Name: Yersinia artesiana IP42281
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 167172

Type strain:

Species: Yersinia artesiana

Strain Designation: IP42281

Culture col. no.: DSM 110725, CIP 111845, IP 42281

Strain history: <- A.-S. Le Guern, Institut Pasteur, Paris, France; IP42281

NCBI tax ID(s): 2890315 (species)

SI-ID 413873

CIP 111845

Special Collections

CIP
DSMZ

Section

When using BacDive for research please cite our paper

Yersinia artesiana IP42281 is a Gram-negative, motile, rod-shaped bacterium that was isolated from Human, Faeces.

Gram-negative
motile
rod-shaped
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	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Enterobacterales*
	Family	*Yersiniaceae*
	Genus	*Yersinia*
	Species	**Yersinia artesiana**
	Full Scientific Name (LPSN)	Yersinia artesiana Le Guern et al. 2020

Information on morphological and physiological properties Morphology

[Ref.: #116509]	Gram stain	negative
[Ref.: #125439]	Gram stain	negative Confidence in %98.8
[Ref.: #125438]	Gram stain	negative Confidence in %99.75

[Ref.: #116509]	Cell shape	rod-shaped

[Ref.: #116509]	Motility	yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #124388]

Culture medium

TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)

[Ref.: #124388]

Culture medium growth

[Ref.: #124388]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #124388]

Culture medium

COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)

[Ref.: #124388]

Culture medium growth

[Ref.: #124388]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #116509]

Culture medium

CIP Medium 72

[Ref.: #116509]

Culture medium growth

[Ref.: #116509]

Culture medium link

Medium recipe provided by DSMZ

	Temperatures	Kind of temperature		Temperature
[Ref.: #124388]			growth	30 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #125439]

Oxygen tolerance

obligate aerobe Confidence in %97.3

[Ref.: #125438]	Ability of spore formation	no Confidence in %90.3
[Ref.: #125439]	Ability of spore formation	no Confidence in %99.1

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68368]	amygdalin ChEBI	+	fermentation	* from API 20E
[Ref.: #68368]	arginine ChEBI	-	hydrolysis	* from API 20E
[Ref.: #68368]	citrate ChEBI	+	assimilation	* from API 20E
[Ref.: #68368]	D-glucose ChEBI	+	fermentation	* from API 20E
[Ref.: #68368]	D-mannitol ChEBI	+	fermentation	* from API 20E
[Ref.: #68368]	gelatin ChEBI	-	hydrolysis	* from API 20E
[Ref.: #68368]	L-arabinose ChEBI	+	fermentation	* from API 20E
[Ref.: #68368]	L-rhamnose ChEBI	-	fermentation	* from API 20E
[Ref.: #68368]	lysine ChEBI	-	degradation	* from API 20E
[Ref.: #68368]	melibiose ChEBI	-	fermentation	* from API 20E
[Ref.: #68368]	myo-inositol ChEBI	+	fermentation	* from API 20E
[Ref.: #68368]	sorbitol ChEBI	+	fermentation	* from API 20E
[Ref.: #68368]	sucrose ChEBI	+	fermentation	* from API 20E
[Ref.: #68368]	tryptophan ChEBI	+	energy source	* from API 20E
[Ref.: #68368]	urea ChEBI	+	hydrolysis	* from API 20E
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #68368]	acetoin ChEBI	yes	* from API 20E
[Ref.: #68368]	hydrogen sulfide ChEBI	no	* from API 20E
[Ref.: #68368]	indole ChEBI	yes	* from API 20E

	Physiological tests	Metabolite	Voges-Proskauer-test	Indole test
[Ref.: #68368]		acetoin ChEBI	+		* from API 20E
[Ref.: #68368]		indole ChEBI		+	* from API 20E

	Enzyme	Enzyme activity	EC number
[Ref.: #68368]	arginine dihydrolase	-	3.5.3.6	* from API 20E
[Ref.: #68368]	beta-galactosidase	+	3.2.1.23	* from API 20E
[Ref.: #68368]	cytochrome oxidase	-	1.9.3.1	* from API 20E
[Ref.: #68368]	gelatinase	-		* from API 20E
[Ref.: #68368]	lysine decarboxylase	-	4.1.1.18	* from API 20E
[Ref.: #68368]	tryptophan deaminase	-	4.1.99.1	* from API 20E
[Ref.: #68368]	urease	+	3.5.1.5	* from API 20E

API® 20E:

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

	API ID	beta-GalactosidaseONPG	Arginine dihydrolaseADH (Arg)	Lysine decarboxylaseLDC (Lys)	Ornithine decarboxylaseODC	Citrate utilizationCIT	H2S productionH2S	Urease/urea hydrolysisURE	Tryptophan deaminaseTDA (Trp)	Indole productionIND	Acetoin production (Voges Proskauer test)VP	Gelatinase/gelatin hydrolysisGEL	Fermentation/oxidation of D-glucoseGLU	Fermentation/oxidation of D-mannitolMAN	Fermentation/oxidation of inositolINO	Fermentation/oxidation of sorbitolSor	Fermentation/oxidation of L-rhamnoseRHA	Fermentation/oxidation of sucroseSAC	Fermentation/oxidation of melibioseMEL	Fermentation/oxidation of amygdalinAMY	Fermentation/oxidation of L-arabinoseARA	Cytochrome oxidaseOX	Nitrite productionNO2	Reduction to N2N2	MotilityMOB	Growth on MacConkey mediumMAC	Oxidative catabolisation of D-glucoseOF-O	Fermentation of D-glucoseOF-F
[Ref.: #20215]	19993	+	-	-	+/-	+	-	+	-	+	+	-	+	+	+	+	-	+	-	+	+	-	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.

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

[Ref.: #116509]	Sample type/isolated from	Human, Faeces
[Ref.: #116509]	Sampling date	2019-07-06
[Ref.: #116509]	Geographic location (country and/or sea, region)	Barlin
[Ref.: #116509]	Country	France
[Ref.: #116509]	Country ISO 3 Code	FRA
[Ref.: #116509]	Continent	Europe
[Ref.: #116509]	Isolation date	2019-07-06

[Ref.: #124388]	Sample type/isolated from	Human stool
[Ref.: #124388]	Geographic location (country and/or sea, region)	Barlin
[Ref.: #124388]	Country	France
[Ref.: #124388]	Country ISO 3 Code	FRA
[Ref.: #124388]	Continent	Europe
[Ref.: #124388]	Geographic location	50.4562°/2.6171°
* marker position based on {}

[Ref.: #69479]

Global distribution of 16S sequence LR745664 (>99% sequence identity) for Yersiniaceae from Microbeatlas

Aquatic Samples	1559
Soil Samples	402
Animal Samples	3499
Plant Samples	339
Total Samples	5799

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

[Ref.: #116509]

Biosafety level

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.: #20215]	Yersinia enterocolitica partial 16S rRNA gene, strain IP42281	LR745664	1479	GenBank ENA	2890315 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Yersinia artesiana IP42281	GCA_902726545	contig	GenBank ENA	2890315 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: Yersinia artesiana IP42281 NCBI: GCA_902726545.1
[Ref.: #125438]	gram-positive	gram-positiveⓘ	no	99.75	no
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	96.547	no
[Ref.: #125438]	aerobic	aerobicⓘ	no	68.824	no
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	90.3	no
[Ref.: #125438]	thermophile	thermophilicⓘ	no	99.5	no
[Ref.: #125438]	motile2+	flagellatedⓘ	yes	78.782	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Yersinia artesiana IP42281 NCBI: GCA_902726545
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	no	99.1
[Ref.: #125439]	BacteriaNet	motilityⓘ	yes	72.6
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	negative	98.8
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	obligate aerobe	97.3

Availability in culture collections External links

[Ref.: #20215]

Culture collection no.

DSM 110725, CIP 111845, IP 42281

[Ref.: #114903]

SI-ID 413873

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Yersinia artesiana sp. nov., Yersinia proxima sp. nov., Yersinia alsatica sp. nov., Yersina vastinensis sp. nov., Yersinia thracica sp. nov. and Yersinia occitanica sp. nov., isolated from humans and animals.	Le Guern AS, Savin C, Angermeier H, Bremont S, Clermont D, Muhle E, Orozova P, Najdenski H, Pizarro-Cerda J	Int J Syst Evol Microbiol	10.1099/ijsem.0.004417	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) .

#68368

Automatically annotated from API 20E .

#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 .

#114903

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-ID413873.1 )

#116509 Collection of Institut Pasteur ; Curators of the CIP; CIP 111845

#124388

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 110725

#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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