Name: Shigella sonnei 1120-66
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 136283

Type strain:

Species: Shigella sonnei

Strain Designation: 1120-66

Culture col. no.: CIP 104223, ATCC 25931, CCUG 32351, NCDC 1120-66

Strain history: CIP <- 1994, ATCC <- NCDC: strain 1120-66 <- Gorgas Memorial Hosp., Panama

NCBI tax ID(s): 624 (species)

SI-ID 305279

LMG 10473, ATCC 25931, CIP 104223, CCUG 32351, CECT 4631, KCTC 2518, BCRC 15965, CCRC 15965

Other strains from Shigella sonnei

S. sonnei I virulent, CCUG 68726, NCTC 12984, ... (type strain)
S. sonnei DSM 25715, NCCP 11768
S. sonnei 46, CIP 106203
S. sonnei CIP 63.10
S. sonnei Cabrera, CIP 51.1
S. sonnei CIP 55.56
S. sonnei CNRSS 99 9844, CIP 106345
S. sonnei Descamps, CIP 66.4
S. sonnei St9, CIP 51.44
S. sonnei CNRSS 99 9842, CIP 106346
S. sonnei CNRSS 99 9901, CIP 106347
S. sonnei 545/78, CIP 106470
S. sonnei CIP 67.63
S. sonnei 47, M200, CIP 106204
S. sonnei CIP 52.55
S. sonnei CCUG 9567, NCTC 9774
S. sonnei CCUG 19136
S. sonnei CCUG 26076
S. sonnei CCUG 26684
S. sonnei CCUG 26943
S. sonnei CCUG 34429
S. sonnei CCUG 35690
S. sonnei CCUG 37894
S. sonnei CCUG 42208
S. sonnei CCUG 46081
S. sonnei CCUG 63282

Section

Shigella sonnei 1120-66 is a facultative anaerobe, mesophilic, motile bacterium that was isolated from Human feces.

motile
facultative anaerobe
mesophilic
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	*Enterobacteriaceae*
	Genus	*Shigella*
	Species	**Shigella sonnei**
	Full Scientific Name (LPSN)	Shigella sonnei (Levine 1920) Weldin 1927 (Approved Lists 1980)

Synonym

"Bacterium sonnei"

Information on morphological and physiological properties Morphology

[Ref.: #35641]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.985

[Ref.: #35641]	Cell shape	rod-shaped

[Ref.: #35641]	Motility	no
[Ref.: #69480]	Motility	yes Confidence in %95.955

Information on culture and growth conditions Culture and growth conditions

[Ref.: #35641]

Culture medium

MEDIUM 3 - Columbia agar

[Ref.: #35641]

Culture medium growth

[Ref.: #35641]

Culture medium composition

expand / minimize

[Ref.: #35641]

Culture medium

CIP Medium 3

[Ref.: #35641]

Culture medium growth

[Ref.: #35641]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #35641]

Culture medium

CIP Medium 72

[Ref.: #35641]

Culture medium growth

[Ref.: #35641]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #35641]		growth	30 °C
[Ref.: #35641]		growth	10-41 °C
[Ref.: #35641]	no	growth	5 °C

[Ref.: #35641]	Temperature range	mesophilic
[Ref.: #35641]	Temperature range	psychrophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #35641]

Oxygen tolerance

facultative anaerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.741

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68368]	arginine ChEBI	-	hydrolysis	* from API 20E
[Ref.: #35641]	citrate ChEBI	-	carbon source
[Ref.: #68368]	citrate ChEBI	-	assimilation	* from API 20E
[Ref.: #68368]	D-glucose ChEBI	-	fermentation	* from API 20E
[Ref.: #68368]	gelatin ChEBI	-	hydrolysis	* from API 20E
[Ref.: #35641]	glucose ChEBI	+	fermentation
[Ref.: #35641]	glucose ChEBI	+	degradation
[Ref.: #68368]	L-rhamnose ChEBI	-	fermentation	* from API 20E
[Ref.: #35641]	lactose ChEBI	-	fermentation
[Ref.: #68368]	lysine ChEBI	-	degradation	* from API 20E
[Ref.: #35641]	malonate ChEBI	-	assimilation
[Ref.: #35641]	mannitol ChEBI	-	fermentation
[Ref.: #68368]	melibiose ChEBI	-	fermentation	* from API 20E
[Ref.: #68368]	myo-inositol ChEBI	-	fermentation	* from API 20E
[Ref.: #35641]	nitrate ChEBI	+	reduction
[Ref.: #35641]	nitrite ChEBI	+	reduction
[Ref.: #68368]	ornithine ChEBI	-	degradation	* from API 20E
[Ref.: #35641]	sodium thiosulfate ChEBI	-	builds gas from
[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.

	Antibiotica	Metabolite	Antibiotic sensitivity	Antibiotic resistance
[Ref.: #35641]		0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)	no	yes

	Metabolite	Production
[Ref.: #35641]	indole ChEBI	no
[Ref.: #68368]	acetoin ChEBI	no	* from API 20E
[Ref.: #68368]	dinitrogen ChEBI	no	* from API 20E
[Ref.: #68368]	hydrogen sulfide ChEBI	no	* from API 20E
[Ref.: #68368]	indole ChEBI	no	* from API 20E

	Metabolite	Voges-Proskauer-test	Methylred-test	Indole test
[Ref.: #35641]	acetoin ChEBI	-
[Ref.: #35641]	glucose ChEBI		+
[Ref.: #68368]	acetoin ChEBI	-			* from API 20E
[Ref.: #68368]	indole ChEBI			-	* from API 20E

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #35641]	alcohol dehydrogenase	+	1.1.1.1
[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.: #68368]	arginine dihydrolase	-	3.5.3.6	* from API 20E
[Ref.: #35641]	beta-galactosidase	+	3.2.1.23
[Ref.: #68382]	beta-galactosidase	+	3.2.1.23	* from API zym
[Ref.: #68368]	beta-galactosidase	-	3.2.1.23	* from API 20E
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	+	3.2.1.31	* from API zym
[Ref.: #35641]	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.: #35641]	gelatinase	-
[Ref.: #68368]	gelatinase	-		* from API 20E
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #35641]	lysine decarboxylase	-	4.1.1.18
[Ref.: #68368]	lysine decarboxylase	-	4.1.1.18	* from API 20E
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #35641]	ornithine decarboxylase	+	4.1.1.17
[Ref.: #68368]	ornithine decarboxylase	-	4.1.1.17	* from API 20E
[Ref.: #35641]	oxidase	-
[Ref.: #35641]	phenylalanine ammonia-lyase	-	4.3.1.24
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #35641]	tryptophan deaminase	-
[Ref.: #68368]	tryptophan deaminase	-	4.1.99.1	* from API 20E
[Ref.: #35641]	urease	-	3.5.1.5
[Ref.: #68368]	urease	-	3.5.1.5	* from API 20E
[Ref.: #68382]	valine arylamidase	+		* from API zym
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #50969]

Fatty acid	Percentage	ECL
C16:1 ω7c	23.1	15.819
C16:0	20.4	16
C18:1 ω7c /12t/9t	17.7	17.824
C15:0	10.4	15
C14:0	6.2	14
C14:0 3OH/C16:1 ISO I	5.5	15.485
C17:0 CYCLO	4.2	16.888
C12:0	3.4	12
C17:0	2.1	17
C13:0	1.8	13
C13:0 3OH/C15:1 i I/H	1.5	14.469
C12:0 ALDE ?	1.2	10.915
C17:1 ω8c	1	16.792
C15:1 ω8c	0.8	14.792
C18:2 ω6,9c/C18:0 ANTE	0.8	17.724

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.: #35641]	15643	-	-	-	-	-	-	-	-	-	-	-	-	not determinedn.d.	-	-	-	-	-	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	-	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.

API® Biotype100:

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

	API ID	ControlQ	D-glucose as carbon sourceGLU	D-fructose as carbon sourceFRU	D-galactose as carbon sourceGAL	D-trehalose as carbon sourceTRE	D-mannose as carbon sourceMNE	L-sorbose as carbon sourceSBE	D-melibiose as carbon sourceMEL	sucrose as carbon sourceSAC	D-raffinose as carbon sourceRAF	maltotriose as carbon sourceMTE	maltose as carbon sourceMAL	lactose as carbon sourceLAC	lactulose as carbon sourceLTE	1-O-methyl-beta-galactopyranoside as carbon sourceMbGa	1-O-methyl-alpha-galactopyranoside as carbon sourceMaGa	D-cellobiose as carbon sourceCEL	gentiobiose as carbon sourceGEN	1-O-methyl-beta-D-glucopyranoside as carbon sourceMbGu	esculin as carbon sourceESC	D-ribose as carbon sourceRIB	L-arabinose as carbon sourceARA	D-xylose as carbon sourceXYL	palatinose as carbon sourcePLE	L-rhamnose as carbon sourceRHA	L-fucose as carbon sourceFUC	D-melezitose as carbon sourceMLZ	D-arabitol as carbon sourceDARL	L-arabitol as carbon sourceLARL	xylitol as carbon sourceXLT	dulcitol as carbon sourceDUL	D-tagatose as carbon sourceTAG	glycerol as carbon sourceGLY	myo-inositol as carbon sourceINO	D-mannitol as carbon sourceMAN	maltitol as carbon sourceMTL	D-turanose as carbon sourceTUR	D-sorbitol as carbon sourceSOR	adonitol as carbon sourceADO	hydroxyquinoline-beta-glucuronide as carbon sourceHBG	D-lyxose as carbon sourceLYX	i-erythritol as carbon sourceERY	1-O-methyl-alpha-D-glucoside as carbon sourceMDG	3-O-methyl-D-glucose as carbon source3MDG	D-saccharate as carbon sourceSAT	mucate as carbon sourceMUC	L-tartrate as carbon sourceLTAT	D-tartrate as carbon sourceDTAT	meso-tartrate as carbon sourceMTAT	D-malate as carbon sourceDMLT	L-malate as carbon sourceLMLT	cis-aconitate as carbon sourceCATE	trans-aconitate as carbon sourceTATE	tricarballylate as carbon sourceTTE	citrate as carbon sourceCIT	D-glucuronate as carbon sourceGRT	D-galacturonate as carbon sourceGAT	2-ketogluconate as carbon source2KG	5-ketogluconate as carbon source5KG	tryptophan as carbon sourceTRY	N-acetyl-D-glucosamine as carbon sourceNAG	D-gluconate as carbon sourceGNT	phenylacetate as carbon sourcePAC	protocatechuate as carbon sourcePAT	4-hydroxybenzoate as carbon sourcepOBE	quinate as carbon sourceQAT	gentisate as carbon sourceGTE	3-hydroxybenzoate as carbon sourcemOBE	benzoate as carbon sourceBAT	3-phenylpropionate as carbon sourcePPAT	m-coumarate as carbon sourceCMT	trigonelline as carbon sourceTGE	betaine as carbon sourceBET	putrescine as carbon sourcePCE	4-aminobutyrate as carbon sourceABT	histamine as carbon sourceHIN	DL-lactate as carbon sourceLAT	caprate as carbon sourceCAP	caprylate as carbon sourceCYT	L-histidine as carbon sourceHIS	succinate as carbon sourceSUC	fumarate as carbon sourceFUM	glutarate as carbon sourceGRE	DL-glycerate as carbon sourceGYT	5-aminovalerate as carbon sourceAVT	ethanolamine as carbon sourceETN	tryptamine as carbon sourceTTN	D-glucosamine as carbon sourceGLN	itaconate as carbon sourceITA	3-hydroxybutyrate as carbon source3OBU	L-aspartate as carbon sourceAPT	L-glutamate as carbon sourceGTT	L-proline as carbon sourcePRO	D-alanine as carbon sourceDALA	L-alanine as carbon sourceLALA	L-serine as carbon sourceSER	malonate as carbon sourceMNT	propionate as carbon sourcePROP	L-tyrosine as carbon sourceTYR	2-ketoglutarate as carbon source2KT
[Ref.: #35641]	606	not determinedn.d.	+	+	+	+	+	-	+	+	+	+	+	-	-	+	+	-	-	-	-	+	+	-	-	+	+	-	-	-	-	-	-	+	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	+	-	-	-	-	-	+	-	-	-	+	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	+	+	-	-	-	-	-	-	-	-	+	+	+	+	-	+	-	-	-	-

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.: #35641]	7849	-	+	+	-	-	+	+	-	-	-	+	+	-	+	+	+	-	-	-	-

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

[Ref.: #50969]	Sample type/isolated from	Human feces
[Ref.: #50969]	Sampling date	1966

[Ref.: #35641]	Sample type/isolated from	Human, Feces
[Ref.: #35641]	Isolation date	1966
* marker position based on {}

Isolation sources categories

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

What are isolation sources categories?

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

[Ref.: #35641]

Biosafety level

Risk group (French classification)

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Shigella sonnei strain FDAARGOS_776	624.1857	wgs	PATRIC	624 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: Shigella sonnei strain FDAARGOS_776 strain Not applicable PATRIC: 624.1857
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Shigella sonnei strain FDAARGOS_776 strain Not applicable PATRIC: 624.1857
[Ref.: #69480]	gram-positive	no	98.248	no
[Ref.: #69480]	anaerobic	no	94.984	no
[Ref.: #69480]	halophile	no	87.558	no
[Ref.: #69480]	spore-forming	no	93.705	no
[Ref.: #69480]	glucose-util	yes	94.058	no
[Ref.: #69480]	thermophile	no	98.73	yes
[Ref.: #69480]	flagellated	no	59.43	no
[Ref.: #69480]	aerobic	yes	84.684	no
[Ref.: #69480]	motile	yes	89.289	no
[Ref.: #69480]	glucose-ferment	yes	92.953	no

Availability in culture collections External links

[Ref.: #35641]

Culture collection no.

CIP 104223, ATCC 25931, CCUG 32351, NCDC 1120-66

[Ref.: #93478]

SI-ID 305279

Literature:

Only first 10 entries are displayed. Click here to see all.

	Title	Authors	Journal	DOI	Year
Phylogeny	Selective Thermotolerant Lactic Acid Bacteria Isolated From Fermented Juice of Epiphytic Lactic Acid Bacteria and Their Effects on Fermentation Quality of Stylo Silages.	Pitiwittayakul N, Bureenok S, Schonewille JT	Front Microbiol	10.3389/fmicb.2021.673946	2021	*
Pathogenicity	Screening of the Dichloromethane: Methanolic Extract of Centella asiatica for Antibacterial Activities against Salmonella typhi, Escherichia coli, Shigella sonnei, Bacillus subtilis, and Staphylococcus aureus.	Sieberi BM, Omwenga GI, Wambua RK, Samoei JC, Ngugi MP	ScientificWorldJournal	10.1155/2020/6378712	2020	*
Pathogenicity	Anti-adhesion of probiotic Enterococcus faecium WEFA23 against five pathogens and the beneficial effect of its S-layer proteins against Listeria monocytogenes.	He Y, Xu X, Zhang F, Xu D, Liu Z, Tao X, Wei H	Can J Microbiol	10.1139/cjm-2018-0031	2018	*
Pathogenicity	Evaluation of probiotic properties of Lactobacillus plantarum WLPL04 isolated from human breast milk.	Jiang M, Zhang F, Wan C, Xiong Y, Shah NP, Wei H, Tao X	J Dairy Sci	10.3168/jds.2015-10434	2016	*
Pathogenicity	Study of probiotic potential of four wild Lactobacillus rhamnosus strains.	Tuo Y, Zhang W, Zhang L, Ai L, Zhang Y, Han X, Yi H	Anaerobe	10.1016/j.anaerobe.2013.03.007	2013	*
	Probiotic Effects and Metabolic Products of Enterococcus faecalis LD33 with Respiration Capacity.	Jiao Y, Yang H, Shigwedha N, Zhang S, Liu F, Zhang L	Foods	10.3390/foods11040606	2022	*
	Antibacterial Mechanism of Eugenol Against Shigella sonnei and Its Antibacterial Application in Lettuce Juice.	Su R, Bai X, Liu X, Song L, Liu X, Zhan X, Guo D, Wang Y, Chang Y, Shi C	Foodborne Pathog Dis	10.1089/fpd.2022.0046	2022	*

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 )

#35641 Collection of Institut Pasteur ; Curators of the CIP; CIP 104223
#50969 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 32351

#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 .

#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 )

#93478

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-ID305279.1 )

* These data were automatically processed and therefore are not curated

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Shigella sonnei strain FDAARGOS_776 strain Not applicable

Shigella sonnei strain FDAARGOS_776 strain Not applicable

Change proposal

Change proposal