Name: Desulforamulus hydrothermalis DSM 18033
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 11832

Type strain:

Species: Desulforamulus hydrothermalis

Culture col. no.: DSM 18033, JCM 13992, LAM Lam5, LAM 5

Strain history: M.-L. Fardeau Lam5.

NCBI tax ID(s): 412895 (species)

SI-ID 405194

DSM 18033

Section

Desulforamulus hydrothermalis DSM 18033 is an anaerobe, thermophilic, Gram-negative bacterium that was isolated from terrestrial hot spring at 280 m elevation.

Gram-negative
motile
rod-shaped
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	*Bacillota*
	Class	*Clostridia*
	Order	*Eubacteriales*
	Family	*Peptococcaceae*
	Genus	*Desulforamulus*
	Species	**Desulforamulus hydrothermalis**
	Full Scientific Name (LPSN)	Desulforamulus hydrothermalis (Haouari et al. 2008) Watanabe et al. 2021

Synonym

Desulfotomaculum hydrothermale

Information on morphological and physiological properties Morphology

[Ref.: #32335]	Gram stain	negative
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #32335]	Cell length	02-05 µm

[Ref.: #32335]	Cell width	0.5 µm

[Ref.: #32335]	Cell shape	rod-shaped

[Ref.: #32335]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %94.045

[Ref.: #32335]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #7258]

Culture medium

DESULFOVIBRIO (MV) MEDIUM (DSMZ Medium 641)

[Ref.: #7258]

Culture medium growth

[Ref.: #7258]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7258]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #7258]	growth	55 °C
[Ref.: #32335]	growth	40-60 °C
[Ref.: #32335]	optimum	55 °C
[Ref.: #67770]	growth	55 °C

[Ref.: #7258]	Temperature range	thermophilic
[Ref.: #32335]	Temperature range	thermophilic
[Ref.: #67770]	Temperature range	thermophilic
[Ref.: #69480]	Temperature range	thermophilic Confidence in %99.999

	pH	Kind of pH		pH
[Ref.: #32335]			optimum	7.1
[Ref.: #32335]			growth	5.8-8.2

Information on physiology and metabolism Physiology and metabolism

[Ref.: #7258]	Oxygen tolerance	anaerobe
[Ref.: #32335]	Oxygen tolerance	anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %99.999

[Ref.: #32335]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	yes Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #32335]		NaCl		growth	0-1.5	%

[Ref.: #32335]

Observation

aggregates in chains

	Metabolite utilization	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #32335]		acetate ChEBI	+	carbon source
[Ref.: #32335]		formate ChEBI	+	carbon source

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	aminopropanol phosphate biosynthesis	100	2 of 2
[Ref.: #66794]	reductive acetyl coenzyme A pathway	100	7 of 7
[Ref.: #66794]	C4 and CAM-carbon fixation	100	8 of 8
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	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]	methylglyoxal degradation	100	5 of 5
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	threonine metabolism	90	9 of 10
[Ref.: #66794]	starch degradation	90	9 of 10
[Ref.: #66794]	aspartate and asparagine metabolism	88.89	8 of 9
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	gluconeogenesis	87.5	7 of 8
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	87.5	7 of 8
[Ref.: #66794]	isoleucine metabolism	87.5	7 of 8
[Ref.: #66794]	peptidoglycan biosynthesis	86.67	13 of 15
[Ref.: #66794]	tetrahydrofolate metabolism	85.71	12 of 14
[Ref.: #66794]	ubiquinone biosynthesis	85.71	6 of 7
[Ref.: #66794]	vitamin B1 metabolism	84.62	11 of 13
[Ref.: #66794]	1,4-dihydroxy-6-naphthoate biosynthesis	83.33	5 of 6
[Ref.: #66794]	selenocysteine biosynthesis	83.33	5 of 6
[Ref.: #66794]	vitamin B12 metabolism	82.35	28 of 34
[Ref.: #66794]	glycine betaine biosynthesis	80	4 of 5
[Ref.: #66794]	cellulose degradation	80	4 of 5
[Ref.: #66794]	photosynthesis	78.57	11 of 14
[Ref.: #66794]	glutamate and glutamine metabolism	78.57	22 of 28
[Ref.: #66794]	valine metabolism	77.78	7 of 9
[Ref.: #66794]	molybdenum cofactor biosynthesis	77.78	7 of 9
[Ref.: #66794]	glycolysis	76.47	13 of 17
[Ref.: #66794]	ketogluconate metabolism	75	6 of 8
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	sulfopterin metabolism	75	3 of 4
[Ref.: #66794]	purine metabolism	73.4	69 of 94
[Ref.: #66794]	pyrimidine metabolism	73.33	33 of 45
[Ref.: #66794]	flavin biosynthesis	73.33	11 of 15
[Ref.: #66794]	NAD metabolism	72.22	13 of 18
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	heme metabolism	71.43	10 of 14
[Ref.: #66794]	propanol degradation	71.43	5 of 7
[Ref.: #66794]	phenylalanine metabolism	69.23	9 of 13
[Ref.: #66794]	methionine metabolism	69.23	18 of 26
[Ref.: #66794]	degradation of sugar alcohols	68.75	11 of 16
[Ref.: #66794]	serine metabolism	66.67	6 of 9
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	d-mannose degradation	66.67	6 of 9
[Ref.: #66794]	glycolate and glyoxylate degradation	66.67	4 of 6
[Ref.: #66794]	formaldehyde oxidation	66.67	2 of 3
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	histidine metabolism	65.52	19 of 29
[Ref.: #66794]	alanine metabolism	65.52	19 of 29
[Ref.: #66794]	isoprenoid biosynthesis	61.54	16 of 26
[Ref.: #66794]	glycogen metabolism	60	3 of 5
[Ref.: #66794]	hydrogen production	60	3 of 5
[Ref.: #66794]	lipoate biosynthesis	60	3 of 5
[Ref.: #66794]	citric acid cycle	57.14	8 of 14
[Ref.: #66794]	CO2 fixation in Crenarchaeota	55.56	5 of 9
[Ref.: #66794]	nitrate assimilation	55.56	5 of 9
[Ref.: #66794]	arginine metabolism	54.17	13 of 24
[Ref.: #66794]	oxidative phosphorylation	53.85	49 of 91
[Ref.: #66794]	leucine metabolism	53.85	7 of 13
[Ref.: #66794]	mannosylglycerate biosynthesis	50	1 of 2
[Ref.: #66794]	adipate degradation	50	1 of 2
[Ref.: #66794]	ribulose monophosphate pathway	50	1 of 2
[Ref.: #66794]	CMP-KDO biosynthesis	50	2 of 4
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	lactate fermentation	50	2 of 4
[Ref.: #66794]	suberin monomers biosynthesis	50	1 of 2
[Ref.: #66794]	pantothenate biosynthesis	50	3 of 6
[Ref.: #66794]	tryptophan metabolism	50	19 of 38
[Ref.: #66794]	non-pathway related	50	19 of 38
[Ref.: #66794]	cysteine metabolism	50	9 of 18
[Ref.: #66794]	biotin biosynthesis	50	2 of 4
[Ref.: #66794]	coenzyme M biosynthesis	50	5 of 10
[Ref.: #66794]	butanoate fermentation	50	2 of 4
[Ref.: #66794]	phenylmercury acetate degradation	50	1 of 2
[Ref.: #66794]	glycine metabolism	50	5 of 10
[Ref.: #66794]	lysine metabolism	47.62	20 of 42
[Ref.: #66794]	sulfate reduction	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]	pentose phosphate pathway	45.45	5 of 11
[Ref.: #66794]	tyrosine metabolism	42.86	6 of 14
[Ref.: #66794]	3-chlorocatechol degradation	40	2 of 5
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	propionate fermentation	40	4 of 10
[Ref.: #66794]	polyamine pathway	39.13	9 of 23
[Ref.: #66794]	lipid metabolism	38.71	12 of 31
[Ref.: #66794]	phenylpropanoid biosynthesis	38.46	5 of 13
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	38.46	5 of 13
[Ref.: #66794]	degradation of pentoses	35.71	10 of 28
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	33.33	4 of 12
[Ref.: #66794]	lipid A biosynthesis	33.33	3 of 9
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	myo-inositol biosynthesis	30	3 of 10
[Ref.: #66794]	Entner Doudoroff pathway	30	3 of 10
[Ref.: #66794]	chlorophyll metabolism	27.78	5 of 18
[Ref.: #66794]	degradation of hexoses	27.78	5 of 18
[Ref.: #66794]	vitamin B6 metabolism	27.27	3 of 11
[Ref.: #66794]	metabolism of disaccharids	27.27	3 of 11
[Ref.: #66794]	ascorbate metabolism	27.27	6 of 22
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	vitamin E metabolism	25	1 of 4
[Ref.: #66794]	dTDPLrhamnose biosynthesis	25	2 of 8
[Ref.: #66794]	carnitine metabolism	25	2 of 8
[Ref.: #66794]	glutathione metabolism	21.43	3 of 14
		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.: #7258]	Sample type/isolated from	terrestrial hot spring at 280 m elevation
[Ref.: #7258]	Geographic location (country and/or sea, region)	10 km north of Fernana on the Fernana–Ben Mtir road in north-east Tunisia at 280 m elevation
[Ref.: #7258]	Country	Tunisia
[Ref.: #7258]	Country ISO 3 Code	TUN
[Ref.: #7258]	Continent	Africa

[Ref.: #67770]	Sample type/isolated from	Hot spring in north-east Tunisia
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Thermal spring
#Environmental	#Terrestrial	-
#Condition	#Thermophilic (>45°C)	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence EF081293 (>99% sequence identity) for Desulfotomaculum hydrothermale subclade from Microbeatlas

Aquatic Samples	21
Soil Samples	8
Animal Samples	24
Plant Samples	12
Total Samples	65

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

[Ref.: #7258]

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.: #7258]	Desulfotomaculum hydrothermale strain Lam5 16S ribosomal RNA gene, partial sequence	EF081293	1564	ENA	1121428 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Desulforamulus hydrothermalis Lam5 = DSM 18033 type strain: Lam5 = DSM 18033	GCA_000315365	scaffold	GenBank	1121428 tax ID
[Ref.: #66792]	Desulforamulus hydrothermalis Lam5 = DSM 18033	GCA_900129895	scaffold	GenBank	1121428 tax ID	*
[Ref.: #66792]	Desulfotomaculum hydrothermale Lam5 = DSM 18033	1121428.3	wgs	PATRIC	1121428 tax ID	*
[Ref.: #66792]	Desulfotomaculum hydrothermale Lam5 = DSM 18033 strain DSM 18033	1121428.6	wgs	PATRIC	1121428 tax ID	*

[Ref.: #7258]	GC-content	46.8 mol%	high performance liquid chromatography (HPLC)
[Ref.: #32335]	GC-content	46.8 mol%

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: Desulforamulus hydrothermalis Lam5 = DSM 18033 Lam5 NCBI: GCA_000315365.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Desulfotomaculum hydrothermale Lam5 = DSM 18033 DSM 18033 NCBI: GCA_900129895.1
[Ref.: #69480]	motile	yes	90.369	yes
[Ref.: #69480]	flagellated	no	84.633	no
[Ref.: #69480]	gram-positive	no	89.714	yes
[Ref.: #69480]	anaerobic	yes	99.729	yes
[Ref.: #69480]	aerobic	no	97.571	yes
[Ref.: #69480]	halophile	no	94.461	yes
[Ref.: #69480]	spore-forming	yes	84.828	yes
[Ref.: #69480]	thermophile	yes	99.409	yes
[Ref.: #69480]	glucose-util	yes	84.126	no
[Ref.: #69480]	glucose-ferment	no	76.706	no

Availability in culture collections External links

[Ref.: #7258]

Culture collection no.

DSM 18033, JCM 13992, LAM Lam5, LAM 5

[Ref.: #81051]

SI-ID 405194

References

#7258

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 18033

#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 )

#32335

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #28568 (see below)

#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 )

#81051

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-ID405194.1 )

#28568

IJSEM 2529 2008 ( DOI 10.1099/ijs.0.65339-0 , PubMed 18984688 )

* These data were automatically processed and therefore are not curated

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Desulforamulus hydrothermalis Lam5 = DSM 18033 Lam5

Desulfotomaculum hydrothermale Lam5 = DSM 18033 DSM 18033

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