Cite this strain

"Desulfovibrio ferrophilus" (DSM 15579, IS5)

BacDive ID 4144

Type strain

Strain Designation IS5

Culture col. no. DSM 15579 IS5

NCBI tax ID(s) 241368

Special Collections DSMZ

Links

"Desulfovibrio ferrophilus" IS5 is an anaerobe, mesophilic prokaryote that was isolated from enrichment culture with metallic iron as the only electron donor.

anaerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 143374

DSM 15579

@ref 20215

Last LPSN update 2025-12-16 09:47:44

Domain Pseudomonadati

Phylum Thermodesulfobacteriota

Class Desulfovibrionia

Order Desulfovibrionales

Family Desulfovibrionaceae

Genus Desulfovibrio

Species "Desulfovibrio ferrophilus"

Full scientific name Desulfovibrio ferrophilus Emerson et al. 2007

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	99.9
125438	negative	95.477

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
5902	DESULFOBACTER SP. MEDIUM (LACTATE) (DSMZ Medium 195c)		Medium recipe at MediaDive	Name: DESULFOBACTER SP. MEDIUM (LACTATE) (DSMZ Medium 195c) Composition: NaCl 20.9372 g/l Na2SO4 2.99103 g/l MgCl2 x 6 H2O 2.99103 g/l Na-L-lactate 2.49252 g/l Na2CO3 1.49551 g/l KCl 0.498504 g/l Na2S x 9 H2O 0.398804 g/l NH4Cl 0.299103 g/l KH2PO4 0.199402 g/l CaCl2 x 2 H2O 0.149551 g/l HCl 0.00249252 g/l FeCl2 x 4 H2O 0.00149551 g/l NaOH 0.000498504 g/l Sodium resazurin 0.000498504 g/l CoCl2 x 6 H2O 0.000189432 g/l Pyridoxine hydrochloride 9.97009e-05 g/l MnCl2 x 4 H2O 9.97009e-05 g/l ZnCl2 6.97906e-05 g/l p-Aminobenzoic acid 4.98504e-05 g/l (DL)-alpha-Lipoic acid 4.98504e-05 g/l Thiamine HCl 4.98504e-05 g/l Calcium D-(+)-pantothenate 4.98504e-05 g/l Riboflavin 4.98504e-05 g/l Nicotinic acid 4.98504e-05 g/l Na2MoO4 x 2 H2O 3.58923e-05 g/l NiCl2 x 6 H2O 2.39282e-05 g/l Biotin 1.99402e-05 g/l Folic acid 1.99402e-05 g/l H3BO3 5.98205e-06 g/l Na2WO4 x 2 H2O 3.98804e-06 g/l Na2SeO3 x 5 H2O 2.99103e-06 g/l CuCl2 x 2 H2O 1.99402e-06 g/l Vitamin B12 9.97009e-07 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
5902	positive	growth	28	mesophilic

Physiology and metabolism

Oxygen tolerance

5902

Oxygen toleranceanaerobe

Spore formation

@ref	Spore formation	Confidence
125439		99.4

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	reductive acetyl coenzyme A pathway	100	7 of 7
66794	1,4-dihydroxy-6-naphthoate biosynthesis	100	6 of 6
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	sulfopterin metabolism	100	4 of 4
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	cardiolipin biosynthesis	100	7 of 7
66794	valine metabolism	100	9 of 9
66794	biotin biosynthesis	100	4 of 4
66794	hydrogen production	100	5 of 5
66794	acetoin degradation	100	3 of 3
66794	methylglyoxal degradation	100	5 of 5
66794	folate polyglutamylation	100	1 of 1
66794	L-lactaldehyde degradation	100	3 of 3
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	chorismate metabolism	100	9 of 9
66794	palmitate biosynthesis	90.91	20 of 22
66794	threonine metabolism	90	9 of 10
66794	lipid A biosynthesis	88.89	8 of 9
66794	isoleucine metabolism	87.5	7 of 8
66794	ubiquinone biosynthesis	85.71	6 of 7
66794	vitamin B1 metabolism	84.62	11 of 13
66794	pentose phosphate pathway	81.82	9 of 11
66794	peptidoglycan biosynthesis	80	12 of 15
66794	starch degradation	80	8 of 10
66794	glycogen metabolism	80	4 of 5
66794	aspartate and asparagine metabolism	77.78	7 of 9
66794	nitrate assimilation	77.78	7 of 9
66794	serine metabolism	77.78	7 of 9
66794	d-mannose degradation	77.78	7 of 9
66794	ppGpp biosynthesis	75	3 of 4
66794	acetate fermentation	75	3 of 4
66794	glycogen biosynthesis	75	3 of 4
66794	glutamate and glutamine metabolism	75	21 of 28
66794	coenzyme A metabolism	75	3 of 4
66794	CMP-KDO biosynthesis	75	3 of 4
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	flavin biosynthesis	73.33	11 of 15
66794	proline metabolism	72.73	8 of 11
66794	NAD metabolism	72.22	13 of 18
66794	tetrahydrofolate metabolism	71.43	10 of 14
66794	propanol degradation	71.43	5 of 7
66794	photosynthesis	71.43	10 of 14
66794	vitamin B12 metabolism	70.59	24 of 34
66794	purine metabolism	70.21	66 of 94
66794	sulfate reduction	69.23	9 of 13
66794	phenylalanine metabolism	69.23	9 of 13
66794	pyrimidine metabolism	68.89	31 of 45
66794	oxidative phosphorylation	68.13	62 of 91
66794	octane oxidation	66.67	2 of 3
66794	cyanate degradation	66.67	2 of 3
66794	formaldehyde oxidation	66.67	2 of 3
66794	enterobactin biosynthesis	66.67	2 of 3
66794	molybdenum cofactor biosynthesis	66.67	6 of 9
66794	selenocysteine biosynthesis	66.67	4 of 6
66794	alanine metabolism	65.52	19 of 29
66794	methionine metabolism	65.38	17 of 26
66794	glycolysis	64.71	11 of 17
66794	heme metabolism	64.29	9 of 14
66794	vitamin B6 metabolism	63.64	7 of 11
66794	C4 and CAM-carbon fixation	62.5	5 of 8
66794	leucine metabolism	61.54	8 of 13
66794	non-pathway related	60.53	23 of 38
66794	glycine betaine biosynthesis	60	3 of 5
66794	lysine metabolism	57.14	24 of 42
66794	CO2 fixation in Crenarchaeota	55.56	5 of 9
66794	cysteine metabolism	55.56	10 of 18
66794	metabolism of disaccharids	54.55	6 of 11
66794	tryptophan metabolism	52.63	20 of 38
66794	denitrification	50	1 of 2
66794	dTDPLrhamnose biosynthesis	50	4 of 8
66794	adipate degradation	50	1 of 2
66794	glycolate and glyoxylate degradation	50	3 of 6
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	pantothenate biosynthesis	50	3 of 6
66794	Entner Doudoroff pathway	50	5 of 10
66794	ethanol fermentation	50	1 of 2
66794	4-hydroxyphenylacetate degradation	50	5 of 10
66794	glycine metabolism	50	5 of 10
66794	glutathione metabolism	50	7 of 14
66794	suberin monomers biosynthesis	50	1 of 2
66794	phenylmercury acetate degradation	50	1 of 2
66794	arginine metabolism	50	12 of 24
66794	kanosamine biosynthesis II	50	1 of 2
66794	butanoate fermentation	50	2 of 4
66794	gluconeogenesis	50	4 of 8
66794	urea cycle	46.15	6 of 13
66794	histidine metabolism	44.83	13 of 29
66794	citric acid cycle	42.86	6 of 14
66794	tyrosine metabolism	42.86	6 of 14
66794	isoprenoid biosynthesis	42.31	11 of 26
66794	lipid metabolism	41.94	13 of 31
66794	factor 420 biosynthesis	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	lipoate biosynthesis	40	2 of 5
66794	metabolism of amino sugars and derivatives	40	2 of 5
66794	bacilysin biosynthesis	40	2 of 5
66794	polyamine pathway	39.13	9 of 23
66794	degradation of hexoses	38.89	7 of 18
66794	phenylpropanoid biosynthesis	38.46	5 of 13
66794	ketogluconate metabolism	37.5	3 of 8
66794	dolichyl-diphosphooligosaccharide biosynthesis	36.36	4 of 11
66794	phenol degradation	35	7 of 20
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	IAA biosynthesis	33.33	1 of 3
66794	degradation of aromatic, nitrogen containing compounds	33.33	4 of 12
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	ascorbate metabolism	31.82	7 of 22
66794	coenzyme M biosynthesis	30	3 of 10
66794	degradation of pentoses	28.57	8 of 28
66794	mevalonate metabolism	28.57	2 of 7
66794	d-xylose degradation	27.27	3 of 11
66794	toluene degradation	25	1 of 4
66794	alginate biosynthesis	25	1 of 4
66794	lactate fermentation	25	1 of 4
66794	methanogenesis from CO2	25	3 of 12
66794	degradation of sugar alcohols	25	4 of 16
66794	cyclohexanol degradation	25	1 of 4

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Laboratory	#Lab enrichment

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
5902	enrichment culture with metallic iron as the only electron donor	North Sea, Wilhelmshaven	Germany	DEU	Europe

Taxonmaps

69479

Global distribution of 16S sequence AY274449 (>99% sequence identity) for Desulfocurvus from Microbeatlas

Aquatic Samples	749
Soil Samples	59
Animal Samples	27
Plant Samples	45
Total Samples	880

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM396673v1 assembly for Desulfovibrio ferrophilus IS5	complete	GCA_003966735	241368.3	2823931327	241368	98.51

Genome browser: GCA_003966735

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
5902	Desulfovibrio ferrophilus 16S ribosomal RNA gene, partial sequence	AY274449	1491		241368

GC content

@ref	GC-content (mol%)	Method
5902	55.8	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Desulfovibrio ferrophilus IS5
IMG: 2823931327

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	99.40	no
125439	motility	BacteriaNetⓘ	yes	88.00	no
125439	gram_stain	BacteriaNetⓘ	negative	99.90	no
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	85.90	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Desulfovibrio ferrophilus IS5
NCBI: GCA_003966735.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	95.48	no
125438	anaerobic	anaerobicⓘ	yes	80.21	yes
125438	aerobic	aerobicⓘ	no	85.73	yes
125438	spore-forming	spore-formingⓘ	no	87.35	no
125438	thermophilic	thermophileⓘ	no	92.16	yes
125438	flagellated	motile2+ⓘ	yes	80.16	no

Literature

References

#5902	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 15579
#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 )
#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 )
#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 .
#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 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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