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Dynamics of Thioalkalivibrio species in a co-culture under selective pressure of ampicillin

Ahn, Anne Catherine (author), Schuurmans, J. Merijn (author), Sorokin, Dimitry Y. (author), Muyzer, Gerard (author)

Haloalkaliphilic chemolithoautotrophic sulfur-oxidizing bacteria belonging to the genus Thioalkalivibrio are highly abundant in microbial communities found in soda lakes and dominant in full-scale bioreactors removing sulfide from industrial waste gases. Despite certain soda lakes being remote and unaffected by anthropogenic activities,...

journal article 2023

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Natronosporangium hydrolyticum gen. nov., sp. nov., a haloalkaliphilic polyhydrolytic actinobacterium from a soda solonchak soil in Central Asia

Sorokin, Dimitry Y. (author), Elcheninov, Alexander G. (author), Khijniak, Tatiana V. (author), Zaharycheva, Alicia P. (author), Boueva, Olga V. (author), Ariskina, Elena V. (author), Bunk, Boyke (author), Spröer, Cathrin (author), Evtushenko, Lyudmila I. (author)

During a cultural diversity survey on hydrolytic bacteria in saline alkaline soils, a hydrolytic actinobacterium strain ACPA39^T was enriched and isolated in pure culture from a soda solonchak soil in southwestern Siberia. It forms a substrate mycelium with rod-shaped sporangia containing 1–3 exospores. The isolate is obligately...

journal article 2022

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Natronoglycomyces albus gen. Nov., sp. nov, a haloalkaliphilic actinobacterium from a soda solonchak soil

Sorokin, Dimitry Y. (author), Khijniak, Tatjana V. (author), Zakharycheva, Alicia P. (author), Elcheninov, Alexander G. (author), Hahnke, Richard L. (author), Boueva, Olga V. (author), Ariskina, Elena V. (author), Bunk, Boyke (author), Kublanov, Ilya V. (author), Evtushenko, Lyudmila I. (author)

A haloalkaliphilic hydrolytic actinobacterium, strain ACPA22^T, was enriched and isolated in pure culture from saline alkaline soil (soda solonchak) in northeastern Mongolia. The isolate was facultatively alkaliphilic, growing at pH 6.5–10.5 (optimum at 7.3–9.0) and highly salt-tolerant, tolerating up to 3 M total Na⁺ as...

journal article 2021

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Metagenomes and metatranscriptomes shed new light on the microbial-mediated sulfur cycle in a Siberian soda lake

Vavourakis, Charlotte D. (author), Mehrshad, Maliheh (author), Balkema, Cherel (author), Van Hall, Rutger (author), Andrei, Adrian Ştefan (author), Ghai, Rohit (author), Sorokin, Dimitry Y. (author), Muyzer, Gerard (author)

Background: The planetary sulfur cycle is a complex web of chemical reactions that can be microbial-mediated or can occur spontaneously in the environment, depending on the temperature and pH. Inorganic sulfur compounds can serve as energy sources for specialized prokaryotes and are important substrates for microbial growth in general. Here,...

journal article 2019

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Natronobiforma cellulositropha gen. nov., sp. nov., a novel haloalkaliphilic member of the family Natrialbaceae (class Halobacteria) from hypersaline alkaline lakes

Sorokin, Dimitry Y. (author), Khijniak, Tatiana V. (author), Kostrikina, Nadezhda A. (author), Elcheninov, Alexander G. (author), Toshchakov, Stepan V. (author), Bale, Nicole J. (author), Damsté, Jaap S.Sinninghe (author), Kublanov, Ilya V. (author)

Six strains of extremely halophilic and alkaliphilic euryarchaea were enriched and isolated in pure culture from surface brines and sediments of hypersaline alkaline lakes in various geographical locations with various forms of insoluble cellulose as growth substrate. The cells are mostly flat motile rods with a thin monolayer cell wall while...

journal article 2018

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Phenotypic and genomic properties of a novel deep-lineage haloalkaliphilic member of the phylum Balneolaeota from soda lakes possessing Na⁺-translocating proteorhodopsin

Sorokin, Dimitry Y. (author), Muntyan, Maria S. (author), Toshchakov, Stepan V. (author), Korzhenkov, Aleksei (author), Kublanov, Ilya V. (author)

Stable development of a heterotrophic bacterial satellite with a peculiar cell morphology has been observed in several enrichment cultures of haloalkaliphilic benthic filamentous cyanobacteria from a hypersaline soda lake in Kulunda Steppe (Altai, Russia). The organism was isolated in pure culture (strain Omega) using sonicated cyanobacterial...

journal article 2018

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Metabolism and occurrence of methanogenic and sulfate-reducing syntrophic acetate oxidizing communities in haloalkaline environments

Timmers, Peer H.A. (author), Vavourakis, Charlotte D. (author), Kleerebezem, R. (author), Sinninghe Damsté, Jaap S. (author), Muyzer, Gerard (author), Stams, Alfons J.M. (author), Sorokin, Dimitry Y. (author), Plugge, Caroline M. (author)

Anaerobic syntrophic acetate oxidation (SAO) is a thermodynamically unfavorable process involving a syntrophic acetate oxidizing bacterium (SAOB) that forms interspecies electron carriers (IECs). These IECs are consumed by syntrophic partners, typically hydrogenotrophic methanogenic archaea or sulfate reducing bacteria. In this work, the...

journal article 2018

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A metagenomics roadmap to the uncultured genome diversity in hypersaline soda lake sediments

Vavourakis, Charlotte D. (author), Andrei, Adrian Stefan (author), Mehrshad, Maliheh (author), Ghai, Rohit (author), Sorokin, Dimitry Y. (author), Muyzer, Gerard (author)

Background: Hypersaline soda lakes are characterized by extreme high soluble carbonate alkalinity. Despite the high pH and salt content, highly diverse microbial communities are known to be present in soda lake brines but the microbiome of soda lake sediments received much less attention of microbiologists. Here, we performed metagenomic...

journal article 2018

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Natronotalea proteinilytica gen. nov., sp. nov. and Longimonas haloalkaliphila sp. nov., extremely haloalkaliphilic members of the phylum Rhodothermaeota from hypersaline alkaline lakes

Sorokin, Dimitry Y. (author), Khijniak, Tatiana V. (author), Galinski, Erwin A. (author), Kublanov, Ilya V. (author)

Two proteolytic bacterial strains, BSker2^Tand BSker3^T, were enriched from sediments of hypersaline alkaline lakes in Kulunda Steppe (Altai, Russia) with chicken feathers as substrate, followed by pure culture isolation on hypersaline alkaline media with casein. The cells were non-motile, filamentous, flexible rods. The...

journal article 2017

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Draft genome sequence of Dethiobacter alkaliphilus strain AHT1^T, a gram-positive sulfidogenic polyextremophile

Melton, Emily Denise (author), Sorokin, Dimitry Y. (author), Overmars, Lex (author), Lapidus, Alla L. (author), Pillay, Manoj (author), Ivanova, Natalia (author), del Rio, Tijana Glavina (author), Kyrpides, Nikos C. (author), Woyke, Tanja (author), Muyzer, Gerard (author)

Dethiobacter alkaliphilus strain AHT1^T is an anaerobic, sulfidogenic, moderately salt-tolerant alkaliphilic chemolithotroph isolated from hypersaline soda lake sediments in northeastern Mongolia. It is a Gram-positive bacterium with low GC content, within the phylum Firmicutes. Here we report its draft genome sequence, which...

journal article 2017

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Desulfonatronospira sulfatiphila sp. Nov., and Desulfitispora elongata sp. nov., two novel haloalkaliphilic sulfidogenic bacteria from soda lakes

Sorokin, Dimitry Y. (author), Chernyh, Nikolai A. (author)

Two novel haloalkaliphilic bacteria with dissimilatory sulfidogenic metabolism were recovered from syntrophic associations obtained from anaerobic sediments of hypersaline soda lakes in Kulunda Steppe (Altai, Russia). Strain ASO3-2^T was a member of a sulfidogenic syntrophic association oxidizing acetate at extremely haloalkaline...

journal article 2017

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Diversity of cultivated aerobic poly-hydrolytic bacteria in saline alkaline soils

Sorokin, Dimitry Y. (author), Kolganova, Tatiana V. (author), Khijniak, Tatiana V. (author), Jones, Brian E. (author), Kublanov, Ilya V. (author)

Alkaline saline soils, known also as ''soda solonchaks'', represent a natural soda habitat which differs from soda lake sediments by higher aeration and lower humidity. The microbiology of soda soils, in contrast to the more intensively studied soda lakes, remains poorly explored. In this work we investigate the diversity of culturable...

journal article 2017

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Natronospira proteinivora gen. nov., sp. nov, an extremely salttolerant, alkaliphilic gammaproteobacterium from hypersaline soda lakes

Sorokin, Dimitry Y. (author), Kublanov, Ilya V. (author), Khijniak, Tatiana V. (author)

Brine samples from Kulunda Steppe soda lakes (Altai, Russia) were inoculated into a hypersaline alkaline mineral medium with β-keratin (chicken feather) as a substrate. The micro-organisms dominating the enrichment culture were isolated by limiting serial dilution on the same medium with casein as a substrate. The cells of strain BSker1<sup>T...

journal article 2017

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Phenotypic and genomic properties of Chitinispirillum alkaliphilum gen. nov., sp. nov., a haloalkaliphilic anaerobic chitinolytic bacterium representing a novel class in the phylum fibrobacteres

Sorokin, Dimitry Y. (author), Rakitin, Andrey L. (author), Gumerov, Vadim M. (author), Beletsky, Alexey V. (author), Sinninghe Damsté, Jaap S. (author), Mardanov, Andrey V. (author), Ravin, Nikolai V. (author)

Anaerobic enrichment from sediments of hypersaline alkaline lakes in Wadi el Natrun (Egypt) with chitin resulted in the isolation of a fermentative haloalkaliphilic bacterium, strain ACht6-1, growing exclusively with insoluble chitin as the substrate in a sodium carbonate-based medium at pH 8.5-10.5 and total Na⁺ concentrations...

journal article 2016

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‘Candidatus Desulfonatronobulbus propionicus’: a first haloalkaliphilic member of the order Syntrophobacterales from soda lakes

Sorokin, Dimitry Y. (author), Chernyh, N. A. (author)

Propionate can be directly oxidized anaerobically with sulfate as e-acceptor at haloalkaline conditions either incompletely to acetate (an example is Desulfobulbus alkaliphilus), or completely (for example by the members of genus Desulfonatronobacter). An enrichment with propionate at methanogenic conditions (without sulfate) inoculated with...

journal article 2016

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Desulfonatronobacter acetoxydans sp. nov.,: A first acetate-oxidizing, extremely salt-tolerant alkaliphilic SRB from a hypersaline soda lake

Sorokin, D.Y. (author), Chernyh, N.A. (author), Poroshina, M.N. (author)

Recent intensive microbiological investigation of sulfidogenesis in soda lakes did not result in isolation of any pure cultures of sulfate-reducing bacteria (SRB) able to directly oxidize acetate. The sulfate-dependent acetate oxidation at haloalkaline conditions has, so far, been only shown in two syntrophic associations of novel...

journal article 2015

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Ecology and application of haloalkaliphilic anaerobic microbial communities

Sousa, João A.B. (author), Sorokin, Dimitry Y. (author), Bijmans, Martijn F.M. (author), Plugge, Caroline M. (author), Stams, Alfons J.M. (author)

Haloalkaliphilic microorganisms that grow optimally at high-pH and high-salinity conditions can be found in natural environments such as soda lakes. These globally spread lakes harbour interesting anaerobic microorganisms that have the potential of being applied in existing technologies or create new opportunities. In this review, we discuss...

review 2015

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Desulfuribacillus alkaliarsenatis gen. nov. sp. nov., a deep-lineage, obligately anaerobic, dissimilatory sulfur and arsenate-reducing, haloalkaliphilic representative of the order Bacillales from soda lakes

Sorokin, D.Y. (author), Tourova, T.P. (author), Sukhacheva, M.V. (author), Muyzer, G. (author)

An anaerobic enrichment culture inoculated with a sample of sediments from soda lakes of the Kulunda Steppe with elemental sulfur as electron acceptor and formate as electron donor at pH 10 and moderate salinity inoculated with sediments from soda lakes in Kulunda Steppe (Altai, Russia) resulted in the domination of a Gram-positive, spore...

journal article 2012

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Anaerobic utilization of pectinous substrates at extremely haloalkaline conditions by Natranaerovirga pectinivora gen. nov., sp. nov., and Natranaerovirga hydrolytica sp. nov., isolated from hypersaline soda lakes

Sorokin, D.Y. (author), Tourova, T.P. (author), Panteleeva, A.N. (author), Kaparullina, E.N. (author), Muyzer, G. (author)

Anaerobic enrichments at pH 10, with pectin and polygalacturonates as substrates and inoculated with samples of sediments of hypersaline soda lakes from the Kulunda Steppe (Altai, Russia) demonstrated the potential for microbial pectin degradation up to soda-saturating conditions. The enrichments resulted in the isolation of six strains of...

journal article 2012

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Natronoflexus pectinivorans gen. nov. sp. nov., an obligately anaerobic and alkaliphilic fermentative member of Bacteroidetes from soda lakes

Sorokin, D.Y. (author), Panteleeva, A.N. (author), Tourova, T.P. (author), Kaparullina, E.N. (author), Muyzer, G. (author)

Anaerobic enrichment with pectin at pH 10 and moderate salinity inoculated with sediments fromsoda lakes of the Kulunda Steppe (Altai, Russia) resulted in the isolation of a novel member of the Bacteroidetes, strain AP1T. The cells are long, flexible, Gram-negative rods forming pink carotenoids. The isolate is an obligate anaerobe, fermenting...

journal article 2011