Name: Acetomicrobium faecale St. T
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 1579

Type strain:

Species: Acetomicrobium faecale

Strain Designation: St. T

Culture col. no.: DSM 20678, JCM 30420

Strain history: M.-L. Fardeau; IRD-MIO, Aix-Marseille Univ., France <-- DSM 20678 <-- J. Winter; Univ. Regensburg, Germany; St. T.

NCBI tax ID(s): 937334 (species)

SI-ID 49667

DSM 20678

Section

Acetomicrobium faecale St. T is an anaerobe, spore-forming, thermophilic bacterium that was isolated from sewage sludge.

Gram-positive
spore-forming
anaerobe
thermophilic
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	*Synergistota*
	Class	*Synergistia*
	Order	*Synergistales*
	Family	*Synergistaceae*
	Genus	*Acetomicrobium*
	Species	Acetomicrobium faecale
	Full Scientific Name (LPSN)	Acetomicrobium faecale corrig. Winter et al. 1988

	Synonym	Acetomicrobium faecalis
	Synonym	**Caldicoprobacter faecalis**

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	positive Confidence in %100

Information on culture and growth conditions Culture and growth conditions

[Ref.: #9000]

Culture medium

ACETOMICROBIUM FAECALIS MEDIUM (DSMZ Medium 412)

[Ref.: #9000]

Culture medium growth

[Ref.: #9000]

Culture medium link

Medium recipe at MediaDive

[Ref.: #9000]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #9000]			growth	70 °C
[Ref.: #67770]			growth	70 °C

[Ref.: #9000]	Temperature range	thermophilic
[Ref.: #67770]	Temperature range	thermophilic
[Ref.: #69480]	Temperature range	thermophilic Confidence in %100

Information on physiology and metabolism Physiology and metabolism

[Ref.: #9000]	Oxygen tolerance	anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %99.686

[Ref.: #69481]

Ability of spore formation

yes Confidence in %100

[Ref.: #9000]	Murein short key	A31
[Ref.: #9000]	Murein types	A1gamma m-Dpm-direct

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	cellulose degradation	100	5 of 5
[Ref.: #66794]	ribulose monophosphate pathway	100	2 of 2
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	teichoic acid biosynthesis	100	1 of 1
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	palmitate biosynthesis	95.45	21 of 22
[Ref.: #66794]	aspartate and asparagine metabolism	88.89	8 of 9
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	glycolate and glyoxylate degradation	83.33	5 of 6
[Ref.: #66794]	pentose phosphate pathway	81.82	9 of 11
[Ref.: #66794]	degradation of sugar alcohols	81.25	13 of 16
[Ref.: #66794]	threonine metabolism	80	8 of 10
[Ref.: #66794]	metabolism of amino sugars and derivatives	80	4 of 5
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	lipoate biosynthesis	80	4 of 5
[Ref.: #66794]	starch degradation	80	8 of 10
[Ref.: #66794]	valine metabolism	77.78	7 of 9
[Ref.: #66794]	isoleucine metabolism	75	6 of 8
[Ref.: #66794]	ketogluconate metabolism	75	6 of 8
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	ppGpp biosynthesis	75	3 of 4
[Ref.: #66794]	pyrimidine metabolism	73.33	33 of 45
[Ref.: #66794]	degradation of hexoses	72.22	13 of 18
[Ref.: #66794]	photosynthesis	71.43	10 of 14
[Ref.: #66794]	Entner Doudoroff pathway	70	7 of 10
[Ref.: #66794]	phenylalanine metabolism	69.23	9 of 13
[Ref.: #66794]	degradation of pentoses	67.86	19 of 28
[Ref.: #66794]	formaldehyde oxidation	66.67	2 of 3
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	d-mannose degradation	66.67	6 of 9
[Ref.: #66794]	NAD metabolism	66.67	12 of 18
[Ref.: #66794]	L-lactaldehyde degradation	66.67	2 of 3
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	purine metabolism	65.96	62 of 94
[Ref.: #66794]	glycolysis	64.71	11 of 17
[Ref.: #66794]	glutamate and glutamine metabolism	64.29	18 of 28
[Ref.: #66794]	degradation of sugar acids	64	16 of 25
[Ref.: #66794]	d-xylose degradation	63.64	7 of 11
[Ref.: #66794]	C4 and CAM-carbon fixation	62.5	5 of 8
[Ref.: #66794]	gluconeogenesis	62.5	5 of 8
[Ref.: #66794]	vitamin B1 metabolism	61.54	8 of 13
[Ref.: #66794]	methionine metabolism	61.54	16 of 26
[Ref.: #66794]	isoprenoid biosynthesis	61.54	16 of 26
[Ref.: #66794]	factor 420 biosynthesis	60	3 of 5
[Ref.: #66794]	hydrogen production	60	3 of 5
[Ref.: #66794]	glycine betaine biosynthesis	60	3 of 5
[Ref.: #66794]	glycogen metabolism	60	3 of 5
[Ref.: #66794]	oxidative phosphorylation	58.24	53 of 91
[Ref.: #66794]	reductive acetyl coenzyme A pathway	57.14	4 of 7
[Ref.: #66794]	tetrahydrofolate metabolism	57.14	8 of 14
[Ref.: #66794]	propanol degradation	57.14	4 of 7
[Ref.: #66794]	serine metabolism	55.56	5 of 9
[Ref.: #66794]	molybdenum cofactor biosynthesis	55.56	5 of 9
[Ref.: #66794]	histidine metabolism	55.17	16 of 29
[Ref.: #66794]	leucine metabolism	53.85	7 of 13
[Ref.: #66794]	tryptophan metabolism	52.63	20 of 38
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	adipate degradation	50	1 of 2
[Ref.: #66794]	acetate fermentation	50	2 of 4
[Ref.: #66794]	heme metabolism	50	7 of 14
[Ref.: #66794]	kanosamine biosynthesis II	50	1 of 2
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	50	4 of 8
[Ref.: #66794]	glycine metabolism	50	5 of 10
[Ref.: #66794]	selenocysteine biosynthesis	50	3 of 6
[Ref.: #66794]	phenylmercury acetate degradation	50	1 of 2
[Ref.: #66794]	suberin monomers biosynthesis	50	1 of 2
[Ref.: #66794]	lactate fermentation	50	2 of 4
[Ref.: #66794]	biotin biosynthesis	50	2 of 4
[Ref.: #66794]	butanoate fermentation	50	2 of 4
[Ref.: #66794]	sulfopterin metabolism	50	2 of 4
[Ref.: #66794]	glutathione metabolism	50	7 of 14
[Ref.: #66794]	cis-vaccenate biosynthesis	50	1 of 2
[Ref.: #66794]	arginine metabolism	50	12 of 24
[Ref.: #66794]	cysteine metabolism	50	9 of 18
[Ref.: #66794]	alanine metabolism	48.28	14 of 29
[Ref.: #66794]	proline metabolism	45.45	5 of 11
[Ref.: #66794]	CO2 fixation in Crenarchaeota	44.44	4 of 9
[Ref.: #66794]	polyamine pathway	43.48	10 of 23
[Ref.: #66794]	cardiolipin biosynthesis	42.86	3 of 7
[Ref.: #66794]	lysine metabolism	42.86	18 of 42
[Ref.: #66794]	citric acid cycle	42.86	6 of 14
[Ref.: #66794]	lipid metabolism	41.94	13 of 31
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
[Ref.: #66794]	propionate fermentation	40	4 of 10
[Ref.: #66794]	myo-inositol biosynthesis	40	4 of 10
[Ref.: #66794]	methylglyoxal degradation	40	2 of 5
[Ref.: #66794]	urea cycle	38.46	5 of 13
[Ref.: #66794]	dTDPLrhamnose biosynthesis	37.5	3 of 8
[Ref.: #66794]	non-pathway related	36.84	14 of 38
[Ref.: #66794]	tyrosine metabolism	35.71	5 of 14
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	cyanate degradation	33.33	1 of 3
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	nitrate assimilation	33.33	3 of 9
[Ref.: #66794]	enterobactin biosynthesis	33.33	1 of 3
[Ref.: #66794]	flavin biosynthesis	33.33	5 of 15
[Ref.: #66794]	lipid A biosynthesis	33.33	3 of 9
[Ref.: #66794]	ascorbate metabolism	31.82	7 of 22
[Ref.: #66794]	sulfate reduction	30.77	4 of 13
[Ref.: #66794]	4-hydroxyphenylacetate degradation	30	3 of 10
[Ref.: #66794]	metabolism of disaccharids	27.27	3 of 11
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	carnitine metabolism	25	2 of 8
[Ref.: #66794]	CMP-KDO 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.: #9000]	Sample type/isolated from	sewage sludge

[Ref.: #67770]	Sample type/isolated from	Sewage sludge
* marker position based on {}

Isolation sources categories

#Engineered

#Waste

#Sewage sludge

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence FR749983 (>99% sequence identity) for Caldicoprobacter from Microbeatlas

Aquatic Samples	123
Soil Samples	174
Animal Samples	903
Plant Samples	61
Total Samples	1261

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

[Ref.: #9000]

Biosafety level

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.: #9000]	Acetomicrobium faecale partial 16S rRNA gene, type strain DSM 20678T, clone 2	FR749981	1542	ENA	937334 tax ID
[Ref.: #20218]	Acetomicrobium faecale partial 16S rRNA gene, type strain DSM 20678T, clone 1	FR749980	1543	ENA	937334 tax ID	*
[Ref.: #20218]	Acetomicrobium faecale partial 16S rRNA gene, type strain DSM 20678T, clone 3	FR749982	1541	ENA	937334 tax ID	*
[Ref.: #20218]	Acetomicrobium faecale partial 16S rRNA gene, type strain DSM 20678T, clone 4	FR749983	1537	ENA	937334 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Caldicoprobacter faecalis DSM 20678	GCA_900115765	scaffold	GenBank	937334 tax ID
[Ref.: #66792]	Caldicoprobacter faecalis strain DSM 20678	937334.3	wgs	PATRIC	937334 tax ID	*
[Ref.: #66792]	Caldicoprobacter faecalis DSM 20678	2693429901	draft	JGI IMG/M	937334 tax ID	*

[Ref.: #9000]	GC-content	45.0 mol%
[Ref.: #67770]	GC-content	45 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: Caldicoprobacter faecalis DSM 20678 NCBI: GCA_900115765.1
[Ref.: #69481]	spore-forming	yes	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Caldicoprobacter faecalis strain DSM 20678 PATRIC: 937334.3
[Ref.: #69480]	motile	no	52.381	no
[Ref.: #69480]	flagellated	no	93.819	no
[Ref.: #69480]	gram-positive	yes	87.101	no
[Ref.: #69480]	anaerobic	yes	98.456	yes
[Ref.: #69480]	halophile	no	94.83	no
[Ref.: #69480]	spore-forming	yes	80.858	no
[Ref.: #69480]	glucose-util	yes	92.547	no
[Ref.: #69480]	aerobic	no	97.94	no
[Ref.: #69480]	thermophile	yes	100	yes
[Ref.: #69480]	glucose-ferment	yes	57.678	no

Availability in culture collections External links

[Ref.: #9000]

Culture collection no.

DSM 20678, JCM 30420

[Ref.: #71224]

SI-ID 49667

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Reclassification of Acetomicrobium faecale as Caldicoprobacter faecalis comb. nov.	Bouanane-Darenfed A, Ben Hania W, Cayol JL, Ollivier B, Fardeau ML	Int J Syst Evol Microbiol	10.1099/ijsem.0.000409	2015	*
Phylogeny	Caldicoprobacter guelmensis sp. nov., a thermophilic, anaerobic, xylanolytic bacterium isolated from a hot spring.	Bouanane-Darenfed A, Ben Hania W, Hacene H, Cayol JL, Ollivier B, Fardeau ML	Int J Syst Evol Microbiol	10.1099/ijs.0.043497-0	2012	*

References

#9000

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 20678

#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 )

#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 )

#71224

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-ID49667.1 )

* These data were automatically processed and therefore are not curated

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Caldicoprobacter faecalis DSM 20678

Caldicoprobacter faecalis strain DSM 20678

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