Resistance and Recovery of Methane-Oxidizing Communities Depends on Stress Regime and History; A Microcosm Study

Kruistum, Henri van; Bodelier, Paul L. E.; Ho, Adrian; Meima-Franke, Marion; Veraart, Annelies J.

doi:10.3389/fmicb.2018.01714

Cited by 30 publications

(11 citation statements)

References 70 publications

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“…In conclusion, a history of drying-rewetting affected the soil microbiome composition and its responses to future fluctuations. Soil microorganisms that have experienced previous drying-rewetting cycles may impact the community response to future perturbations (e.g., [95,96]). In addition, changes in soil microbiomes following drought and freezing may affect soil processes and ecosystem services in the future.…”

Section: Discussionmentioning

confidence: 99%

Soil microbial legacies differ following drying-rewetting and freezing-thawing cycles

et al. 2021

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Climate change alters frequencies and intensities of soil drying-rewetting and freezing-thawing cycles. These fluctuations affect soil water availability, a crucial driver of soil microbial activity. While these fluctuations are leaving imprints on soil microbiome structures, the question remains if the legacy of one type of weather fluctuation (e.g., drying-rewetting) affects the community response to the other (e.g., freezing-thawing). As both phenomenons give similar water availability fluctuations, we hypothesized that freezing-thawing and drying-rewetting cycles have similar effects on the soil microbiome. We tested this hypothesis by establishing targeted microcosm experiments. We created a legacy by exposing soil samples to a freezing-thawing or drying-rewetting cycle (phase 1), followed by an additional drying-rewetting or freezing-thawing cycle (phase 2). We measured soil respiration and analyzed soil microbiome structures. Across experiments, larger CO2 pulses and changes in microbiome structures were observed after rewetting than thawing. Drying-rewetting legacy affected the microbiome and CO2 emissions upon the following freezing-thawing cycle. Conversely, freezing-thawing legacy did not affect the microbial response to the drying-rewetting cycle. Our results suggest that drying-rewetting cycles have stronger effects on soil microbial communities and CO2 production than freezing-thawing cycles and that this pattern is mediated by sustained changes in soil microbiome structures.

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Section: Discussionmentioning

confidence: 99%

Soil microbial legacies differ following drying-rewetting and freezing-thawing cycles

et al. 2021

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“…We used the abundance of the functional marker genes for methanogenesis ( mrcA , encoding for methyl coenzyme‐M reductase) and aerobic methane oxidation (pmoA , particulate methane monooxygenase), obtained by quantitative polymerase chain reaction (qPCR), as a proxy of the abundance of the respective methanogenic archaea and MOB. Although DNA‐based qPCR data do not reveal activity of the microbiome, these metrics are widely used to reliable compare relative methanogen and MOB abundance between experimental treatments (Hernández et al., 2017; van Kruistum et al., 2018).…”

Section: Methodsmentioning

confidence: 99%

Trophic and non‐trophic effects of fish and macroinvertebrates on carbon emissions

et al. 2021

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Shallow aquatic systems exchange large amounts of carbon dioxide (CO2) and methane (CH4) with the atmosphere. The production and consumption of both gases is determined by the interplay between abiotic (such as oxygen availability) and biotic (such as community structure and trophic interactions) factors. Fish communities play a key role in driving carbon fluxes in benthic and pelagic habitats. Previous studies indicate that trophic interactions in the water column, as well as in the benthic zone can strongly affect aquatic CO2 and CH4 net emissions. However, the overall effect of fish on both pelagic and benthic processes remains largely unresolved, representing the main focus of our experimental study. We evaluated the effects of benthic and pelagic fish on zooplankton and macroinvertebrates; on CO2 and CH4 diffusion and ebullition, as well as on CH4 production and oxidation, using a full‐factorial aquarium experiment. We compared five treatments: absence of fish (control); permanent presence of benthivorous fish (common carps, benthic) or zooplanktivorous fish (sticklebacks, pelagic); and intermittent presence of carps or sticklebacks. We found trophic and non‐trophic effects of fish on CO2 and CH4 emissions. Intermittent presence of benthivorous fish promoted a short‐term increase in CH4 ebullition, probably due to the physical disturbance of the sediment. As CH4 ebullition was the major contributor to the total greenhouse gas (GHG) emissions, incidental bioturbation by benthivorous fish was a key factor triggering total carbon emissions from our aquariums. Trophic effects impacted GHG dynamics in different ways in the water column and the sediment. Fish predation on zooplankton led to a top‐down trophic cascade effect on methane‐oxidising bacteria. This effect was, however, not strong enough as to substantially alter CH4 diffusion rates. Top‐down trophic effects of zooplanktivorous and benthivorous fish on benthic macroinvertebrates, however, were more pronounced. Continuous fish predation reduced benthic macroinvertebrates biomass decreasing the oxygen penetration depth, which in turn strongly reduced water–atmosphere CO2 fluxes while it increased CH4 emission. Our work shows that fish can strongly impact GHG production and consumption processes as well as emission pathways, through trophic and non‐trophic effects. Furthermore, our findings suggest their impact on benthic organisms is an important factor regulating carbon (CO2 and CH4) emissions.

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“…Drought-adapted microbes do not only improve the drought tolerance of their host plant, but also of other plants ( Rodriguez et al, 2008 ; Marulanda et al, 2009 ). Drought exposed microorganisms can also recover faster to other stresses ( van Kruistum et al, 2018 ). However, the question remains if drought-tolerant microorganisms suppress pathogens.…”

Section: Future Research To Improve Agricultural Adaptation To Climatmentioning

confidence: 99%

Strategies to Maintain Natural Biocontrol of Soil-Borne Crop Diseases During Severe Drought and Rainfall Events

Meisner

Boer

2018

Front. Microbiol.

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In many parts of the world, agricultural ecosystems are increasingly exposed to severe drought, and rainfall events due to climate changes. This coincides with a higher vulnerability of crops to soil-borne diseases, which is mostly ascribed to decreased resistance to pathogen attacks. However, loss of the natural capacity of soil microbes to suppress soil-borne plant pathogens may also contribute to increased disease outbreaks. In this perspectives paper, we will discuss the effect of extreme weather events on pathogen-antagonist interactions during drought and rainfall events and upon recovery. We will focus on diseases caused by root-infecting fungi and oomycetes. In addition, we will explore factors that affect restoration of the balance between pathogens and other soil microbes. Finally, we will indicate potential future avenues to improve the resistance and/or recovery of natural biocontrol during, and after water stresses. As such, our perspective paper will highlight a knowledge gap that needs to be bridged to adapt agricultural ecosystems to changing climate scenarios.

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Resistance and Recovery of Methane-Oxidizing Communities Depends on Stress Regime and History; A Microcosm Study

Cited by 30 publications

References 70 publications

Soil microbial legacies differ following drying-rewetting and freezing-thawing cycles

Soil microbial legacies differ following drying-rewetting and freezing-thawing cycles

Trophic and non‐trophic effects of fish and macroinvertebrates on carbon emissions

Strategies to Maintain Natural Biocontrol of Soil-Borne Crop Diseases During Severe Drought and Rainfall Events

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