Articles | Volume 19, issue 3
https://doi.org/10.5194/bg-19-831-2022
© 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-19-831-2022
© Author(s) 2022. This work is distributed under
the Creative Commons Attribution 4.0 License.
the Creative Commons Attribution 4.0 License.
Research article
| 
10 Feb 2022
Research article |
| 10 Feb 2022
| 10 Feb 2022
The biogeographic pattern of microbial communities inhabiting terrestrial mud volcanoes across the Eurasian continent
Tzu-Hsuan Tu
Department of Oceanography, National Sun Yat-sen University,
Kaohsiung, Taiwan
Institute of Oceanography, National Taiwan University, Taipei, Taiwan
Department of Geosciences, National Taiwan University, Taipei, Taiwan
Li-Ling Chen
Institute of Oceanography, National Taiwan University, Taipei, Taiwan
Yi-Ping Chiu
Department of Geosciences, National Taiwan University, Taipei, Taiwan
Li-Hung Lin
Department of Geosciences, National Taiwan University, Taipei, Taiwan
Research Center for Future Earth, National Taiwan University, Taipei, Taiwan
Li-Wei Wu
Department of Life Science, Tunghai University, Taichung, Taiwan
Francesco Italiano
National Institute of Geophysics and Volcanology, Palermo, Italy
J. Bruce H. Shyu
Department of Geosciences, National Taiwan University, Taipei, Taiwan
Seyed Naser Raisossadat
Department of Geology, University of Birjand, Birjand, Iran
Earth Science Research Group, University of Birjand, Birjand, Iran
Institute of Oceanography, National Taiwan University, Taipei, Taiwan
Research Center for Future Earth, National Taiwan University, Taipei, Taiwan
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This study contrasts seabed food webs between a river-fed, high-energy canyon and the nearby slope. We show higher organic carbon (OC) flows through the canyon than the slope. Bacteria dominated the canyon, while seabed fauna contributed more to the slope food web. Due to frequent perturbation, the canyon had a lower faunal stock and OC recycling. Only 4 % of the seabed OC flux enters the canyon food web, suggesting a significant role of the river-fed canyon in transporting OC to the deep sea.
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Measurement of methane’s doubly substituted isotopologues at natural abundances holds promise for better constraining the Earth’s atmospheric CH4 budget. We compiled 1475 measurements from field samples and laboratory experiments, conducted since 2014, to facilitate the differentiation of CH4 formation pathways and processes, to identify existing gaps limiting application of Δ13CH3D and Δ12CH2D2, and to develop isotope ratio source signature inputs for global CH4 flux modelling.
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Nat. Hazards Earth Syst. Sci., 14, 1789–1818, https://doi.org/10.5194/nhess-14-1789-2014, https://doi.org/10.5194/nhess-14-1789-2014, 2014
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Biogeosciences, 21, 4169–4193, https://doi.org/10.5194/bg-21-4169-2024, https://doi.org/10.5194/bg-21-4169-2024, 2024
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Cecilia M. Prada, Katherine D. Heineman, Maria J. Pardo, Camille Piponiot, and James W. Dalling
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This study questions the usefulness of state-ot-the-art models to characterize the temporal variability of atmosphere-ecosystem CO2 exchanges in western European forests. Their mean annual cycle and annual budget are better captured by statistical than physical models, while their interannual variability and long-term trend are better captured by models forced by climate variability. Accounting for both forest stands and climate variability is thus key for properly assessing CO2 fluxes.
Salim Soltani, Olga Ferlian, Nico Eisenhauer, Hannes Feilhauer, and Teja Kattenborn
Biogeosciences, 21, 2909–2935, https://doi.org/10.5194/bg-21-2909-2024, https://doi.org/10.5194/bg-21-2909-2024, 2024
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In this research, we developed a novel method using citizen science data as alternative training data for computer vision models to map plant species in unoccupied aerial vehicle (UAV) images. We use citizen science plant photographs to train models and apply them to UAV images. We tested our approach on UAV images of a test site with 10 different tree species, yielding accurate results. This research shows the potential of citizen science data to advance our ability to monitor plant species.
Xue Feng, Ruzhen Wang, Tianpeng Li, Jiangping Cai, Heyong Liu, Hui Li, and Yong Jiang
Biogeosciences, 21, 2641–2653, https://doi.org/10.5194/bg-21-2641-2024, https://doi.org/10.5194/bg-21-2641-2024, 2024
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Plant functional traits have been considered as reflecting adaptations to environmental variations, indirectly affecting ecosystem productivity. How soil acidification affects above- and belowground biomass by altering leaf and root traits remains poorly understood. We found divergent trait responses driven by soil environmental conditions in two dominant species, resulting in a decrease in aboveground biomass and an increase in belowground biomass.
Minhua Zhang, Xiaoqing Hu, and Fangliang He
Biogeosciences, 21, 2133–2142, https://doi.org/10.5194/bg-21-2133-2024, https://doi.org/10.5194/bg-21-2133-2024, 2024
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Plant sexual systems are important to understanding the evolution and maintenance of plant diversity. We quantified region effects on their proportions while incorporating local climate factors and evolutionary history. We found regional processes and climate effects both play important roles in shaping the geographic distribution of sexual systems, providing a baseline for predicting future changes in forest communities in the context of global change.
Christian H. Mohr, Michael Dietze, Violeta Tolorza, Erwin Gonzalez, Benjamin Sotomayor, Andres Iroume, Sten Gilfert, and Frieder Tautz
Biogeosciences, 21, 1583–1599, https://doi.org/10.5194/bg-21-1583-2024, https://doi.org/10.5194/bg-21-1583-2024, 2024
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Coastal temperate rainforests, among Earth’s carbon richest biomes, are systematically underrepresented in the global network of critical zone observatories (CZOs). Introducing here a first CZO in the heart of the Patagonian rainforest, Chile, we investigate carbon sink functioning, biota-driven landscape evolution, fluxes of matter and energy, and disturbance regimes. We invite the community to join us in cross-disciplinary collaboration to advance science in this particular environment.
Jorge F. Perez-Quezada, David Trejo, Javier Lopatin, David Aguilera, Bruce Osborne, Mauricio Galleguillos, Luca Zattera, Juan L. Celis-Diez, and Juan J. Armesto
Biogeosciences, 21, 1371–1389, https://doi.org/10.5194/bg-21-1371-2024, https://doi.org/10.5194/bg-21-1371-2024, 2024
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For 8 years we sampled a temperate rainforest and a peatland in Chile to estimate their efficiency to capture carbon per unit of water lost. The efficiency is more related to the water lost than to the carbon captured and is mainly driven by evaporation instead of transpiration. This is the first report from southern South America and highlights that ecosystems might behave differently in this area, likely explained by the high annual precipitation (~ 2100 mm) and light-limited conditions.
Fredrik Lagergren, Robert G. Björk, Camilla Andersson, Danijel Belušić, Mats P. Björkman, Erik Kjellström, Petter Lind, David Lindstedt, Tinja Olenius, Håkan Pleijel, Gunhild Rosqvist, and Paul A. Miller
Biogeosciences, 21, 1093–1116, https://doi.org/10.5194/bg-21-1093-2024, https://doi.org/10.5194/bg-21-1093-2024, 2024
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The Fennoscandian boreal and mountain regions harbour a wide range of ecosystems sensitive to climate change. A new, highly resolved high-emission climate scenario enabled modelling of the vegetation development in this region at high resolution for the 21st century. The results show dramatic south to north and low- to high-altitude shifts of vegetation zones, especially for the open tundra environments, which will have large implications for nature conservation, reindeer husbandry and forestry.
Florian Zellweger, Eric Sulmoni, Johanna T. Malle, Andri Baltensweiler, Tobias Jonas, Niklaus E. Zimmermann, Christian Ginzler, Dirk Nikolaus Karger, Pieter De Frenne, David Frey, and Clare Webster
Biogeosciences, 21, 605–623, https://doi.org/10.5194/bg-21-605-2024, https://doi.org/10.5194/bg-21-605-2024, 2024
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The microclimatic conditions experienced by organisms living close to the ground are not well represented in currently used climate datasets derived from weather stations. Therefore, we measured and mapped ground microclimate temperatures at 10 m spatial resolution across Switzerland using a novel radiation model. Our results reveal a high variability in microclimates across different habitats and will help to better understand climate and land use impacts on biodiversity and ecosystems.
Andrew Kulmatiski, Martin C. Holdrege, Cristina Chirvasă, and Karen H. Beard
Biogeosciences, 21, 131–143, https://doi.org/10.5194/bg-21-131-2024, https://doi.org/10.5194/bg-21-131-2024, 2024
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Warmer air and larger precipitation events are changing the way water moves through the soil and into plants. Here we show that detailed descriptions of root distributions can predict plant growth responses to changing precipitation patterns. Shrubs and forbs increased growth, while grasses showed no response to increased precipitation intensity, and these responses were predicted by plant rooting distributions.
Bonaventure Ntirugulirwa, Etienne Zibera, Nkuba Epaphrodite, Aloysie Manishimwe, Donat Nsabimana, Johan Uddling, and Göran Wallin
Biogeosciences, 20, 5125–5149, https://doi.org/10.5194/bg-20-5125-2023, https://doi.org/10.5194/bg-20-5125-2023, 2023
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Twenty tropical tree species native to Africa were planted along an elevation gradient (1100 m, 5.4 °C difference). We found that early-successional (ES) species, especially from lower elevations, grew faster at warmer sites, while several of the late-successional (LS) species, especially from higher elevations, did not respond or grew slower. Moreover, a warmer climate increased tree mortality in LS species, but not much in ES species.
Philippe Choler
Biogeosciences, 20, 4259–4272, https://doi.org/10.5194/bg-20-4259-2023, https://doi.org/10.5194/bg-20-4259-2023, 2023
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The year 2022 was unique in that the summer heat wave and drought led to a widespread reduction in vegetation growth at high elevation in the European Alps. This impact was unprecedented in the southwestern, warm, and dry part of the Alps. Over the last 2 decades, water has become a co-dominant control of vegetation activity in areas that were, so far, primarily controlled by temperature, and the growth of mountain grasslands has become increasingly sensitive to moisture availability.
Adriana Simonetti, Raquel Fernandes Araujo, Carlos Henrique Souza Celes, Flávia Ranara da Silva e Silva, Joaquim dos Santos, Niro Higuchi, Susan Trumbore, and Daniel Magnabosco Marra
Biogeosciences, 20, 3651–3666, https://doi.org/10.5194/bg-20-3651-2023, https://doi.org/10.5194/bg-20-3651-2023, 2023
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We combined 2 years of monthly drone-acquired RGB (red–green–blue) imagery with field surveys in a central Amazon forest. Our results indicate that small gaps associated with branch fall were the most frequent. Biomass losses were partially controlled by gap area, with branch fall and snapping contributing the least and greatest relative values, respectively. Our study highlights the potential of drone images for monitoring canopy dynamics in dense tropical forests.
Silvia Caldararu, Victor Rolo, Benjamin D. Stocker, Teresa E. Gimeno, and Richard Nair
Biogeosciences, 20, 3637–3649, https://doi.org/10.5194/bg-20-3637-2023, https://doi.org/10.5194/bg-20-3637-2023, 2023
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Ecosystem manipulative experiments are large experiments in real ecosystems. They include processes such as species interactions and weather that would be omitted in more controlled settings. They offer a high level of realism but are underused in combination with vegetation models used to predict the response of ecosystems to global change. We propose a workflow using models and ecosystem experiments together, taking advantage of the benefits of both tools for Earth system understanding.
Katharina Ramskogler, Bettina Knoflach, Bernhard Elsner, Brigitta Erschbamer, Florian Haas, Tobias Heckmann, Florentin Hofmeister, Livia Piermattei, Camillo Ressl, Svenja Trautmann, Michael H. Wimmer, Clemens Geitner, Johann Stötter, and Erich Tasser
Biogeosciences, 20, 2919–2939, https://doi.org/10.5194/bg-20-2919-2023, https://doi.org/10.5194/bg-20-2919-2023, 2023
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Primary succession in proglacial areas depends on complex driving forces. To concretise the complex effects and interaction processes, 39 known explanatory variables assigned to seven spheres were analysed via principal component analysis and generalised additive models. Key results show that in addition to time- and elevation-dependent factors, also disturbances alter vegetation development. The results are useful for debates on vegetation development in a warming climate.
Zijing Li, Zhiyong Li, Xuze Tong, Lei Dong, Ying Zheng, Jinghui Zhang, Bailing Miao, Lixin Wang, Liqing Zhao, Lu Wen, Guodong Han, Frank Yonghong Li, and Cunzhu Liang
Biogeosciences, 20, 2869–2882, https://doi.org/10.5194/bg-20-2869-2023, https://doi.org/10.5194/bg-20-2869-2023, 2023
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We used random forest models and structural equation models to assess the relative importance of the present climate and paleoclimate as determinants of diversity and aboveground biomass. Results showed that paleoclimate changes and modern climate jointly determined contemporary biodiversity patterns, while community biomass was mainly affected by modern climate. These findings suggest that contemporary biodiversity patterns may be affected by processes at divergent temporal scales.
William Rupert Moore Flynn, Harry Jon Foord Owen, Stuart William David Grieve, and Emily Rebecca Lines
Biogeosciences, 20, 2769–2784, https://doi.org/10.5194/bg-20-2769-2023, https://doi.org/10.5194/bg-20-2769-2023, 2023
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Quantifying vegetation indices is crucial for ecosystem monitoring and modelling. Terrestrial laser scanning (TLS) has potential to accurately measure vegetation indices, but multiple methods exist, with little consensus on best practice. We compare three methods and extract wood-to-plant ratio, a metric used to correct for wood in leaf indices. We show corrective metrics vary with tree structure and variation among methods, highlighting the value of TLS data and importance of rigorous testing.
Haiyang Shi, Geping Luo, Olaf Hellwich, Alishir Kurban, Philippe De Maeyer, and Tim Van de Voorde
Biogeosciences, 20, 2727–2741, https://doi.org/10.5194/bg-20-2727-2023, https://doi.org/10.5194/bg-20-2727-2023, 2023
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In studies on the relationship between ecosystem functions and climate and plant traits, previously used data-driven methods such as multiple regression and random forest may be inadequate for representing causality due to limitations such as covariance between variables. Based on FLUXNET site data, we used a causal graphical model to revisit the control of climate and vegetation traits over ecosystem functions.
Josué Delgado-Balbuena, Henry W. Loescher, Carlos A. Aguirre-Gutiérrez, Teresa Alfaro-Reyna, Luis F. Pineda-Martínez, Rodrigo Vargas, and Tulio Arredondo
Biogeosciences, 20, 2369–2385, https://doi.org/10.5194/bg-20-2369-2023, https://doi.org/10.5194/bg-20-2369-2023, 2023
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In the semiarid grassland, an increase in soil moisture at shallow depths instantly enhances carbon release through respiration. In contrast, deeper soil water controls plant carbon uptake but with a delay of several days. Previous soil conditions, biological activity, and the size and timing of precipitation are factors that determine the amount of carbon released into the atmosphere. Thus, future changes in precipitation patterns could convert ecosystems from carbon sinks to carbon sources.
German Vargas Gutiérrez, Daniel Pérez-Aviles, Nanette Raczka, Damaris Pereira-Arias, Julián Tijerín-Triviño, L. David Pereira-Arias, David Medvigy, Bonnie G. Waring, Ember Morrisey, Edward Brzostek, and Jennifer S. Powers
Biogeosciences, 20, 2143–2160, https://doi.org/10.5194/bg-20-2143-2023, https://doi.org/10.5194/bg-20-2143-2023, 2023
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To study whether nutrient availability controls tropical dry forest responses to reductions in soil moisture, we established the first troughfall exclusion experiment in a tropical dry forest plantation system crossed with a fertilization scheme. We found that the effects of fertilization on net primary productivity are larger than the effects of a ~15 % reduction in soil moisture, although in many cases we observed an interaction between drought and nutrient additions, suggesting colimitation.
Alina Lucia Ludat and Simon Kübler
Biogeosciences, 20, 1991–2012, https://doi.org/10.5194/bg-20-1991-2023, https://doi.org/10.5194/bg-20-1991-2023, 2023
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Satellite-based analysis illustrates the impact of geological processes for the stability of the ecosystem in the Mara River basin (Kenya/Tanzania). Newly detected fault activity influences the course of river networks and modifies erosion–deposition patterns. Tectonic surface features and variations in rock chemistry lead to localized enhancement of clay and soil moisture values and seasonally stabilised vegetation growth patterns in this climatically vulnerable region.
Erica Jaakkola, Antje Gärtner, Anna Maria Jönsson, Karl Ljung, Per-Ola Olsson, and Thomas Holst
Biogeosciences, 20, 803–826, https://doi.org/10.5194/bg-20-803-2023, https://doi.org/10.5194/bg-20-803-2023, 2023
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Increased spruce bark beetle outbreaks were recently seen in Sweden. When Norway spruce trees are attacked, they increase their production of VOCs, attempting to kill the beetles. We provide new insights into how the Norway spruce act when infested and found the emitted volatiles to increase up to 700 times and saw a change in compound blend. We estimate that the 2020 bark beetle outbreak in Sweden could have increased the total monoterpene emissions from the forest by more than 10 %.
Georg Wohlfahrt, Albin Hammerle, Felix M. Spielmann, Florian Kitz, and Chuixiang Yi
Biogeosciences, 20, 589–596, https://doi.org/10.5194/bg-20-589-2023, https://doi.org/10.5194/bg-20-589-2023, 2023
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The trace gas carbonyl sulfide (COS), which is taken up by plant leaves in a process very similar to photosynthesis, is thought to be a promising proxy for the gross uptake of carbon dioxide by plants. Here we propose a new framework for estimating a key metric to that end, the so-called leaf relative uptake rate. The values we deduce by applying principles of plant optimality are considerably lower than published values and may help reduce the uncertainty of the global COS budget.
François Jonard, Andrew F. Feldman, Daniel J. Short Gianotti, and Dara Entekhabi
Biogeosciences, 19, 5575–5590, https://doi.org/10.5194/bg-19-5575-2022, https://doi.org/10.5194/bg-19-5575-2022, 2022
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We investigate the spatial and temporal patterns of light and water limitation in plant function at the ecosystem scale. Using satellite observations, we characterize the nonlinear relationships between sun-induced chlorophyll fluorescence (SIF) and water and light availability. This study highlights that soil moisture limitations on SIF are found primarily in drier environments, while light limitations are found in intermediately wet regions.
Nikolai Knapp, Sabine Attinger, and Andreas Huth
Biogeosciences, 19, 4929–4944, https://doi.org/10.5194/bg-19-4929-2022, https://doi.org/10.5194/bg-19-4929-2022, 2022
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The biomass of forests is determined by forest growth and mortality. These quantities can be estimated with different methods such as inventories, remote sensing and modeling. These methods are usually being applied at different spatial scales. The scales influence the obtained frequency distributions of biomass, growth and mortality. This study suggests how to transfer between scales, when using forest models of different complexity for a tropical forest.
Kai Chen, Kevin S. Burgess, Fangliang He, Xiang-Yun Yang, Lian-Ming Gao, and De-Zhu Li
Biogeosciences, 19, 4801–4810, https://doi.org/10.5194/bg-19-4801-2022, https://doi.org/10.5194/bg-19-4801-2022, 2022
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Why does plants' distributional range size vary enormously? This study provides evidence that seed mass, intraspecific seed mass variation, seed dispersal mode and phylogeny contribute to explaining species distribution variation on a geographic scale. Our study clearly shows the importance of including seed life-history traits in modeling and predicting the impact of climate change on species distribution of seed plants.
Ying Ying Chen, Huan Yang, Gen Sheng Bao, Xiao Pan Pang, and Zheng Gang Guo
Biogeosciences, 19, 4521–4532, https://doi.org/10.5194/bg-19-4521-2022, https://doi.org/10.5194/bg-19-4521-2022, 2022
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Investigating the effect of the presence of plateau pikas on ecosystem services of alpine meadows is helpful to understand the role of the presence of small mammalian herbivores in grasslands. The results of this study showed that the presence of plateau pikas led to higher biodiversity conservation, soil nitrogen and phosphorus maintenance, and carbon sequestration of alpine meadows, whereas it led to lower forage available to livestock and water conservation of alpine meadows.
Clement Jean Frédéric Delcourt and Sander Veraverbeke
Biogeosciences, 19, 4499–4520, https://doi.org/10.5194/bg-19-4499-2022, https://doi.org/10.5194/bg-19-4499-2022, 2022
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This study provides new equations that can be used to estimate aboveground tree biomass in larch-dominated forests of northeast Siberia. Applying these equations to 53 forest stands in the Republic of Sakha (Russia) resulted in significantly larger biomass stocks than when using existing equations. The data presented in this work can help refine biomass estimates in Siberian boreal forests. This is essential to assess changes in boreal vegetation and carbon dynamics.
Iris Johanna Aalto, Eduardo Eiji Maeda, Janne Heiskanen, Eljas Kullervo Aalto, and Petri Kauko Emil Pellikka
Biogeosciences, 19, 4227–4247, https://doi.org/10.5194/bg-19-4227-2022, https://doi.org/10.5194/bg-19-4227-2022, 2022
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Tree canopies are strong moderators of understory climatic conditions. In tropical areas, trees cool down the microclimates. Using remote sensing and field measurements we show how even intermediate canopy cover and agroforestry trees contributed to buffering the hottest temperatures in Kenya. The cooling effect was the greatest during hot days and in lowland areas, where the ambient temperatures were high. Adopting agroforestry practices in the area could assist in mitigating climate change.
Cited articles
Allison, P. A. and Pye, K.: Early diagenetic mineralization and fossil
Preservation in modern carbonate concretions, Palaios, 9, 561–575,
https://doi.org/10.2307/3515128, 1994.
Astorga, A., Oksanen, J., Luoto, M., Soininen, J., Virtanen, R., and Muotka,
T.: Distance decay of similarity in freshwater communities: Do macro- and
microorganisms follow the same rules?, Global Ecol. Biogeogr., 21, 365–375,
https://doi.org/10.1111/j.1466-8238.2011.00681.x, 2012.
Beal, E. J., House, C. H., and Orphan, V. J.: Manganese- and iron-dependent
marine methane oxidation, Science, 325, 184–187,
https://doi.org/10.1126/science.1169984, 2009.
Bolyen, E., Rideout, J. R., Dillon, M. R., et al.: Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2, Nat. Biotechnol., 37, 852–857, https://doi.org/10.1038/s41587-019-0209-9, 2019.
Borrel, G., Adam, P. S., McKay, L. J., Chen, L.-X., Sierra-García, I.
N., Sieber, C. M. K., Letourneur, Q., Ghozlane, A., Andersen, G. L., Li,
W.-J., Hallam, S. J., Muyzer, G., Oliveira, V. M. de, Inskeep, W. P.,
Banfield, J. F., and Gribaldo, S.: Wide diversity of methane and short-chain
alkane metabolisms in uncultured archaea, Nat. Microbiol., 4, 603–613,
https://doi.org/10.1038/s41564-019-0363-3, 2019.
Bray, J. R. and Curtis, J. T.: An ordination of the upland forest
communities of southern Wisconsin, Ecol. Monogr., 27, 325–349, 1957.
Canfield, D. E.: Reactive iron in marine sediments, Geochim. Cosmochim. Ac.,
53, 619–632, https://doi.org/10.1016/0016-7037(89)90005-7, 1989.
Chang, Y.-H., Cheng, T.-W., Lai, W.-J., Tsai, W.-Y., Sun, C.-H., Lin, L.-H.,
and Wang, P.-L.: Microbial methane cycling in a terrestrial mud volcano in
eastern Taiwan, Environ. Microbiol., 14, 895–908,
https://doi.org/10.1111/j.1462-2920.2011.02658.x, 2012.
Chen, N.-C., Yang, T. F., Hong, W.-L., Yu, T.-L., Lin, I.-T., Wang, P.-L.,
Lin, S., Su, C.-C., Shen, C.-C., Wang, Y., and Lin, L.-H.: Discharge of
deeply rooted fluids from submarine mud volcanism in the Taiwan accretionary
prism, Sci. Rep.-UK, 10, 381, https://doi.org/10.1038/s41598-019-57250-9, 2020.
Cheng, T.-W., Chang, Y.-H., Tang, S.-L., Tseng, C.-H., Chiang, P.-W., Chang,
K.-T., Sun, C.-H., Chen, Y.-G., Kuo, H.-C., Wang, C.-H., Chu, P.-H., Song,
S.-R., Wang, P.-L., and Lin, L.-H.: Metabolic stratification driven by
surface and subsurface interactions in a terrestrial mud volcano, ISME J.,
6, 2280–2290, https://doi.org/10.1038/ismej.2012.61, 2012.
Chiu, Y.-P.: Microbial community structure and methane cycling in mud
volcanoes of Sicily, Italy, MS thesis, National Taiwan University, Taiwan,
137 pp., https://hdl.handle.net/11296/9j6jqr (last access: 5 February 2022), 2015.
Claypool, G. E. and Kvenvolden, K. A.: Methane and other hydrocarbon gases
in marine sediment, Annu. Rev. Earth Pl. Sc., 11, 299–327,
https://doi.org/10.1146/annurev.ea.11.050183.001503, 1983.
Comte, J., Monier, A., Crevecoeur, S., Lovejoy, C., and Vincent, W. F.:
Microbial biogeography of permafrost thaw ponds across the changing northern
landscape, Ecography, 39, 609–618, https://doi.org/10.1111/ecog.01667, 2016.
Condit, R., Pitman, N., Leigh, E. G., Chave, J., Terborgh, J., Foster, R.
B., Núñez, P., Aguilar, S., Valencia, R., Villa, G., Muller-Landau,
H. C., Losos, E., and Hubbell, S. P.: Beta-diversity in tropical forest
trees, Science, 295, 666–669, https://doi.org/10.1126/science.1066854,
2002.
DasSarma, S. and DasSarma, P.: Halophiles, in: eLS, John Wiley & Sons, Ltd, 1–13,
https://doi.org/10.1002/9780470015902.a0000394.pub4, 2001.
Dice, L. R.: Measures of the amount of ecologic association between species,
Ecology, 26, 297–302, https://doi.org/10.2307/1932409, 1945.
Dimitrov, L. I.: Mud volcanoes – the most important pathway for degassing
deeply buried sediments, Earth-Sci. Rev., 59, 49–76, 2002.
Etiope, G., Ciotoli, G., Schwietzke, S., and Schoell, M.: Gridded maps of geological methane emissions and their isotopic signature, Earth Syst. Sci. Data, 11, 1–22, https://doi.org/10.5194/essd-11-1-2019, 2019.
Ettwig, K. F., Zhu, B., Speth, D., Keltjens, J. T., Jetten, M. S. M., and
Kartal, B.: Archaea catalyze iron-dependent anaerobic oxidation of methane,
P. Natl. Acad. Sci. USA, 113, 12792–12796, https://doi.org/10.1073/pnas.1609534113, 2016.
Grant, W. D.: Life at low water activity, Philos. T. R. Soc. Lon. B, 359, 1249–1267,
https://doi.org/10.1098/rstb.2004.1502, 2004.
Halevy, I., Peters, S. E., and Fischer, W. W.: Sulfate Burial Constraints on
the Phanerozoic Sulfur Cycle, Science, 337, 331–334,
https://doi.org/10.1126/science.1220224, 2012.
Hanson, C. A., Fuhrman, J. A., Horner-Devine, M. C., and Martiny, J. B. H.:
Beyond biogeographic patterns: processes shaping the microbial landscape,
Nat. Rev. Microbiol, 10, 497–506, https://doi.org/10.1038/nrmicro2795, 2012.
Haroon, M. F., Hu, S., Shi, Y., Imelfort, M., Keller, J., Hugenholtz, P.,
Yuan, Z., and Tyson, G. W.: Anaerobic oxidation of methane coupled to
nitrate reduction in a novel archaeal lineage, Nature, 500, 567–570, 2013.
Hill, M. O.: Diversity and evenness: a unifying notation and its
consequences, Ecology, 54, 427–432, 1973.
Hutchison, D. W. and Templeton, A. R.: Correlation of pairwise genetic and
geographic distance measures: inferring the relative influences of gene flow
and drift on the distribution of genetic variability, Evolution, 53,
1898–1914, 1999.
Inagaki, F., Nunoura, T., Nakagawa, S., Teske, A., Lever, M., Lauer, A.,
Suzuki, M., Takai, K., Delwiche, M., Colwell, F. S., Nealson, K. H.,
Horikoshi, K., D'Hondt, S., and Jørgensen, B. B.: Biogeographical
distribution and diversity of microbes in methane hydrate-bearing deep
marine sediments on the Pacific Ocean Margin, P. Natl. Acad. Sci. USA, 103, 2815–2820,
https://doi.org/10.1073/pnas.0511033103, 2006.
Jørgensen, S. L., Hannisdal, B., Lanzen, A., Baumberger, T., Flesland,
K., Fonseca, R., Ovreås, L., Steen, I. H., Thorseth, I. H., Pedersen, R.
B., and Schleper, C.: Correlating microbial community profiles with
geochemical data in highly stratified sediments from the Arctic Mid-Ocean
Ridge, P. Natl. Acad. Sci. USA, 109, E2846–E2855, https://doi.org/10.1073/pnas.1207574109, 2012.
Kahle, D. and Wickham, H.: ggmap: Spatial visualization with ggplot2, R J.,
5, 144–161, https://doi.org/10.32614/rj-2013-014, 2013.
Knittel, K. and Boetius, A.: Anaerobic oxidation of methane: progress with
an unknown process, Annu. Rev. Microbiol., 63, 311–334,
https://doi.org/10.1146/annurev.micro.61.080706.093130, 2009.
Kuever, J.: The family Desulfobulbaceae, in: The Prokaryotes, edited by: Rosenberg, E., DeLong, E., Lory, S., Stackebrandt E., and Thompson, F., Springer, Berlin, Heidelberg, Germany, 75–86, https://doi.org/10.1007/978-3-642-39044-9_270, 2014.
Lin, Y.-T., Tu, T.-H., Wei, C.-L., Rumble, D., Lin, L.-H., and Wang, P.-L.:
Steep redox gradient and biogeochemical cycling driven by deeply sourced
fluids and gases in a terrestrial mud volcano, FEMS Microbiol. Ecol., 94,
3796, https://doi.org/10.1093/femsec/fiy171, 2018.
Liu, X., Li, M., Castelle, C. J., Probst, A. J., Zhou, Z., Pan, J., Liu, Y.,
Banfield, J. F., and Gu, J.-D.: Insights into the ecology, evolution, and
metabolism of the widespread Woesearchaeotal lineages, Microbiome, 6, 102,
https://doi.org/10.1186/s40168-018-0488-2, 2018.
Lomolino, M. V., Riddle, B. R., and Brown, J. H. (Eds.): Biogeography, 3rd Edn., Sinauer
Associates, Inc., ISBN 10-08-7893-486-3, 2006.
Martiny, J. B. H., Eisen, J. A., Penn, K., Allison, S. D., and
Horner-Devine, M. C.: Drivers of bacterial beta-diversity depend on spatial
scale, P. Natl. Acad. Sci. USA, 108, 7850–7854, https://doi.org/10.1073/pnas.1016308108,
2011.
Mazzini, A. and Etiope, G.: Mud volcanism: An updated review, Earth-Sci.
Rev., 168, 81–112, https://doi.org/10.1016/j.earscirev.2017.03.001, 2017.
McGenity, T. J.: Halophilic hydrocarbon degraders, in: Handbook of hydrocarbon and lipid microbiology, edited by: Timmis, K. N., Springer, Berlin, Heidelberg, Germany, 1939–1951, https://doi.org/10.1007/978-3-540-77587-4_142, 2010.
McIlroy, S. J. and Nielsen, P. H.: The family Saprospiraceae, in: The Prokaryotes, edited by: Rosenberg, E., DeLong, E. F., Lory, S., Stackebrandt, E., and Thompson F., Springer, Berlin, Heidelberg, Germany, 863–889, https://doi.org/10.1007/978-3-642-38954-2_138, 2014.
Mori, J. F., Chen, L.-X., Jessen, G. L., Rudderham, S. B., McBeth, J. M.,
Lindsay, M. B. J., Slater, G. F., Banfield, J. F., and Warren, L. A.:
Putative mixotrophic nitrifying-denitrifying Gammaproteobacteria implicated
in nitrogen cycling within the ammonia/oxygen transition zone of an oil
sands pit lake, Front. Microbiol., 10, 2435,
https://doi.org/10.3389/fmicb.2019.02435, 2019.
Müller, A. L., Rezende, J. R. de, Hubert, C. R. J., Kjeldsen, K. U.,
Lagkouvardos, I., Berry, D., Jørgensen, B. B., and Loy, A.: Endospores of
thermophilic bacteria as tracers of microbial dispersal by ocean currents.,
ISME J., 8, 1153–1165, https://doi.org/10.1038/ismej.2013.225, 2014.
Nekola, J. C. and White, P. S.: The distance decay of similarity in
biogeography and ecology, J. Biogeogr., 26, 867–878, 1999.
Ning, D., Deng, Y., Tiedje, J. M., and Zhou, J.: A general framework for
quantitatively assessing ecological stochasticity, P. Natl. Acad. Sci. USA, 116, 16892–16898,
https://doi.org/10.1073/pnas.1904623116, 2019.
Or, D., Smets, B. F., Wraith, J. M., Dechesne, A., and Friedman, S. P.:
Physical constraints affecting bacterial habitats and activity in
unsaturated porous media – a review, Adv. Water Resour., 30, 1505–1527,
https://doi.org/10.1016/j.advwatres.2006.05.025, 2007.
Orcutt, B. N., Sylvan, J. B., Knab, N. J., and Edwards, K. J.: Microbial
ecology of the dark ocean above, at, and below the seafloor, Microbiol.
Mol. Biol. R., 75, 361–422, https://doi.org/10.1128/mmbr.00039-10, 2011.
Oren, A.: The family Halobacteriaceae, in: The Prokaryotes, edited by: Rosenberg, E., DeLong, E. F., Lory, S., Stackebrandt, E., and Thompson, F., Springer, Berlin, Heidelberg, Germany, 41–121, https://doi.org/10.1007/978-3-642-38954-2_313, 2014.
Orphan, V. J., Hinrichs, K.-U., Ussler, W., Paull, C. K., Taylor, L. T.,
Sylva, S. P., Hayes, J. M., and DeLong, E. F.: Comparative analysis of
methane-oxidizing archaea and sulfate-reducing bacteria in anoxic marine
sediments, Appl. Environ. Microb., 67, 1922–1934, 2001.
Paulson, J. N., Stine, O. C., Bravo, H. C., and Pop, M.: Differential
abundance analysis for microbial marker-gene surveys, Nat. Methods, 10,
1200–1222, https://doi.org/10.1038/nmeth.2658, 2013.
Petro, C., Starnawski, P., Schramm, A., and Kjeldsen, K. U.: Microbial
community assembly in marine sediments, Aquat. Microb. Ecol., 79, 177–195,
https://doi.org/10.3354/ame01826, 2017.
Power, J. F., Carere, C. R., Lee, C. K., Wakerley, G. L. J., Evans, D. W.,
Button, M., White, D., Climo, M. D., Hinze, A. M., Morgan, X. C., McDonald,
I. R., Cary, S. C., and Stott, M. B.: Microbial biogeography of 925
geothermal springs in New Zealand, Nat. Commun., 9, 3152,
https://doi.org/10.1038/s41467-018-05020-y, 2018.
Ranjard, L., Dequiedt, S., Prévost-Bouré, N. C., Thioulouse, J.,
Saby, N. P. A., Lelievre, M., Maron, P. A., Morin, F. E. R., Bispo, A.,
Jolivet, C., Arrouays, D., and Lemanceau, P.: Turnover of soil bacterial
diversity driven by wide-scale environmental heterogeneity, Nat. Commun.,
4, 1434, https://doi.org/10.1038/ncomms2431, 2013.
Ruff, S. E., Biddle, J. F., Teske, A. P., Knittel, K., Boetius, A., and
Ramette, A.: Global dispersion and local diversification of the methane seep
microbiome, P. Natl. Acad. Sci. USA, 112, 4015–4020, https://doi.org/10.1073/pnas.1421865112,
2015.
Scheller, S., Yu, H., Chadwick, G. L., McGlynn, S. E., and Orphan, V. J.:
Artificial electron acceptors decouple archaeal methane oxidation from
sulfate reduction, Science, 351, 703–707,
https://doi.org/10.1126/science.aad7154, 2016.
Schloss, P. D., Westcott, S. L., Ryabin, T., Hall, J. R., Hartmann, M.,
Hollister, E. B., Lesniewski, R. A., Oakley, B. B., Parks, D. H., and
Robinson, C. J.: Introducing mothur: open-source, platform-independent,
community-supported software for describing and comparing microbial
communities, Appl. Environ. Microb., 75, 7537–7541, 2009.
Slatkin, M.: Isolation by distance in eqilibrium and non-equilibrium
populations, Evolution, 47, 264–279,
https://doi.org/10.1111/j.1558-5646.1993.tb01215.x, 1993.
Sorokin, D. Y., Merkel, A. Y., and Muyzer, G.: Thiohalorhabdus, in Bergey's manual of systematics of archaea and bacteria (1–6), edited by: Trujillo, M. E., Dedysh, S., DeVos, P., Hedlund, B., Kämpfer, P., Rainey, F. A., and Whitman, W. B., John Wiley & Sons, New York, New Jersey, United States, https://doi.org/10.1002/9781118960608.gbm01940, 2020.
Tu, T.-H., Wu, L.-W., Lin, Y.-S., Imachi, H., Lin, L.-H., and Wang, P.-L.:
Microbial community composition and functional capacity in a terrestrial
ferruginous, sulfate-depleted mud volcano, Front. Microbiol., 8, 2137,
https://doi.org/10.3389/fmicb.2017.02137, 2017.
Tu, T.-H., Chen, L.-L., Chiu, Y.-P., Lin, L.-H., Wu, L.-W., Italiano, F., Shyu, J. B. H., Raisossadat, S. N., and Wang, P.-L.: The biogeographic pattern of microbial communities inhabiting
terrestrial mud volcanoes across the Eurasian continent, Zenodo [data set, code], https://doi.org/10.5281/zenodo.5973870, 2022a.
Tu, T.-H., Chen, L.-L., Chiu, Y.-P., Lin, L.-H., Wu, L.-W., Italiano, F., Shyu, J. B. H., Raisossadat, S. N., and Wang, P.-L.: The biogeographic pattern of microbial communities inhabiting terrestrial mud volcanoes across the Eurasian continent, NCBI [data set], https://www.ncbi.nlm.nih.gov/bioproject/PRJNA560274, last access: 8 February 2022b.
Wang, P.-L., Chiu, Y.-P., Cheng, T.-W., Chang, Y.-H., Tu, W.-X., and Lin,
L.-H.: Spatial variations of community structures and methane cycling across
a transect of Lei-Gong-Hou mud volcanoes in eastern Taiwan, Front.
Microbiol., 5, 2946, https://doi.org/10.3389/fmicb.2014.00121, 2014.
Weber, L., DeForce, E., and Apprill, A.: Optimization of DNA extraction for
advancing coral microbiota investigations, Microbiome, 5, 18,
https://doi.org/10.1186/s40168-017-0229-y, 2017.
Whiticar, M. J.: Carbon and hydrogen isotope systematics of bacterial
formation and oxidation of methane, Chem. Geol., 161, 291–314,
https://doi.org/10.1016/s0009-2541(99)00092-3, 1999.
Yamada, T. and Sekiguchi, Y.: Cultivation of Uncultured Chloroflexi
Subphyla: Significance and Ecophysiology of Formerly Uncultured Chloroflexi
“Subphylum I” with Natural and Biotechnological Relevance, Microbes
Environment, 24, 205–216, https://doi.org/10.1264/jsme2.me09151s, 2009.
Yao, W. and Millero, F. J.: Oxidation of hydrogen sulfide by hydrous Fe(III)
oxides in seawater, Mar. Chem., 52, 1–16,
https://doi.org/10.1016/0304-4203(95)00072-0, 1996.
Zheng, G., Xu, S., Liang, M., Dermatas, D., and Xu, X.: Transformations of
organic carbon and its impact on lead weathering in shooting range soils,
Environ. Earth Sci., 64, 2241–2246,
https://doi.org/10.1007/s12665-011-1052-6, 2011.
Zinger, L., Boetius, A., and Ramette, A.: Bacterial taxa-area and
distance-decay relationships in marine environments, Mol. Ecol., 23,
954–964, https://doi.org/10.1111/mec.12640, 2014.
Short summary
This investigation of microbial biogeography in terrestrial mud volcanoes (MVs) covers study sites over a geographic distance of up to 10 000 km across the Eurasian continent. It compares microbial community compositions' coupling with geochemical data across a 3D space. We demonstrate that stochastic processes operating at continental scales and environmental filtering at local scales drive the formation of patchy habitats and the pattern of diversification for microbes in terrestrial MVs.
This investigation of microbial biogeography in terrestrial mud volcanoes (MVs) covers study...
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