]	mannose ChEBI	+	carbon source
[Ref.: #30988]	N-acetylglucosamine ChEBI	+	carbon source

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

[Ref.: #20910]	Sample type/isolated from	nematode Steinernema khoisanae
[Ref.: #20910]	Host species	Steinernema khoisanae
[Ref.: #20910]	Geographic location (country and/or sea, region)	Western Cape Province
[Ref.: #20910]	Country	South Africa
[Ref.: #20910]	Country ISO 3 Code	ZAF
[Ref.: #20910]	Continent	Africa
* marker position based on {}

Isolation sources categories

#Host

#Invertebrates (Other)

#Nematoda

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence HQ142625 (>99% sequence identity) for Xenorhabdus from Microbeatlas

Aquatic Samples	1
Soil Samples
Animal Samples	4
Plant Samples
Total Samples	5

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

[Ref.: #20910]	Pathogenicity (animal)	yes
[Ref.: #20910]	Biosafety level	1	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.: #20910]	Xenorhabdus khoisanae strain SF87 16S ribosomal RNA gene, partial sequence	HQ142625	1424	ENA	880157 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Xenorhabdus khoisanae SF87	GCA_028598485	contig	GenBank	880157 tax ID	*

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Xenorhabdus khoisanae SF87 NCBI: GCA_028598485.1
[Ref.: #69480]	flagellated	yes	58.683	no
[Ref.: #69480]	gram-positive	no	98.498	no
[Ref.: #69480]	anaerobic	no	97.794	yes
[Ref.: #69480]	aerobic	yes	84.933	yes
[Ref.: #69480]	halophile	no	87.757	no
[Ref.: #69480]	spore-forming	no	94.162	no
[Ref.: #69480]	glucose-ferment	yes	86.79	no
[Ref.: #69480]	thermophile	no	98.968	yes
[Ref.: #69480]	glucose-util	yes	92.5	no
[Ref.: #69480]	motile	yes	90.184	no

Availability in culture collections External links

[Ref.: #20910]

Culture collection no.

DSM 25463, ATCC BAA-2406, LMG 29522

[Ref.: #87951]

SI-ID 404635

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Description of Xenorhabdus khoisanae sp. nov., the symbiont of the entomopathogenic nematode Steinernema khoisanae.	Ferreira T, van Reenen CA, Endo A, Sproer C, Malan AP, Dicks LMT	Int J Syst Evol Microbiol	10.1099/ijs.0.049049-0	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 )

#20910

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 25463

#30988

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #27318 (see below)

#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 .

#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) .

#87951

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-ID404635.1 )

#27318

IJSEM 3220 2013 ( DOI 10.1099/ijs.0.049049-0 , PubMed 23456807 )

* These data were automatically processed and therefore are not curated

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