Articles | Volume 19, issue 6
https://doi.org/10.5194/bg-19-1723-2022
© Author(s) 2022. This work is distributed under
the Creative Commons Attribution 4.0 License.
the Creative Commons Attribution 4.0 License.
https://doi.org/10.5194/bg-19-1723-2022
© Author(s) 2022. This work is distributed under
the Creative Commons Attribution 4.0 License.
the Creative Commons Attribution 4.0 License.
Research article
| 
24 Mar 2022
Research article |
| 24 Mar 2022
| 24 Mar 2022
Aqueous system-level processes and prokaryote assemblages in the ferruginous and sulfate-rich bottom waters of a post-mining lake
Daniel A. Petrash
CORRESPONDING AUTHOR
SoWa Research Infrastructure, Biology Centre of the Czech Academy of Sciences, České
Budějovice, 370 05, Czechia
Department of Environmental Geochemistry and Biogeochemistry, Czech Geological Survey, Prague, 152 00, Czechia
Ingrid M. Steenbergen
SoWa Research Infrastructure, Biology Centre of the Czech Academy of Sciences, České
Budějovice, 370 05, Czechia
Department of Ecosystem Biology, University of South Bohemia, České Budějovice, 370 05,
Czechia
Astolfo Valero
SoWa Research Infrastructure, Biology Centre of the Czech Academy of Sciences, České
Budějovice, 370 05, Czechia
Department of Ecosystem Biology, University of South Bohemia, České Budějovice, 370 05,
Czechia
Travis B. Meador
SoWa Research Infrastructure, Biology Centre of the Czech Academy of Sciences, České
Budějovice, 370 05, Czechia
Department of Ecosystem Biology, University of South Bohemia, České Budějovice, 370 05,
Czechia
Tomáš Pačes
Department of Environmental Geochemistry and Biogeochemistry, Czech Geological Survey, Prague, 152 00, Czechia
Christophe Thomazo
UMR CNRS 6282 Biogéosciences, University of Burgundy, Dijon, 21000, France
Institut Universitaire de France, Paris, 75000, France
Related authors
Nana O.-A. Osafo, Jiří Jan, Petr Porcal, Daniel A. Petrash, and Jakub Borovec
Biogeosciences Discuss., https://doi.org/10.5194/bg-2020-296, https://doi.org/10.5194/bg-2020-296, 2020
Manuscript not accepted for further review
Short summary
Short summary
We investigated the role that OM quality plays in the stability of the OM-Fe association in freshwater sediments. It was found that non-humic components enhance OM-Fe stability, while humic components enhance the reductive dissolution of OM-Fe. This information is useful for predicting the fate of OM-Fe in freshwater systems with discrete sources of OM. Stable OM-Fe complexes improve aqueous environments by reducing the release of greenhouse gases, heavy metals and excess nutrients, such as P.
Daniel A. Petrash, Frantisek Buzek, Martin Novak, Bohuslava Cejkova, Pavel Kram, Tomas Chuman, Jan Curik, Frantisek Veselovsky, Marketa Stepanova, Oldrich Myska, Pavla Holeckova, and Leona Bohdalkova
SOIL, 5, 205–221, https://doi.org/10.5194/soil-5-205-2019, https://doi.org/10.5194/soil-5-205-2019, 2019
Short summary
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Some 30 years after peak pollution-related soil acidification occurred in central Europe, the forest ecosystem of a small V-shaped mountain valley, UDL, was still out of chemical balance relative to the concurrent loads of anions and cations in precipitation. The spatial variability in soil solution chemistry provided evidence pointing to substrate variability, C and P bioavailability, and landscape as major controls on base metal leaching toward the subsoil level in N-saturated catchments.
Karim Benzerara, Agnès Elmaleh, Maria Ciobanu, Alexis De Wever, Paola Bertolino, Miguel Iniesto, Didier Jézéquel, Purificación López-García, Nicolas Menguy, Elodie Muller, Fériel Skouri-Panet, Sufal Swaraj, Rosaluz Tavera, Christophe Thomazo, and David Moreira
Biogeosciences, 20, 4183–4195, https://doi.org/10.5194/bg-20-4183-2023, https://doi.org/10.5194/bg-20-4183-2023, 2023
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Iron and manganese are poorly soluble in oxic and alkaline solutions but much more soluble under anoxic conditions. As a result, authigenic minerals rich in Fe and/or Mn have been viewed as diagnostic of anoxic conditions. However, here we reveal a new case of biomineralization by specific cyanobacteria, forming abundant Fe(III)- and Mn(IV)-rich amorphous phases under oxic conditions in an alkaline lake. This might be an overlooked biotic contribution to the scavenging of Fe from water columns.
Robin Havas, Christophe Thomazo, Miguel Iniesto, Didier Jézéquel, David Moreira, Rosaluz Tavera, Jeanne Caumartin, Elodie Muller, Purificación López-García, and Karim Benzerara
Biogeosciences, 20, 2405–2424, https://doi.org/10.5194/bg-20-2405-2023, https://doi.org/10.5194/bg-20-2405-2023, 2023
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Dissolved organic carbon (DOC) is a reservoir of prime importance in the C cycle of both continental and marine systems. It has also been suggested to influence the past Earth climate but is still poorly characterized in ancient-Earth-like environments. In this paper we show how DOC analyses from modern redox-stratified lakes can evidence specific metabolic reactions and environmental factors and how these can help us to interpret the C cycle of specific periods in the Earth's past.
Robin Havas, Christophe Thomazo, Miguel Iniesto, Didier Jézéquel, David Moreira, Rosaluz Tavera, Jeanne Caumartin, Elodie Muller, Purificación López-García, and Karim Benzerara
Biogeosciences, 20, 2347–2367, https://doi.org/10.5194/bg-20-2347-2023, https://doi.org/10.5194/bg-20-2347-2023, 2023
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We describe the C cycle of four modern stratified water bodies from Mexico, a necessary step to better understand the C cycle of primitive-Earth-like environments, which were dominated by these kinds of conditions. We highlight the importance of local external factors on the C cycle of these systems. Notably, they influence the sensitivity of the carbonate record to environmental changes. We also show the strong C-cycle variability among these lakes and their organic C sediment record.
Pierre Nevers, Julien Bouchez, Jérôme Gaillardet, Christophe Thomazo, Delphine Charpentier, Laëticia Faure, and Catherine Bertrand
Earth Surf. Dynam., 9, 487–504, https://doi.org/10.5194/esurf-9-487-2021, https://doi.org/10.5194/esurf-9-487-2021, 2021
Nana O.-A. Osafo, Jiří Jan, Petr Porcal, Daniel A. Petrash, and Jakub Borovec
Biogeosciences Discuss., https://doi.org/10.5194/bg-2020-296, https://doi.org/10.5194/bg-2020-296, 2020
Manuscript not accepted for further review
Short summary
Short summary
We investigated the role that OM quality plays in the stability of the OM-Fe association in freshwater sediments. It was found that non-humic components enhance OM-Fe stability, while humic components enhance the reductive dissolution of OM-Fe. This information is useful for predicting the fate of OM-Fe in freshwater systems with discrete sources of OM. Stable OM-Fe complexes improve aqueous environments by reducing the release of greenhouse gases, heavy metals and excess nutrients, such as P.
Sarah Coffinet, Travis B. Meador, Lukas Mühlena, Kevin W. Becker, Jan Schröder, Qing-Zeng Zhu, Julius S. Lipp, Verena B. Heuer, Matthew P. Crump, and Kai-Uwe Hinrichs
Biogeosciences, 17, 317–330, https://doi.org/10.5194/bg-17-317-2020, https://doi.org/10.5194/bg-17-317-2020, 2020
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This study deals with two membrane lipids called BDGTs and PDGTs. Membrane lipids are molecules forming the cell envelope of all organisms. Different organisms produce different lipids thus they can be used to detect the presence of specific organisms in the environment. We analyzed the structure of these new lipids and looked for potential producers. We found that they are likely made by microbes emitting methane below the sediment surface and could be used to track these specific microbes.
Daniel A. Petrash, Frantisek Buzek, Martin Novak, Bohuslava Cejkova, Pavel Kram, Tomas Chuman, Jan Curik, Frantisek Veselovsky, Marketa Stepanova, Oldrich Myska, Pavla Holeckova, and Leona Bohdalkova
SOIL, 5, 205–221, https://doi.org/10.5194/soil-5-205-2019, https://doi.org/10.5194/soil-5-205-2019, 2019
Short summary
Short summary
Some 30 years after peak pollution-related soil acidification occurred in central Europe, the forest ecosystem of a small V-shaped mountain valley, UDL, was still out of chemical balance relative to the concurrent loads of anions and cations in precipitation. The spatial variability in soil solution chemistry provided evidence pointing to substrate variability, C and P bioavailability, and landscape as major controls on base metal leaching toward the subsoil level in N-saturated catchments.
R. Zhu, Y.-S. Lin, J. S. Lipp, T. B. Meador, and K.-U. Hinrichs
Biogeosciences, 11, 4869–4880, https://doi.org/10.5194/bg-11-4869-2014, https://doi.org/10.5194/bg-11-4869-2014, 2014
Related subject area
Biodiversity and Ecosystem Function: Microbial Ecology & Geomicrobiology
Microbial methane formation in deep aquifers associated with the sediment burial history at a coastal site
Impact of metabolism and temperature on 2H ∕ 1H fractionation in lipids of the marine bacterium Shewanella piezotolerans WP3
Maximum summer temperatures predict the temperature adaptation of Arctic soil bacterial communities
Potential contributions of nitrifiers and denitrifiers to nitrous oxide sources and sinks in China's estuarine and coastal areas
Abundances and morphotypes of the coccolithophore Emiliania huxleyi in southern Patagonia compared to neighbouring oceans and Northern Hemisphere fjords
Determining the hierarchical order by which the variables of sampling period, dust outbreak occurrence, and sampling location can shape the airborne bacterial communities in the Mediterranean basin
The water column of the Yamal tundra lakes as a microbial filter preventing methane emission
Bioerosion and fungal colonization of the invasive foraminiferan Amphistegina lobifera in a Mediterranean seagrass meadow
Effects of tidal influence on the structure and function of prokaryotic communities in the sediments of a pristine Brazilian mangrove
Deep maxima of phytoplankton biomass, primary production and bacterial production in the Mediterranean Sea
Haplo-diplontic life cycle expands coccolithophore niche
The composition of endolithic communities in gypcrete is determined by the specific microhabitat architecture
Uncovering chemical signatures of salinity gradients through compositional analysis of protein sequences
Cryptic roles of tetrathionate in the sulfur cycle of marine sediments: microbial drivers and indicators
Lake mixing regime selects apparent methane oxidation kinetics of the methanotroph assemblage
The contribution of microbial communities in polymetallic nodules to the diversity of the deep-sea microbiome of the Peru Basin (4130–4198 m depth)
The pH-based ecological coherence of active canonical methanotrophs in paddy soils
Biogeographical distribution of microbial communities along the Rajang River–South China Sea continuum
Microbial community composition and abundance after millennia of submarine permafrost warming
Cold-water corals and hydrocarbon-rich seepage in Pompeia Province (Gulf of Cádiz) – living on the edge
Ecophysiological characteristics of red, green, and brown strains of the Baltic picocyanobacterium Synechococcus sp. – a laboratory study
Factors controlling the community structure of picoplankton in contrasting marine environments
Community composition and seasonal changes of archaea in coarse and fine air particulate matter
Microbial community structure in the western tropical South Pacific
Ecophysiological characterization of early successional biological soil crusts in heavily human-impacted areas
Soil microbial biomass, activity and community composition along altitudinal gradients in the High Arctic (Billefjorden, Svalbard)
Plant n-alkane production from litterfall altered the diversity and community structure of alkane degrading bacteria in litter layer in lowland subtropical rainforest in Taiwan
Revisiting chlorophyll extraction methods in biological soil crusts – methodology for determination of chlorophyll a and chlorophyll a + b as compared to previous methods
Divergence of dominant factors in soil microbial communities and functions in forest ecosystems along a climatic gradient
Uncovering biological soil crusts: carbon content and structure of intact Arctic, Antarctic and alpine biological soil crusts
Antagonistic effects of drought and sand burial enable the survival of the biocrust moss Bryum argenteum in an arid sandy desert
Microbial methanogenesis in the sulfate-reducing zone of sediments in the Eckernförde Bay, SW Baltic Sea
Ferrihydrite-associated organic matter (OM) stimulates reduction by Shewanella oneidensis MR-1 and a complex microbial consortia
Effects of temperature on the composition and diversity of bacterial communities in bamboo soils at different elevations
Development of bacterial communities in biological soil crusts along a revegetation chronosequence in the Tengger Desert, northwest China
Viable cold-tolerant iron-reducing microorganisms in geographically diverse subglacial environments
Diversity and mineral substrate preference in endolithic microbial communities from marine intertidal outcrops (Isla de Mona, Puerto Rico)
Archive of bacterial community in anhydrite crystals from a deep-sea basin provides evidence of past oil-spilling in a benthic environment in the Red Sea
Mechanisms of Trichodesmium demise within the New Caledonian lagoon during the VAHINE mesocosm experiment
Microbial co-occurrence patterns in deep Precambrian bedrock fracture fluids
Effect of light on photosynthetic efficiency of sequestered chloroplasts in intertidal benthic foraminifera (Haynesina germanica and Ammonia tepida)
Seasonal and size-dependent variations in the phytoplankton growth and microzooplankton grazing in the southern South China Sea under the influence of the East Asian monsoon
Characterization of active and total fungal communities in the atmosphere over the Amazon rainforest
Responses of soil microbial communities and enzyme activities to nitrogen and phosphorus additions in Chinese fir plantations of subtropical China
Redox regime shifts in microbially mediated biogeochemical cycles
Differences in microbial community composition between injection and production water samples of water flooding petroleum reservoirs
Microbial colonization in diverse surface soil types in Surtsey and diversity analysis of its subsurface microbiota
Diversity and seasonal dynamics of airborne archaea
Methanotrophic activity and diversity of methanotrophs in volcanic geothermal soils at Pantelleria (Italy)
Genotyping an Emiliania huxleyi (prymnesiophyceae) bloom event in the North Sea reveals evidence of asexual reproduction
Taiki Katayama, Reo Ikawa, Masaru Koshigai, and Susumu Sakata
Biogeosciences, 20, 5199–5210, https://doi.org/10.5194/bg-20-5199-2023, https://doi.org/10.5194/bg-20-5199-2023, 2023
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Methane produced by microorganisms in subsurface environments may account for a large fraction of global natural gas reserves. To understand how microbial methane is produced during sediment burial history, we examined methane-bearing aquifers in which temperature and salinity increase with depth. Geochemical and microbiological analyses showed that microbial methane is produced at depth, where microbial activity is stimulated by the increased temperature, and subsequently migrates upwards.
Xin Chen, Weishu Zhao, Liang Dong, Huahua Jian, Lewen Liang, Jing Wang, and Fengping Wang
Biogeosciences, 20, 1491–1504, https://doi.org/10.5194/bg-20-1491-2023, https://doi.org/10.5194/bg-20-1491-2023, 2023
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Here, we studied the effects of metabolism and growth temperature on 2H/1H fractionation between fatty acids and growth water (εFA/water) by Shewanella piezotolerans WP3. Our results show that the εFA/water values display considerable variations for cultures grown on different substrates. Combined with metabolic model analysis, our results indicate that the central metabolic pathways exert a fundamental effect on the hydrogen isotope composition of lipids in heterotrophs.
Ruud Rijkers, Mark Dekker, Rien Aerts, and James T. Weedon
Biogeosciences, 20, 767–780, https://doi.org/10.5194/bg-20-767-2023, https://doi.org/10.5194/bg-20-767-2023, 2023
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Bacterial communities in the soils of the Arctic region decompose soil organic matter to CO2 from a large carbon pool. The amount of CO2 released is likely to increase under future climate conditions. Here, we study how temperature sensitive the growth of soil bacterial communties is for 12 sampling sites in the sub to high Arctic. We show that the optimal growth temperature varies between 23 and 34 °C and is influenced by the summer temperature.
Xiaofeng Dai, Mingming Chen, Xianhui Wan, Ehui Tan, Jialing Zeng, Nengwang Chen, Shuh-Ji Kao, and Yao Zhang
Biogeosciences, 19, 3757–3773, https://doi.org/10.5194/bg-19-3757-2022, https://doi.org/10.5194/bg-19-3757-2022, 2022
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This study revealed the distinct distribution patterns of six key microbial functional genes and transcripts related to N2O sources and sinks in four estuaries spanning the Chinese coastline, which were significantly constrained by nitrogen and oxygen concentrations, salinity, temperature, and pH. The community structure of the nosZ clade II was distinctly different from those in the soil and marine OMZs. Denitrification may principally control the N2O emissions patterns across the estuaries.
Francisco Díaz-Rosas, Catharina Alves-de-Souza, Emilio Alarcón, Eduardo Menschel, Humberto E. González, Rodrigo Torres, and Peter von Dassow
Biogeosciences, 18, 5465–5489, https://doi.org/10.5194/bg-18-5465-2021, https://doi.org/10.5194/bg-18-5465-2021, 2021
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Coccolithophores are important unicellular algae with a calcium carbonate covering that might be affected by ongoing changes in the ocean due to absorption of CO2, warming, and melting of glaciers. We used the southern Patagonian fjords as a natural laboratory, where chemical conditions are naturally highly variable. One variant of a widespread coccolithophore species can tolerate these conditions, suggesting it is highly adaptable, while others were excluded, suggesting they are less adaptable.
Riccardo Rosselli, Maura Fiamma, Massimo Deligios, Gabriella Pintus, Grazia Pellizzaro, Annalisa Canu, Pierpaolo Duce, Andrea Squartini, Rosella Muresu, and Pietro Cappuccinelli
Biogeosciences, 18, 4351–4367, https://doi.org/10.5194/bg-18-4351-2021, https://doi.org/10.5194/bg-18-4351-2021, 2021
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The bacteria carried by winds over the island of Sardinia in the Mediterranean Sea were collected, and their identities were investigated by reading DNA sequences. The sampling period was the factor that most determined the airborne species composition as its role was stronger than that of dust-carrying storms and of the geographical position of the sampling station. The bacteria found when the sampling was performed in September had more species variety than those collected in May.
Alexander Savvichev, Igor Rusanov, Yury Dvornikov, Vitaly Kadnikov, Anna Kallistova, Elena Veslopolova, Antonina Chetverova, Marina Leibman, Pavel A. Sigalevich, Nikolay Pimenov, Nikolai Ravin, and Artem Khomutov
Biogeosciences, 18, 2791–2807, https://doi.org/10.5194/bg-18-2791-2021, https://doi.org/10.5194/bg-18-2791-2021, 2021
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Microbial processes of the methane cycle were studied in four lakes of the central part of the Yamal Peninsula in an area of continuous permafrost: two large, deep lakes and two small and shallow ones. It was found that only small, shallow lakes contributed significantly to the overall diffusive methane emissions from the water surface during the warm summer season. The water column of large, deep lakes on Yamal acted as a microbial filter preventing methane emissions into the atmosphere.
Martin Vohník
Biogeosciences, 18, 2777–2790, https://doi.org/10.5194/bg-18-2777-2021, https://doi.org/10.5194/bg-18-2777-2021, 2021
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Amphistegina lobifera (Foraminifera) has colonized the Mediterranean through the Suez Canal, often forming thick sediments altering the invaded environments. Little is known about postmortem fate of its shells, so I investigated their turnover in the rhizosphere of the dominant Mediterranean seagrass. Most were bioeroded, likely by cyanobacteria and algae but not fungi occurring in the seagrass roots. Bioerosion may counterbalance accumulation of A. lobifera shells in the seabed substrate.
Carolina Oliveira de Santana, Pieter Spealman, Vânia Maria Maciel Melo, David Gresham, Taíse Bomfim de Jesus, and Fabio Alexandre Chinalia
Biogeosciences, 18, 2259–2273, https://doi.org/10.5194/bg-18-2259-2021, https://doi.org/10.5194/bg-18-2259-2021, 2021
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This study highlights the influence of
tidal zonationon the prokaryotic sediment communities of a pristine mangrove forest. We observed that the variability in environmental factors between tidal zones results in differences in structure, diversity, and the potential function of prokaryotic populations. This suggests that further work is needed in determining the role tidal microhabitat biodiversity has in mangroves.
Emilio Marañón, France Van Wambeke, Julia Uitz, Emmanuel S. Boss, Céline Dimier, Julie Dinasquet, Anja Engel, Nils Haëntjens, María Pérez-Lorenzo, Vincent Taillandier, and Birthe Zäncker
Biogeosciences, 18, 1749–1767, https://doi.org/10.5194/bg-18-1749-2021, https://doi.org/10.5194/bg-18-1749-2021, 2021
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The concentration of chlorophyll is commonly used as an indicator of the abundance of photosynthetic plankton (phytoplankton) in lakes and oceans. Our study investigates why a deep chlorophyll maximum, located near the bottom of the upper, illuminated layer develops in the Mediterranean Sea. We find that the acclimation of cells to low light is the main mechanism involved and that this deep maximum represents also a maximum in the biomass and carbon fixation activity of phytoplankton.
Joost de Vries, Fanny Monteiro, Glen Wheeler, Alex Poulton, Jelena Godrijan, Federica Cerino, Elisa Malinverno, Gerald Langer, and Colin Brownlee
Biogeosciences, 18, 1161–1184, https://doi.org/10.5194/bg-18-1161-2021, https://doi.org/10.5194/bg-18-1161-2021, 2021
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Coccolithophores are important calcifying phytoplankton with an overlooked life cycle. We compile a global dataset of marine coccolithophore abundance to investigate the environmental characteristics of each life cycle phase. We find that both phases contribute to coccolithophore abundance and that their different environmental preference increases coccolithophore habitat. Accounting for the life cycle of coccolithophores is thus crucial for understanding their ecology and biogeochemical impact.
María Cristina Casero, Victoria Meslier, Jocelyne DiRuggiero, Antonio Quesada, Carmen Ascaso, Octavio Artieda, Tomasz Kowaluk, and Jacek Wierzchos
Biogeosciences, 18, 993–1007, https://doi.org/10.5194/bg-18-993-2021, https://doi.org/10.5194/bg-18-993-2021, 2021
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Endolithic microhabitats have been described as the last refuge for life in arid and hyper-arid deserts where life has to deal with harsh environmental conditions, such as those in the Atacama Desert. In this work, three different endolithic microhabitats occurring in gypcrete rocks of the Atacama Desert are characterized, using both microscopy and molecular techniques, to show if the architecture of each microhabitat has an influence on the microbial communities inhabiting each of them.
Jeffrey M. Dick, Miao Yu, and Jingqiang Tan
Biogeosciences, 17, 6145–6162, https://doi.org/10.5194/bg-17-6145-2020, https://doi.org/10.5194/bg-17-6145-2020, 2020
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Many natural environments differ in their range of salt concentration (salinity). We developed a metric for the number of water molecules in formation reactions of different proteins and found that it decreases between freshwater and marine systems and also in laboratory experiments with increasing salinity. These results demonstrate a new type of link between geochemical conditions and the chemical composition of microbial communities that can be useful for models of microbial adaptation.
Subhrangshu Mandal, Sabyasachi Bhattacharya, Chayan Roy, Moidu Jameela Rameez, Jagannath Sarkar, Tarunendu Mapder, Svetlana Fernandes, Aditya Peketi, Aninda Mazumdar, and Wriddhiman Ghosh
Biogeosciences, 17, 4611–4631, https://doi.org/10.5194/bg-17-4611-2020, https://doi.org/10.5194/bg-17-4611-2020, 2020
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Potential roles of polythionates as key sulfur cycle intermediates are less appreciated, apparently because, in most of the natural environments, they do not accumulate to easily detectable levels. Our exploration of the eastern Arabian Sea sediment horizons revealed microbe-mediated production and redox transformations of tetrathionate to be important modules of the in situ sulfur cycle, even as high biotic and abiotic reactivity of this polythionate keeps it hidden from geochemical detection.
Magdalena J. Mayr, Matthias Zimmermann, Jason Dey, Bernhard Wehrli, and Helmut Bürgmann
Biogeosciences, 17, 4247–4259, https://doi.org/10.5194/bg-17-4247-2020, https://doi.org/10.5194/bg-17-4247-2020, 2020
Massimiliano Molari, Felix Janssen, Tobias R. Vonnahme, Frank Wenzhöfer, and Antje Boetius
Biogeosciences, 17, 3203–3222, https://doi.org/10.5194/bg-17-3203-2020, https://doi.org/10.5194/bg-17-3203-2020, 2020
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Industrial-scale mining of deep-sea polymetallic nodules will remove nodules in large areas of the sea floor. We describe community composition of microbes associated with nodules of the Peru Basin. Our results show that nodules provide a unique ecological niche, playing an important role in shaping the diversity of the benthic deep-sea microbiome and potentially in element fluxes. We believe that our findings are highly relevant to expanding our knowledge of the impact associated with mining.
Jun Zhao, Yuanfeng Cai, and Zhongjun Jia
Biogeosciences, 17, 1451–1462, https://doi.org/10.5194/bg-17-1451-2020, https://doi.org/10.5194/bg-17-1451-2020, 2020
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We show that soil pH is a key factor in selecting distinct phylotypes of methanotrophs in paddy soils. Type II methanotrophs dominated the methane oxidation in low-pH soils, while type I methanotrophs were more active in high-pH soils. This pH-based niche differentiation of active methanotrophs appeared to be independent of nitrogen fertilization, but the inhibition of type II methanotrophic rate in low-pH soils by the fertilization might aggravate the emission of methane from paddy soils.
Edwin Sien Aun Sia, Zhuoyi Zhu, Jing Zhang, Wee Cheah, Shan Jiang, Faddrine Holt Jang, Aazani Mujahid, Fuh-Kwo Shiah, and Moritz Müller
Biogeosciences, 16, 4243–4260, https://doi.org/10.5194/bg-16-4243-2019, https://doi.org/10.5194/bg-16-4243-2019, 2019
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Microbial community composition and diversity in freshwater habitats are much less studied compared to marine and soil communities. This study presents the first assessment of microbial communities of the Rajang River, the longest river in Malaysia, expanding our knowledge of microbial ecology in tropical regions. Areas surrounded by oil palm plantations showed the lowest diversity and other signs of anthropogenic impacts included the presence of CFB groups as well as probable algal blooms.
Julia Mitzscherling, Fabian Horn, Maria Winterfeld, Linda Mahler, Jens Kallmeyer, Pier P. Overduin, Lutz Schirrmeister, Matthias Winkel, Mikhail N. Grigoriev, Dirk Wagner, and Susanne Liebner
Biogeosciences, 16, 3941–3958, https://doi.org/10.5194/bg-16-3941-2019, https://doi.org/10.5194/bg-16-3941-2019, 2019
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Permafrost temperatures increased substantially at a global scale, potentially altering microbial assemblages involved in carbon mobilization before permafrost thaws. We used Arctic Shelf submarine permafrost as a natural laboratory to investigate the microbial response to long-term permafrost warming. Our work shows that millennia after permafrost warming by > 10 °C, microbial community composition and population size reflect the paleoenvironment rather than a direct effect through warming.
Blanca Rincón-Tomás, Jan-Peter Duda, Luis Somoza, Francisco Javier González, Dominik Schneider, Teresa Medialdea, Esther Santofimia, Enrique López-Pamo, Pedro Madureira, Michael Hoppert, and Joachim Reitner
Biogeosciences, 16, 1607–1627, https://doi.org/10.5194/bg-16-1607-2019, https://doi.org/10.5194/bg-16-1607-2019, 2019
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Cold-water corals were found at active sites in Pompeia Province (Gulf of Cádiz). Since seeped fluids are harmful for the corals, we approached the environmental conditions that allow corals to colonize carbonates while seepage occurs. As a result, we propose that chemosynthetic microorganisms (i.e. sulfide-oxidizing bacteria and AOM-related microorganisms) play an important role in the colonization of the corals at these sites by feeding on the seeped fluids and avoiding coral damage.
Sylwia Śliwińska-Wilczewska, Agata Cieszyńska, Jakub Maculewicz, and Adam Latała
Biogeosciences, 15, 6257–6276, https://doi.org/10.5194/bg-15-6257-2018, https://doi.org/10.5194/bg-15-6257-2018, 2018
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The present study describes responses of picocyanobacteria (PCY) physiology to different environmental conditions. The cultures were grown under 64 combinations of temperature, irradiance in a photosynthetically active spectrum (PAR), and salinity. The results show that each strain of Baltic Synechococcus sp. behaves differently in respective environmental scenarios. The study develops the knowledge on bloom-forming PCY and reasons further research on the smallest size fraction of phytoplankton.
Jose Luis Otero-Ferrer, Pedro Cermeño, Antonio Bode, Bieito Fernández-Castro, Josep M. Gasol, Xosé Anxelu G. Morán, Emilio Marañon, Victor Moreira-Coello, Marta M. Varela, Marina Villamaña, and Beatriz Mouriño-Carballido
Biogeosciences, 15, 6199–6220, https://doi.org/10.5194/bg-15-6199-2018, https://doi.org/10.5194/bg-15-6199-2018, 2018
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The effect of inorganic nutrients on planktonic assemblages has been traditionally assessed by looking at concentrations rather than fluxes of nutrient supply. However, in near-steady-state systems such as subtropical gyres, nitrate concentrations are kept close to the detection limit due to phytoplankton uptake. Our results, based on direct measurements of nitrate diffusive fluxes, support the key role of nitrate supply in controlling the structure of marine picoplankton communities.
Jörn Wehking, Daniel A. Pickersgill, Robert M. Bowers, David Teschner, Ulrich Pöschl, Janine Fröhlich-Nowoisky, and Viviane R. Després
Biogeosciences, 15, 4205–4214, https://doi.org/10.5194/bg-15-4205-2018, https://doi.org/10.5194/bg-15-4205-2018, 2018
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Archaea as a third domain of life play an important role in soils and marine environments. Although archaea have been found in air as a part of the atmospheric bioaerosol, little is known about their atmospheric dynamics due to their low number and challenging analysis.
Here we present a DNA-based study of airborne archaea, show seasonal dynamics, and discuss anthropogenic influences on the diversity, composition, and abundances of airborne archaea.
Nicholas Bock, France Van Wambeke, Moïra Dion, and Solange Duhamel
Biogeosciences, 15, 3909–3925, https://doi.org/10.5194/bg-15-3909-2018, https://doi.org/10.5194/bg-15-3909-2018, 2018
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We report the distribution of major nano- and pico-plankton groups in the western tropical South Pacific. We found microbial community structure to be typical of highly stratified regions of the open ocean, with significant contributions to total biomass by picophytoeukaryotes, and N2 fixation playing a central role in regulating ecosystem processes. Our results also suggest a reduction in the importance of predation in regulating bacteria populations under nutrient-limited conditions.
Michelle Szyja, Burkhard Büdel, and Claudia Colesie
Biogeosciences, 15, 1919–1931, https://doi.org/10.5194/bg-15-1919-2018, https://doi.org/10.5194/bg-15-1919-2018, 2018
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Ongoing human impact transforms habitats into surfaces lacking higher vegetation. Here, biological soil crusts (BSCs) provide ecosystem services like soil creation and carbon uptake. To understand the functioning of these areas, we examined the physiological capability of early successional BSCs. We found features enabling BSCs to cope with varying climatic stresses. BSCs are important carbon fixers independent of the dominating organism. We provide baseline data for modeling carbon fluxes.
Petr Kotas, Hana Šantrůčková, Josef Elster, and Eva Kaštovská
Biogeosciences, 15, 1879–1894, https://doi.org/10.5194/bg-15-1879-2018, https://doi.org/10.5194/bg-15-1879-2018, 2018
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The soil microbial properties were investigated along altitudinal gradients in the Arctic. Systematic altitudinal shift in MCS resulting in high F / B ratios at the most elevated sites was observed. The changes in composition, size and activity of microbial communities were mainly controlled through the effect of vegetation on edaphic properties and by bedrock chemistry. The upward migration of vegetation due to global warming will likely diminish the spatial variability in microbial properties.
Tung-Yi Huang, Bing-Mu Hsu, Wei-Chun Chao, and Cheng-Wei Fan
Biogeosciences, 15, 1815–1826, https://doi.org/10.5194/bg-15-1815-2018, https://doi.org/10.5194/bg-15-1815-2018, 2018
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The n-alkane in litterfall and the microbial community in litter layer in different habitats of lowland subtropical rainforest were studied. We revealed that the plant vegetation of forest not only dominated the n-alkane input of habitats but also governed the diversity of microbial community of litter layer. In this study, we found that the habitat which had high n-alkane input induced a shift of relative abundance toward phylum of Actinobacteria and the growth of alkB gene contained bacteria.
Jennifer Caesar, Alexandra Tamm, Nina Ruckteschler, Anna Lena Leifke, and Bettina Weber
Biogeosciences, 15, 1415–1424, https://doi.org/10.5194/bg-15-1415-2018, https://doi.org/10.5194/bg-15-1415-2018, 2018
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In our study we analyzed the efficiency of different chlorophyll extraction solvents and investigated the effect of different preparatory steps to determine the optimal extraction method for biological soil crusts. Based on our results we confirm a DMSO-based chlorophyll extraction method without grinding pretreatment and suggest to insert an intermediate shaking step for complete chlorophyll extraction.
Zhiwei Xu, Guirui Yu, Xinyu Zhang, Nianpeng He, Qiufeng Wang, Shengzhong Wang, Xiaofeng Xu, Ruili Wang, and Ning Zhao
Biogeosciences, 15, 1217–1228, https://doi.org/10.5194/bg-15-1217-2018, https://doi.org/10.5194/bg-15-1217-2018, 2018
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Forest types with specific soil conditions supported the development of distinct soil microbial communities with variable functions. Our results indicate that the main controls on soil microbes and functions vary across forest ecosystems in different climatic zones. This information will add value to the modeling of microbial processes and will contribute to carbon cycling on a large scale.
Patrick Jung, Laura Briegel-Williams, Anika Simon, Anne Thyssen, and Burkhard Büdel
Biogeosciences, 15, 1149–1160, https://doi.org/10.5194/bg-15-1149-2018, https://doi.org/10.5194/bg-15-1149-2018, 2018
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Arctic, Antarctic and alpine biological soil crusts (BSCs) are formed by adhesion of soil particles to cyanobacteria. BSCs influence ecosystems services like soil erodibility and chemical cycles. In cold environments degradation rates are low and BSCs increase soil organic carbon through photosynthesis, whereby these soils are considered as CO2 sinks. This work provides a novel method to visualize BSCs with a focus on cyanobacteria and their contribution to soil organic carbon.
Rongliang Jia, Yun Zhao, Yanhong Gao, Rong Hui, Haotian Yang, Zenru Wang, and Yixuan Li
Biogeosciences, 15, 1161–1172, https://doi.org/10.5194/bg-15-1161-2018, https://doi.org/10.5194/bg-15-1161-2018, 2018
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Why can biocrust moss survive and flourish in these habitats when stressed simultaneously by drought and sand burial? A field experiment was conducted to assess the combined effects of the two stressors on Bryum argenteum within biocrust. The two stressors did not exacerbate the single negative effects; their mutually antagonistic effect on the physiological vigor of B. argenteum was found, and it provided an opportunity for it to overcome the two co-occurring stressors in arid sandy ecosystems.
Johanna Maltby, Lea Steinle, Carolin R. Löscher, Hermann W. Bange, Martin A. Fischer, Mark Schmidt, and Tina Treude
Biogeosciences, 15, 137–157, https://doi.org/10.5194/bg-15-137-2018, https://doi.org/10.5194/bg-15-137-2018, 2018
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The activity and environmental controls of methanogenesis (MG) within the sulfate-reducing zone (0–30 cm below the seafloor) were investigated in organic-rich sediments of the seasonally hypoxic Eckernförde Bay, SW Baltic Sea. MG activity was mostly linked to non-competitive substrates. The major controls identified were organic matter availability, C / N, temperature, and O2 in the water column, revealing higher rates in warm, stratified, hypoxic seasons compared to colder, oxygenated seasons.
Rebecca Elizabeth Cooper, Karin Eusterhues, Carl-Eric Wegner, Kai Uwe Totsche, and Kirsten Küsel
Biogeosciences, 14, 5171–5188, https://doi.org/10.5194/bg-14-5171-2017, https://doi.org/10.5194/bg-14-5171-2017, 2017
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In this study we show increasing organic matter (OM) content on ferrihydrite surfaces enhances Fe reduction by the model Fe reducer S. oneidensis and a microbial consortia extracted from peat. Similarities in reduction rates between S. oneidensis and the consortia suggest electron shuttling dominates in OM-rich soils. Community profile analyses showed enrichment of fermenters with pure ferrihydrite, whereas OM–mineral complexes favored enrichment of Fe-reducing Desulfobacteria and Pelosinus sp.
Yu-Te Lin, Zhongjun Jia, Dongmei Wang, and Chih-Yu Chiu
Biogeosciences, 14, 4879–4889, https://doi.org/10.5194/bg-14-4879-2017, https://doi.org/10.5194/bg-14-4879-2017, 2017
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We evaluated the bacterial composition and diversity of bamboo soils sampled at different elevations and incubated at different temperatures. Soil respiration was greater at higher elevation and temperature. Soil bacterial structure and diversity showed variable under different incubation times and temperatures. Increases in temperature increased soil respiration and consumption of soil soluble carbon and nitrogen, thus influencing the bacterial diversity and structure at different elevations.
Lichao Liu, Yubing Liu, Peng Zhang, Guang Song, Rong Hui, Zengru Wang, and Jin Wang
Biogeosciences, 14, 3801–3814, https://doi.org/10.5194/bg-14-3801-2017, https://doi.org/10.5194/bg-14-3801-2017, 2017
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We studied the development process of bacterial community structure of biological soil crusts (BSCs) along a revegetation chronosequence by Illumina MiSeq sequencing in the Tengger Desert. Our results indicated (1) a shift of bacterial composition related to their function in the crust development process; (2) bacterial diversity and richness consistent with the recovery phase of soil properties; and (3) bacteria as key contributors to the BSC succession process.
Sophie L. Nixon, Jon P. Telling, Jemma L. Wadham, and Charles S. Cockell
Biogeosciences, 14, 1445–1455, https://doi.org/10.5194/bg-14-1445-2017, https://doi.org/10.5194/bg-14-1445-2017, 2017
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Despite their permanently cold and dark characteristics, subglacial environments (glacier ice–sediment interface) are known to harbour active microbial communities. However, the role of microbial iron cycling in these environments is poorly understood. Here we show that subglacial sediments harbour active iron-reducing microorganisms, and they appear to be cold-adapted. These results may have important implications for global biogeochemical iron cycling and export to marine ecosystems.
Estelle Couradeau, Daniel Roush, Brandon Scott Guida, and Ferran Garcia-Pichel
Biogeosciences, 14, 311–324, https://doi.org/10.5194/bg-14-311-2017, https://doi.org/10.5194/bg-14-311-2017, 2017
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Endoliths are a prominent bioerosive component of intertidal marine habitats, traditionally thought to be formed by a few cyanobacteria, algae and fungi. Using molecular techniques, however, we found that endoliths from Mona Island, Puerto Rico, were of high diversity, well beyond that reported in traditional studies. We also found evidence for substrate specialization, in that closely related cyanobacteria seem to have diversified to specialize recurrently to excavate various mineral substrates
Yong Wang, Tie Gang Li, Meng Ying Wang, Qi Liang Lai, Jiang Tao Li, Zhao Ming Gao, Zong Ze Shao, and Pei-Yuan Qian
Biogeosciences, 13, 6405–6417, https://doi.org/10.5194/bg-13-6405-2016, https://doi.org/10.5194/bg-13-6405-2016, 2016
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Mild eruption of hydrothermal solutions on deep-sea benthic floor can produce anhydrite crystal layers, where microbes are trapped and preserved for a long period of time. These embedded original inhabitants will be biomarkers for the environment when the hydrothermal eruption occurred. This study discovered a thick anhydrite layer in a deep-sea brine pool in the Red Sea. Oil-degrading bacteria were revealed in the crystals with genomic and microscopic evidence.
Dina Spungin, Ulrike Pfreundt, Hugo Berthelot, Sophie Bonnet, Dina AlRoumi, Frank Natale, Wolfgang R. Hess, Kay D. Bidle, and Ilana Berman-Frank
Biogeosciences, 13, 4187–4203, https://doi.org/10.5194/bg-13-4187-2016, https://doi.org/10.5194/bg-13-4187-2016, 2016
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The marine cyanobacterium Trichodesmium spp. forms massive blooms important to carbon and nitrogen cycling in the oceans that often collapse abruptly. We investigated a Trichodesmium bloom in the lagoon waters of New Caledonia to specifically elucidate the cellular processes mediating the bloom decline. We demonstrate physiological, biochemical, and genetic evidence for nutrient and oxidative stress that induced a genetically controlled programmed cell death (PCD) pathway leading to bloom demise.
Lotta Purkamo, Malin Bomberg, Riikka Kietäväinen, Heikki Salavirta, Mari Nyyssönen, Maija Nuppunen-Puputti, Lasse Ahonen, Ilmo Kukkonen, and Merja Itävaara
Biogeosciences, 13, 3091–3108, https://doi.org/10.5194/bg-13-3091-2016, https://doi.org/10.5194/bg-13-3091-2016, 2016
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The microbial communities of up to 2.3 km depth of Precambrian crystalline bedrock fractures share features with serpenization-driven microbial communities in alkaline springs and subsurface aquifers. This study suggests that phylotypes belonging to Burkholderiales and Clostridia are possible "keystone microbial species" in Outokumpu deep biosphere. Many of the keystone species belong to the rare biosphere with low abundance but a wide range of carbon substrates and a capacity for H2 oxidation.
Thierry Jauffrais, Bruno Jesus, Edouard Metzger, Jean-Luc Mouget, Frans Jorissen, and Emmanuelle Geslin
Biogeosciences, 13, 2715–2726, https://doi.org/10.5194/bg-13-2715-2016, https://doi.org/10.5194/bg-13-2715-2016, 2016
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Some benthic foraminifera can incorporate chloroplasts from microalgae. We investigated chloroplast functionality of two benthic foraminifera (Haynesina germanica & Ammonia tepida) exposed to different light levels. Only H. germanica was capable of using the kleptoplasts, showing net oxygen production. Chloroplast functionality time was longer in darkness (2 weeks) than at high light (1 week). Kleptoplasts are unlikely to be completely functional, thus requiring continuous chloroplast resupply.
L. Zhou, Y. Tan, L. Huang, Z. Hu, and Z. Ke
Biogeosciences, 12, 6809–6822, https://doi.org/10.5194/bg-12-6809-2015, https://doi.org/10.5194/bg-12-6809-2015, 2015
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We observed that phytoplankton biomass and growth rate (μ), microzooplankton grazing rate (m), and coupling (correlation) between the μ and m significantly varied between the summer and winter, and microzooplankton selectively grazed more on the larger-sized phytoplankton, and a low grazing impact on phytoplankton (m/μ < 50%) in the SSCS. The salient seasonal variations in μ and m, and their coupling were closely related to environmental variables under the influence of the East Asian monsoon.
A. M. Womack, P. E. Artaxo, F. Y. Ishida, R. C. Mueller, S. R. Saleska, K. T. Wiedemann, B. J. M. Bohannan, and J. L. Green
Biogeosciences, 12, 6337–6349, https://doi.org/10.5194/bg-12-6337-2015, https://doi.org/10.5194/bg-12-6337-2015, 2015
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Fungi in the atmosphere can affect precipitation by nucleating the formation of clouds and ice. This process is important over the Amazon rainforest where precipitation is limited by the types and amount of airborne particles. We found that the total and metabolically active fungi communities were dominated by different taxonomic groups, and the active community unexpectedly contained many lichen fungi, which are effective at nucleating ice.
W. Y. Dong, X. Y. Zhang, X. Y. Liu, X. L. Fu, F. S. Chen, H. M. Wang, X. M. Sun, and X. F. Wen
Biogeosciences, 12, 5537–5546, https://doi.org/10.5194/bg-12-5537-2015, https://doi.org/10.5194/bg-12-5537-2015, 2015
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We examined how N and P addition influenced soil microbial community composition and enzyme activities in subtropical China. The results showed that C and N cycling enzymes were more sensitive to nutrient additions than P cycling enzymes and Gram-positive bacteria were most closely related to soil nutrient cycling enzymes. Combined additions of N and P fertilizer are recommended to promote soil fertility and microbial activity in this kind of plantation.
T. Bush, I. B. Butler, A. Free, and R. J. Allen
Biogeosciences, 12, 3713–3724, https://doi.org/10.5194/bg-12-3713-2015, https://doi.org/10.5194/bg-12-3713-2015, 2015
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Despite their global importance, redox reactions mediated by microorganisms are often crudely represented in biogeochemical models. We show that including the dynamics of microbial growth in such a model can cause sudden shifts between redox states in response to an environmental change. We identify the conditions required for these redox regime shifts, and predict that they are likely in the modern day sulfur and nitrogen cycles, and potentially the iron cycle in the ancient ocean.
P. K. Gao, G. Q. Li, H. M. Tian, Y. S. Wang, H. W. Sun, and T. Ma
Biogeosciences, 12, 3403–3414, https://doi.org/10.5194/bg-12-3403-2015, https://doi.org/10.5194/bg-12-3403-2015, 2015
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Microbial communities in injected water are expected to have a significant influence on those of reservoir strata in long-term water-flooding petroleum reservoirs. We thereby investigated the similarities and differences in microbial communities in water samples collected from the wellhead and downhole of injection wells, and from production wells in a homogeneous reservoir and a heterogeneous reservoir using high-throughput sequencing.
V. Marteinsson, A. Klonowski, E. Reynisson, P. Vannier, B. D. Sigurdsson, and M. Ólafsson
Biogeosciences, 12, 1191–1203, https://doi.org/10.5194/bg-12-1191-2015, https://doi.org/10.5194/bg-12-1191-2015, 2015
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Colonization of life on Surtsey has been observed systematically since the formation of the island. Microbial colonization and the influence of associate vegetation and birds on viable counts of environmental bacteria at the surface of the Surtsey was explored for the first time in diverse surface soils. Also, hot subsurface samples deep in the centre of this volcanic island were collected. Both uncultivated bacteria and archaea were found in the subsurface samples collected below 145 m.
J. Fröhlich-Nowoisky, C. Ruzene Nespoli, D. A. Pickersgill, P. E. Galand, I. Müller-Germann, T. Nunes, J. Gomes Cardoso, S. M. Almeida, C. Pio, M. O. Andreae, R. Conrad, U. Pöschl, and V. R. Després
Biogeosciences, 11, 6067–6079, https://doi.org/10.5194/bg-11-6067-2014, https://doi.org/10.5194/bg-11-6067-2014, 2014
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We have investigated the presence of archaea as well as their amoA gene diversity in aerosol particles collected over 1 year in central Europe and found that, within the 16S and amoA gene, Thaumarchaeota prevail and experience a diversity peak in fall, while only few Euryarchaeota were detected primarily in spring. We also compared the results with airborne archaea from Cape Verde and observe that the proportions of Euryarchaeota seem to be enhanced in coastal air compared to continental air.
A. L. Gagliano, W. D'Alessandro, M. Tagliavia, F. Parello, and P. Quatrini
Biogeosciences, 11, 5865–5875, https://doi.org/10.5194/bg-11-5865-2014, https://doi.org/10.5194/bg-11-5865-2014, 2014
S. A. Krueger-Hadfield, C. Balestreri, J. Schroeder, A. Highfield, P. Helaouët, J. Allum, R. Moate, K. T. Lohbeck, P. I. Miller, U. Riebesell, T. B. H. Reusch, R. E. M. Rickaby, J. Young, G. Hallegraeff, C. Brownlee, and D. C. Schroeder
Biogeosciences, 11, 5215–5234, https://doi.org/10.5194/bg-11-5215-2014, https://doi.org/10.5194/bg-11-5215-2014, 2014
Cited articles
Angly, F. E., Dennis, P. G., Skarshewski, A., Vanwonterghem, I., Hugenholtz, P., and Tyson, G. W.: CopyRighter: a rapid tool
for improving the accuracy of microbial community profiles through
lineage-specic gene copy number correction, Microbiome, 2, 1–13, 2014.
Antler, G., Turchyn, A. V., Rennie, V., Herut, B., and Sivan, O.: Coupled
sulfur and oxygen isotope insight into bacterial sulfate reduction in the
natural environment, Geochim. Cosmochim. Ac., 118, 98–117, 2013.
Antler, G., Mills, J. V., Hutchings, A. M., Redeker, K. R., and Turchyn, A.
V.: The sedimentary carbon-sulfur-iron interplay – a lesson from East
Anglian salt marsh sediments, Front. Earth Sci., 7, 140, https://doi.org/10.3389/feart.2019.00140, 2019.
Bachan, A. and Kump, L. R.: The rise of oxygen and siderite oxidation during
the Lomagundi event, P. Natl. Acad. Sci. USA, 112, 6562–6567, 2015.
Balci, N., Shanks, W. C., Mayer, B., and Mandernack, K. W.: Oxygen and
sulfur isotope systematics of sulfate produced by bacterial and abiotic
oxidation of pyrite, Geochim. Cosmochim. Ac., 71, 3796–3811, 2007.
Barnard, A. S. and Russo, S. P.: Modelling nanoscale FeS2 formation in
sulfur-rich conditions, J. Mater. Chem., 19, 3389–3394, 2009.
Bauer, K. W., Bottini, C., Katsev, S., Jellinek, M., Francois, R., Erba, E.,
and Crowe, S. A.: Ferruginous oceans during OAE1a and collapse of the marine
sulfate pool, Earth Planet. Sc. Lett., 578, 117324, https://doi.org/10.1016/j.epsl.2021.117324, 2022.
Berben, T., Sorokin, D. Y., Ivanova, N., Pati, A., Kyrpides, N., Goodwin, L.
A., Woyke, T., and Muyzer, G.: Complete genome sequence of Thioalkalivibrio paradoxus type strain ARh
1T, an obligately chemolithoautotrophic haloalkaliphilic sulfur-oxidizing
bacterium isolated from a Kenyan soda lake, Stand. Genomic Sci., 10, 105, https://doi.org/10.1186/s40793-015-0097-7, 2015.
Bertran, E., Waldeck, A., Wing, B. A., Halevy, I., Leavitt, W. D., Bradley,
A. S., and Johnston, D. T.: Oxygen isotope effects during microbial sulfate
reduction: applications to sediment cell abundances, ISME J., 14, 1508–1519, 2020.
Blättler, C. L., Claire, M. W., Prave, A. R., Kirsimäe, K., Higgins,
J. A., Medvedev, P. V., Romashkin, A. E., Rychanchik, D. V., Zerkle, A. L.,
Paiste, K., Kreitsmann, T., Millar, I. L., Hayles, J. A., Bao, H., Turchyn,
A. V., Warke, M. R., and Lepland, A.: Two-billion-year-old evaporites
capture Earth's great oxidation, Science, 360, 320–323, 2018.
Blättler, C. L., Bergmann, K. D., Kah, L. C., Gómez-Pérez, I.,
and Higgins, J. A.: Constraints on Meso- to Neoproterozoic seawater from
ancient evaporite deposits, Earth Planet. Sc. Lett., 532, 115951, https://doi.org/10.1016/j.epsl.2019.115951, 2020.
Boehrer, B. and Schultze, M.: Stratification of lakes, Rev. Geophys., 46,
RG2005, https://doi.org/10.1029/2006RG000210, 2008.
Böttcher, M. E. and Thamdrup, B.: Anaerobic sulfide oxidation
and stable isotope fractionation associated with bacterial sulfur
disproportionation in the presence of MnO2, Geochim. Cosmochim. Ac.,
65, 1573–1581, 2001.
Böttcher, M. E., Thamdrup, B., and Vennemann, T. W.: Oxygen
and sulfur isotope fractionation during anaerobic bacterial
disproportionation of elemental sulfur, Geochim. Cosmochim. Ac., 65,
1601–1609, 2001.
Böttcher, M. E., Hespenheide, B., Brumsack, H. J., and Bosselmann, K.:
Stable isotope biogeochemistry of the sulfur cycle in modern marine
sediments, Isotopes Environ. Health Stud., 40, 267–283, 2004.
Böttcher, M. E., Thamdrup, B., Gehre, M., and Theune, A.:
Bottrell, S. H. and Newton, R. J.: Reconstruction of changes in global
sulfur cycling from marine sulfate isotopes, Earth-Sci. Rev., 75, 59–83,
2006.
Bouška, V., Pešek, J., and Žák, K.: Values of δ34S in iron disulphides of the North Bohemian Lignite Basin, Czech
Republic, Geol. Soc. Lond. Spec. Publ., 125, 261–267, 1997.
Brüchert, V.: Physiological and ecological aspects of
sulfur isotope fractionation during bacterial sulfate reduction, Spec. Pap.
Geol. Soc. Am., 379, 1–16, 2004.
Brunet, R. C. and Garcia-Gil, L. J.: Sulfide-induced dissimilatory nitrate
reduction to ammonia in anaerobic freshwater sediments, FEMS Microbiol.
Ecol., 21, 131–138, 1996.
Brunner, B., Bernasconi, S. M., Kleikemper, J., and Schroth, M. H.: A model
for oxygen and sulfur isotope fractionation in sulfate during bacterial
sulfate reduction processes, Geochim. Cosmochim. Ac., 69, 4773–4785, 2005.
Busigny, V., Planavsky, N. J., Jézéquel, D., Crowe, S., Louvat, P.,
Moureau, J., Viollier, E., and Lyons, T. W.: Iron isotopes in an Archean
ocean analogue, Geochim. Cosmochim. Ac., 133, 443–462, 2014.
Butler, J. E., Young, N. D., and Lovley, D. R.: Evolution from a respiratory
ancestor to fill syntrophic and fermentative niches: comparative genomics of
six Geobacteraceae species, BMC Genomics, 101, 1–10, 2009.
Canfield, D. E.: Reactive iron in marine sediments, Geochim. Cosmochim.
Ac., 53, 619–632, 1989.
Canfield, D. E.: Biogeochemistry of Sulfur Isotopes, Rev. Mineral.
Geochem., 43, 607–636, 2001.
Canfield, D. E. and Berner, R. A.: Dissolution and pyritization of magnetite
in anoxic marine sediments, Geochim. Cosmochim. Ac., 51, 645–659, 1987.
Canfield, D. E., Raiswell, R., Westrich, J. T., Reaves, C. M., and Berner,
R. A.: The use of chromium reduction in the analysis of reduced inorganic
sulfur in sediments and shales, Chem. Geol., 54, 149–155, 1986.
Canfield, D. E., Thamdrup, B., and Hansen, J. W.: The anaerobic degradation
of organic matter in Danish coastal sediments: Iron reduction, manganese
reduction, and sulfate reduction, Geochim. Cosmochim. Ac., 57, 3867–3883,
1993.
Canfield, D. E., Zhang, S., Wang, H., Wang, X., Zhao, W., Su, J., Bjerrum, C. J., Haxen, E. R., and Hammarlund, E. U.: A Mesoproterozoic iron formation, P. Natl. Acad. Sci. USA, 115, E3895–E3904, https://doi.org/10.1073/pnas.1720529115, 2018.
Caporaso, J. G., Kuczynski, J., Stombaugh, J., Bittinger, K., Bushman, F. D., Costello, E. K., Fierer, N., Pẽa, A. G., Goodrich, J. K., Gordon, J. I., Huttley, G. A., Kelley, S. T., Knights, D., Koenig, J. E., Ley, R. E., Lozupone, C. A., McDonald, D., Muegge, B. D., Pirrung, M., Reeder, J., Sevinsky, J. R., Turnbaugh, P. J., Walters, W. A., Widmann, J., Yatsunenko, T., Zaneveld, J., and Knight, R.: QIIME allows analysis of high-throughput community sequencing data, Nat. Methods, 7, 335–336, 2010.
Davison, W.: Iron and manganese in lakes, Earth Sci. Rev., 34, 119–163,
1993.
Chabrière, E., Charon, M. H., Volbeda, A., Pieulle, L., Hatchikian, E.
C., and Fontecilla-Camps, J. C.: Crystal structures of the key anaerobic
enzyme pyruvate:ferredoxin oxidoreductase, free and in complex with
pyruvate, Nat. Struct. Biol., 62, 182–190, 1999.
Crowe, S. A., O'Neill, A. H., Katsev, S., Hehanussa, P., Haffner, G. D.,
Sundby, B., Mucci, A., and Fowle, D. A.: The biogeochemistry of tropical
lakes: A case study from Lake Matano, Indonesia, Limnol. Oceanogr., 53,
319–331, 2008.
Daebeler, A., Herbold, C. W., Vierheilig, J., Sedlacek, C. J., Pjevac, P.,
Albertsen, M., Kirkegaard, R. H., de la Torre, J. R., Daims, H., and Wagner,
M.: Cultivation and genomic analysis of “Candidatus Nitrosocaldus
islandicus,” an obligately thermophilic, ammonia-oxidizing thaumarchaeon
from a hot spring biofilm in Graendalur valley, Iceland, Front. Microbiol.,
9, 193, https://doi.org/10.3389/fmicb.2018.00193, 2018.
de la Torre, J. R., Walker, C. B., Ingalls, A. E., Könneke, M., and
Stahl, D. A.: Cultivation of a thermophilic ammonia oxidizing archaeon
synthesizing crenarchaeol, Environ. Microbiol., 10, 810–818, 2008.
Denimal, S., Bertrand, C., Mudry, J., Paquette, Y., Hochart, M., and
Steinmann, M.: Evolution of the aqueous geochemistry of mine pit lakes –
Blanzy-Montceau-les-Mines coal basin (Massif Central, France): Origin of
sulfate contents; effects of stratification on water quality, Appl.
Geochem., 20, 825–839, 2005.
DeWeerd, K. A., Mandelco, L., Tanner, R. S., Woese, C. R., and Suflita, J.
M.: Desulfomonile tiedjei gen. nov. and sp. nov., a novel anaerobic, dehalogenating,
sulfate-reducing bacterium, Arch. Microbiol., 1541, 23–30, 1990.
Dèzes, P., Schmid, S. M., and Ziegler, P. A.: Evolution of the European
Cenozoic Rift System: interaction of the Alpine and Pyrenean orogens with
their foreland lithosphere, Tectonophysics, 389, 1–33, 2004.
Dupalová, T., Sracek, O., Vencelides, Z., and Žák, K.: The
origin of thermal waters in the northeastern part of the Eger Rift, Czech
Republic, Appl. Geochem., 27, 689–702, 2012.
Dziuba, M., Koziaeva, V., Grouzdev, D., Burganskaya, E., Baslerov, R., Kolganova, T., Chernyadyev, A., Osipov, G., Andrianova, E., Gorlenko, V., and Kuznetsov, B.: Magnetospirillum caucaseum sp. Nov., Magnetospirillum marisnigri sp. Nov. and
Magnetospirillum moscoviense sp. Nov., freshwater magnetotactic bacteria isolated from three distinct
geographical locations in European Russia, Int. J. Syst. Evol. Micr.,
66, 2069–2077, 2016.
Edgar, R. C., Hass, B. J., Clemente, J. C., Quince, C., and Knight, R.: UCHIME improves sensitivity
and speed of chimera detection, Bioinformatics, 27, 2194–2200, 2011.
Emerson, D. and Moyer, C.: Isolation and characterization of novel
iron-oxidizing bacteria that grow at circumneutral pH, Appl. Environ.
Microb., 63, 4784–4792, 1997.
Fakhraee, M., Hancisse, O., Canfield, D. E., Crowe, S. A., and Katsev, S.:
Proterozoic seawater sulfate scarcity and the evolution of ocean–atmosphere
chemistry, Nat. Geosci., 125, 375–380, 2019.
Flores, G. E., Hunter, R. C., Liu, Y., Mets, A., Schouten, S., and
Reysenbach, A. L.: Hippea jasoniae sp. nov. and Hippea alviniae sp. nov., thermoacidophilic members of the
class Deltaproteobacteria isolated from deep-sea hydrothermal vent deposits,
Int. J. Syst. Evol. Microbiol., 62, 1252–1258, 2012.
Fritz, P., Basharmal, G. M., Drimmie, R. J., Ibsen, J., and Qureshi, R. M.:
Oxygen isotope exchange between sulphate and water during bacterial
reduction of sulphate, Chem. Geol. Isot. Geosci. Sect., 79, 99–105, 1989.
Gallagher, K. L., Kading, T., Braissant, O., Dupraz, C., and Visscher, P. T.: Inside the
alkalinity engine: The role of electron donors in the organomineralization
potential of sulfate-reducing bacteria, Geobiology, 10, 518–530, 2012.
Geszvain, K., Yamaguchi, A., Maybee, J., and Tebo, B. M.: Mn(II) oxidation
in Pseudomonas putida GB-1 is influenced by flagella synthesis and surface substrate, Arch.
Microbiol., 193, 605–614, 2011.
Goldberg, T., Archer, C., Vance, D., Thamdrup, B., McAnena, A., and Poulton,
S. W.: Controls on Mo isotope fractionations in a Mn-rich anoxic marine
sediment, Gullmar Fjord, Sweden, Chem. Geol., 296–297, 73–82, 2012.
Gwak, J.-H., Jung, M.-Y., Hong, H., Kim, J.-G., Quan, Z.-X., Reinfelder, J.
R., Spasov, E., Neufeld, J. D., Wagner, M., and Rhee, S.-K.: Archaeal
nitrification is constrained by copper complexation with organic matter in
municipal wastewater treatment plants, ISME J., 142, 335–346, 2019.
Hambright, K. D., Gophen, M., and Serruya, S.: Influence of long-term
climatic changes on the stratification of a subtropical, warm monomictic
lake, Limnol. Oceanogr., 39, 1233–1242, 1994.
Holmes, D. E., O'Neil, R. A., Vrionis, H. A., N'Guessan, L. A.,
Ortiz-Bernad, I., Larrahondo, M. J., Adams, L. A., Wards, J. A., Nicoll, J.
S., Nevin, K. P., Chavan, M. A., Johnson, J. P., Long, P. E., and Lovley, D.
R.: Subsurface clade of Geobacteraceae that predominates in a diversity of
Fe(III)-reducing subsurface environments, ISME J., 1, 663–677, 2007.
Holmkvist, L., Ferdelman, T. G., and Jørgensen, B. B.: A cryptic sulfur
cycle driven by iron in the methane zone of marine sediment (Aarhus Bay,
Denmark), Geochim. Cosmochim. Ac., 75, 3581–3599, 2011.
Jewell, T. N. M., Karaoz, U., Brodie, E. L., Williams, K. H., and Beller, H.
R.: Metatranscriptomic evidence of pervasive and diverse
chemolithoautotrophy relevant to C, S, N and Fe cycling in a shallow
alluvial aquifer, ISME J., 10, 2106–2117, 2016.
Jewell, T. N. M., Karaoz, U., Bill, M., Chakraborty, R., Brodie, E. L.,
Williams, K. H., and Beller, H. R.: Metatranscriptomic analysis reveals
unexpectedly diverse microbial metabolism in a biogeochemical hot spot in an
alluvial aquifer, Front. Microbiol., 8, 40, https://doi.org/10.3389/fmicb.2017.00040, 2017.
Jiang, C. Z. and Tosca, N. J.: Fe(II)-carbonate precipitation kinetics and
the chemistry of anoxic ferruginous seawater, Earth Planet. Sc. Lett., 506,
231–242, 2019.
Johnston, D. T., Farquhar, J., Wing, B. A., Kaufman, A., Canfield, D. E., and
Habicht, K. S.: Multiple sulfur isotope fractionations in biological systems:
a case study with sulfate reducers and sulfur disproportionators, Am. J.
Sci., 305, 645–660, 2005.
Johnston, D. T., Gill, B. C., Masterson, A., Beirne, E., Casciotti, K. L.,
Knapp, A. N., and Berelson, W.: Placing an upper limit on cryptic marine
sulphur cycling, Nature, 513, 530–533, 2014.
Jung, M.-Y., Islam, M. A., Gwak, J.-H., Kim, J.-G., and Rhee, S.-K.:
Nitrosarchaeum koreense gen. nov., sp. nov., an aerobic and mesophilic, ammonia-oxidizing archaeon
member of the phylum Thaumarchaeota isolated from agricultural soil, Int. J.
Syst. Evol. Micr., 68, 3084–3095, 2018.
Khalifa, A., Nakasuji, Y., Saka, N., Honjo, H., Asakawa, S., and Watanabe,
T.: Ferrigenium kumadai gen. Nov., sp. nov., a microaerophilic iron-oxidizing bacterium
isolated from a paddy field soil, Int. J. Syst. Evol. Micr., 68,
2587–2592, 2018.
Klueglein, N., Zeitvogel, F., Stierhof, Y. D., Floetenmeyer, M., Konhauser,
K. O., Kappler, A., and Obst, M.: Potential Role of Nitrite for Abiotic
Fe(II) Oxidation and Cell Encrustation during Nitrate Reduction by
Denitrifying Bacteria, Appl. Environ. Microb., 80, 1051–1061, 2014.
Koeksoy, E., Halama, M., Konhauser, K. O., and Kappler, A.: Using modern
ferruginous habitats to interpret Precambrian banded iron formation
deposition, Int. J. Astrobiol., 15, 205–217, 2016.
Kojima, H. and Fukui, M.: Sulfuritalea hydrogenivorans gen. nov., sp. nov., a facultative autotroph
isolated from a freshwater lake, Int. J. Syst. Evol. Micr., 61,
1651–1655, 2011.
Kojima, H., Watanabe, T., Iwata, T., and Fukui, M.: Identification of major
planktonic sulfur oxidizers in stratified freshwater lake, PLoS One, 9,
e93877, https://doi.org/10.1371/journal.pone.0093877, 2014.
Konhauser, K. O., Amskold, L., Lalonde, S. V., Posth, N. R., Kappler, A.,
and Anbar, A.: Decoupling photochemical Fe(II) oxidation from shallow-water
BIF deposition, Earth Planet. Sc. Lett., 258, 87–100, 2007.
Kostka, J. E., Luther, G. W., and Nealson, K. H.: Chemical and biological
reduction of Mn (III)-pyrophosphate complexes: Potential importance of
dissolved Mn (III) as an environmental oxidant, Geochim. Cosmochim. Ac.,
59, 885–894, 1995.
Kovar, P., Kalibova, J., and Bacinova, H.: Computing hydrological balance in
the Medard Mining Pit with the help of the water balance conceptual model,
J. Civ. Environ. Eng., 6, 5, https://doi.org/10.4172/2165-784X.1000250, 2016.
Kříbek, B., Strnad, M., Boh\'{a}̂cek, Z.,
Sýkorová, I., Čejka, J., and Sobalík, Z.: Geochemistry of Miocene
lacustrine sediments from the Sokolov Coal Basin (Czech Republic), Int. J.
Coal Geol., 37, 207–233, 1998.
Kříbek, B., Knésl, I., Rojík, P., Sýkorová, I.,
and Martínek, K.: Geochemical history of a Lower Miocene Lake, the
Cypris Formation, Sokolov Basin, Czech Republic, J. Paleolimnol., 58,
169–190, 2017.
Krs, M., Krsová, M., Pruner, P., Zeman, A., Novák, F., and Jansa, J.: A
petromagnetic study of Miocene rocks bearing micro-organic material and the
magnetic mineral greigite (Sokolov and Cheb basins, Czechoslovakia), Phys. Earth Planet. In., 63, 98–112, 1990.
Lambrecht, N., Wittkop, C., Katsev, S., Fakhraee, M., and Swanner, E. D.:
Geochemical Characterization of Two Ferruginous Meromictic Lakes in the
Upper Midwest, USA, J. Geophys. Res.-Biogeo., 123, 3403–3422, 2018.
Lehtovirta-Morley, L. E.: Ammonia oxidation: Ecology, physiology,
biochemistry and why they must all come together, EMS Microbiol. Lett.,
365, fny058, https://doi.org/10.1093/femsle/fny058, 2018.
Li, C., Planavsky, N. J., Love, G. D., Reinhard, C. T., Hardisty, D., Feng,
L., Bates, S. M., Huang, J., Zhang, Q., Chu, X., and Lyons, T. W.: Marine
redox conditions in the middle Proterozoic ocean and isotopic constraints on
authigenic carbonate formation: Insights from the Chuanlinggou Formation,
Yanshan Basin, North China, Geochim. Cosmochim. Ac., 150, 90–105, 2015.
Lin, W., Deng, A., Wang, Z., Li, Y., Wen, T., Wu, L.-F., Wu, M., and Pan,
Y.: Genomic insights into the uncultured genus Candidatus Magnetobacterium in the
phylum Nitrospirae, ISME J., 812, 2463–2477, 2014.
Lovley, D.: Dissimilatory Fe(III)- and Mn(IV)-Reducing prokaryotes, in: The
Prokaryotes: Prokaryotic Physiology and Biochemistry, Springer, Berlin,
Heidelberg, 287–308, 2013.
Lovley, D. R. and Holmes, D. E.: Electromicrobiology: the ecophysiology of phylogenetically diverse electroactive microorganisms, Nat. Rev. Microbiol., 20, 5–19, https://doi.org/10.1038/s41579-021-00597-6, 2022.
Lovley, D. R. and Phillips, E. J. P.: Manganese inhibition of microbial iron
reduction in anaerobic sediments, Geomicrobiol. J., 6, 145–155, 1988.
Lovley, D. R. and Phillips, E. J. P.: Novel processes for anaerobic sulfate
production from elemental sulfur by sulfate-reducing bacteria, Appl.
Environ. Microb., 60, 2394–2399, 1994.
Lovley, D. R., Holmes, D. E., and Nevin, K. P.: Dissimilatory Fe(III) and
Mn(IV) reduction, Adv. Microb. Physiol., 49, 219–286, 2004.
Luo, Z. H., Narsing Rao, M. P., Chen, H., Hua, Z. S., Li, Q., Hedlund, B.
P., Dong, Z. Y., Liu, B. B., Guo, S. X., Shu, W. S., and Li, W. J.: Genomic
insights of Candidatus Nitrosocaldaceae based on nine new metagenome-assembled
genomes, including Candidatus Nitrosothermus gen nov. and two new species of
Candidatus Nitrosocaldus, Front. Microbiol., 11, https://doi.org/10.3389/fmicb.2020.608832, 2021.
Magoč, T. and Salzberg, S.: FLASH: Fast length adjustment of short reads to
improve genome assemblies, Bioinformatics, 27, 2957–2963, 2011.
Massaro, F. R., Rubbo, M., and Aquilano, D.: Theoretical Equilibrium
Morphology of Gypsum (CaSO4 ⚫ 2H2O). 1. A Syncretic
Strategy to Calculate the Morphology of Crystals, Cryst. Growth Des., 10,
2870–2878, 2010.
Mattes, A., Gould, D., Taupp, M., and Glasauer, S.: A novel autotrophic
bacterium isolated from an engineered wetland system links nitrate-coupled
iron oxidation to the removal of As, Zn and S, Water. Air. Soil Poll.,
224, 1–15, 2013.
Matys Grygar, T., Mach, K., Schnabl, P., Pruner, P., Laurin, J., and
Martinez, M.: A lacustrine record of the early stage of the Miocene Climatic
Optimum in Central Europe from the Most Basin, Ohře (Eger) Graben, Czech
Republic, Geol. Mag., 151, 1013–1033, 2014.
McCullough, C. D. and Schultze, M.: Engineered river flow-through to improve mine pit lake and river values, Sci. Total Environ., 640–641, 217–231, https://doi.org/10.1016/J.SCITOTENV.2018.05.279, 2018.
Meyer, K. M. and Kump, L. R.: Oceanic euxinia in Earth history: Causes and
consequences, Annu. Rev. Earth Planet. Sc., 36, 251–288, 2008.
Medová, H., Přikryl, I., Zapomnělová, E., and Pechar, L.:
Effect of Postmining waters on cyanobacterial photosynthesis, Water Environ.
Res., 87, 180–190, 2015.
Michiels, C. C., Darchambeau, F., Roland, F. A. E., Morana, C., Llirós, M., García-Armisen, T., Thamdrup, B., Borges, A. V., Canfield, D. E., Servais, P., Descy, J. P., and Crowe, S. A.: Iron-dependent nitrogen cycling in a ferruginous lake and the nutrient status of Proterozoic oceans, Nat. Geosci., 10, 217–221, https://doi.org/10.1038/ngeo2886, 2017.
Murad, E. and Rojík, P.: Iron-rich precipitates in a mine drainage environment:
Influence of pH on mineralogy, Am. Mineral., 88, 1915–1918, 2003.
Murad, E. and Rojík, P.: Iron mineralogy of mine-drainage precipitates
as environmental indicators: review of current concepts and a case study
from the Sokolov Basin, Czech Republic, Clay Miner., 40, 427–440, 2005.
Mußmann, M., Brito, I., Pitcher, A., Damsté, J. S. S.,
Hatzenpichler, R., Richter, A., Nielsen, J. L., Nielsen, P. H., Müller,
A., Daims, H., Wagner, M., and Head, I. M.: Thaumarchaeotes abundant in refinery nitrifying
sludges express amoA but are not obligate autotrophic ammonia oxidizers,
P. Natl. Acad. Sci. USA, 108, 16771, https://doi.org/10.1073/pnas.1106427108, 2011.
Myers, C. R. and Nealson, K. H.: Microbial reduction of manganese oxides: Interactions with iron and sulfur, Geochim. Cosmochim. Acta, 52(11), 2727–2732, doi:10.1016/0016-7037(88)90041-5, 1988.
Namgung, S., Guo, B., Sasaki, K., Lee, S. S., and Lee, G.: Macroscopic and
microscopic behaviors of Mn(II) (ad)sorption to goethite with the effects of
dissolved carbonates under anoxic conditions, Geochim. Cosmochim. Ac., 277,
300–319, 2020.
Northup, D. E., Barns, S. M., Yu, L. E., Spilde, M. N., Schelble, R. T., Dano, K. E., Crossey, L. J., Connolly, C. A., Boston, P. J., Natvig, D. O., and Dahm, C. N.: Diverse microbial communities inhabiting ferromanganese deposits in Lechuguilla and Spider Caves, Environ. Microbiol., 5, 1071–1086, https://doi.org/10.1046/j.1462-2920.2003.00500.x, 2003.
Noseck, U., Brasser, T., Rajlich, P., Laciok, A., and Hercik, M.: Mobility
of uranium in tertiary argillaceous sediments – A natural analogue study,
Radiochim. Acta, 92, 797–803, 2004.
Oude Elferink, S. J. W. H., Akkermans-van Met, W, M., Bogte, J. J., and
Stams, A. J. M.: Desulfobacca acetoxidans gen. nov., sp. nov., a novel acetate-degrading sulfate
reducer isolated from sulfidogenic granular sludge, Int. J. Syst.
Bacteriol., 49, 345–350, 1999.
Pačes, T. and Šmejkal, V.: Magmatic and fossil components of thermal
and mineral waters in the Eger River continental rift (Bohemian massif,
central Europe), in: Water-Rock Interaction, Proc. 11th International
Symposium, edited by: Wanty, R. B. and Seal II, R. R., Taylor and Francis
Group, London, 167–172, 2004.
Pellerin, A., Antler, G., Holm, S. A., Findlay, A. J., Crockford, P. W.,
Turchyn, A. V., Jørgensen, B. B., and Finster, K.: Large sulfur isotope
fractionation by bacterial sulfide oxidation, Sci. Adv., 5, eaaw1480, https://doi.org/10.1126/sciadv.aaw1480, 2019.
Petrash, D. A., Gingras, M. K., Lalonde, S. V., Orange, F., Pecoits, E., and
Konhauser, K. O.: Dynamic controls on accretion and lithification of modern
gypsum-dominated thrombolites, Los Roques, Venezuela, Sediment. Geol.,
245–246, 29–47, 2012.
Petrash, D. A., Gueneli, N., Brocks, J. J., Méndez-Dot, J. A.,
González-Arismendi, G., Poulton, S. W., and Konhauser, K. O.: Black
shale deposition and early diagenetic dolomite cementation during Oceanic
Anoxic Event 1: The mid-Cretaceous Maracaibo Platform, Northwestern South
America, Am. J. Sci., 316, 669–711, 2016.
Petrash, D. A., Jan, J., Sirová, D., Osafo, N. O.-A., and Borovec, J.:
Iron and nitrogen cycling, bacterioplankton community composition and
mineral transformations involving phosphorus stabilisation in the
ferruginous hypolimnion of a post-mining lake, Environ. Sci.-Proc.
Imp., 20, 1414–1426, 2018.
Petrash, D. A., Bialik, O. M., Staudigel, P. T., Konhauser, K. O., and Budd,
D. A.: Biogeochemical reappraisal of the freshwater–seawater mixing-zone
diagenetic model, Sedimentology, 68, 1797–1830, 2021.
Petrash, D. A. Steenbergen, I. M., Valero, A., Meador, T. B., Lalonde, S. V., and
Thomazo, C.: Disentangling the overlapping zonation of dissimilatory iron
and sulfate reduction in a carbonate-buffered sulfate-rich and ferruginous
lake water column,
Geophys. Res. Abstr.,
EGU22-183, EGU General Assembly 2022, Vienna, Austria, 2022.
Philippot, P., Van Kranendonk, M., Van Zuilen, M., Lepot, K., Rividi, N.,
Teitler, Y., Thomazo, C., Blanc-Valleron, M. M., Rouchy, J. M., Grosch, E.,
and de Wit, M.: Early traces of life investigations in drilling Archean
hydrothermal and sedimentary rocks of the Pilbara Craton, Western Australia
and Barberton Greenstone Belt, South Africa, C. R. Palevol., 8, 649–663, 2009.
Phillips, D. L. and Gregg, J. W.: Uncertainty in source partitioning using
stable isotopes, Oecologia, 127, 171–179, 2001.
Piwosz, K., Shabarova, T., Pernthaler, J., Posch, T., Šimek, K., Porcal,
P., and Salcher, M. M.: Bacterial and Eukaryotic Small-Subunit Amplicon Data
Do Not Provide a Quantitative Picture of Microbial Communities, but They Are
Reliable in the Context of Ecological Interpretations, mSphere 5,
e00052-20 https://doi.org/10.1128/mSphere.00052-20, 2020.
Post, J. and Bish, D.: Rietveld refinement of crystal structures using powder
X-ray diffraction data, Rev. Mineral. Geochem., 20, 277–308, 1989.
Posth, N. R., Canfield, D. E., and Kappler, A.: Biogenic Fe(III) minerals:
From formation to diagenesis and preservation in the rock record,
Earth-Sci. Rev., 135, 103–121, 2014.
Poulton, S. W. and Canfield, D. E.: Development of a sequential extraction
procedure for iron: Implications for iron partitioning in continentally
derived particulates, Chem. Geol., 214, 209–221, 2005.
Poulton, S. W. and Canfield, D. E.: Ferruginous Conditions: A Dominant
Feature of the Ocean through Earth's History, Elements, 7, 107–112, 2011.
Poulton, S. W., Krom, M. D., and Raiswell, R.: A revised scheme for the
reactivity of iron (oxyhydr)oxide minerals towards dissolved sulfide,
Geochim. Cosmochim. Ac., 68, 3703–3715, 2004.
Rapantová, N., Krzeszowski, Ś., Grmela, A., and Wolkersdorfer, C.:
Quantitative Assessment of Mine Water Sources Based on the General Mixing
Equation and Multivariate Statistics, Mine Water Environ., 31, 252–265,
2012.
Rasmussen, B., Krapež, B., Muhling, J. R., and Suvorova, A.:
Precipitation of iron silicate nanoparticles in early Precambrian oceans
marks Earth's first iron age, Geology, 43, 303–306, 2015.
Reershemius, T. and Planavsky, N. J.: What controls the duration and
intensity of ocean anoxic events in the Paleozoic and the Mesozoic?,
Earth-Sci. Rev., 221, 103787, https://doi.org/10.1016/j.earscirev.2021.103787, 2021.
Rennie, V. C. F. and Turchyn, A. V.: The preservation of δ34S
Rickard, D. and Morse, J. W.: Acid volatile sulfide (AVS), Mar. Chem.,
97, 141–197, 2005.
Rognes, T., Flouri, T., Nichols, B., Quince, C., and Mahé, F.: VSEARCH: a versatile
open-source tool for metagenomics, PeerJ, 4, e2584, https://doi.org/10.7717/peerj.258, 2016.
Robertson, E. K. and Thamdrup, B.: The fate of nitrogen is linked to
iron(II) availability in a freshwater lake sediment, Geochim. Cosmochim.
Ac., 205, 84–99, 2017.
Rodríguez-Ruiz, I., Van Driessche, A. E. S., Veesler, S.,
García-Ruiz, J. M., and IUCr: Nucleation of gypsum at low
supersaturations, Acta Crystallogr. A, 67, 461–462, https://doi.org/10.1107/S0108767311088386,
2011.
Rosenbaum, J. and Sheppard, S. M. F.: An isotopic study of siderites, dolomites
and ankerites at high temperatures, Geochim. Cosmochim. Ac., 50, 1147–1150,
1986.
Salcher, M. M.: Same but different: Ecological niche partitioning of
planktonic freshwater prokaryotes, J. Limnol., 73, 74–87, 2014.
Scholz, F.: Identifying oxygen minimum zone-type biogeochemical cycling in
Earth history using inorganic geochemical proxies, Earth-Sci. Rev., 184,
29–45, 2018.
Scholz, F. and Neumann, T.: Trace element diagenesis in pyrite-rich
sediments of the Achterwasser lagoon, SW Baltic Sea, Mar. Chem., 107,
516–532, 2007.
Schoonen, M.: Mechanisms of sedimentary pyrite formation, in: Sulfur
biogeochemistry – Past and present, Geological Society of America Special
Paper 379, edited by: Amend, J. P., Edwards, K. J., and Lyons, T. W.,
Geological Society of America, Boulder, Colorado, 117–134, https://doi.org/10.1130/0-8137-2379-5.117, 2004.
Schultze, M., Pokrandt, K. H., and Hille, W.: Pit lakes of the Central
German lignite mining district: Creation, morphometry and water quality
aspects, Limnologica, 40, 148–155, 2010.
Simon, B., Bienfait, M., and IUCr: Structure et mécanisme de croissance
du gypse, Acta Cryst., 19, 750–756, 1965.
Slomp, C. P., Malschaert, J. F. P., Lohse, L., and Van Raaphorst, W.: Iron
and manganese cycling in different sedimentary environments on the North Sea
continental margin, Cont. Shelf Res., 17, 1083–1117, 1997.
Šmejkal, V.: Oxygen isotopic composition of sulphates from some mineral
waters and mine waters in western Bohemia, in: Isotope hydrology, 1978:
Proceedings of IAEA, Vienna, International symposium on isotope hydrology;
Neuherberg, Germany, 19–23 June 1978, IAEA-SM-228/4, 83–97, ISBN 92-0-040179-1, 1978.
Šmejkal, V.: Isotopic composition of carbonates and differences in
deposition environment during the Miocene lacustrine sedimentation in the
Krusne Hory graben, Zentralinstitut für Isot. und
Strahlenforschung, Leipzig, 84, 372–379, ISSN 0323-8776, 1984.
Soetaert, K., Hofmann, A. F., Middelburg, J. J., Meysman, F. J. R., and
Greenwood, J.: The effect of biogeochemical processes on pH, Mar. Chem.,
105, 30–51, 2007.
Spilde, M. N., Northup, D. E., Boston, P. J., Schelble, R. T., Dano, K. E., Crossey, L. J., and Dahm, C. N.: Geomicrobiology of cave ferromanganese deposits: A field and laboratory investigation, Geomicrobiol. J., 22, 99–116, https://doi.org/10.1080/01490450590945889, 2005.
Starke, R., Müller, M., Gaspar, M., Marz, M., Küsel, K., Totsche, K.
U., von Bergen, M., and Jehmlich, N.: Candidate Brocadiales dominates C, N and S
cycling in anoxic groundwater of a pristine limestone-fracture aquifer, J.
Proteomics, 152, 153–160, https://doi.org/10.1016/j.jprot.2016.11.003,
2017.
Sun, B., Cole, J. R., and Tiedje, J. M.: Desulfomonile limimaris sp. nov., an anaerobic
dehalogenating bacterium from marine sediments, Int. J. Syst. Evol.
Microbiol., 51, 365–371, 2001.
Swanner, E. D., Lambrecht, N., Wittkop, C., Harding, C., Katsev, S.,
Torgeson, J., and Poulton, S. W.: The biogeochemistry of ferruginous lakes
and past ferruginous oceans, Earth-Sci. Rev., 211, 103430, https://doi.org/10.1016/j.earscirev.2020.103430, 2020.
Taylor, B. E., Wheeler, M. C., and Nordstrom, D. K.: Isotope composition of
sulphate in acid mine drainage as measure of bacterial oxidation, Nature,
308, 538–541, 1984a.
Taylor, B. E., Wheeler, M. C., and Nordstrom, D. K.: Stable isotope
geochemistry of acid mine drainage: Experimental oxidation of pyrite,
Geochim. Cosmochim. Ac., 48, 2669–2678, 1984b.
Tebo, B. M., Johnson, H. A., McCarthy, J. K., and Templeton, A. S.:
Geomicrobiology of manganese(II) oxidation, Trends Microbiol., 13, 421–428, 2005.
Thamdrup, B., Finster, K., Hansen, J. W., and Bak, F.: Bacterial disproportionation of elemental sulfur coupled to chemical reduction of iron or manganese, Appl. Environ. Microb., 59, 101–108, https://doi.org/10.1128/aem.59.1.101-108.1993, 1993.
Thomazo, C., Brayard, A., Elmeknassi, S., Vennin, E., Olivier, N., Caravaca,
G., Escarguel, G., Fara, E., Bylund, K. G., Jenks, J. F., Stephen, D. A.,
Killingsworth, B., Sansjofre, P., and Cartigny, P.: Multiple sulfur isotope
signals associated with the late Smithian event and the Smithian/Spathian
boundary, Earth-Sci. Rev., 195, 96–113, 2019.
Toran, L. and Harris, R. F.: Interpretation of sulfur and oxygen isotopes in
biological and abiological sulfide oxidation, Geochim. Cosmochim. Ac., 53,
2341–2348, 1989.
Trettin, R., Gläser, H. R., Schultze, M., and Strauch, G.: Sulfur
isotope studies to quantify sulfate components in water of flooded lignite
open pits – Lake Goitsche, Germany, Appl. Geochem., 22, 69–89, 2007.
Ulrych, J., Dostal, J., Adamović, J., Jelínek, E., Špaček, P., Hegner,
E., and Balogh, K.: Recurrent Cenozoic volcanic activity in the Bohemian Massif
(Czech Republic), Lithos, 123, 133–144, 2011.
Umbría-Salinas, K., Valero, A., Jan, J., Borovec, J., Chrastný, V.,
and Petrash, D. A.: Redox-driven geochemical partitioning of metal(loid)s in
the iron-rich anoxic sediments of a recently flooded lignite mine pit: Lake
Medard, NW Czechia, J. Hazard. Mater. Adv., 3, 100009, https://doi.org/10.1016/j.hazadv.2021.100009, 2021.
van der Voort, E. and Hartman, P.: The habit of gypsum and solvent
interaction, J. Cryst. Growth, 112, 445–450, 1991.
Van Der Zee, C. and Van Raaphorst, W.: Manganese oxide reactivity in North
Sea sediments, J. Sea Res., 52, 73–85, 2004.
van de Velde, S. J., Reinhard, C. T., Ridgwell, A., and Meysman, F. J. R.:
Bistability in the redox chemistry of sediments and oceans, P. Natl.
Acad. Sci. USA, 117, 33043–33050, 2021.
Viollier, E., Jézéquel, D., Michard, G., Pèpe, M., Sarazin, G.,
and Alberic, P.: Geochernical study of a crater lake (Pavin Lake, France):
Trace-element behaviour in the monimolimnion, Chem. Geol., 125, 61–72,
1995.
Waite, D. W., Chuvochina, M., Pelikan, C., Parks, D. H., Yilmaz, P., Wagner,
M., Loy, A., Naganuma, T., Nakai, R., Whitman, W. B., Hahn, M. W., Kuever,
J., and Hugenholtz, P.: Proposal to reclassify the proteobacterial classes
Deltaproteobacteria and Oligoflexia, and the phylum Thermodesulfobacteria
into four phyla reflecting major functional capabilities, Int. J. Syst.
Evol. Micr., 70, 5972–6016, 2020.
Walter, X. A., Picazo, A., Miracle, M. R., Vicente, E., Camacho, A., Aragno, M., and Zopfi, J.: Phototrophic Fe(II)-oxidation in the chemocline of a ferruginous meromictic lake, Front. Microbiol., 5, 713, https://doi.org/10.3389/fmicb.2014.00713, 2014.
Wang, C. F., Fan, X., Zhang, F., Wang, S. Z., Zhao, Y. P., Zhao, X. Y., Zhao, W., Zhu, T. G., Lu, J. L., and Wei, X. Y.: Characterization of humic acids extracted from a lignite and interpretation for the mass spectra, RSC Adv., 7, 20677–20684, https://doi.org/10.1039/C7RA01497J, 2017.
Ward, L. M., Bertran, E., and Johnston, D. T.: Expanded Genomic Sampling of
the Desulfobulbales Reveals Distribution and Evolution of Sulfur
Metabolisms, Front. Microbiol., 12, 666052, https://doi.org/10.3389/fmicb.2021.666052, 2021.
Weber, K. A., Achenbach, L. A., and Coates, J. D.: Microorganisms pumping
iron: Anaerobic microbial iron oxidation and reduction, Nat. Rev.
Microbiol., 4, 752–764, 2006.
Weelink, S. A. B., Van Doesburg, W., Saia, F. T., Rijpstra, W. I. C.,
Röling, W. F. M., Smidt, H., and Stams, A. J. M.: A strictly anaerobic
betaproteobacterium Georgfuchsia toluolica gen. nov., sp. nov. degrades aromatic compounds with
Fe(III), Mn(IV) or nitrate as an electron acceptor, FEMS Microbiol. Ecol.,
70, 575–585, 2009.
Weinlich, F. H., Bräuer, K., Kämpf, H., Strauch, G., Tesař, J.,
and Weise, S. M.: An active subcontinental mantle volatile system in the
western Eger rift, Central Europe: Gas flux, isotopic (He, C, and N) and
compositional fingerprints, Geochim. Cosmochim. Ac., 63, 3653–3671, 1999.
Wright, M. H., Geszvain, K., Oldham, V. E., Luther, G. W., and Tebo, B. M.:
Oxidative formation and removal of complexed Mn(III) by Pseudomonas species, Front.
Microbiol., 9, 560, https://doi.org/10.3389/fmicb.2018.00560, 2018.
Zerkle, A. L., Jones, D. S., Farquhar, J., and Macalady, J. L.: Sulfur
isotope values in the sulfidic Frasassi cave system, central Italy: A case
study of a chemolithotrophic S-based ecosystem, Geochim. Cosmochim. Ac.,
173, 373–386, 2016.
Short summary
We spectroscopically evaluated the gradients of dissolved C, N, S, Fe and Mn in a newly formed redox-stratified lake. The lake features an intermediate redox state between nitrogenous and euxinic conditions that encompasses vigorous open sulfur cycling fuelled by the reducible Fe and Mn stocks of the anoxic sediments. This results in substantial bottom water loads of dissolved iron and sulfate. Observations made in this ecosystem have relevance for deep-time paleoceanographic reconstructions.
We spectroscopically evaluated the gradients of dissolved C, N, S, Fe and Mn in a newly formed...
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