Yersinia aleksiciae (DSM 14987, CIP 109000, LMG 22254)

Name: Yersinia aleksiciae (DSM 14987, CIP 109000, LMG 22254)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 5218

Type strain

Strain Designation Y159, H254-36/86, Y 159

Culture col. no. DSM 14987 CIP 109000 LMG 22254 CCUG 52872 WA 758 4 more

NCBI tax ID(s) 263819

Special Collections DSMZ CCUG CIP Literature strains

History <- E. J. Finke; Y159 <- S. Aleksic; H254-36/86 <- G. Wauters; WA758 <- M. Skurnik; CIP <- 2009, DSMZ <- H. Neubauer, Bundeswehr Inst., Munich, Gemany: strain Y 159 <- S. Aleksic <- G. Wauters, Louvain Univ., Brussels, Belgium: strain WA120

Links

Yersinia aleksiciae Y159 is a facultative anaerobe, Gram-negative, motile bacterium that was isolated from human faeces.

Gram-negative motile rod-shaped facultative anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 281438

DSM 14987,LMG 22254,CIP 109000,CCUG 52872

@ref 20215

Last LPSN update 2026-02-09 11:18:54

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Enterobacterales

Family Yersiniaceae

Genus Yersinia

Species Yersinia aleksiciae

Full scientific name Yersinia aleksiciae Sprague and Neubauer 2005

BacDive ID	Other strains from **Yersinia aleksiciae** (9)	Type strain
154240	Y. aleksiciae CCUG 52873
154241	Y. aleksiciae CCUG 52874
154242	Y. aleksiciae CCUG 52875
154243	Y. aleksiciae CCUG 52876
154244	Y. aleksiciae CCUG 52877
154245	Y. aleksiciae CCUG 52878
154246	Y. aleksiciae CCUG 52879
154247	Y. aleksiciae CCUG 52880
154248	Y. aleksiciae CCUG 52881

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
31288	negative	rod-shaped
116211	negative	rod-shaped
125438	negative		98.994
125439	negative		93.9

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
5655	REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a)	Medium recipe at MediaDive	Name: REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
40082	MEDIUM 72- for trypto casein soja agar		Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
5655	TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)	Medium recipe at MediaDive	Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water
5655	COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)	Medium recipe at MediaDive	Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
116211	CIP Medium 72	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
5655	positive	growth	28
5655	positive	growth	30
40082	positive	growth	30

Physiology and metabolism

Oxygen tolerance

116211

Oxygen tolerancefacultative anaerobe

Spore formation

@ref	Spore formation	Confidence
125439		95.5

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68371	27613 ChEBI	amygdalin	-	builds acid from	from API 50CH acid
68368	27613 ChEBI	amygdalin	+	fermentation	from API 20E
68371	18305 ChEBI	arbutin	+	builds acid from	from API 50CH acid
68368	29016 ChEBI	arginine	-	hydrolysis	from API 20E
68371	17057 ChEBI	cellobiose	+	builds acid from	from API 50CH acid
31288	16947 ChEBI	citrate	+	carbon source
68368	16947 ChEBI	citrate	+	assimilation	from API 20E
68371	17108 ChEBI	D-arabinose	-	builds acid from	from API 50CH acid
68371	18333 ChEBI	D-arabitol	+	builds acid from	from API 50CH acid
68371	15824 ChEBI	D-fructose	+	builds acid from	from API 50CH acid
68371	28847 ChEBI	D-fucose	-	builds acid from	from API 50CH acid
68371	12936 ChEBI	D-galactose	+	builds acid from	from API 50CH acid
68371	17634 ChEBI	D-glucose	+	builds acid from	from API 50CH acid
68368	17634 ChEBI	D-glucose	+	fermentation	from API 20E
68371	62318 ChEBI	D-lyxose	-	builds acid from	from API 50CH acid
68371	16899 ChEBI	D-mannitol	+	builds acid from	from API 50CH acid
68368	16899 ChEBI	D-mannitol	+	fermentation	from API 20E
68371	16024 ChEBI	D-mannose	+	builds acid from	from API 50CH acid
68371	16988 ChEBI	D-ribose	+	builds acid from	from API 50CH acid
68371	17924 ChEBI	D-sorbitol	+	builds acid from	from API 50CH acid
68371	16443 ChEBI	D-tagatose	-	builds acid from	from API 50CH acid
68371	65327 ChEBI	D-xylose	+	builds acid from	from API 50CH acid
68371	17113 ChEBI	erythritol	-	builds acid from	from API 50CH acid
31288	4853 ChEBI	esculin	+	hydrolysis
31288	16000 ChEBI	ethanolamine	+	carbon source
68371	16813 ChEBI	galactitol	-	builds acid from	from API 50CH acid
68368	5291 ChEBI	gelatin	-	hydrolysis	from API 20E
68371	28066 ChEBI	gentiobiose	+	builds acid from	from API 50CH acid
68371	24265 ChEBI	gluconate	+	builds acid from	from API 50CH acid
68371	17754 ChEBI	glycerol	+	builds acid from	from API 50CH acid
68371	28087 ChEBI	glycogen	-	builds acid from	from API 50CH acid
68371	15443 ChEBI	inulin	-	builds acid from	from API 50CH acid
68371	30849 ChEBI	L-arabinose	+	builds acid from	from API 50CH acid
68368	30849 ChEBI	L-arabinose	+	fermentation	from API 20E
68371	18403 ChEBI	L-arabitol	-	builds acid from	from API 50CH acid
68371	18287 ChEBI	L-fucose	+	builds acid from	from API 50CH acid
68371	62345 ChEBI	L-rhamnose	-	builds acid from	from API 50CH acid
68368	62345 ChEBI	L-rhamnose	-	fermentation	from API 20E
68371	17266 ChEBI	L-sorbose	-	builds acid from	from API 50CH acid
68371	65328 ChEBI	L-xylose	-	builds acid from	from API 50CH acid
68371	17716 ChEBI	lactose	-	builds acid from	from API 50CH acid
68368	25094 ChEBI	lysine	-	degradation	from API 20E
68371	6731 ChEBI	melezitose	-	builds acid from	from API 50CH acid
68371	28053 ChEBI	melibiose	-	builds acid from	from API 50CH acid
68368	28053 ChEBI	melibiose	-	fermentation	from API 20E
68371	320061 ChEBI	methyl alpha-D-glucopyranoside	-	builds acid from	from API 50CH acid
68371	43943 ChEBI	methyl alpha-D-mannoside	-	builds acid from	from API 50CH acid
68371	74863 ChEBI	methyl beta-D-xylopyranoside	-	builds acid from	from API 50CH acid
68371	17268 ChEBI	myo-inositol	+	builds acid from	from API 50CH acid
68368	17268 ChEBI	myo-inositol	+	fermentation	from API 20E
68371	59640 ChEBI	N-acetylglucosamine	+	builds acid from	from API 50CH acid
31288	17632 ChEBI	nitrate	+	reduction
116211	17632 ChEBI	nitrate	+	reduction
116211	16301 ChEBI	nitrite	-	reduction
68368	18257 ChEBI	ornithine	+	degradation	from API 20E
68371		Potassium 2-ketogluconate	-	builds acid from	from API 50CH acid
68371		Potassium 5-ketogluconate	+	builds acid from	from API 50CH acid
68371	16634 ChEBI	raffinose	-	builds acid from	from API 50CH acid
68371	15963 ChEBI	ribitol	-	builds acid from	from API 50CH acid
31288	17814 ChEBI	salicin	+	carbon source
68368	30911 ChEBI	sorbitol	+	fermentation	from API 20E
31288	17992 ChEBI	sucrose	+	carbon source
68371	17992 ChEBI	sucrose	-	builds acid from	from API 50CH acid
68368	17992 ChEBI	sucrose	-	fermentation	from API 20E
31288	27082 ChEBI	trehalose	+	carbon source
68371	27082 ChEBI	trehalose	+	builds acid from	from API 50CH acid
68368	27897 ChEBI	tryptophan	-	energy source	from API 20E
68371	32528 ChEBI	turanose	-	builds acid from	from API 50CH acid
68368	16199 ChEBI	urea	+	hydrolysis	from API 20E
68371	17151 ChEBI	xylitol	-	builds acid from	from API 50CH acid

Metabolite production

@ref	Chebi-ID	Metabolite
68368	15688 ChEBI	acetoin	from API 20E
68368	16136 ChEBI	hydrogen sulfide	from API 20E
116211	35581 ChEBI	indole
68368	35581 ChEBI	indole	from API 20E

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Indole test
68368	15688 ChEBI	acetoin	-		from API 20E
68368	35581 ChEBI	indole		-	from API 20E

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
68382	alkaline phosphatase	+	3.1.3.1	from API zym
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-galactosidase	-	3.2.1.22	from API zym
68382	alpha-glucosidase	+	3.2.1.20	from API zym
68382	alpha-mannosidase	-	3.2.1.24	from API zym
68368	arginine dihydrolase	-	3.5.3.6	from API 20E
68382	beta-galactosidase	+	3.2.1.23	from API zym
68368	beta-galactosidase	+	3.2.1.23	from API 20E
68382	beta-glucosidase	+	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
31288	catalase	+	1.11.1.6
116211	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
68368	cytochrome oxidase	-	1.9.3.1	from API 20E
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	-		from API zym
68368	gelatinase	-		from API 20E
68382	leucine arylamidase	+	3.4.11.1	from API zym
68382	lipase (C 14)	-		from API zym
68368	lysine decarboxylase	-	4.1.1.18	from API 20E
68382	N-acetyl-beta-glucosaminidase	+	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
68368	ornithine decarboxylase	+	4.1.1.17	from API 20E
116211	oxidase	-
68382	trypsin	+	3.4.21.4	from API zym
68368	tryptophan deaminase	-	4.1.99.1	from API 20E
31288	urease	+	3.5.1.5
116211	urease	+	3.5.1.5
68368	urease	+	3.5.1.5	from API 20E
68382	valine arylamidase	+		from API zym

API 20E

@ref	ONPG	ADH (Arg)	LDC (Lys)	ODC	CIT	H2S productionH2S	URE	TDA (Trp)	IND	Acetoin production (Voges Proskauer test)VP	GEL	GLU	MAN	INO	Sor	RHA	SAC	MEL	AMY	ARA	OX	Nitrite productionNO2	Reduction to N2N2	MotilityMOB	Growth on MacConkey mediumMAC	OF-O	OF-F
5655	+	-	-	+	+	-	+	-	-	-	-	+	+	+	+	-	-	-	+	+	-	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
116211	-	+	+	-	-	+	+	-	+	-	+	+	-	+	-	+	+	+	-	-

API 50CHac

@ref	ControlQ	GLY	ERY	DARA	LARA	RIB	DXYL	LXYL	ADO	MDX	GAL	GLU	FRU	MNE	SBE	RHA	DUL	INO	MAN	SOR	MDM	MDG	NAG	AMY	ARB	ESC	SAL	CEL	MAL	LAC	MEL	SAC	TRE	INU	MLZ	RAF	AMD	GLYG	XLT	GEN	TUR	LYX	TAG	DFUC	LFUC	DARL	LARL	GNT	2KG	5KG
116211	not determinedn.d.	+	-	-	+	+	+	-	-	-	+	+	+	+	-	-	-	+	+	+	-	-	+	-	+	+/-	+/-	+	+/-	-	-	-	+	-	-	-	+/-	-	-	+	-	-	-	-	+	+	-	+	-	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Human	-
#Host Body Product	#Gastrointestinal tract	#Feces (Stool)

Isolation

@ref	Sample type	Country	Country ISO 3 Code	Continent	Latitude	Longitude
5655	human faeces	Finland	FIN	Europe	63	25 63/25
59696	Human feces	Finland	FIN	Europe
116211	Human, Faeces	Finland	FIN	Europe

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
5655	2	Risk group (German classification) According to TRBA 466
116211	2	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
124043	ASM104767v1 assembly for Yersinia aleksiciae 159	complete	GCA_001047675	263819.4	2636415670	263819	91.14

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Yersinia aleksiciae strain DSM 14987 16S ribosomal RNA gene, partial sequence	FJ717341	1484	263819
5655	Yersinia aleksiciae partial 16S rRNA gene, type strain Y159	AJ627597	1419	263819
124043	Yersinia aleksiciae strain DSM 14987 16S ribosomal RNA gene, partial sequence.	KJ606904	1467	263819

GC content

31288

GC-content (mol%)48.1

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Yersinia aleksiciae strain 159
PATRIC: 263819.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	95.50	no
125439	motility	BacteriaNetⓘ	yes	61.00	no
125439	gram_stain	BacteriaNetⓘ	negative	93.90	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	81.80	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Yersinia aleksiciae strain 159
PATRIC: 263819.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.99	yes
125438	anaerobic	anaerobicⓘ	no	92.81	yes
125438	spore-forming	spore-formingⓘ	no	89.77	no
125438	aerobic	aerobicⓘ	no	66.30	yes
125438	thermophilic	thermophileⓘ	no	97.50	no
125438	flagellated	motile2+ⓘ	yes	72.75	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Ubiquity and Diversity of Cold Adapted Denitrifying Bacteria Isolated From Diverse Antarctic Ecosystems.	Cabezas A, Azziz G, Bovio-Winkler P, Fuentes L, Braga L, Wenzel J, Sabaris S, Tarlera S, Etchebehere C.	Front Microbiol	10.3389/fmicb.2022.827228	2022
Enzymology	Comprehensive Laboratory Evaluation of a Lateral Flow Assay for the Detection of Yersinia pestis.	Prentice KW, DePalma L, Ramage JG, Sarwar J, Parameswaran N, Petersen J, Yockey B, Young J, Joshi M, Thirunavvukarasu N, Singh A, Chapman C, Avila JR, Pillai CA, Manickam G, Sharma SK, Morse SA, Venkateswaran KV, Anderson K, Hodge DR, Pillai SP.	Health Secur	10.1089/hs.2019.0094	2019
Phylogeny	Yersinia aleksiciae sp. nov.	Sprague LD, Neubauer H	Int J Syst Evol Microbiol	10.1099/ijs.0.63220-0	2005

References

#5655	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 14987
#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 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#27607	IJSEM 831 2005 ( DOI 10.1099/ijs.0.63220-0 , PubMed 15774670 )
#31288	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 #27607
#40082	; Curators of the CIP;
#59696	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 52872
#68368	Automatically annotated from API 20E .
#68371	Automatically annotated from API 50CH acid .
#68382	Automatically annotated from API zym .
#116211	Collection of Institut Pasteur ; Curators of the CIP; CIP 109000
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Yersinia aleksiciae (DSM 14987, CIP 109000, LMG 22254)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API 20E

API zym

API 50CHac

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_001047675

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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