Tatiana Vishnivetskaya | University of Tennessee Knoxville (original) (raw)
Papers by Tatiana Vishnivetskaya
PloS one, 2014
Despite over three decades of progress, extraction of high molecular weight (HMW) DNA from high c... more Despite over three decades of progress, extraction of high molecular weight (HMW) DNA from high clay soils or iron oxide cemented clay has remained challenging. HMW DNA is desirable for next generation sequencing as it yields the most comprehensive coverage. Several DNA extraction procedures were compared from samples that exhibit strong nucleic acid adsorption. pH manipulation or use of alternative ion solutions offered no improvement in nucleic acid recovery. Lysis by liquid N2 grinding in concentrated guanidine followed by concentrated sodium phosphate extraction supported HMW DNA recovery from clays high in iron oxides. DNA recovered using 1 M sodium phosphate buffer (PB) as a competitive desorptive wash was 15.22±2.33 µg DNA/g clay, with most DNA consisting of >20 Kb fragments, compared to 2.46±0.25 µg DNA/g clay with the Powerlyzer system (MoBio). Increasing PB concentration in the lysis reagent coincided with increasing DNA fragment length during initial extraction. Rarefa...
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Genome …, 2013
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Astrobiology, 2007
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This is a first microbiological study of volcanic permafrost carried out on Kluchevskaya volcano ... more This is a first microbiological study of volcanic permafrost carried out on Kluchevskaya volcano group (Kamchatka Peninsula) and Deception Island (Antarctica). By culture-and culture-independent methods we showed the presence of viable hyper(thermophilic) microorganisms and their genes within volcanic permafrost. The optimal temperature for sulfide producing bacteria was 65, whereas acetogens and methanogens were able to produce acetate and methane at temperatures up to 75o C, while sulphur-reducers showed optimal growth at 85-92o C. Hy-per(thermophiles) were never found in permafrost outside the volcanic areas before. The only way they are to appear within a frozen material is a concurrent deposition during the eruption, together with products associated with volcano heated subsurface geothermal oases. The elo-quent evidence to the hypothesis is the presence among clones of the sequences affiliated with (hyper)thermophilic bacteria, both, aerobic and anaerobic, in the environmental DNA derived from ashes freshly deposited on snow in close proximity to volcano Shiveluch (Kamchatka) and aerobic bacteria incubated at 80o C from ashes freshly deposited on the top of Llaima Vol-cano glacier (Andes). Thus, in the areas of active volcanism the catastrophic geological events transports the life from the depths to the surface and this life from high-temperature ecological niches might survive in permafrost over a long period of time. The results obtained give insights for habitability of Mars. Terrestrial permafrost represents a possible ecosystem for Mars as an Earth-like cryogenic planet. But permafrost on Earth and Mars vary in age, from a few million years on Earth to a few billion years on Mars. Because such difference in age, the longevity of life forms preserved within terrestrial permafrost may only serve as an approximate model for Mars. On the other hand, numerous ancient extinct volcanoes are known on Mars. Their past eruptions periodically burn-through the frozen strata by magma fluxes and formed the thermal and water oases. Simultaneously, products of eruptions (lava, rock debris, scoria, ash) lift from the depths to the surface and freeze. The age of these permanently frozen volcanic deposits is much younger than the age of surrounding permafrost, and the age of youngest volcanoes date back to few million -few dozen million years. It is reasonable to expect to find here the youngest permafrost of the age close to that one on Earth, and analogously to the Earth (even if the recent Mars is a sterile planet), inhabited by viable life forms coming from the depths. This is why the terrestrial hyper(thermophilic) psychrotolerant microbial inhabitants of the vol-canic permafrost might serve as a model for hypothesis of existing microorganisms, that may probably be found in permafrost around young Martian volcanoes. For free of oxygen Martian subsurface with inaccessible organic matter these microorganisms should be chemolithotrophic anaerobes with mechanisms to assimilate CO2 .
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Applied and Environmental Microbiology, 2011
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Aem, 2010
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Http Dx Doi Org 10 1089 Ast 2006 6 400, Jun 28, 2006
The microbial composition of ancient permafrost sediments from the Kolyma lowland of Northeast Eu... more The microbial composition of ancient permafrost sediments from the Kolyma lowland of Northeast Eurasia was examined through culture and culture-independent approaches. These sediments have been continuously frozen for 5,000 to 2-3 million years. A total of 265 Bacteria 16S rRNA gene sequences were amplified from the permafrost total-community genomic DNA and screened by amplified ribosomal 16S rRNA restriction analysis. Members of three major lineages were found: gamma-Proteobacteria (mostly Xanthomonadaceae), Actinobacteria, and Firmicutes. We also determined partial 16S rRNA gene sequences of 49 isolates from a collection of 462 aerobes isolated from these sediments. The bacteria included Actinomycetales (Arthrobacter and Microbacteriaceae); followed by the Firmicutes (Exiguobacterium and Planomicrobium); the Bacteroidetes (Flavobacterium); the gamma-Proteobacteria (Psychrobacter); and the alpha-Proteobacteria (Sphingomonas). Both culture and culture-independent approaches showed the presence of high and low G+C Gram-positive bacteria and gamma-Proteobacteria. Some of the 16S rRNA gene sequences of environmental clones matched those of Arthrobacter isolates. Two-thirds of the isolates grew at -2.5°C, indicating that they are psychroactive, and all are closely related to phylogenetic groups with strains from other cold environments, mostly commonly from Antarctica. The culturable and non-culturable microorganisms found in the terrestrial permafrost provide a prototype for possible life on the cryogenic planets of the Solar System.
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ABSTRACT Fermentation inhibitors accumulating in biorefinery process water can reduce biomass to ... more ABSTRACT Fermentation inhibitors accumulating in biorefinery process water can reduce biomass to ethanol yields significantly. In this work, microbial fuel cells (MFCs) were investigated for their ability to reduce the concentration of known fermentation inhibitors with consomittant production of electricity. Microbial fuel cells (MFC) are electrical devices that use microorganisms to convert soluble organic matter into electricity. The convesion of furfural, a xylose degradation product, and lignin degradation products such as vanillic acid and 4-hydroxybenzaldehyde was investigated. An improved MFC anode design demonstrated potential for high power densities and coulombic efficiencies. A 16S rRNA analysis was conducted to determine the composition of the unique exoelectrogenic microbial consortium enriched in the MFC. The consortium demonstrated broad substrate specificity, ability to handle high inhibitor concentrations with near complete removal, while maintaining long-term stability. This approach can lead to: 1) higher ethanol yields at high biomass loading, 2) improved water recycle and 3) electricity production to meet part of the biorefinery power needs.
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Extremophiles Life Under Extreme Conditions, Jun 1, 2000
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Bioresource Technology, Apr 1, 2011
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ABSTRACT
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Biogeosciences Discussions, 2015
ABSTRACT
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Anaerobic thermophiles and hyperthermophiles detected in permanently frozen volcanic sediments an... more Anaerobic thermophiles and hyperthermophiles detected in permanently frozen volcanic sediments and freshly fallen volcanic ash. Volcanoes of Kamchatka peninsula (Russia) and Antarctic island Deception.
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Background/Question/Methods Increasing atmospheric levels of greenhouse gases, especially CO2, an... more Background/Question/Methods Increasing atmospheric levels of greenhouse gases, especially CO2, and their effects on global temperature have led to interest in the possibility of carbon storage in terrestrial environments. Fly ash from coal combustion may have beneficial effects on soil properties and has the potential to significantly expand terrestrial sequestration options. A large extent of global degraded lands could be used for carbon sequestration, and fly ash may play a role. The purpose of this research is to understand the effects of fly ash on the characteristics of the soil as well as on the soil’s microbial community. Soils treated with fly ash were collected from two locations, TVA paradise in Kentucky (TVA) and Jenkins Farm at Morgantown West Virginia (JF). Results/Conclusions The results from carbon sorption experiments showed high sorption of carbon in the soils treated with fly ash as compared to untreated soils from both TVA and JF sites. A maximum adsorption capac...
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Permafrost represents a stable environment that has allowed the prolonged survival of ancient mic... more Permafrost represents a stable environment that has allowed the prolonged survival of ancient microbial lineage at subzero temperature. Significant numbers, of viable ancient microorganisms and their metabolic end products are known to be present within the permafrost. They are the only organisms known to have retained viability over geological time periods and upon thawing renew their physiological activity. Therefore the permafrost can be characterized as a unique physical-chemical complex which can maintain life incomparably longer than any other known habitat. Permafrost thawing due to anthropogenic or natural processes exposes ancient life to modern ecosystems. The paper discussed the geoecological role of such processes.
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Origins of Life and Evolution of the Biosphere, 1996
... Ctr., Ohio State Univ., Columbus, OH 43210-1002, USA, FAX: 1-614-292-4697, e-mail: wilsongs@g... more ... Ctr., Ohio State Univ., Columbus, OH 43210-1002, USA, FAX: 1-614-292-4697, e-mail: wilsongs@geology.ohio-state.edu, 4Dept. ... Ctr., Mail Stop 245-3, Moffett Field, CA 93035, USA, FAX: 1-415-604-6776, e-mail: mckay@galileo.arc.nasa.gov. ...
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Life in the Frozen State, 2004
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Soil Biology, 2009
Page 1. Chapter 6 Viable Cyanobacteria and Green Algae from the Permafrost Darkness Tatiana A. Vi... more Page 1. Chapter 6 Viable Cyanobacteria and Green Algae from the Permafrost Darkness Tatiana A. Vishnivetskaya 6.1 Introduction Photosynthetic organisms, ie, plants, algae, cyanobacteria and photosynthetic bacteria, have ...
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PloS one, 2014
Despite over three decades of progress, extraction of high molecular weight (HMW) DNA from high c... more Despite over three decades of progress, extraction of high molecular weight (HMW) DNA from high clay soils or iron oxide cemented clay has remained challenging. HMW DNA is desirable for next generation sequencing as it yields the most comprehensive coverage. Several DNA extraction procedures were compared from samples that exhibit strong nucleic acid adsorption. pH manipulation or use of alternative ion solutions offered no improvement in nucleic acid recovery. Lysis by liquid N2 grinding in concentrated guanidine followed by concentrated sodium phosphate extraction supported HMW DNA recovery from clays high in iron oxides. DNA recovered using 1 M sodium phosphate buffer (PB) as a competitive desorptive wash was 15.22±2.33 µg DNA/g clay, with most DNA consisting of >20 Kb fragments, compared to 2.46±0.25 µg DNA/g clay with the Powerlyzer system (MoBio). Increasing PB concentration in the lysis reagent coincided with increasing DNA fragment length during initial extraction. Rarefa...
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Genome …, 2013
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Astrobiology, 2007
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This is a first microbiological study of volcanic permafrost carried out on Kluchevskaya volcano ... more This is a first microbiological study of volcanic permafrost carried out on Kluchevskaya volcano group (Kamchatka Peninsula) and Deception Island (Antarctica). By culture-and culture-independent methods we showed the presence of viable hyper(thermophilic) microorganisms and their genes within volcanic permafrost. The optimal temperature for sulfide producing bacteria was 65, whereas acetogens and methanogens were able to produce acetate and methane at temperatures up to 75o C, while sulphur-reducers showed optimal growth at 85-92o C. Hy-per(thermophiles) were never found in permafrost outside the volcanic areas before. The only way they are to appear within a frozen material is a concurrent deposition during the eruption, together with products associated with volcano heated subsurface geothermal oases. The elo-quent evidence to the hypothesis is the presence among clones of the sequences affiliated with (hyper)thermophilic bacteria, both, aerobic and anaerobic, in the environmental DNA derived from ashes freshly deposited on snow in close proximity to volcano Shiveluch (Kamchatka) and aerobic bacteria incubated at 80o C from ashes freshly deposited on the top of Llaima Vol-cano glacier (Andes). Thus, in the areas of active volcanism the catastrophic geological events transports the life from the depths to the surface and this life from high-temperature ecological niches might survive in permafrost over a long period of time. The results obtained give insights for habitability of Mars. Terrestrial permafrost represents a possible ecosystem for Mars as an Earth-like cryogenic planet. But permafrost on Earth and Mars vary in age, from a few million years on Earth to a few billion years on Mars. Because such difference in age, the longevity of life forms preserved within terrestrial permafrost may only serve as an approximate model for Mars. On the other hand, numerous ancient extinct volcanoes are known on Mars. Their past eruptions periodically burn-through the frozen strata by magma fluxes and formed the thermal and water oases. Simultaneously, products of eruptions (lava, rock debris, scoria, ash) lift from the depths to the surface and freeze. The age of these permanently frozen volcanic deposits is much younger than the age of surrounding permafrost, and the age of youngest volcanoes date back to few million -few dozen million years. It is reasonable to expect to find here the youngest permafrost of the age close to that one on Earth, and analogously to the Earth (even if the recent Mars is a sterile planet), inhabited by viable life forms coming from the depths. This is why the terrestrial hyper(thermophilic) psychrotolerant microbial inhabitants of the vol-canic permafrost might serve as a model for hypothesis of existing microorganisms, that may probably be found in permafrost around young Martian volcanoes. For free of oxygen Martian subsurface with inaccessible organic matter these microorganisms should be chemolithotrophic anaerobes with mechanisms to assimilate CO2 .
Bookmarks Related papers MentionsView impact
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Applied and Environmental Microbiology, 2011
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Aem, 2010
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Http Dx Doi Org 10 1089 Ast 2006 6 400, Jun 28, 2006
The microbial composition of ancient permafrost sediments from the Kolyma lowland of Northeast Eu... more The microbial composition of ancient permafrost sediments from the Kolyma lowland of Northeast Eurasia was examined through culture and culture-independent approaches. These sediments have been continuously frozen for 5,000 to 2-3 million years. A total of 265 Bacteria 16S rRNA gene sequences were amplified from the permafrost total-community genomic DNA and screened by amplified ribosomal 16S rRNA restriction analysis. Members of three major lineages were found: gamma-Proteobacteria (mostly Xanthomonadaceae), Actinobacteria, and Firmicutes. We also determined partial 16S rRNA gene sequences of 49 isolates from a collection of 462 aerobes isolated from these sediments. The bacteria included Actinomycetales (Arthrobacter and Microbacteriaceae); followed by the Firmicutes (Exiguobacterium and Planomicrobium); the Bacteroidetes (Flavobacterium); the gamma-Proteobacteria (Psychrobacter); and the alpha-Proteobacteria (Sphingomonas). Both culture and culture-independent approaches showed the presence of high and low G+C Gram-positive bacteria and gamma-Proteobacteria. Some of the 16S rRNA gene sequences of environmental clones matched those of Arthrobacter isolates. Two-thirds of the isolates grew at -2.5°C, indicating that they are psychroactive, and all are closely related to phylogenetic groups with strains from other cold environments, mostly commonly from Antarctica. The culturable and non-culturable microorganisms found in the terrestrial permafrost provide a prototype for possible life on the cryogenic planets of the Solar System.
Bookmarks Related papers MentionsView impact
ABSTRACT Fermentation inhibitors accumulating in biorefinery process water can reduce biomass to ... more ABSTRACT Fermentation inhibitors accumulating in biorefinery process water can reduce biomass to ethanol yields significantly. In this work, microbial fuel cells (MFCs) were investigated for their ability to reduce the concentration of known fermentation inhibitors with consomittant production of electricity. Microbial fuel cells (MFC) are electrical devices that use microorganisms to convert soluble organic matter into electricity. The convesion of furfural, a xylose degradation product, and lignin degradation products such as vanillic acid and 4-hydroxybenzaldehyde was investigated. An improved MFC anode design demonstrated potential for high power densities and coulombic efficiencies. A 16S rRNA analysis was conducted to determine the composition of the unique exoelectrogenic microbial consortium enriched in the MFC. The consortium demonstrated broad substrate specificity, ability to handle high inhibitor concentrations with near complete removal, while maintaining long-term stability. This approach can lead to: 1) higher ethanol yields at high biomass loading, 2) improved water recycle and 3) electricity production to meet part of the biorefinery power needs.
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Extremophiles Life Under Extreme Conditions, Jun 1, 2000
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Bioresource Technology, Apr 1, 2011
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ABSTRACT
Bookmarks Related papers MentionsView impact
Biogeosciences Discussions, 2015
ABSTRACT
Bookmarks Related papers MentionsView impact
Anaerobic thermophiles and hyperthermophiles detected in permanently frozen volcanic sediments an... more Anaerobic thermophiles and hyperthermophiles detected in permanently frozen volcanic sediments and freshly fallen volcanic ash. Volcanoes of Kamchatka peninsula (Russia) and Antarctic island Deception.
Bookmarks Related papers MentionsView impact
Background/Question/Methods Increasing atmospheric levels of greenhouse gases, especially CO2, an... more Background/Question/Methods Increasing atmospheric levels of greenhouse gases, especially CO2, and their effects on global temperature have led to interest in the possibility of carbon storage in terrestrial environments. Fly ash from coal combustion may have beneficial effects on soil properties and has the potential to significantly expand terrestrial sequestration options. A large extent of global degraded lands could be used for carbon sequestration, and fly ash may play a role. The purpose of this research is to understand the effects of fly ash on the characteristics of the soil as well as on the soil’s microbial community. Soils treated with fly ash were collected from two locations, TVA paradise in Kentucky (TVA) and Jenkins Farm at Morgantown West Virginia (JF). Results/Conclusions The results from carbon sorption experiments showed high sorption of carbon in the soils treated with fly ash as compared to untreated soils from both TVA and JF sites. A maximum adsorption capac...
Bookmarks Related papers MentionsView impact
Permafrost represents a stable environment that has allowed the prolonged survival of ancient mic... more Permafrost represents a stable environment that has allowed the prolonged survival of ancient microbial lineage at subzero temperature. Significant numbers, of viable ancient microorganisms and their metabolic end products are known to be present within the permafrost. They are the only organisms known to have retained viability over geological time periods and upon thawing renew their physiological activity. Therefore the permafrost can be characterized as a unique physical-chemical complex which can maintain life incomparably longer than any other known habitat. Permafrost thawing due to anthropogenic or natural processes exposes ancient life to modern ecosystems. The paper discussed the geoecological role of such processes.
Bookmarks Related papers MentionsView impact
Origins of Life and Evolution of the Biosphere, 1996
... Ctr., Ohio State Univ., Columbus, OH 43210-1002, USA, FAX: 1-614-292-4697, e-mail: wilsongs@g... more ... Ctr., Ohio State Univ., Columbus, OH 43210-1002, USA, FAX: 1-614-292-4697, e-mail: wilsongs@geology.ohio-state.edu, 4Dept. ... Ctr., Mail Stop 245-3, Moffett Field, CA 93035, USA, FAX: 1-415-604-6776, e-mail: mckay@galileo.arc.nasa.gov. ...
Bookmarks Related papers MentionsView impact
Bookmarks Related papers MentionsView impact
Life in the Frozen State, 2004
Bookmarks Related papers MentionsView impact
Soil Biology, 2009
Page 1. Chapter 6 Viable Cyanobacteria and Green Algae from the Permafrost Darkness Tatiana A. Vi... more Page 1. Chapter 6 Viable Cyanobacteria and Green Algae from the Permafrost Darkness Tatiana A. Vishnivetskaya 6.1 Introduction Photosynthetic organisms, ie, plants, algae, cyanobacteria and photosynthetic bacteria, have ...
Bookmarks Related papers MentionsView impact