Name: Slackia exigua S-7
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 3064

Type strain:

Species: Slackia exigua

Strain Designation: S-7

Culture col. no.: DSM 15923, ATCC 700122, JCM 11022, KCTC 5966, CCUG 44588, CIP 105133, NCTC 12994

Strain history: CIP <- 2015, CCUG <- 2000, CIP <- 1997, E. Hoshino, Niigata School Dent., Niigata City, Japan: strain S-7 <- T. Sato

NCBI tax ID(s): 649764 (strain), 84109 (species)

SI-ID 43783

ATCC 700122, CIP 105133, CCUG 44588, JCM 11022, DSM 15923

Other strains from Slackia exigua

S. exigua CCUG 36663
S. exigua CCUG 39259
S. exigua CCUG 56394
S. exigua CCUG 56395 B
S. exigua CCUG 63980

Section

Slackia exigua S-7 is an anaerobe, mesophilic, rod-shaped bacterium that was isolated from human necrotic pulp.

rod-shaped
anaerobe
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	*Actinomycetota*
	Class	*Coriobacteriia*
	Order	*Eggerthellales*
	Family	*Eggerthellaceae*
	Genus	*Slackia*
	Species	**Slackia exigua**
	Full Scientific Name (LPSN)	Slackia exigua (Poco et al. 1996) Wade et al. 1999

Synonym

Eubacterium exiguum

Information on morphological and physiological properties Morphology

[Ref.: #67771]	Gram stain	positive
[Ref.: #119153]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %99.498

[Ref.: #119153]	Cell shape	rod-shaped
[Ref.: #67771]	Cell shape	rod-shaped

[Ref.: #119153]	Motility	no
[Ref.: #67771]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %90.796

Information on culture and growth conditions Culture and growth conditions

[Ref.: #6186]

Culture medium

PYG MEDIUM (MODIFIED) (DSMZ Medium 104)

[Ref.: #6186]

Culture medium growth

[Ref.: #6186]

Culture medium link

Medium recipe at MediaDive

[Ref.: #6186]

Culture medium composition

expand / minimize

[Ref.: #119153]

Culture medium

CIP Medium 20

[Ref.: #119153]

Culture medium growth

[Ref.: #119153]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #119153]

Culture medium

CIP Medium 72

[Ref.: #119153]

Culture medium growth

[Ref.: #119153]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #6186]	growth	37 °C
[Ref.: #56394]	growth	37 °C
[Ref.: #67770]	growth	37 °C
[Ref.: #67771]	growth	37 °C

[Ref.: #6186]	Temperature range	mesophilic
[Ref.: #56394]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic
[Ref.: #67771]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #6186]	Oxygen tolerance	anaerobe
[Ref.: #56394]	Oxygen tolerance	anaerobe
[Ref.: #67771]	Oxygen tolerance	anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %99.999

[Ref.: #67771]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.986

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68380]	D-mannose ChEBI	-	fermentation	* from API rID32A
[Ref.: #68380]	nitrate ChEBI	-	reduction	* from API rID32A
[Ref.: #68380]	raffinose ChEBI	-	fermentation	* from API rID32A
[Ref.: #68380]	tryptophan ChEBI	-	energy source	* from API rID32A
[Ref.: #68380]	urea ChEBI	-	hydrolysis	* from API rID32A

	Metabolite production	Metabolite	Production
[Ref.: #68380]		indole ChEBI	no	* from API rID32A

	Physiological tests	Metabolite	Indole test
[Ref.: #68380]		indole ChEBI	-	* from API rID32A

	Enzyme	Enzyme activity	EC number
[Ref.: #68380]	alkaline phosphatase	-	3.1.3.1	* from API rID32A
[Ref.: #68380]	alpha-arabinosidase	-	3.2.1.55	* from API rID32A
[Ref.: #68380]	alpha-fucosidase	-	3.2.1.51	* from API rID32A
[Ref.: #68380]	alpha-galactosidase	-	3.2.1.22	* from API rID32A
[Ref.: #68380]	alpha-glucosidase	-	3.2.1.20	* from API rID32A
[Ref.: #68380]	beta-galactosidase	-	3.2.1.23	* from API rID32A
[Ref.: #68380]	beta-Galactosidase 6-phosphate	-		* from API rID32A
[Ref.: #68380]	beta-glucosidase	-	3.2.1.21	* from API rID32A
[Ref.: #68380]	beta-glucuronidase	-	3.2.1.31	* from API rID32A
[Ref.: #68380]	glutamyl-glutamate arylamidase	-		* from API rID32A
[Ref.: #68380]	leucine arylamidase	+	3.4.11.1	* from API rID32A
[Ref.: #68380]	leucyl glycin arylamidase	-	3.4.11.1	* from API rID32A
[Ref.: #68380]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API rID32A
[Ref.: #68380]	phenylalanine arylamidase	+		* from API rID32A
[Ref.: #68380]	proline-arylamidase	+	3.4.11.5	* from API rID32A
[Ref.: #68380]	pyrrolidonyl arylamidase	-	3.4.19.3	* from API rID32A
[Ref.: #68380]	tryptophan deaminase	-	4.1.99.1	* from API rID32A
[Ref.: #68380]	urease	-	3.5.1.5	* from API rID32A
	Only first 10 entries are displayed. Click here to see all.

API® rID32A:

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

	API ID	Urease/urea hydrolysisURE	Arginine dihydrolaseADH (Arg)	alpha-Galactosidasealpha GAL	beta-Galactosidasebeta GAL	beta-Galactosidase 6-phosphatebeta GP	alpha-Glucosidasealpha GLU	beta-Glucosidasebeta GLU	alpha-Arabinosidasealpha ARA	beta-Glucuronidasebeta GUR	beta-N-Acetyl-beta-glucosaminidasebeta NAG	Fermentation of D-mannoseMNE	Fermentation of raffinoseRAF	Glutamate decarboxylaseGDC	alpha-Fucosidasealpha FUC	Reduction of nitrateNIT	Indole productionIND	Alkaline phosphatasePAL	L-arginine arylamidaseArgA	Proline arylamidaseProA	Leucyl glycin arylamidaseLGA	Phenylalanine arylamidasePheA	Leucine arylamidaseLeuA	Pyrrolidonyl arylamidasePyrA	Tyrosine arylamidaseTyrA	Alanine arylamidaseAlaA	Glycin arylamidaseGlyA	Histidine arylamidaseHisA	Glutamyl-glutamate arylamidaseGGA	Serine arylamidaseSerA
[Ref.: #6186]	12626	-	+	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	+	-	+	+	-	+/-	+	-	+	-	+/-
[Ref.: #6186]	12625	-	+/-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	+	+	-	-	-	-	-	-	-
[Ref.: #6186]	13430	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+/-	+	-	+	+	-	+	+	+/-	+/-	-	+

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	L-lactaldehyde degradation	100	3 of 3
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	palmitate biosynthesis	90.91	20 of 22
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	peptidoglycan biosynthesis	86.67	13 of 15
[Ref.: #66794]	reductive acetyl coenzyme A pathway	85.71	6 of 7
[Ref.: #66794]	threonine metabolism	80	8 of 10
[Ref.: #66794]	hydrogen production	80	4 of 5
[Ref.: #66794]	photosynthesis	78.57	11 of 14
[Ref.: #66794]	valine metabolism	77.78	7 of 9
[Ref.: #66794]	phenylalanine metabolism	76.92	10 of 13
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	heme metabolism	71.43	10 of 14
[Ref.: #66794]	vitamin B1 metabolism	69.23	9 of 13
[Ref.: #66794]	aspartate and asparagine metabolism	66.67	6 of 9
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	molybdenum cofactor biosynthesis	66.67	6 of 9
[Ref.: #66794]	methane metabolism	66.67	2 of 3
[Ref.: #66794]	NAD metabolism	66.67	12 of 18
[Ref.: #66794]	glycolysis	64.71	11 of 17
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
[Ref.: #66794]	C4 and CAM-carbon fixation	62.5	5 of 8
[Ref.: #66794]	degradation of sugar alcohols	62.5	10 of 16
[Ref.: #66794]	isoleucine metabolism	62.5	5 of 8
[Ref.: #66794]	alanine metabolism	62.07	18 of 29
[Ref.: #66794]	purine metabolism	61.7	58 of 94
[Ref.: #66794]	methylglyoxal degradation	60	3 of 5
[Ref.: #66794]	pyrimidine metabolism	60	27 of 45
[Ref.: #66794]	histidine metabolism	58.62	17 of 29
[Ref.: #66794]	propanol degradation	57.14	4 of 7
[Ref.: #66794]	CO2 fixation in Crenarchaeota	55.56	5 of 9
[Ref.: #66794]	glutamate and glutamine metabolism	53.57	15 of 28
[Ref.: #66794]	oxidative phosphorylation	50.55	46 of 91
[Ref.: #66794]	methionine metabolism	50	13 of 26
[Ref.: #66794]	arginine metabolism	50	12 of 24
[Ref.: #66794]	butanoate fermentation	50	2 of 4
[Ref.: #66794]	tetrahydrofolate metabolism	50	7 of 14
[Ref.: #66794]	isoprenoid biosynthesis	50	13 of 26
[Ref.: #66794]	citric acid cycle	50	7 of 14
[Ref.: #66794]	sulfopterin metabolism	50	2 of 4
[Ref.: #66794]	gluconeogenesis	50	4 of 8
[Ref.: #66794]	suberin monomers biosynthesis	50	1 of 2
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	glycolate and glyoxylate degradation	50	3 of 6
[Ref.: #66794]	non-pathway related	47.37	18 of 38
[Ref.: #66794]	leucine metabolism	46.15	6 of 13
[Ref.: #66794]	urea cycle	46.15	6 of 13
[Ref.: #66794]	proline metabolism	45.45	5 of 11
[Ref.: #66794]	lipid metabolism	45.16	14 of 31
[Ref.: #66794]	cysteine metabolism	44.44	8 of 18
[Ref.: #66794]	d-mannose degradation	44.44	4 of 9
[Ref.: #66794]	nitrate assimilation	44.44	4 of 9
[Ref.: #66794]	ubiquinone biosynthesis	42.86	3 of 7
[Ref.: #66794]	propionate fermentation	40	4 of 10
[Ref.: #66794]	glycine metabolism	40	4 of 10
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	tryptophan metabolism	39.47	15 of 38
[Ref.: #66794]	sulfate reduction	38.46	5 of 13
[Ref.: #66794]	lysine metabolism	38.1	16 of 42
[Ref.: #66794]	carnitine metabolism	37.5	3 of 8
[Ref.: #66794]	ketogluconate metabolism	37.5	3 of 8
[Ref.: #66794]	vitamin B6 metabolism	36.36	4 of 11
[Ref.: #66794]	glutathione metabolism	35.71	5 of 14
[Ref.: #66794]	tyrosine metabolism	35.71	5 of 14
[Ref.: #66794]	cyanate degradation	33.33	1 of 3
[Ref.: #66794]	lipid A biosynthesis	33.33	3 of 9
[Ref.: #66794]	selenocysteine biosynthesis	33.33	2 of 6
[Ref.: #66794]	serine metabolism	33.33	3 of 9
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	33.33	4 of 12
[Ref.: #66794]	flavin biosynthesis	33.33	5 of 15
[Ref.: #66794]	enterobactin biosynthesis	33.33	1 of 3
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	octane oxidation	33.33	1 of 3
[Ref.: #66794]	myo-inositol biosynthesis	30	3 of 10
[Ref.: #66794]	coenzyme M biosynthesis	30	3 of 10
[Ref.: #66794]	benzoyl-CoA degradation	28.57	2 of 7
[Ref.: #66794]	aclacinomycin biosynthesis	28.57	2 of 7
[Ref.: #66794]	degradation of hexoses	27.78	5 of 18
[Ref.: #66794]	d-xylose degradation	27.27	3 of 11
[Ref.: #66794]	pentose phosphate pathway	27.27	3 of 11
[Ref.: #66794]	CMP-KDO biosynthesis	25	1 of 4
[Ref.: #66794]	biotin biosynthesis	25	1 of 4
[Ref.: #66794]	glycogen biosynthesis	25	1 of 4
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	carotenoid biosynthesis	22.73	5 of 22
[Ref.: #66794]	ascorbate metabolism	22.73	5 of 22
[Ref.: #66794]	degradation of pentoses	21.43	6 of 28
		Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #6186]	Sample type/isolated from	human necrotic pulp
[Ref.: #6186]	Country	Japan
[Ref.: #6186]	Country ISO 3 Code	JPN
[Ref.: #6186]	Continent	Asia

[Ref.: #56394]	Sample type/isolated from	Human necrotic pulp of tooth
[Ref.: #56394]	Sampling date	1991

[Ref.: #67770]	Sample type/isolated from	Human oral lesion

[Ref.: #67771]	Sample type/isolated from	From human necrotic pulp
[Ref.: #67771]	Country	Japan
[Ref.: #67771]	Country ISO 3 Code	JPN
[Ref.: #67771]	Continent	Asia

[Ref.: #119153]	Sample type/isolated from	Human, Necrotic pulp of tooth
[Ref.: #119153]	Isolation date	1991
* marker position based on {}

Isolation sources categories

#Infection	#Inflammation	-
#Host	#Human	-
#Host Body-Site	#Oral cavity and airways	#Tooth

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence NR_024952 (>99% sequence identity) for Slackia exigua subclade from Microbeatlas

Aquatic Samples	124
Soil Samples	198
Animal Samples	11626
Plant Samples	92
Total Samples	12040

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

[Ref.: #6186]	Biosafety level	2	Risk group (German classification) According to TRBA 466
[Ref.: #119153]	Biosafety level	1	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.: #67770]	Slackia exigua gene for 16S ribosomal RNA, partial sequence, strain: JCM 11022	LC007113	1474	ENA	84109 tax ID
[Ref.: #67771]	Slackia exigua ATCC 700122 16S ribosomal RNA, partial sequence	NR_024952	1465	GenBank	649764 tax ID
[Ref.: #20218]	Slackia exigua 16S ribosomal RNA gene, complete sequence	AF101240	1465	ENA	649764 tax ID	*

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Slackia exigua ATCC 700122	GCA_000162875	scaffold	GenBank	649764 tax ID
[Ref.: #67770]	Slackia exigua NCTC12994	GCA_900450505	contig	GenBank	84109 tax ID
[Ref.: #66792]	Slackia exigua ATCC 700122	649764.3	wgs	PATRIC	649764 tax ID	*
[Ref.: #66792]	Slackia exigua strain NCTC12994	84109.4	wgs	PATRIC	84109 tax ID	*
[Ref.: #66792]	Slackia exigua NCTC 12994	2833514366	draft	JGI IMG/M	84109 tax ID	*
[Ref.: #66792]	Slackia exigua ATCC 700122	645951837	draft	JGI IMG/M	649764 tax ID	*

[Ref.: #67770]

GC-content

60 mol%

high performance liquid chromatography (HPLC)

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: Slackia exigua ATCC 700122 ATCC 700122 NCBI: GCA_000162875.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Slackia exigua ATCC 700122 PATRIC: 649764.3
[Ref.: #69480]	gram-positive	yes	89.457	no
[Ref.: #69480]	anaerobic	yes	99.172	no
[Ref.: #69480]	halophile	no	81.54	no
[Ref.: #69480]	spore-forming	no	93.961	yes
[Ref.: #69480]	glucose-util	yes	55.516	no
[Ref.: #69480]	thermophile	no	95.122	yes
[Ref.: #69480]	flagellated	no	98.427	yes
[Ref.: #69480]	aerobic	no	97.619	yes
[Ref.: #69480]	motile	no	94.69	yes
[Ref.: #69480]	glucose-ferment	no	58.696	no

Availability in culture collections External links

[Ref.: #6186]

Culture collection no.

DSM 15923, ATCC 700122, JCM 11022, KCTC 5966, CCUG 44588, CIP 105133, NCTC 12994

[Ref.: #72584]

SI-ID 43783

Literature:

Topic	Title	Authors	Journal	DOI	Year
Metabolism	Degradation of arginine by Slackia exigua ATCC 700122 and Cryptobacterium curtum ATCC 700683.	Uematsu H, Sato N, Djais A, Hoshino E	Oral Microbiol Immunol	10.1111/j.1399-302X.2006.00307.x	2006	*
Phylogeny	The family Coriobacteriaceae: reclassification of Eubacterium exiguum (Poco et al. 1996) and Peptostreptococcus heliotrinreducens (Lanigan 1976) as Slackia exigua gen. nov., comb. nov. and Slackia heliotrinireducens gen. nov., comb. nov., and Eubacterium lentum (Prevot 1938) as Eggerthella lenta gen. nov., comb. nov.	Wade WG, Downes J, Dymock D, Hiom SJ, Weightman AJ, Dewhirst FE, Paster BJ, Tzellas N, Coleman B	Int J Syst Bacteriol	10.1099/00207713-49-2-595	1999	*

References

#6186

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 15923

#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 )

#56394 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 44588

#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 )

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#68380

Automatically annotated from API rID32A .

#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) .

#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 )

#72584

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-ID43783.1 )

#119153 Collection of Institut Pasteur ; Curators of the CIP; CIP 105133
* These data were automatically processed and therefore are not curated

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Search for species Slackia exigua in external resources:
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Slackia exigua ATCC 700122 ATCC 700122

Slackia exigua ATCC 700122

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