Name: Clostridium fallax Tracol
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 2585

Type strain:

Species: Clostridium fallax

Strain Designation: Tracol

Culture col. no.: DSM 2631, ATCC 19400, NCTC 8380, VPI 5729, CCUG 4853, JCM 1398, BCRC 14512, NCIMB 10634

Strain history: ATCC 19400 <-- Inst. Pasteur, Paris.

NCBI tax ID(s): 1121309 (strain), 1533 (species)

SI-ID 45622

ATCC 19400, NCTC 8380, DSM 2631, JCM 1398, CCRC 14512, CCUG 4853, NCIMB 10634, BCRC 14512

Section

Clostridium fallax Tracol is an anaerobe, spore-forming, mesophilic human pathogen that was isolated from Soil.

motile
spore-forming
anaerobe
human pathogen
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	*Bacillota*
	Class	*Clostridia*
	Order	*Eubacteriales*
	Family	*Clostridiaceae*
	Genus	*Clostridium*
	Species	**Clostridium fallax**
	Full Scientific Name (LPSN)	Clostridium fallax (Weinberg and Séguin 1915) Bergey et al. 1923 (Approved Lists 1980)

Synonym

"Bacillus fallax"

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	positive Confidence in %99.999

[Ref.: #69480]	Motility	yes Confidence in %93.379

Information on culture and growth conditions Culture and growth conditions

[Ref.: #1177]

Culture medium

CHOPPED MEAT MEDIUM (DSMZ Medium 78)

[Ref.: #1177]

Culture medium growth

[Ref.: #1177]

Culture medium link

Medium recipe at MediaDive

[Ref.: #1177]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #1177]			growth	37 °C
[Ref.: #67770]			growth	37 °C

[Ref.: #1177]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #1177]	Oxygen tolerance	anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %99.999

[Ref.: #69481]	Ability of spore formation	yes Confidence in %100
[Ref.: #69480]	Ability of spore formation	yes Confidence in %99.128

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #44793]

Fatty acid	Percentage	ECL
C16:0	20.9	16
C14:0	17.8	14
C17:1 ω5c ISO	9.7	16.461
C13:0 3OH/C15:1 i I/H	7.2	14.469
C18:2 ω6,9c/C18:0 ANTE	4.2	17.724
C16:1 ω9c	3.7	15.774
C12:0	3.6	12
C16:1 ω9c DMA	3.2	16.242
C18:0	2.9	18
C16:1 ω7c	2.6	15.819
C17:0 iso 3OH	2.5	18.161
C18:1 ω9c	2.5	17.769
C18:1 ω7c /12t/9t	2.2	17.824
C16:0 aldehyde	2	14.949
C16:1 ω7c DMA	1.9	16.288
C13:1 at 12-13	1.9	12.931
C19:0 CYCLO ω9c	1.5	18.87
Unidentified	1.3	14.756
C19:0 CYCLO ω8c	1.1	18.9
C17:0 CYCLO	1.1	16.888
C17:0 CYCLO DMA	1	17.357
Unidentified	0.9	18.459
C13:0 ISO 2OH	0.8	13.814
Unidentified	0.8	12.466
C16:1 ω5c	0.7	15.908
Unidentified	0.7	14.287
C10:0	0.7	10
C12:0 ALDE ?	0.6	10.915

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	biotin biosynthesis	100	4 of 4
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	L-lactaldehyde degradation	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	100	22 of 22
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	vitamin B1 metabolism	92.31	12 of 13
[Ref.: #66794]	starch degradation	90	9 of 10
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	C4 and CAM-carbon fixation	87.5	7 of 8
[Ref.: #66794]	gluconeogenesis	87.5	7 of 8
[Ref.: #66794]	NAD metabolism	83.33	15 of 18
[Ref.: #66794]	vitamin B12 metabolism	82.35	28 of 34
[Ref.: #66794]	pyrimidine metabolism	82.22	37 of 45
[Ref.: #66794]	purine metabolism	80.85	76 of 94
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	metabolism of amino sugars and derivatives	80	4 of 5
[Ref.: #66794]	methylglyoxal degradation	80	4 of 5
[Ref.: #66794]	glycine betaine biosynthesis	80	4 of 5
[Ref.: #66794]	photosynthesis	78.57	11 of 14
[Ref.: #66794]	d-mannose degradation	77.78	7 of 9
[Ref.: #66794]	glycolysis	76.47	13 of 17
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	CMP-KDO biosynthesis	75	3 of 4
[Ref.: #66794]	sulfopterin metabolism	75	3 of 4
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	reductive acetyl coenzyme A pathway	71.43	5 of 7
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	69.23	9 of 13
[Ref.: #66794]	glutamate and glutamine metabolism	67.86	19 of 28
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	aspartate and asparagine metabolism	66.67	6 of 9
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	selenocysteine biosynthesis	66.67	4 of 6
[Ref.: #66794]	formaldehyde oxidation	66.67	2 of 3
[Ref.: #66794]	cyanate degradation	66.67	2 of 3
[Ref.: #66794]	CO2 fixation in Crenarchaeota	66.67	6 of 9
[Ref.: #66794]	heme metabolism	64.29	9 of 14
[Ref.: #66794]	lipid metabolism	61.29	19 of 31
[Ref.: #66794]	degradation of hexoses	61.11	11 of 18
[Ref.: #66794]	threonine metabolism	60	6 of 10
[Ref.: #66794]	hydrogen production	60	3 of 5
[Ref.: #66794]	glycogen metabolism	60	3 of 5
[Ref.: #66794]	propanol degradation	57.14	4 of 7
[Ref.: #66794]	degradation of sugar alcohols	56.25	9 of 16
[Ref.: #66794]	oxidative phosphorylation	56.04	51 of 91
[Ref.: #66794]	serine metabolism	55.56	5 of 9
[Ref.: #66794]	alanine metabolism	55.17	16 of 29
[Ref.: #66794]	d-xylose degradation	54.55	6 of 11
[Ref.: #66794]	pentose phosphate pathway	54.55	6 of 11
[Ref.: #66794]	phenylalanine metabolism	53.85	7 of 13
[Ref.: #66794]	methionine metabolism	53.85	14 of 26
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	50	4 of 8
[Ref.: #66794]	kanosamine biosynthesis II	50	1 of 2
[Ref.: #66794]	tryptophan metabolism	50	19 of 38
[Ref.: #66794]	isoprenoid biosynthesis	50	13 of 26
[Ref.: #66794]	dTDPLrhamnose biosynthesis	50	4 of 8
[Ref.: #66794]	lactate fermentation	50	2 of 4
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	toluene degradation	50	2 of 4
[Ref.: #66794]	butanoate fermentation	50	2 of 4
[Ref.: #66794]	aminopropanol phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	50	6 of 12
[Ref.: #66794]	suberin monomers biosynthesis	50	1 of 2
[Ref.: #66794]	phenylmercury acetate degradation	50	1 of 2
[Ref.: #66794]	Entner Doudoroff pathway	50	5 of 10
[Ref.: #66794]	sulfate reduction	46.15	6 of 13
[Ref.: #66794]	non-pathway related	44.74	17 of 38
[Ref.: #66794]	nitrate assimilation	44.44	4 of 9
[Ref.: #66794]	cardiolipin biosynthesis	42.86	3 of 7
[Ref.: #66794]	tetrahydrofolate metabolism	42.86	6 of 14
[Ref.: #66794]	degradation of pentoses	42.86	12 of 28
[Ref.: #66794]	glutathione metabolism	42.86	6 of 14
[Ref.: #66794]	histidine metabolism	41.38	12 of 29
[Ref.: #66794]	cellulose degradation	40	2 of 5
[Ref.: #66794]	glycine metabolism	40	4 of 10
[Ref.: #66794]	myo-inositol biosynthesis	40	4 of 10
[Ref.: #66794]	ethylmalonyl-CoA pathway	40	2 of 5
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	cysteine metabolism	38.89	7 of 18
[Ref.: #66794]	arachidonic acid metabolism	38.89	7 of 18
[Ref.: #66794]	phenylpropanoid biosynthesis	38.46	5 of 13
[Ref.: #66794]	leucine metabolism	38.46	5 of 13
[Ref.: #66794]	urea cycle	38.46	5 of 13
[Ref.: #66794]	lysine metabolism	38.1	16 of 42
[Ref.: #66794]	isoleucine 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]	proline metabolism	36.36	4 of 11
[Ref.: #66794]	metabolism of disaccharids	36.36	4 of 11
[Ref.: #66794]	citric acid cycle	35.71	5 of 14
[Ref.: #66794]	lipid A biosynthesis	33.33	3 of 9
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	valine metabolism	33.33	3 of 9
[Ref.: #66794]	glycolate and glyoxylate degradation	33.33	2 of 6
[Ref.: #66794]	molybdenum cofactor biosynthesis	33.33	3 of 9
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	ascorbate metabolism	31.82	7 of 22
[Ref.: #66794]	polyamine pathway	30.43	7 of 23
[Ref.: #66794]	propionate fermentation	30	3 of 10
[Ref.: #66794]	benzoyl-CoA degradation	28.57	2 of 7
[Ref.: #66794]	tyrosine metabolism	28.57	4 of 14
[Ref.: #66794]	degradation of sugar acids	28	7 of 25
[Ref.: #66794]	flavin biosynthesis	26.67	4 of 15
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	arginine metabolism	25	6 of 24
[Ref.: #66794]	carnitine metabolism	25	2 of 8
[Ref.: #66794]	catecholamine biosynthesis	25	1 of 4
		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.: #67770]	Sample type/isolated from	Soil
* marker position based on {}

[Ref.: #69479]

Global distribution of 16S sequence LC036315 (>99% sequence identity) for Clostridium fallax subclade from Microbeatlas

Aquatic Samples	276
Soil Samples	129
Animal Samples	1837
Plant Samples	71
Total Samples	2313

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

[Ref.: #1177]	Pathogenicity (human)	yes
[Ref.: #1177]	Pathogenicity (animal)	yes
[Ref.: #1177]	Biosafety level	2	Risk group (German classification) According to TRBA 466

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.: #1177]	Clostridium fallax strain ATCC 19400 16S ribosomal RNA gene, partial sequence	M59088	1462	ENA	1533 tax ID
[Ref.: #67770]	Clostridium fallax gene for 16S ribosomal RNA, partial sequence, strain: JCM 1398	LC036315	1478	ENA	1533 tax ID
[Ref.: #20218]	Clostridium fallax strain DSM 2631 16S ribosomal RNA gene, partial sequence	HM245941	840	ENA	1533 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]	Clostridium fallax DSM 2631	GCA_900129365	contig	GenBank	1533 tax ID
[Ref.: #67770]	Clostridium fallax NCTC8380	GCA_900461065	contig	GenBank	1533 tax ID
[Ref.: #66792]	Clostridium fallax strain DSM 2631	1533.3	wgs	PATRIC	1533 tax ID	*
[Ref.: #66792]	Clostridium fallax strain NCTC8380	1533.15	wgs	PATRIC	1533 tax ID	*
[Ref.: #66792]	Clostridium fallax DSM 2631	2695420941	draft	JGI IMG/M	1533 tax ID	*
[Ref.: #66792]	Clostridium fallax NCTC 8380	2808606672	draft	JGI IMG/M	1533 tax ID	*

[Ref.: #1177]	GC-content	26.0 mol%
[Ref.: #67770]	GC-content	26 mol%	thermal denaturation, midpoint method (Tm)

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: Clostridium fallax strain NCTC8380 PATRIC: 1533.15
[Ref.: #69481]	spore-forming	yes	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Clostridium fallax strain DSM 2631 PATRIC: 1533.3
[Ref.: #69480]	motile	yes	83.251	no
[Ref.: #69480]	gram-positive	yes	86.869	no
[Ref.: #69480]	anaerobic	yes	99.06	no
[Ref.: #69480]	aerobic	no	97.304	yes
[Ref.: #69480]	halophile	no	83.785	no
[Ref.: #69480]	spore-forming	yes	94.916	no
[Ref.: #69480]	thermophile	no	90.913	yes
[Ref.: #69480]	glucose-util	yes	87.931	no
[Ref.: #69480]	flagellated	yes	58.429	no
[Ref.: #69480]	glucose-ferment	yes	75.451	no

Availability in culture collections External links

[Ref.: #1177]

Culture collection no.

DSM 2631, ATCC 19400, NCTC 8380, VPI 5729, CCUG 4853, JCM 1398, BCRC 14512, NCIMB 10634

[Ref.: #72118]

SI-ID 45622

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Clostridium zeae sp. nov., isolated from corn silage.	Kobayashi H, Tanizawa Y, Yagura M, Sakamoto M, Ohkuma M, Tohno M	Int J Syst Evol Microbiol	10.1099/ijsem.0.005088	2021	*

References

#1177

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 2631

#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 )

#44793 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 4853

#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;

#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 )

#72118

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-ID45622.1 )

* These data were automatically processed and therefore are not curated

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Clostridium fallax strain NCTC8380

Clostridium fallax strain DSM 2631

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