Desulfomicrobium baculatum (DSM 4028, VKM B-1378, CCUG 34229)

Name: Desulfomicrobium baculatum (DSM 4028, VKM B-1378, CCUG 34229)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 4051

Type strain

Strain Designation X

Culture col. no. DSM 4028 VKM B-1378 CCUG 34229 X

NCBI tax ID(s) 525897 899

Special Collections DSMZ CCUG

History <- M. B. Vainshtein, VKM; VKM B-1378 <- E. P. Rozanova and T. N. Nazina, Institute of Microbiology, Russ. Academy of Sciences, Moscow, Russia; X

Links

Desulfomicrobium baculatum X is an anaerobe bacterium that was isolated from manganese ore.

anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 93044

CCUG 34229,DSM 4028,VKM B-1378

@ref 20215

Last LPSN update 2026-02-09 11:18:38

Domain Bacteria

Phylum Thermodesulfobacteriota

Class Desulfovibrionia

Order Desulfovibrionales

Family Desulfomicrobiaceae

Genus Desulfomicrobium

Species Desulfomicrobium baculatum

Full scientific name Desulfomicrobium baculatum corrig. (Rozanova and Nazina 1984) Rozanova et al. 1994

Synonyms (2)

Desulfomicrobium baculatus
Desulfovibrio baculatus

BacDive ID	Other strains from **Desulfomicrobium baculatum** (3)	Type strain
4048	D. baculatum 5174, DSM 1742
4049	D. baculatum 9974, DSM 1743
4050	D. baculatum H.L21, DSM 2555

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	94.318
125439	negative	99.7

Multimedia

@ref:	66793
multimedia content:	EM_DSM_4028_1.jpg
multimedia.multimedia content:	EM_DSM_4028_1.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
1577	DESULFOVIBRIO (POSTGATE) MEDIUM (DSMZ Medium 63)		Medium recipe at MediaDive	Name: DESULFOVIBRIO (POSTGATE) MEDIUM (DSMZ Medium 63) Composition: MgSO4 x 7 H2O 2.0 g/l Na-DL-lactate 2.0 g/l NH4Cl 1.0 g/l Yeast extract 1.0 g/l Na2SO4 1.0 g/l FeSO4 x 7 H2O 0.5 g/l K2HPO4 0.5 g/l CaCl2 x 2 H2O 0.1 g/l Na-thioglycolate 0.1 g/l Ascorbic acid 0.1 g/l Sodium resazurin 0.0005 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
1577	positive	growth	30

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
1577	anaerobe
125439	anaerobe	99.1

Spore formation

@ref	Spore formation	Confidence
125439		99.6

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	biotin biosynthesis	100	4 of 4
66794	aspartate and asparagine metabolism	100	9 of 9
66794	palmitate biosynthesis	100	22 of 22
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	1,4-dihydroxy-6-naphthoate biosynthesis	100	6 of 6
66794	chorismate metabolism	100	9 of 9
66794	reductive acetyl coenzyme A pathway	100	7 of 7
66794	coenzyme A metabolism	100	4 of 4
66794	sulfopterin metabolism	100	4 of 4
66794	L-lactaldehyde degradation	100	3 of 3
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	folate polyglutamylation	100	1 of 1
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	formaldehyde oxidation	100	3 of 3
66794	methylglyoxal degradation	100	5 of 5
66794	threonine metabolism	90	9 of 10
66794	molybdenum cofactor biosynthesis	88.89	8 of 9
66794	valine metabolism	88.89	8 of 9
66794	d-mannose degradation	88.89	8 of 9
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 B12 metabolism	85.29	29 of 34
66794	vitamin B1 metabolism	84.62	11 of 13
66794	glycolysis	82.35	14 of 17
66794	pentose phosphate pathway	81.82	9 of 11
66794	proline metabolism	81.82	9 of 11
66794	hydrogen production	80	4 of 5
66794	peptidoglycan biosynthesis	80	12 of 15
66794	glycine betaine biosynthesis	80	4 of 5
66794	lipoate biosynthesis	80	4 of 5
66794	purine metabolism	78.72	74 of 94
66794	photosynthesis	78.57	11 of 14
66794	tetrahydrofolate metabolism	78.57	11 of 14
66794	nitrate assimilation	77.78	7 of 9
66794	sulfate reduction	76.92	10 of 13
66794	methionine metabolism	76.92	20 of 26
66794	acetate fermentation	75	3 of 4
66794	ppGpp biosynthesis	75	3 of 4
66794	glycogen biosynthesis	75	3 of 4
66794	CMP-KDO biosynthesis	75	3 of 4
66794	glutamate and glutamine metabolism	75	21 of 28
66794	pyrimidine metabolism	73.33	33 of 45
66794	flavin biosynthesis	73.33	11 of 15
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	heme metabolism	71.43	10 of 14
66794	starch degradation	70	7 of 10
66794	phenylalanine metabolism	69.23	9 of 13
66794	alanine metabolism	68.97	20 of 29
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	IAA biosynthesis	66.67	2 of 3
66794	octane oxidation	66.67	2 of 3
66794	serine metabolism	66.67	6 of 9
66794	cyanate degradation	66.67	2 of 3
66794	NAD metabolism	66.67	12 of 18
66794	selenocysteine biosynthesis	66.67	4 of 6
66794	acetoin degradation	66.67	2 of 3
66794	oxidative phosphorylation	65.93	60 of 91
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	dTDPLrhamnose biosynthesis	62.5	5 of 8
66794	C4 and CAM-carbon fixation	62.5	5 of 8
66794	arginine metabolism	62.5	15 of 24
66794	isoprenoid biosynthesis	61.54	16 of 26
66794	non-pathway related	60.53	23 of 38
66794	glycogen metabolism	60	3 of 5
66794	O-antigen biosynthesis	60	3 of 5
66794	lysine metabolism	59.52	25 of 42
66794	degradation of aromatic, nitrogen containing compounds	58.33	7 of 12
66794	propanol degradation	57.14	4 of 7
66794	citric acid cycle	57.14	8 of 14
66794	polyamine pathway	56.52	13 of 23
66794	cysteine metabolism	55.56	10 of 18
66794	histidine metabolism	55.17	16 of 29
66794	metabolism of disaccharids	54.55	6 of 11
66794	leucine metabolism	53.85	7 of 13
66794	suberin monomers biosynthesis	50	1 of 2
66794	ethanol fermentation	50	1 of 2
66794	gluconeogenesis	50	4 of 8
66794	toluene degradation	50	2 of 4
66794	pantothenate biosynthesis	50	3 of 6
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	glycolate and glyoxylate degradation	50	3 of 6
66794	lactate fermentation	50	2 of 4
66794	glycine metabolism	50	5 of 10
66794	butanoate fermentation	50	2 of 4
66794	denitrification	50	1 of 2
66794	phenylmercury acetate degradation	50	1 of 2
66794	lipid metabolism	48.39	15 of 31
66794	tryptophan metabolism	47.37	18 of 38
66794	CO2 fixation in Crenarchaeota	44.44	4 of 9
66794	tyrosine metabolism	42.86	6 of 14
66794	arachidonate biosynthesis	40	2 of 5
66794	metabolism of amino sugars and derivatives	40	2 of 5
66794	factor 420 biosynthesis	40	2 of 5
66794	myo-inositol biosynthesis	40	4 of 10
66794	bacilysin biosynthesis	40	2 of 5
66794	degradation of hexoses	38.89	7 of 18
66794	urea cycle	38.46	5 of 13
66794	phosphatidylethanolamine bioynthesis	38.46	5 of 13
66794	ketogluconate metabolism	37.5	3 of 8
66794	vitamin B6 metabolism	36.36	4 of 11
66794	glutathione metabolism	35.71	5 of 14
66794	sphingosine metabolism	33.33	2 of 6
66794	methanogenesis from CO2	33.33	4 of 12
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	enterobactin biosynthesis	33.33	1 of 3
66794	4-hydroxyphenylacetate degradation	30	3 of 10
66794	coenzyme M biosynthesis	30	3 of 10
66794	Entner Doudoroff pathway	30	3 of 10
66794	degradation of pentoses	28.57	8 of 28
66794	carnitine metabolism	25	2 of 8
66794	degradation of sugar alcohols	25	4 of 16
66794	alginate biosynthesis	25	1 of 4
66794	cyclohexanol degradation	25	1 of 4
66794	phenol degradation	25	5 of 20
66794	vitamin E metabolism	25	1 of 4
66794	ascorbate metabolism	22.73	5 of 22

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Geologic

Isolation

@ref	Sample type	Country	Continent
1577	manganese ore	USSR	Asia

Taxonmaps

69479

Global distribution of 16S sequence AJ277894 (>99% sequence identity) for Desulfomicrobium from Microbeatlas

Aquatic Samples	1917
Soil Samples	172
Animal Samples	82
Plant Samples	72
Total Samples	2243

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
1577	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM2322v1 assembly for Desulfomicrobium baculatum DSM 4028	complete	GCA_000023225	525897.5	644736350	525897	98.54

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Desulfomicrobium baculatum 16S ribosomal RNA gene, complete sequence	AF030438	1540	525897
20218	Desulfomicrobium baculatum 16S rRNA gene, strain DSM 4028T	AJ277894	1517	525897
20218	Desulfomicrobium baculatum DSM 4028 16S ribosomal RNA gene, partial sequence	JX293692	225	525897

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Desulfomicrobium baculatum DSM 4028
PATRIC: 525897.5

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	99.60	no
125439	motility	BacteriaNetⓘ	yes	77.80	no
125439	gram_stain	BacteriaNetⓘ	negative	99.70	no
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	99.10	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Desulfomicrobium baculatum DSM 4028 DSM 4028
NCBI: GCA_000023225.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	94.32	no
125438	anaerobic	anaerobicⓘ	yes	84.70	yes
125438	aerobic	aerobicⓘ	no	89.31	no
125438	spore-forming	spore-formingⓘ	no	80.95	no
125438	thermophilic	thermophileⓘ	no	89.32	yes
125438	flagellated	motile2+ⓘ	yes	78.72	no

Literature

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Metabolism	Awakening the Secondary Metabolite Pathways of Promicromonospora kermanensis Using Physicochemical and Biological Elicitors.	Mohammadipanah F, Kermani F, Salimi F.	Appl Biochem Biotechnol	10.1007/s12010-020-03361-3	2020
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Genetics	The complete genome sequence of a lactic acid bacterium Leuconostoc mesenteroides ssp. dextranicum strain DSM 20484(T).	Park GS, Hong SJ, Jung BK, Lee C, Park CK, Shin JH.	J Biotechnol	10.1016/j.jbiotec.2015.12.009	2016
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Genetics	Sulfur Oxygenase Reductase (Sor) in the Moderately Thermoacidophilic Leaching Bacteria: Studies in Sulfobacillus thermosulfidooxidans and Acidithiobacillus caldus.	Janosch C, Remonsellez F, Sand W, Vera M.	Microorganisms	10.3390/microorganisms3040707	2015
Metabolism	Enhanced production of citric acid in Yarrowia lipolytica by Triton X-100.	Mirbagheri M, Nahvi I, Emtiazi G, Darvishi F.	Appl Biochem Biotechnol	10.1007/s12010-011-9325-9	2011
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Enzymology	Characterization of the amicetin biosynthesis gene cluster from Streptomyces vinaceusdrappus NRRL 2363 implicates two alternative strategies for amide bond formation.	Zhang G, Zhang H, Li S, Xiao J, Zhang G, Zhu Y, Niu S, Ju J, Zhang C.	Appl Environ Microbiol	10.1128/aem.07185-11	2012
Enzymology	A novel SfaNI-like restriction-modification system in Caldicellulosiruptor extents the genetic engineering toolbox for this genus.	Swinnen S, Zurek C, Kramer M, Heger RM, Domeyer JE, Ziegler J, Svetlitchnyi VA, Laufer A.	PLoS One	10.1371/journal.pone.0279562	2022
Metabolism	Cross-Feeding between Members of Thauera spp. and Rhodococcus spp. Drives Quinoline-Denitrifying Degradation in a Hypoxic Bioreactor.	Wu X, Wu X, Li J, Wu Q, Ma Y, Sui W, Zhao L, Zhang X.	mSphere	10.1128/msphere.00246-20	2020
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Metabolism	Transcription factor family-based reconstruction of singleton regulons and study of the Crp/Fnr, ArsR, and GntR families in Desulfovibrionales genomes.	Kazakov AE, Rodionov DA, Price MN, Arkin AP, Dubchak I, Novichkov PS.	J Bacteriol	10.1128/jb.01977-12	2013
Metabolism	Anaerobic Degradation of the Plant Sugar Sulfoquinovose Concomitant With H₂S Production: Escherichia coli K-12 and Desulfovibrio sp. Strain DF1 as Co-culture Model.	Burrichter A, Denger K, Franchini P, Huhn T, Muller N, Spiteller D, Schleheck D.	Front Microbiol	10.3389/fmicb.2018.02792	2018
Phylogeny	Genomic analysis of Melioribacter roseus, facultatively anaerobic organotrophic bacterium representing a novel deep lineage within Bacteriodetes/Chlorobi group.	Kadnikov VV, Mardanov AV, Podosokorskaya OA, Gavrilov SN, Kublanov IV, Beletsky AV, Bonch-Osmolovskaya EA, Ravin NV.	PLoS One	10.1371/journal.pone.0053047	2013
Metabolism	Quantitative comparison of the biomass-degrading enzyme repertoires of five filamentous fungi.	Arntzen MO, Bengtsson O, Varnai A, Delogu F, Mathiesen G, Eijsink VGH.	Sci Rep	10.1038/s41598-020-75217-z	2020
Genetics	Comprehensive Comparative Genomics and Phenotyping of Methylobacterium Species.	Alessa O, Ogura Y, Fujitani Y, Takami H, Hayashi T, Sahin N, Tani A.	Front Microbiol	10.3389/fmicb.2021.740610	2021
Metabolism	Development and Validation of Broad-Range Qualitative and Clade-Specific Quantitative Molecular Probes for Assessing Mercury Methylation in the Environment.	Christensen GA, Wymore AM, King AJ, Podar M, Hurt RA, Santillan EU, Soren A, Brandt CC, Brown SD, Palumbo AV, Wall JD, Gilmour CC, Elias DA.	Appl Environ Microbiol	10.1128/aem.01271-16	2016
Metabolism	Plasmids of carotenoid-producing Paracoccus spp. (Alphaproteobacteria) - structure, diversity and evolution.	Maj A, Dziewit L, Czarnecki J, Wlodarczyk M, Baj J, Skrzypczyk G, Giersz D, Bartosik D.	PLoS One	10.1371/journal.pone.0080258	2013
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Metabolism	Life based on phosphite: a genome-guided analysis of Desulfotignum phosphitoxidans.	Poehlein A, Daniel R, Schink B, Simeonova DD.	BMC Genomics	10.1186/1471-2164-14-753	2013
Enzymology	Regulation of multiple carbon monoxide consumption pathways in anaerobic bacteria.	Techtmann SM, Colman AS, Murphy MB, Schackwitz WS, Goodwin LA, Robb FT.	Front Microbiol	10.3389/fmicb.2011.00147	2011
Metabolism	Structural insights into dissimilatory sulfite reductases: structure of desulforubidin from desulfomicrobium norvegicum.	Oliveira TF, Franklin E, Afonso JP, Khan AR, Oldham NJ, Pereira IA, Archer M.	Front Microbiol	10.3389/fmicb.2011.00071	2011
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Metabolism	Decrease of U(VI) immobilization capability of the facultative anaerobic strain Paenibacillus sp. JG-TB8 under anoxic conditions due to strongly reduced phosphatase activity.	Reitz T, Rossberg A, Barkleit A, Selenska-Pobell S, Merroun ML.	PLoS One	10.1371/journal.pone.0102447	2014
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Enzymology	Promising approaches for the assembly of the catalytically active, recombinant Desulfomicrobium baculatum hydrogenase with substitutions at the active site.	Witkowska M, Jedrzejczak RP, Joachimiak A, Cavdar O, Malankowska A, Skowron PM, Zylicz-Stachula A.	Microb Cell Fact	10.1186/s12934-023-02127-w	2023
Enzymology	Augmenting the Performance of Hydrogenase for Aerobic Photocatalytic Hydrogen Evolution via Solvent Tuning.	Allan MG, Pichon T, McCune JA, Cavazza C, Le Goff A, Kuhnel MF, Kuhnel MF.	Angew Chem Int Ed Engl	10.1002/anie.202219176	2023
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	Minimal changes in microbial abundances and diversity over 7 years of emplacement for modules of compacted bentonite exposed to natural groundwater.	Sidhu HS, Engel K, Ford SE, Keech P, Behazin M, Binns WJ, Srikanthan N, Simpson MJ, Neufeld JD, Slater GF.	Appl Environ Microbiol	10.1128/aem.01950-24	2025
Enzymology	Structural foundations for the O2 resistance of Desulfomicrobium baculatum [NiFeSe]-hydrogenase.	Volbeda A, Amara P, Iannello M, De Lacey AL, Cavazza C, Fontecilla-Camps JC.	Chem Commun (Camb)	10.1039/c3cc43619e	2013
	[NiFeSe]-hydrogenase chemistry.	Wombwell C, Caputo CA, Reisner E.	Acc Chem Res	10.1021/acs.accounts.5b00326	2015
	Performance evaluation and bacteria analysis of AFB-MFC enriched with high-strength synthetic wastewater.	Huang JS, Guo Y, Yang P, Li CM, Gao H, Feng L, Zhang Y.	Water Sci Technol	10.2166/wst.2013.390	2014
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Metabolism	The difference a Se makes? Oxygen-tolerant hydrogen production by the [NiFeSe]-hydrogenase from Desulfomicrobium baculatum.	Parkin A, Goldet G, Cavazza C, Fontecilla-Camps JC, Armstrong FA.	J Am Chem Soc	10.1021/ja803657d	2008
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Enzymology	Harnessing Fermentation May Enhance the Performance of Biological Sulfate-Reducing Bioreactors.	Hessler T, Harrison STL, Banfield JF, Huddy RJ.	Environ Sci Technol	10.1021/acs.est.3c04187	2024
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Metabolism	Visible light-driven H(2) production by hydrogenases attached to dye-sensitized TiO(2) nanoparticles.	Reisner E, Powell DJ, Cavazza C, Fontecilla-Camps JC, Armstrong FA.	J Am Chem Soc	10.1021/ja907923r	2009
Enzymology	Measuring the pH dependence of hydrogenase activities.	Tsygankov AA, Minakov EA, Zorin NA, Gosteva KS, Voronin OG, Karyakin AA.	Biochemistry (Mosc)	10.1134/s0006297907090076	2007
Phylogeny	Bacterial ecology of abattoir wastewater treated by an anaerobic digestor.	Jabari L, Gannoun H, Khelifi E, Cayol JL, Godon JJ, Hamdi M, Fardeau ML.	Braz J Microbiol	10.1016/j.bjm.2015.11.029	2016
Enzymology	Purification, crystallization and preliminary crystallographic analysis of the [NiFeSe] hydrogenase from Desulfovibrio vulgaris Hildenborough.	Marques M, Coelho R, Pereira IA, Matias PM.	Acta Crystallogr Sect F Struct Biol Cryst Commun	10.1107/s1744309109031261	2009
Metabolism	Isolation and characterization of a mesophilic heavy-metals-tolerant sulfate-reducing bacterium Desulfomicrobium sp. from an enrichment culture using phosphogypsum as a sulfate source.	Azabou S, Mechichi T, Patel BK, Sayadi S.	J Hazard Mater	10.1016/j.jhazmat.2006.07.073	2007
	Microbial Degradation of Citric Acid in Low Level Radioactive Waste Disposal: Impact on Biomineralization Reactions.	Byrd N, Lloyd JR, Small JS, Taylor F, Bagshaw H, Boothman C, Morris K.	Front Microbiol	10.3389/fmicb.2021.565855	2021
Pathogenicity	Performance and microbial community variations of anaerobic digesters under increasing tetracycline concentrations.	Xiong Y, Harb M, Hong PY.	Appl Microbiol Biotechnol	10.1007/s00253-017-8253-1	2017
Phylogeny	Reclassification of Desulfobacterium macestii as Desulfomicrobium macestii comb. nov.	Hippe H, Vainshtein M, Gogotova GI, Stackebrandt E.	Int J Syst Evol Microbiol	10.1099/ijs.0.02574-0	2003
Enzymology	Hydrogenases in Desulfovibrio vulgaris Hildenborough: structural and physiologic characterisation of the membrane-bound [NiFeSe] hydrogenase.	Valente FM, Oliveira AS, Oliveira AS, Gnadt N, Pacheco I, Coelho AV, Xavier AV, Teixeira M, Soares CM, Pereira IA.	J Biol Inorg Chem	10.1007/s00775-005-0022-4	2005
Metabolism	Proton-assisted two-electron transfer in natural variants of tetraheme cytochromes from Desulfomicrobium Sp.	Correia IJ, Paquete CM, Coelho A, Almeida CC, Catarino T, Louro RO, Frazao C, Saraiva LM, Carrondo MA, Turner DL, Xavier AV.	J Biol Chem	10.1074/jbc.m408763200	2004
	Engineering of bespoke photosensitiser-microbe interfaces for enhanced semi-artificial photosynthesis.	Bishara Robertson IL, Zhang H, Reisner E, Butt JN, Jeuken LJC.	Chem Sci	10.1039/d4sc00864b	2024
	Exploring the upper pH limits of nitrite oxidation: diversity, ecophysiology, and adaptive traits of haloalkalitolerant Nitrospira.	Daebeler A, Kitzinger K, Koch H, Herbold CW, Steinfeder M, Schwarz J, Zechmeister T, Karst SM, Albertsen M, Nielsen PH, Wagner M, Daims H.	ISME J	10.1038/s41396-020-0724-1	2020
Metabolism	Pyrite formation from FeS and H₂S is mediated through microbial redox activity.	Thiel J, Byrne JM, Kappler A, Schink B, Pester M.	Proc Natl Acad Sci U S A	10.1073/pnas.1814412116	2019
	Hydrogenases in the "active" state: determination of g-matrix axes and electron spin distribution at the active site by 1H ENDOR spectroscopy.	Muller A, Tscherny I, Kappl R, Hatchikian C, Huttermann J, Cammack R.	J Biol Inorg Chem	10.1007/s007750100285	2002
Metabolism	Conversion of the central [4Fe-4S] cluster into a [3Fe-4S] cluster leads to reduced hydrogen-uptake activity of the F420-reducing hydrogenase of Methanococcus voltae.	Bingemann R, Klein A.	Eur J Biochem	10.1046/j.1432-1327.2000.01755.x	2000
Enzymology	NMR studies and redox titration of the tetraheme cytochrome c3 from Desulfomicrobium baculatum. Identification of the low-potential heme.	Coutinho IB, Turner DL, Legall J, Xavier AV.	Eur J Biochem	10.1111/j.1432-1033.1995.tb20649.x	1995
	Behavior of sulfate reducing bacteria under oligotrophic conditions and oxygen stress in particle-free systems related to drinking water.	Bade K, Manz W, Szewzyk U.	FEMS Microbiol Ecol	10.1111/j.1574-6941.2000.tb00714.x	2000
	Carbon nitride-TiO₂ hybrid modified with hydrogenase for visible light driven hydrogen production.	Caputo CA, Wang L, Beranek R, Reisner E.	Chem Sci	10.1039/c5sc02017d	2015
	How light-harvesting semiconductors can alter the bias of reversible electrocatalysts in favor of H2 production and CO2 reduction.	Bachmeier A, Wang VC, Woolerton TW, Bell S, Fontecilla-Camps JC, Can M, Ragsdale SW, Chaudhary YS, Armstrong FA.	J Am Chem Soc	10.1021/ja4042675	2013
	The crystal structure of a reduced [NiFeSe] hydrogenase provides an image of the activated catalytic center.	Garcin E, Vernede X, Hatchikian EC, Volbeda A, Frey M, Fontecilla-Camps JC.	Structure	10.1016/s0969-2126(99)80072-0	1999
Enzymology	Synthetic Active Site Model of the [NiFeSe] Hydrogenase.	Wombwell C, Reisner E.	Chemistry	10.1002/chem.201500311	2015
Metabolism	Bacterial selenocysteine synthase--structural and functional properties.	Tormay P, Wilting R, Lottspeich F, Mehta PK, Christen P, Bock A.	Eur J Biochem	10.1046/j.1432-1327.1998.2540655.x	1998
	Domain structure of the selenocysteine-specific translation factor SelB in prokaryotes.	Bock A, Hilgenfeld R, Tormay P, Wilting R, Kromayer M.	Biomed Environ Sci		1997
	The structural origin of nonplanar heme distortions in tetraheme ferricytochromes c3.	Ma JG, Zhang J, Franco R, Jia SL, Moura I, Moura JJ, Kroneck PM, Shelnutt JA.	Biochemistry	10.1021/bi981189i	1998
	Domain structure of the prokaryotic selenocysteine-specific elongation factor SelB.	Kromayer M, Wilting R, Tormay P, Bock A.	J Mol Biol	10.1006/jmbi.1996.0525	1996
Metabolism	Unravelling the carbon and sulphur metabolism in coastal soil ecosystems using comparative cultivation-independent genome-level characterisation of microbial communities.	Yousuf B, Kumar R, Mishra A, Jha B.	PLoS One	10.1371/journal.pone.0107025	2014
	Bacterial and archeal community composition in hot springs from Indo-Burma region, North-east India.	Panda AK, Bisht SS, De Mandal S, Kumar NS.	AMB Express	10.1186/s13568-016-0284-y	2016
	Photoelectrocatalytic H₂ evolution in water with molecular catalysts immobilised on p-Si via a stabilising mesoporous TiO₂ interlayer.	Leung JJ, Warnan J, Nam DH, Zhang JZ, Willkomm J, Reisner E.	Chem Sci	10.1039/c7sc01277b	2017
Metabolism	Genome-Resolved Metagenomics and Detailed Geochemical Speciation Analyses Yield New Insights into Microbial Mercury Cycling in Geothermal Springs.	Gionfriddo CM, Stott MB, Power JF, Ogorek JM, Krabbenhoft DP, Wick R, Holt K, Chen LX, Thomas BC, Banfield JF, Moreau JW.	Appl Environ Microbiol	10.1128/aem.00176-20	2020
Metabolism	A gas breathing hydrogen/air biofuel cell comprising a redox polymer/hydrogenase-based bioanode.	Szczesny J, Markovic N, Conzuelo F, Zacarias S, Pereira IAC, Lubitz W, Plumere N, Schuhmann W, Ruff A.	Nat Commun	10.1038/s41467-018-07137-6	2018
	Adaptation, ecology, and evolution of the halophilic stromatolite archaeon Halococcus hamelinensis inferred through genome analyses.	Gudhka RK, Neilan BA, Burns BP.	Archaea	10.1155/2015/241608	2015
	Genes coding for the selenocysteine-inserting tRNA species from Desulfomicrobium baculatum and Clostridium thermoaceticum: structural and evolutionary implications.	Tormay P, Wilting R, Heider J, Bock A.	J Bacteriol	10.1128/jb.176.5.1268-1274.1994	1994
Metabolism	Factors and selenocysteine insertion sequence requirements for the synthesis of selenoproteins from a gram-positive anaerobe in Escherichia coli.	Gursinsky T, Grobe D, Schierhorn A, Jager J, Andreesen JR, Sohling B.	Appl Environ Microbiol	10.1128/aem.02238-07	2008
	Solar H₂ evolution in water with modified diketopyrrolopyrrole dyes immobilised on molecular Co and Ni catalyst-TiO₂ hybrids.	Warnan J, Willkomm J, Ng JN, Godin R, Prantl S, Durrant JR, Reisner E.	Chem Sci	10.1039/c6sc05219c	2017
Metabolism	Biogeochemical Cycling by a Low-Diversity Microbial Community in Deep Groundwater.	Bell E, Lamminmaki T, Alneberg J, Andersson AF, Qian C, Xiong W, Hettich RL, Balmer L, Frutschi M, Sommer G, Bernier-Latmani R.	Front Microbiol	10.3389/fmicb.2018.02129	2018
	Systematic mapping of two component response regulators to gene targets in a model sulfate reducing bacterium.	Rajeev L, Luning EG, Dehal PS, Price MN, Arkin AP, Mukhopadhyay A.	Genome Biol	10.1186/gb-2011-12-10-r99	2011
	Novel processes for anaerobic sulfate production from elemental sulfur by sulfate-reducing bacteria.	Lovley DR, Phillips EJ.	Appl Environ Microbiol	10.1128/aem.60.7.2394-2399.1994	1994
Metabolism	Roles of HynAB and Ech, the only two hydrogenases found in the model sulfate reducer Desulfovibrio gigas.	Morais-Silva FO, Santos CI, Rodrigues R, Pereira IA, Rodrigues-Pousada C.	J Bacteriol	10.1128/jb.00411-13	2013
Metabolism	Barriers to heterologous expression of a selenoprotein gene in bacteria.	Tormay P, Bock A.	J Bacteriol	10.1128/jb.179.3.576-582.1997	1997
Phylogeny	Congruent phylogenies of most common small-subunit rRNA and dissimilatory sulfite reductase gene sequences retrieved from estuarine sediments.	Joulian C, Ramsing NB, Ingvorsen K.	Appl Environ Microbiol	10.1128/aem.67.7.3314-3318.2001	2001
Metabolism	The sulfur oxygenase reductase from the mesophilic bacterium Halothiobacillus neapolitanus is a highly active thermozyme.	Veith A, Botelho HM, Kindinger F, Gomes CM, Kletzin A.	J Bacteriol	10.1128/jb.06531-11	2012
Metabolism	Selenocysteine confers resistance to inactivation by oxidation in thioredoxin reductase: comparison of selenium and sulfur enzymes.	Snider GW, Ruggles E, Khan N, Hondal RJ.	Biochemistry	10.1021/bi400462j	2013
Phylogeny	Sulfur bacteria in wastewater stabilization ponds periodically affected by the 'red-water' phenomenon.	Belila A, Abbas B, Fazaa I, Saidi N, Snoussi M, Hassen A, Muyzer G.	Appl Microbiol Biotechnol	10.1007/s00253-012-3931-5	2013
	Physiological differentiation within a single-species biofilm fueled by serpentinization.	Brazelton WJ, Mehta MP, Kelley DS, Baross JA.	mBio	10.1128/mbio.00127-11	2011
Enzymology	Analyses of the large subunit histidine-rich motif expose an alternative proton transfer pathway in [NiFe] hydrogenases.	Szori-Doroghazi E, Maroti G, Szori M, Nyilasi A, Rakhely G, Kovacs KL.	PLoS One	10.1371/journal.pone.0034666	2012
Metabolism	Isolation and characterization of a sulfate-reducing bacterium that anaerobically degrades alkanes.	So CM, Young LY.	Appl Environ Microbiol	10.1128/aem.65.7.2969-2976.1999	1999
Phylogeny	Diversity and distribution of sulfate-reducing bacteria in permanently frozen Lake Fryxell, McMurdo Dry Valleys, Antarctica.	Karr EA, Sattley WM, Rice MR, Jung DO, Madigan MT, Achenbach LA.	Appl Environ Microbiol	10.1128/aem.71.10.6353-6359.2005	2005
Metabolism	Variation among Desulfovibrio species in electron transfer systems used for syntrophic growth.	Meyer B, Kuehl J, Deutschbauer AM, Price MN, Arkin AP, Stahl DA.	J Bacteriol	10.1128/jb.01959-12	2013
Metabolism	The genome of the Gram-positive metal- and sulfate-reducing bacterium Desulfotomaculum reducens strain MI-1.	Junier P, Junier T, Podell S, Sims DR, Detter JC, Lykidis A, Han CS, Wigginton NS, Gaasterland T, Bernier-Latmani R.	Environ Microbiol	10.1111/j.1462-2920.2010.02242.x	2010
	Evolution of the F0F1 ATP synthase complex in light of the patchy distribution of different bioenergetic pathways across prokaryotes.	Koumandou VL, Kossida S.	PLoS Comput Biol	10.1371/journal.pcbi.1003821	2014
	Bacterial life and dinitrogen fixation at a gypsum rock.	Boison G, Mergel A, Jolkver H, Bothe H.	Appl Environ Microbiol	10.1128/aem.70.12.7070-7077.2004	2004
Metabolism	Distribution analysis of hydrogenases in surface waters of marine and freshwater environments.	Barz M, Beimgraben C, Staller T, Germer F, Opitz F, Marquardt C, Schwarz C, Gutekunst K, Vanselow KH, Schmitz R, LaRoche J, Schulz R, Appel J.	PLoS One	10.1371/journal.pone.0013846	2010
Phylogeny	The human gut and groundwater harbor non-photosynthetic bacteria belonging to a new candidate phylum sibling to Cyanobacteria.	Di Rienzi SC, Sharon I, Wrighton KC, Koren O, Hug LA, Thomas BC, Goodrich JK, Bell JT, Spector TD, Banfield JF, Ley RE.	Elife	10.7554/elife.01102	2013
Metabolism	Sulfonates as terminal electron acceptors for growth of sulfite-reducing bacteria (Desulfitobacterium spp.) and sulfate-reducing bacteria: effects of inhibitors of sulfidogenesis.	Lie TJ, Godchaux W, Leadbetter ER.	Appl Environ Microbiol	10.1128/aem.65.10.4611-4617.1999	1999
Phylogeny	Phylogenetic diversity of nitrogenase (nifH) genes in deep-sea and hydrothermal vent environments of the Juan de Fuca Ridge.	Mehta MP, Butterfield DA, Baross JA.	Appl Environ Microbiol	10.1128/aem.69.2.960-970.2003	2003
Metabolism	Spectroscopic insights into the oxygen-tolerant membrane-associated [NiFe] hydrogenase of Ralstonia eutropha H16.	Saggu M, Zebger I, Ludwig M, Lenz O, Friedrich B, Hildebrandt P, Lendzian F.	J Biol Chem	10.1074/jbc.m805690200	2009
	A novel biological sulfur reduction process for mercury-contaminated wastewater treatment.	Wang J, Hong Y, Lin Z, Zhu C, Da J, Chen G, Jiang F	Water Res	10.1016/j.watres.2019.05.066	2019
Phylogeny	Methylobacterium nigriterrae sp. nov., isolated from black soil.	Chen LB, OuYang YT, Liu L, Jin PJ, Huang RR, Pan WY, Wang Y, Xing JY, She TT, Jiao JY, Wang S, Li WJ.	Antonie Van Leeuwenhoek	10.1007/s10482-024-01981-x	2024
	A novel interdomain consortium from a Costa Rican oil well composed of Methanobacterium cahuitense sp. nov. and Desulfomicrobium aggregans sp. nov.	Dengler L, Meier J, Klingl A, Nissl L, Bellack A, Grohmann D, Rachel R, Huber H.	Arch Microbiol	10.1007/s00203-023-03533-9	2023
Phylogeny	Aeromicrobium marinum sp. nov., an abundant pelagic bacterium isolated from the German Wadden Sea.	Bruns A, Philipp H, Cypionka H, Brinkhoff T.	Int J Syst Evol Microbiol	10.1099/ijs.0.02735-0	2003
Phylogeny	Desulfomicrobium thermophilum sp. nov., a novel thermophilic sulphate-reducing bacterium isolated from a terrestrial hot spring in Colombia.	Thevenieau F, Fardeau ML, Ollivier B, Joulian C, Baena S.	Extremophiles	10.1007/s00792-006-0039-9	2007
Phylogeny	Desulfoplanes formicivorans gen. nov., sp. nov., a novel sulfate-reducing bacterium isolated from a blackish meromictic lake, and emended description of the family Desulfomicrobiaceae.	Watanabe M, Kojima H, Fukui M	Int J Syst Evol Microbiol	10.1099/ijs.0.000197	2015

References

#1577	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 4028
#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) .
#66793	Mukherjee et al.: GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life. 35: 676 - 683 2017 ( DOI 10.1038/nbt.3886 , PubMed 28604660 )
#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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Desulfomicrobium baculatum (DSM 4028, VKM B-1378, CCUG 34229)

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