Geoalkalibacter ferrihydriticus (DSM 17813, VKM B-2401, Z-0531)

Name: Geoalkalibacter ferrihydriticus (DSM 17813, VKM B-2401, Z-0531)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 5808

Type strain

Strain Designation Z-0531

Culture col. no. DSM 17813 VKM B-2401 Z-0531

NCBI tax ID(s) 1121915 392333

Special Collections DSMZ

History DSMZ <- D. G. Zavarzina, Winogradsky Inst. Microbiol., RAS, Moscow, Russia; Z-0531 <- D. G. Zavarzina; {2005}

Links

Geoalkalibacter ferrihydriticus Z-0531 is an anaerobe bacterium that was isolated from deposits of soda lake.

anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 297651

DSM 17813,VKM B-2401

@ref 20215

Last LPSN update 2026-05-29 08:26:15

Domain Bacteria

Phylum Thermodesulfobacteriota

Class Desulfuromonadia

Order Desulfuromonadales

Family Geoalkalibacteraceae

Genus Geoalkalibacter

Species Geoalkalibacter ferrihydriticus

Full scientific name Geoalkalibacter ferrihydriticus Zavarzina et al. 2007

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	93.542
125438	negative	97.163

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
7202	GEOALKALIBACTER MEDIUM (DSMZ Medium 1059)		Medium recipe at MediaDive	Name: GEOALKALIBACTER MEDIUM (DSMZ Medium 1059) Composition: Sulfur 9.98004 g/l NaHCO3 9.98004 g/l Na2CO3 2.99401 g/l Na-acetate 2.49501 g/l NaCl 0.998004 g/l NH4Cl 0.499002 g/l KH2PO4 0.199601 g/l KCl 0.199601 g/l MgCl2 x 6 H2O 0.0998004 g/l Yeast extract 0.0998004 g/l HCl 0.00249501 g/l FeCl2 x 4 H2O 0.00149701 g/l NaOH 0.000499002 g/l CoCl2 x 6 H2O 0.000189621 g/l MnCl2 x 4 H2O 9.98004e-05 g/l ZnCl2 6.98603e-05 g/l Na2MoO4 x 2 H2O 3.59281e-05 g/l NiCl2 x 6 H2O 2.39521e-05 g/l H3BO3 5.98802e-06 g/l Na2WO4 x 2 H2O 3.99202e-06 g/l Na2SeO3 x 5 H2O 2.99401e-06 g/l CuCl2 x 2 H2O 1.99601e-06 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
7202	positive	growth	35

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
7202	anaerobe
125439	facultative anaerobe	91.72

Spore formation

@ref	Spore formation	Confidence
125439		99.885

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	formaldehyde oxidation	100	3 of 3
66794	C4 and CAM-carbon fixation	100	8 of 8
66794	denitrification	100	2 of 2
66794	ppGpp biosynthesis	100	4 of 4
66794	sulfopterin metabolism	100	4 of 4
66794	coenzyme A metabolism	100	4 of 4
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	CMP-KDO biosynthesis	100	4 of 4
66794	reductive acetyl coenzyme A pathway	100	7 of 7
66794	L-lactaldehyde degradation	100	3 of 3
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	folate polyglutamylation	100	1 of 1
66794	methylglyoxal degradation	100	5 of 5
66794	hydrogen production	100	5 of 5
66794	palmitate biosynthesis	100	22 of 22
66794	suberin monomers biosynthesis	100	2 of 2
66794	starch degradation	90	9 of 10
66794	lipid A biosynthesis	88.89	8 of 9
66794	valine metabolism	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	gluconeogenesis	87.5	7 of 8
66794	heme metabolism	85.71	12 of 14
66794	ubiquinone biosynthesis	85.71	6 of 7
66794	photosynthesis	85.71	12 of 14
66794	NAD metabolism	83.33	15 of 18
66794	glycolysis	82.35	14 of 17
66794	glycine betaine biosynthesis	80	4 of 5
66794	threonine metabolism	80	8 of 10
66794	peptidoglycan biosynthesis	80	12 of 15
66794	glycogen metabolism	80	4 of 5
66794	d-mannose degradation	77.78	7 of 9
66794	serine metabolism	77.78	7 of 9
66794	vitamin B1 metabolism	76.92	10 of 13
66794	phenylalanine metabolism	76.92	10 of 13
66794	vitamin B12 metabolism	76.47	26 of 34
66794	acetate fermentation	75	3 of 4
66794	isoleucine metabolism	75	6 of 8
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	glycogen biosynthesis	75	3 of 4
66794	biotin biosynthesis	75	3 of 4
66794	purine metabolism	72.34	68 of 94
66794	tetrahydrofolate metabolism	71.43	10 of 14
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	citric acid cycle	71.43	10 of 14
66794	polyamine pathway	69.57	16 of 23
66794	alanine metabolism	68.97	20 of 29
66794	pyrimidine metabolism	68.89	31 of 45
66794	glutamate and glutamine metabolism	67.86	19 of 28
66794	glycolate and glyoxylate degradation	66.67	4 of 6
66794	methane metabolism	66.67	2 of 3
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	(5R)-carbapenem carboxylate biosynthesis	66.67	2 of 3
66794	flavin biosynthesis	66.67	10 of 15
66794	cyanate degradation	66.67	2 of 3
66794	octane oxidation	66.67	2 of 3
66794	molybdenum cofactor biosynthesis	66.67	6 of 9
66794	selenocysteine biosynthesis	66.67	4 of 6
66794	acetoin degradation	66.67	2 of 3
66794	CO2 fixation in Crenarchaeota	66.67	6 of 9
66794	isoprenoid biosynthesis	65.38	17 of 26
66794	vitamin B6 metabolism	63.64	7 of 11
66794	proline metabolism	63.64	7 of 11
66794	metabolism of disaccharids	63.64	7 of 11
66794	methionine metabolism	61.54	16 of 26
66794	sulfate reduction	61.54	8 of 13
66794	non-pathway related	60.53	23 of 38
66794	phenylacetate degradation (aerobic)	60	3 of 5
66794	lipid metabolism	58.06	18 of 31
66794	degradation of sugar alcohols	56.25	9 of 16
66794	nitrate assimilation	55.56	5 of 9
66794	cysteine metabolism	55.56	10 of 18
66794	tryptophan metabolism	55.26	21 of 38
66794	histidine metabolism	55.17	16 of 29
66794	arginine metabolism	54.17	13 of 24
66794	leucine metabolism	53.85	7 of 13
66794	urea cycle	53.85	7 of 13
66794	kanosamine biosynthesis II	50	1 of 2
66794	lactate fermentation	50	2 of 4
66794	pantothenate biosynthesis	50	3 of 6
66794	dolichol and dolichyl phosphate biosynthesis	50	1 of 2
66794	phenylmercury acetate degradation	50	1 of 2
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	propionate fermentation	50	5 of 10
66794	adipate degradation	50	1 of 2
66794	1,4-dihydroxy-6-naphthoate biosynthesis	50	3 of 6
66794	glycine metabolism	50	5 of 10
66794	butanoate fermentation	50	2 of 4
66794	ethanol fermentation	50	1 of 2
66794	glutathione metabolism	50	7 of 14
66794	degradation of aromatic, nitrogen containing compounds	50	6 of 12
66794	dTDPLrhamnose biosynthesis	50	4 of 8
66794	propanol degradation	42.86	3 of 7
66794	lysine metabolism	42.86	18 of 42
66794	tyrosine metabolism	42.86	6 of 14
66794	oxidative phosphorylation	40.66	37 of 91
66794	arachidonate biosynthesis	40	2 of 5
66794	coenzyme M biosynthesis	40	4 of 10
66794	lipoate biosynthesis	40	2 of 5
66794	O-antigen biosynthesis	40	2 of 5
66794	chlorophyll metabolism	38.89	7 of 18
66794	ketogluconate metabolism	37.5	3 of 8
66794	pentose phosphate pathway	36.36	4 of 11
66794	IAA biosynthesis	33.33	1 of 3
66794	enterobactin biosynthesis	33.33	1 of 3
66794	Entner Doudoroff pathway	30	3 of 10
66794	phenol degradation	30	6 of 20
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	degradation of hexoses	27.78	5 of 18
66794	catecholamine biosynthesis	25	1 of 4
66794	methanogenesis from CO2	25	3 of 12
66794	cyclohexanol degradation	25	1 of 4
66794	toluene degradation	25	1 of 4
66794	degradation of pentoses	25	7 of 28
66794	4-hydroxymandelate degradation	22.22	2 of 9

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Waste	#Solid waste
#Environmental	#Aquatic	#Lake (large)
#Condition	#Alkaline	-

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
7202	deposits of soda lake	Tuva	Russia	RUS	Europe

Taxonmaps

69479

Global distribution of 16S sequence DQ309326 (>99% sequence identity) for Geoalkalibacter ferrihydriticus subclade from Microbeatlas

Aquatic Samples	139
Soil Samples	90
Animal Samples	37
Plant Samples	4
Total Samples	270

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
7202	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	ASM82050v1 assembly for Geoalkalibacter ferrihydriticus DSM 17813	scaffold	GCA_000820505	1121915.3	2593339172	1121915	72.49
66792	IMG-taxon 2599185148 annotated assembly for Geoalkalibacter ferrihydriticus DSM 17813	scaffold	GCA_900103065	392333.6	2599185148	392333	72.01

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
7202	Geoalkalibacter ferrihydriticus strain Z-0531 16S ribosomal RNA gene, partial sequence	DQ309326	1504		392333

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM82050v1 assembly for Geoalkalibacter ferrihydriticus DSM 17813
BV-BRC: 1121915.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	91.72	no
125439	gram_stain	BacteriaNetⓘ	negative	93.54	no
125439	motility	BacteriaNetⓘ	yes	58.63	no
125439	spore_formation	BacteriaNetⓘ	no	99.89	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Geoalkalibacter ferrihydriticus DSM 17813 DSM 17813
NCBI: GCA_000820505.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.16	no
125438	anaerobic	anaerobicⓘ	yes	71.36	yes
125438	aerobic	aerobicⓘ	no	76.19	yes
125438	spore-forming	spore-formingⓘ	no	85.22	no
125438	thermophilic	thermophileⓘ	no	84.33	no
125438	flagellated	motile2+ⓘ	yes	78.29	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Whole genome sequence of petroleum hydrocarbon degrading novel strain Microbacter sp. EMBS2025 isolated from Chilika Lake, Odisha, India.	Nayarisseri A, Sharma K, Khan A, Swami R, Chaudhary R, Sharma J, Kaur N, Kharate J, Rathore V, Prajapati L, Bandaru S, Junior FJBM, Scotti MT, Scotti L.	Sci Rep	10.1038/s41598-025-13545-8	2025
	Generation of high current densities by pure cultures of anode-respiring Geoalkalibacter spp. under alkaline and saline conditions in microbial electrochemical cells.	Badalamenti JP, Krajmalnik-Brown R, Torres CI.	mBio	10.1128/mbio.00144-13	2013
Metabolism	Rumen microbial degradation of bromoform from red seaweed (Asparagopsis taxiformis) and the impact on rumen fermentation and methanogenic archaea.	Romero P, Belanche A, Jimenez E, Hueso R, Ramos-Morales E, Salwen JK, Kebreab E, Yanez-Ruiz DR.	J Anim Sci Biotechnol	10.1186/s40104-023-00935-z	2023
	Characterization of trehalolipid biosurfactant produced by the novel marine strain Rhodococcus sp. SP1d and its potential for environmental applications.	Andreolli M, Villanova V, Zanzoni S, D'Onofrio M, Vallini G, Secchi N, Lampis S.	Microb Cell Fact	10.1186/s12934-023-02128-9	2023
Transcriptome	Insight into Different Stages of Steroid Degradation in Thermophilic Saccharopolyspora hirsuta VKM Ac-666^T Strain.	Lobastova T, Fokina V, Pozdnyakova-Filatova I, Tarlachkov S, Shutov A, Donova M.	Int J Mol Sci	10.3390/ijms232416174	2022
	Steroid Metabolism in Thermophilic Actinobacterium Saccharopolyspora hirsuta VKM Ac-666^T.	Lobastova T, Fokina V, Tarlachkov S, Shutov A, Bragin E, Kazantsev A, Donova M.	Microorganisms	10.3390/microorganisms9122554	2021
	Anaerobic corrosion of steel wire by Geoalkalibacter ferrihydriticus under alkaline autotrophic conditions.	Zavarzina DG, Chistyakova NI, Kohout J, Merkel AY, Perevalova AA, Kubaniova D, Chernov MS, Frolov EN, Klyuev AL, Gavrilov SN.	Appl Environ Microbiol	10.1128/aem.01848-24	2025
Genetics	Genomic Insights into Syntrophic Lifestyle of 'Candidatus Contubernalis alkaliaceticus' Based on the Reversed Wood-Ljungdahl Pathway and Mechanism of Direct Electron Transfer.	Frolov EN, Gavrilov SN, Toshchakov SV, Zavarzina DG.	Life (Basel)	10.3390/life13102084	2023
	Anode Biofilms of Geoalkalibacter ferrihydriticus Exhibit Electrochemical Signatures of Multiple Electron Transport Pathways.	Yoho RA, Popat SC, Rago L, Guisasola A, Torres CI.	Langmuir	10.1021/acs.langmuir.5b02953	2015
	Microbial electroactive biofilms dominated by Geoalkalibacter spp. from a highly saline-alkaline environment.	Yadav S, Patil SA.	NPJ Biofilms Microbiomes	10.1038/s41522-020-00147-7	2020
Metabolism	Syntrophic growth of alkaliphilic anaerobes controlled by ferric and ferrous minerals transformation coupled to acetogenesis.	Zavarzina DG, Gavrilov SN, Chistyakova NI, Antonova AV, Gracheva MA, Merkel AY, Perevalova AA, Chernov MS, Zhilina TN, Bychkov AY, Bonch-Osmolovskaya EA.	ISME J	10.1038/s41396-019-0527-4	2020
	Use of Mineral Weathering Bacteria to Enhance Nutrient Availability in Crops: A Review.	Ribeiro IDA, Volpiano CG, Vargas LK, Granada CE, Lisboa BB, Passaglia LMP.	Front Plant Sci	10.3389/fpls.2020.590774	2020
Phylogeny	Diversity and Evolution of Myxobacterial Type IV Pilus Systems.	Sharma G, Burrows LL, Singer M.	Front Microbiol	10.3389/fmicb.2018.01630	2018
	Complete Genome Sequence and Comparative Genomics of a Novel Myxobacterium Myxococcus hansupus.	Sharma G, Narwani T, Subramanian S.	PLoS One	10.1371/journal.pone.0148593	2016
Metabolism	Identification of Different Putative Outer Membrane Electron Conduits Necessary for Fe(III) Citrate, Fe(III) Oxide, Mn(IV) Oxide, or Electrode Reduction by Geobacter sulfurreducens.	Jimenez Otero F, Chan CH, Bond DR.	J Bacteriol	10.1128/jb.00347-18	2018
Metabolism	Extracellular electron transport-mediated Fe(III) reduction by a community of alkaliphilic bacteria that use flavins as electron shuttles.	Fuller SJ, McMillan DG, Renz MB, Schmidt M, Burke IT, Stewart DI.	Appl Environ Microbiol	10.1128/aem.02282-13	2014
Genetics	Genomic Insights Into Energy Metabolism of Carboxydocella thermautotrophica Coupling Hydrogenogenic CO Oxidation With the Reduction of Fe(III) Minerals.	Toshchakov SV, Lebedinsky AV, Sokolova TG, Zavarzina DG, Korzhenkov AA, Teplyuk AV, Chistyakova NI, Rusakov VS, Bonch-Osmolovskaya EA, Kublanov IV, Gavrilov SN.	Front Microbiol	10.3389/fmicb.2018.01759	2018
	Adaptations to High Salt in a Halophilic Protist: Differential Expression and Gene Acquisitions through Duplications and Gene Transfers.	Harding T, Roger AJ, Simpson AGB.	Front Microbiol	10.3389/fmicb.2017.00944	2017
Phylogeny	Abundance, distribution, and activity of Fe(II)-oxidizing and Fe(III)-reducing microorganisms in hypersaline sediments of Lake Kasin, southern Russia.	Emmerich M, Bhansali A, Losekann-Behrens T, Schroder C, Kappler A, Behrens S.	Appl Environ Microbiol	10.1128/aem.07637-11	2012
	Genomes of Geoalkalibacter ferrihydriticus Z-0531T and Geoalkalibacter subterraneus Red1T, Two Haloalkaliphilic Metal-Reducing Deltaproteobacteria.	Badalamenti JP, Krajmalnik-Brown R, Torres CI, Bond DR	Genome Announc	10.1128/genomeA.00039-15	2015
Phylogeny	Psychromicrobium lacuslunae sp. nov., isolated from a high altitude lake.	Kiran S, Schumann P, Busse HJ, Sproer C, Rana A, Pal M, Korpole S, Tewari R, Gulati A.	Int J Syst Evol Microbiol	10.1099/ijsem.0.002997	2018
Phylogeny	Rhizobacter bergeniae sp. nov., isolated from the root of Bergenia scopulosa.	Wei L, Si M, Long M, Zhu L, Li C, Shen X, Wang Y, Zhao L, Zhang L.	Int J Syst Evol Microbiol	10.1099/ijs.0.070318-0	2015
Metabolism	Rhodococcus jialingiae sp. nov., an actinobacterium isolated from sludge of a carbendazim wastewater treatment facility.	Wang Z, Xu J, Li Y, Wang K, Wang Y, Hong Q, Li WJ, Li SP.	Int J Syst Evol Microbiol	10.1099/ijs.0.013219-0	2010
Metabolism	Rhodococcus qingshengii sp. nov., a carbendazim-degrading bacterium.	Xu JL, He J, Wang ZC, Wang K, Li WJ, Tang SK, Li SP.	Int J Syst Evol Microbiol	10.1099/ijs.0.65095-0	2007
Phylogeny	Geoalkalibacter subterraneus sp. nov., an anaerobic Fe(III)- and Mn(IV)-reducing bacterium from a petroleum reservoir, and emended descriptions of the family Desulfuromonadaceae and the genus Geoalkalibacter.	Greene AC, Patel BK, Yacob S	Int J Syst Evol Microbiol	10.1099/ijs.0.001537-0	2009
Phylogeny	[Geoalkalibacter ferrihydriticus gen. nov., sp. nov., the first alkaliphilic representative of the family Geobacteraceae, isolated from a soda lake].	Zavarzina DG, Kolganova TV, Bulygina ES, Kostrikina NA, Turova TP, Zavarzin GA	Mikrobiologiia		2006
Metabolism	Geoalkalibacter halelectricus SAP-1 sp. nov. possessing extracellular electron transfer and mineral-reducing capabilities from a haloalkaline environment.	Yadav S, Singh R, Sundharam SS, Chaudhary S, Krishnamurthi S, Patil SA	Environ Microbiol	10.1111/1462-2920.16200	2022

References

#7202	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17813
#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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Geoalkalibacter ferrihydriticus (DSM 17813, VKM B-2401, Z-0531)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000820505

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

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