Name: Shigella flexneri 3591-52
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 137262

Type strain:

Species: Shigella flexneri

Strain Designation: 3591-52

Culture col. no.: CCUG 32079, CIP 104222, ATCC 12022, LMG 10472, WDCM 00126, CECT 4804, NCTC 12698

Strain history: CIP <- 1994, ATCC <- CDC: strain 3591-52

NCBI tax ID(s): 623 (species)

SI-ID 4970

LMG 10472, ATCC 12022, CIP 104222, CCUG 32079, NCTC 12698, CECT 4804, CCRC 10772, KCTC 2517, BCRC 10772, ACM 5064, ICMP 15677

Special Collections

CCUG
CIP

Other strains from Shigella flexneri

Section

When using BacDive for research please cite our paper

Shigella flexneri 3591-52 is a facultative anaerobe, mesophilic, Gram-negative bacterium of the family Enterobacteriaceae.

Gram-negative
rod-shaped
facultative anaerobe
mesophilic
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	*Enterobacteriaceae*
	Genus	*Shigella*
	Species	**Shigella flexneri**
	Full Scientific Name (LPSN)	Shigella flexneri Castellani and Chalmers 1919 (Approved Lists 1980)

Information on morphological and physiological properties Morphology

[Ref.: #37166]	Gram stain	negative
[Ref.: #125439]	Gram stain	negative Confidence in %95.6
[Ref.: #125438]	Gram stain	negative Confidence in %99.194

[Ref.: #37166]	Cell shape	rod-shaped

[Ref.: #37166]	Motility	no

Information on culture and growth conditions Culture and growth conditions

[Ref.: #37166]

Culture medium

MEDIUM 72- for trypto casein soja agar

[Ref.: #37166]

Culture medium growth

[Ref.: #37166]

Culture medium composition

expand / minimize

[Ref.: #37166]

Culture medium

CIP Medium 72

[Ref.: #37166]

Culture medium growth

[Ref.: #37166]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #37166]		growth	30 °C
[Ref.: #37166]		growth	30-37 °C
[Ref.: #37166]	no	growth	5 °C
[Ref.: #37166]	no	growth	10 °C
[Ref.: #37166]	no	growth	41 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #37166]	Oxygen tolerance	facultative anaerobe
[Ref.: #125439]	Oxygen tolerance	aerobe Confidence in %94.5

[Ref.: #125439]

Ability of spore formation

no Confidence in %96.1

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68368]	amygdalin ChEBI	-	fermentation	* from API 20E
[Ref.: #68374]	arginine ChEBI	-	hydrolysis	* from API ID32E, API 20E
[Ref.: #68374]	cellobiose ChEBI	-	builds acid from	* from API ID32E
[Ref.: #37166]	citrate ChEBI	-	carbon source
[Ref.: #68368]	citrate ChEBI	-	assimilation	* from API 20E
[Ref.: #68374]	D-arabitol ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68374]	D-galacturonic acid ChEBI	+	builds acid from	* from API ID32E
[Ref.: #68368]	D-glucose ChEBI	+	fermentation	* from API 20E
[Ref.: #68374]	D-glucose ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68368]	D-mannitol ChEBI	+	fermentation	* from API 20E
[Ref.: #68374]	D-mannitol ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68368]	gelatin ChEBI	-	hydrolysis	* from API 20E
[Ref.: #37166]	glucose ChEBI	+	fermentation
[Ref.: #68368]	L-arabinose ChEBI	+	fermentation	* from API 20E
[Ref.: #68374]	L-arabinose ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68374]	L-arabitol ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68374]	L-rhamnose ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68368]	L-rhamnose ChEBI	-	fermentation	* from API 20E
[Ref.: #37166]	lactose ChEBI	+	fermentation
[Ref.: #68374]	lysine ChEBI	-	degradation	* from API ID32E, API 20E
[Ref.: #37166]	malonate ChEBI	-	assimilation
[Ref.: #68374]	malonate ChEBI	-	assimilation	* from API ID32E
[Ref.: #68374]	maltose ChEBI	-	builds acid from	* from API ID32E
[Ref.: #37166]	mannitol ChEBI	-	fermentation
[Ref.: #68368]	melibiose ChEBI	-	fermentation	* from API 20E
[Ref.: #68374]	myo-inositol ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68368]	myo-inositol ChEBI	-	fermentation	* from API 20E
[Ref.: #37166]	nitrate ChEBI	-	reduction
[Ref.: #37166]	nitrite ChEBI	-	reduction
[Ref.: #68374]	ornithine ChEBI	-	degradation	* from API ID32E, API 20E
[Ref.: #68374]	palatinose ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68374]	Potassium 5-ketogluconate ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68374]	ribitol ChEBI	-	builds acid from	* from API ID32E
[Ref.: #37166]	sodium thiosulfate ChEBI	-	builds gas from
[Ref.: #68374]	sorbitol ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68368]	sorbitol ChEBI	-	fermentation	* from API 20E
[Ref.: #68374]	sucrose ChEBI	-	builds acid from	* from API ID32E
[Ref.: #68368]	sucrose ChEBI	-	fermentation	* from API 20E
[Ref.: #68374]	trehalose ChEBI	+	builds acid from	* from API ID32E
[Ref.: #68374]	tryptophan ChEBI	-	energy source	* from API ID32E, API 20E
[Ref.: #68374]	urea ChEBI	-	hydrolysis	* from API ID32E, API 20E
	Only first 10 entries are displayed. Click here to see all.

	Antibiotica	Metabolite	Antibiotic sensitivity	Antibiotic resistance
[Ref.: #37166]		0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)	no	yes

	Metabolite	Production
[Ref.: #37166]	indole ChEBI	no
[Ref.: #68368]	acetoin ChEBI	yes	* from API 20E
[Ref.: #68368]	hydrogen sulfide ChEBI	no	* from API 20E
[Ref.: #68374]	indole ChEBI	no	* from API ID32E, API 20E

	Metabolite	Voges-Proskauer-test	Methylred-test	Indole test
[Ref.: #37166]	acetoin ChEBI	+
[Ref.: #37166]	glucose ChEBI		+
[Ref.: #68368]	acetoin ChEBI	+			* from API 20E
[Ref.: #68374]	indole ChEBI			-	* from API ID32E, API 20E

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #37166]	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, API ID32E
[Ref.: #68382]	alpha-glucosidase	+	3.2.1.20	* from API zym
[Ref.: #68374]	alpha-glucosidase	-	3.2.1.20	* from API ID32E
[Ref.: #68374]	alpha-maltosidase	-		* from API ID32E
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #68374]	arginine dihydrolase	-	3.5.3.6	* from API ID32E, API 20E
[Ref.: #37166]	beta-galactosidase	-	3.2.1.23
[Ref.: #68382]	beta-galactosidase	+	3.2.1.23	* from API zym
[Ref.: #68374]	beta-galactosidase	-	3.2.1.23	* from API ID32E, API 20E
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym, API ID32E
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym, API ID32E
[Ref.: #37166]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #68368]	cytochrome oxidase	-	1.9.3.1	* from API 20E
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	-		* from API zym
[Ref.: #37166]	gelatinase	-
[Ref.: #68368]	gelatinase	-		* from API 20E
[Ref.: #68374]	L-aspartate arylamidase	-	3.4.11.21	* from API ID32E
[Ref.: #68382]	leucine arylamidase	-	3.4.11.1	* from API zym
[Ref.: #68374]	lipase	-		* from API ID32E
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #37166]	lysine decarboxylase	-	4.1.1.18
[Ref.: #68374]	lysine decarboxylase	-	4.1.1.18	* from API ID32E, API 20E
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym, API ID32E
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #37166]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #68374]	ornithine decarboxylase	-	4.1.1.17	* from API ID32E, API 20E
[Ref.: #37166]	oxidase	-
[Ref.: #37166]	phenylalanine ammonia-lyase	-	4.3.1.24
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #37166]	tryptophan deaminase	-
[Ref.: #68368]	tryptophan deaminase	-	4.1.99.1	* from API 20E
[Ref.: #37166]	urease	-	3.5.1.5
[Ref.: #68374]	urease	-	3.5.1.5	* from API ID32E, 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.: #50816]

Fatty acid	Percentage	ECL
C16:0	24.3	16
C17:0 CYCLO	21.4	16.888
C18:1 ω7c /12t/9t	11.2	17.824
C15:0	9.6	15
C14:0	8	14
C14:0 3OH/C16:1 ISO I	6.6	15.485
C16:1 ω7c	5.2	15.819
C19:0 CYCLO ω8c	4.5	18.9
C12:0	3.8	12
C13:0	1.8	13
C17:0	1.6	17
C13:0 3OH/C15:1 i I/H	1	14.469
C15:1 ω8c	0.5	14.792
C16:1 ω5c	0.5	15.908

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.: #50816]	6110	-	-	-	-	-	-	-	-	-	+	-	+	+	-	-	-	-	-	-	+	-	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.

API® ID32E:

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

	API ID	Ornithine decarboxylaseODC	Arginine dihydrolaseADH (Arg)	Lysine decarboxylaseLDC (Lys)	Urease/urea hydrolysisURE	Acid from L-arabitolLARL	Acid from D-galacturonic acidGAT	Acid from 5-Ketogluconate5KG	LipaseLIP	Phenol red (Acidification)RP	beta-Glucosidasebeta GLU	Acid from D-mannitolMAN	Acid from maltoseMAL	Acid from D-adonitolADO	Acid from palatinosePLE	beta-Glucuronidasebeta GUR	MalonateMNT	Indole productionIND	N-Acetyl-beta-Glucosaminidasebeta NAG	beta-Galactosidasebeta GAL	Acid from D-glucoseGLU	Acid from sucroseSAC	Acid from L-arabinoseLARA	Acid from D-arabitolDARL	alpha-Glucosidasealpha GLU	alpha-Galactosidasealpha GAL	Acid from trehaloseTRE	Acid from L-rhamnoseRHA	Acid from inositolINO	Acid from cellobioseCEL	Acid from sorbitolSOR	alpha-MaltosidasealphaMAL	L-aspartic acid arylamidaseAspA
[Ref.: #50816]	1261	-	-	-	-	-	+	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	+	-	-	-	-	-	-

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.: #37166]	7848	-	-	+	-	-	-	-	-	-	-	+	+	+	+	-	+	-	-	-	-

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	L-lactaldehyde degradation	100	3 of 3
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	aerobactin biosynthesis	100	1 of 1
[Ref.: #66794]	4-hydroxyphenylacetate degradation	100	10 of 10
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	methylglyoxal degradation	100	5 of 5
[Ref.: #66794]	taurine degradation	100	1 of 1
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	starch degradation	100	10 of 10
[Ref.: #66794]	biotin biosynthesis	100	4 of 4
[Ref.: #66794]	sulfopterin metabolism	100	4 of 4
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	acetate fermentation	100	4 of 4
[Ref.: #66794]	enterobactin biosynthesis	100	3 of 3
[Ref.: #66794]	tetrahydrofolate metabolism	100	14 of 14
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	ubiquinone biosynthesis	100	7 of 7
[Ref.: #66794]	sulfoquinovose degradation	100	3 of 3
[Ref.: #66794]	gluconeogenesis	100	8 of 8
[Ref.: #66794]	vitamin K metabolism	100	5 of 5
[Ref.: #66794]	palmitate biosynthesis	95.45	21 of 22
[Ref.: #66794]	NAD metabolism	94.44	17 of 18
[Ref.: #66794]	heme metabolism	92.86	13 of 14
[Ref.: #66794]	glutathione metabolism	92.86	13 of 14
[Ref.: #66794]	photosynthesis	92.86	13 of 14
[Ref.: #66794]	vitamin B6 metabolism	90.91	10 of 11
[Ref.: #66794]	pentose phosphate pathway	90.91	10 of 11
[Ref.: #66794]	Entner Doudoroff pathway	90	9 of 10
[Ref.: #66794]	threonine metabolism	90	9 of 10
[Ref.: #66794]	valine metabolism	88.89	8 of 9
[Ref.: #66794]	serine metabolism	88.89	8 of 9
[Ref.: #66794]	lipid A biosynthesis	88.89	8 of 9
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	molybdenum cofactor biosynthesis	88.89	8 of 9
[Ref.: #66794]	C4 and CAM-carbon fixation	87.5	7 of 8
[Ref.: #66794]	degradation of sugar alcohols	87.5	14 of 16
[Ref.: #66794]	isoleucine metabolism	87.5	7 of 8
[Ref.: #66794]	reductive acetyl coenzyme A pathway	85.71	6 of 7
[Ref.: #66794]	vitamin B1 metabolism	84.62	11 of 13
[Ref.: #66794]	glycolate and glyoxylate degradation	83.33	5 of 6
[Ref.: #66794]	purine metabolism	82.98	78 of 94
[Ref.: #66794]	gallate degradation	80	4 of 5
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	glycogen metabolism	80	4 of 5
[Ref.: #66794]	metabolism of amino sugars and derivatives	80	4 of 5
[Ref.: #66794]	pyrimidine metabolism	80	36 of 45
[Ref.: #66794]	alanine metabolism	79.31	23 of 29
[Ref.: #66794]	glutamate and glutamine metabolism	78.57	22 of 28
[Ref.: #66794]	citric acid cycle	78.57	11 of 14
[Ref.: #66794]	aspartate and asparagine metabolism	77.78	7 of 9
[Ref.: #66794]	d-mannose degradation	77.78	7 of 9
[Ref.: #66794]	phenylalanine metabolism	76.92	10 of 13
[Ref.: #66794]	urea cycle	76.92	10 of 13
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	lactate fermentation	75	3 of 4
[Ref.: #66794]	dTDPLrhamnose biosynthesis	75	6 of 8
[Ref.: #66794]	CMP-KDO biosynthesis	75	3 of 4
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
[Ref.: #66794]	flavin biosynthesis	73.33	11 of 15
[Ref.: #66794]	oxidative phosphorylation	72.53	66 of 91
[Ref.: #66794]	degradation of sugar acids	72	18 of 25
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	lipid metabolism	70.97	22 of 31
[Ref.: #66794]	glycolysis	70.59	12 of 17
[Ref.: #66794]	leucine metabolism	69.23	9 of 13
[Ref.: #66794]	non-pathway related	68.42	26 of 38
[Ref.: #66794]	degradation of pentoses	67.86	19 of 28
[Ref.: #66794]	allantoin degradation	66.67	6 of 9
[Ref.: #66794]	CO2 fixation in Crenarchaeota	66.67	6 of 9
[Ref.: #66794]	cyanate degradation	66.67	2 of 3
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	selenocysteine biosynthesis	66.67	4 of 6
[Ref.: #66794]	methane metabolism	66.67	2 of 3
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	tryptophan metabolism	65.79	25 of 38
[Ref.: #66794]	isoprenoid biosynthesis	65.38	17 of 26
[Ref.: #66794]	proline metabolism	63.64	7 of 11
[Ref.: #66794]	ketogluconate metabolism	62.5	5 of 8
[Ref.: #66794]	methionine metabolism	61.54	16 of 26
[Ref.: #66794]	degradation of hexoses	61.11	11 of 18
[Ref.: #66794]	hydrogen production	60	3 of 5
[Ref.: #66794]	lipoate biosynthesis	60	3 of 5
[Ref.: #66794]	propanol degradation	57.14	4 of 7
[Ref.: #66794]	cysteine metabolism	55.56	10 of 18
[Ref.: #66794]	nitrate assimilation	55.56	5 of 9
[Ref.: #66794]	phenol degradation	55	11 of 20
[Ref.: #66794]	arginine metabolism	54.17	13 of 24
[Ref.: #66794]	sulfate reduction	53.85	7 of 13
[Ref.: #66794]	3-phenylpropionate degradation	53.33	8 of 15
[Ref.: #66794]	lysine metabolism	52.38	22 of 42
[Ref.: #66794]	histidine metabolism	51.72	15 of 29
[Ref.: #66794]	carnitine metabolism	50	4 of 8
[Ref.: #66794]	myo-inositol biosynthesis	50	5 of 10
[Ref.: #66794]	toluene degradation	50	2 of 4
[Ref.: #66794]	pantothenate biosynthesis	50	3 of 6
[Ref.: #66794]	ribulose monophosphate pathway	50	1 of 2
[Ref.: #66794]	propionate fermentation	50	5 of 10
[Ref.: #66794]	quinate degradation	50	1 of 2
[Ref.: #66794]	butanoate fermentation	50	2 of 4
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	cis-vaccenate biosynthesis	50	1 of 2
[Ref.: #66794]	tyrosine metabolism	50	7 of 14
[Ref.: #66794]	polyamine pathway	47.83	11 of 23
[Ref.: #66794]	ascorbate metabolism	45.45	10 of 22
[Ref.: #66794]	d-xylose degradation	45.45	5 of 11
[Ref.: #66794]	metabolism of disaccharids	45.45	5 of 11
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
[Ref.: #66794]	ethylmalonyl-CoA pathway	40	2 of 5
[Ref.: #66794]	coenzyme M biosynthesis	40	4 of 10
[Ref.: #66794]	glycine metabolism	40	4 of 10
[Ref.: #66794]	3-chlorocatechol degradation	40	2 of 5
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	38.46	5 of 13
[Ref.: #66794]	phenylpropanoid biosynthesis	38.46	5 of 13
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	methanogenesis from CO2	33.33	4 of 12
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	vitamin B12 metabolism	32.35	11 of 34
[Ref.: #66794]	androgen and estrogen metabolism	31.25	5 of 16
[Ref.: #66794]	arachidonic acid metabolism	27.78	5 of 18
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
		Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #37166]

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.: #124043]	Shigella flexneri partial 16S rRNA gene, strain ATCC 12022	FM207091	394	GenBank ENA	623 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Shigella flexneri ATCC 12022	GCA_000754175	scaffold	GenBank ENA	623 tax ID	*
[Ref.: #66792]	Shigella flexneri NCTC12698	GCA_900457225	contig	GenBank ENA	623 tax ID	*
[Ref.: #66792]	Shigella flexneri strain ATCC 12022	623.156	wgs	PATRIC	623 tax ID	*
[Ref.: #66792]	Shigella flexneri strain NCTC12698	623.1086	wgs	PATRIC	623 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: Shigella flexneri ATCC 12022 NCBI: GCA_000754175.1
[Ref.: #125438]	gram-positive	gram-positiveⓘ	no	99.194	no
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	94.158	no
[Ref.: #125438]	aerobic	aerobicⓘ	no	71.161	yes
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	88.748	no
[Ref.: #125438]	thermophile	thermophilicⓘ	no	98	yes
[Ref.: #125438]	motile2+	flagellatedⓘ	yes	76.314	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Shigella flexneri ATCC 12022 NCBI: GCA_000754175
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	no	96.1
[Ref.: #125439]	BacteriaNet	motilityⓘ	yes	65.7
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	negative	95.6
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	aerobe	94.5

Availability in culture collections External links

[Ref.: #37166]

Culture collection no.

CCUG 32079, CIP 104222, ATCC 12022, LMG 10472, WDCM 00126, CECT 4804, NCTC 12698

[Ref.: #94199]

SI-ID 4970

Literature:

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

	Title	Authors	Journal	DOI	Year
Pathogenicity	Secondary Structural Transformation of Bovine Lactoferricin Affects Its Antibacterial Activity.	Pei J, Xiong L, Bao P, Chu M, Yan P, Guo X	Probiotics Antimicrob Proteins	10.1007/s12602-020-09726-8	2020	*
Phylogeny	Isolation and structure elucidation of phenazine derivative from Streptomyces sp. strain UICC B-92 isolated from Neesia altissima (Malvaceae).	Pratiwi RH, Hidayat I, Hanafi M, Mangunwardoyo W	Iran J Microbiol		2020	*
Phylogeny	Isolation and identification of potential probiotic Lactobacillus species from feces of infants in southwest Iran.	Jomehzadeh N, Javaherizadeh H, Amin M, Saki M, Al-Ouqaili MTS, Hamidi H, Seyedmahmoudi M, Gorjian Z	Int J Infect Dis	10.1016/j.ijid.2020.05.034	2020	*
Phylogeny	Epigenetic Activation of Antibacterial Property of an Endophytic Streptomyces coelicolor Strain AZRA 37 and Identification of the Induced Protein Using MALDI TOF MS/MS.	Kumar J, Sharma VK, Singh DK, Mishra A, Gond SK, Verma SK, Kumar A, Kharwar RN	PLoS One	10.1371/journal.pone.0147876	2016	*
Pathogenicity	Antibacterial activity of Lactobacillus spp. isolated from the feces of healthy infants against enteropathogenic bacteria.	Davoodabadi A, Soltan Dallal MM, Rahimi Foroushani A, Douraghi M, Sharifi Yazdi MK, Amin Harati F	Anaerobe	10.1016/j.anaerobe.2015.04.014	2015	*
Pathogenicity	Design, synthesis and in vitro bactericidal/fungicidal screening of some vanadyl(IV)complexes with mono- and di-substituted ONS donor triazoles.	Sumrra SH, Hanif M, Chohan ZH	J Enzyme Inhib Med Chem	10.3109/14756366.2014.976565	2015	*
Biotechnology	Production of microbial medium from defatted brebra (Milletia ferruginea) seed flour to substitute commercial peptone agar.	Andualem B, Gessesse A	Asian Pac J Trop Biomed	10.1016/S2221-1691(13)60157-4	2013	*
Enzymology	Antibacterial, antifungal and antioxidant activities of the ethanol extract of the stem bark of Clausena heptaphylla.	Fakruddin M, Mannan KS, Mazumdar RM, Afroz H	BMC Complement Altern Med	10.1186/1472-6882-12-232	2012	*
Biotechnology	Viable but nonculturable state of foodborne pathogens in grapefruit juice: a study of laboratory.	Nicolo MS, Gioffre A, Carnazza S, Platania G, Silvestro ID, Guglielmino SP	Foodborne Pathog Dis	10.1089/fpd.2009.0491	2010	*
Cultivation	The effectiveness of triclosan-incorporated plastic against bacteria on beef surfaces.	Cutter CN	J Food Prot	10.4315/0362-028x-62.5.474	1999	*
	Antimicrobial Potential and Phytochemical Profile of Wild and Cultivated Populations of Thyme (Thymus sp.) Growing in Western Romania.	Beicu R, Alexa E, Obistioiu D, Cocan I, Imbrea F, Pop G, Circioban D, Moisa C, Lupitu A, Copolovici L, Copolovici DM, Imbrea IM	Plants (Basel)	10.3390/plants10091833	2021	*
	Phytochemical Profile and Microbiological Activity of Some Plants Belonging to the Fabaceae Family.	Obistioiu D, Cocan I, Tirziu E, Herman V, Negrea M, Cucerzan A, Neacsu AG, Cozma AL, Nichita I, Hulea A, Radulov I, Alexa E	Antibiotics (Basel)	10.3390/antibiotics10060662	2021	*
	Oral immunization with LacVax(R) OmpA induces protective immune response against Shigella flexneri 2a ATCC 12022 in a murine model.	Yagnik B, Sharma D, Padh H, Desai P	Vaccine	10.1016/j.vaccine.2019.04.053	2019	*
	In Vitro Resistance Selection in Shigella flexneri by Azithromycin, Ceftriaxone, Ciprofloxacin, Levofloxacin, and Moxifloxacin.	Allen GP, Harris KA	Antimicrob Agents Chemother	10.1128/AAC.00086-17	2017	*
	Genome Assembly of Shigella flexneri ATCC 12022, a Quality Control Reference Strain.	Daligault HE, Davenport KW, Minogue TD, Bishop-Lilly KA, Broomall SM, Bruce DC, Chain PS, Coyne SR, Freitas T, Frey KG, Gibbons HS, Jaissle J, Lo CC, Meincke L, Munk AC, Redden CL, Rosenzweig CN, Johnson SL	Genome Announc	10.1128/genomeA.01052-14	2014	*
	Temperature-regulated expression of outer membrane proteins in Shigella flexneri.	Harikrishnan H, Ismail A, Banga Singh KK	Gut Pathog	10.1186/1757-4749-5-38	2013	*
	The Antibacterial Effects of Cocktail and Single Forms of Lytic Phages Belonging to Podoviridae and Myoviridae Families from Sewage against Shigella sonnei and Shigella flexneri.	Jokar J, Rahimian N, Ghasemian A, Najafipour S	Biomed Res Int	10.1155/2022/7833565	2022	*
	Antibacterial Activity of Thymoquinone Against Shigella flexneri and Its Effect on Biofilm Formation.	Wang M, Zhan X, Ma X, Wang R, Guo D, Zhang Y, Yu J, Chang Y, Lu X, Shi C	Foodborne Pathog Dis	10.1089/fpd.2022.0056	2022	*
	Antibacterial Effect of Eugenol on Shigella flexneri and Its Mechanism.	Bai X, Li X, Liu X, Xing Z, Su R, Wang Y, Xia X, Shi C	Foods	10.3390/foods11172565	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 )

#37166 Collection of Institut Pasteur ; Curators of the CIP; CIP 104222
#50816 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 32079

#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) .

#66794

Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )

#68368

Automatically annotated from API 20E .

#68374

Automatically annotated from API ID32E .

#68382

Automatically annotated from API zym .

#94199

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-ID4970.1 )

#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 .

* These data were automatically processed and therefore are not curated

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Shigella flexneri ATCC 12022

Shigella flexneri ATCC 12022

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