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Peatlands are climate critical carbon (C) reservoirs that could become a C source under continued warming. A strong relationship between plant tissue chemistry and the soil organic matter (SOM) that fuels C gas emissions is inferred, but rarely examined at the molecular level. Here we compared Fourier transform infrared (FT-IR) spectroscopy measurements of solid phase functionalities in plants and SOM to ultra-high-resolution mass spectrometric analyses of plant and SOM water extracts across a palsa-bog-fen thaw and moisture gradient in an Arctic peatland. From these analyses we calculated the C oxidation state (NOSC), a measure which can be used to assess organic matter quality. Palsa plant extracts had the highest NOSC, indicating high quality, whereas extracts of Sphagnum, which dominated the bog, had the lowest NOSC. The percentage of plant compounds that are less bioavailable and accumulate in the peat, increases from palsa (25%) to fen (41%) to bog (47%), reflecting the pattern of percent Sphagnum cover. The pattern of NOSC in the plant extracts was consistent with the high number of consumed compounds in the palsa and low number of consumed compounds in the bog. However, in the FT-IR analysis of the solid phase bog peat, carbohydrate content was high implying high quality SOM. We explain this discrepancy as the result of low solubilization of bog SOM facilitated by the low pH in the bog which makes the solid phase carbohydrates less available to microbial decomposition. Plant-associated condensed aromatics, tannins, and lignin-like compounds declined in the unsaturated palsa peat indicating decomposition, but lignin-like compounds accumulated in the bog and fen peat where decomposition was presumably inhibited by the anaerobic conditions. A molecular-level comparison of the aboveground C sources and peat SOM demonstrates that climate-associated vegetation shifts in peatlands are important controls on the mechanisms underlying changing C gas emissions.

Permafrost thaw is a major potential feedback source to climate change as it can drive the increased release of greenhouse gases carbon dioxide (CO2 ) and methane (CH4 ). This carbon release from the decomposition of thawing soil organic material can be mitigated by increased net primary productivity (NPP) caused by warming, increasing atmospheric CO2 , and plant community transition. However, the net effect on C storage also depends on how these plant community changes alter plant litter quantity, quality, and decomposition rates. Predicting decomposition rates based on litter quality remains challenging, but a promising new way forward is to incorporate measures of the energetic favorability to soil microbes of plant biomass decomposition. We asked how the variation in one such measure, the nominal oxidation state of carbon (NOSC), interacts with changing quantities of plant material inputs to influence the net C balance of a thawing permafrost peatland. We found: (1) Plant productivity (NPP) increased post-thaw, but instead of contributing to increased standing biomass, it increased plant biomass turnover via increased litter inputs to soil; (2) Plant litter thermodynamic favorability (NOSC) and decomposition rate both increased post-thaw, despite limited changes in bulk C:N ratios; (3) these increases caused the higher NPP to cycle more rapidly through both plants and soil, contributing to higher CO2 and CH4  fluxes from decomposition. Thus, the increased C-storage expected from higher productivity was limited and the high global warming potential of CH4 contributed a net positive warming effect. Although post-thaw peatlands are currently C sinks due to high NPP offsetting high CO2 release, this status is very sensitive to the plant community's litter input rate and quality. Integration of novel bioavailability metrics based on litter chemistry, including NOSC, into studies of ecosystem dynamics, is needed to improve the understanding of controls on arctic C stocks under continued ecosystem transition.

Northern post-glacial lakes are significant, increasing sources of atmospheric carbon through ebullition (bubbling) of microbially-produced methane (CH4) from sediments. Ebullitive CH4 flux correlates strongly with temperature, reflecting that solar radiation drives emissions. However, here we show that the slope of the temperature-CH4 flux relationship differs spatially across two post-glacial lakes in Sweden. We compared these CH4 emission patterns with sediment microbial (metagenomic and amplicon), isotopic, and geochemical data. The temperature-associated increase in CH4 emissions was greater in lake middles-where methanogens were more abundant-than edges, and sediment communities were distinct between edges and middles. Microbial abundances, including those of CH4-cycling microorganisms and syntrophs, were predictive of porewater CH4 concentrations. Results suggest that deeper lake regions, which currently emit less CH4 than shallower edges, could add substantially to CH4 emissions in a warmer Arctic and that CH4 emission predictions may be improved by accounting for spatial variations in sediment microbiota.

In the current era of rapid climate change, accurate characterization of climate-relevant gas dynamics-namely production, consumption, and net emissions-is required for all biomes, especially those ecosystems most susceptible to the impact of change. Marine environments include regions that act as net sources or sinks for numerous climateactive trace gases including methane (CH4) and nitrous oxide (N2O). The temporal and spatial distributions of CH4 and N2O are controlled by the interaction of complex biogeochemical and physical processes. To evaluate and quantify how these mechanisms affect marine CH4 and N2O cycling requires a combination of traditional scientific disciplines including oceanography, microbiology, and numerical modeling. Fundamental to these efforts is ensuring that the datasets produced by independent scientists are comparable and interoperable. Equally critical is transparent communication within the research community about the technical improvements required to increase our collective understanding of marine CH4 and N2O. A workshop sponsored by Ocean Carbon and Biogeochemistry (OCB) was organized to enhance dialogue and collaborations pertaining to marine CH4 and N2O. Here, we summarize the outcomes from the workshop to describe the challenges and opportunities for near-future CH4 and N2O research in the marine environment.

Methane (CH4) emissions from wetlands are likely increasing and important in global climate change assessments. However, contemporary terrestrial biogeochemical model predictions of CH4 emissions are very uncertain, at least in part due to prescribed temperature sensitivity of CH4 production and emission. While statistically consistent apparent CH4 emission temperature dependencies have been inferred from meta-Analyses across microbial to ecosystem scales, year-round ecosystem-scale observations have contradicted that finding. Here, we show that apparent CH4 emission temperature dependencies inferred from year-round chamber measurements exhibit substantial intraseasonal variability, suggesting that using static temperature relations to predict CH4 emissions is mechanistically flawed. Our model results indicate that such intra-seasonal variability is driven by substrate-mediated microbial and abiotic interactions: seasonal cycles in substrate availability favors CH4 production later in the season, leading to hysteretic temperature sensitivity of CH4 production and emission. Our findings demonstrate the uncertainty of inferring CH4 emission or production rates from temperature alone and highlight the need to represent microbial and abiotic interactions in wetland biogeochemical models.

Modern microbial and ecosystem sciences require diverse interdisciplinary teams that are often challenged in “speaking” to one another due to different languages and data product types. Here we introduce the IsoGenie Database (IsoGenieDB; https://isogenie-db.asc.Ohio-state.edu/), a de novo developed data management and exploration platform, as a solution to this challenge of accurately representing and integrating heterogenous environmental and microbial data across ecosystem scales. The IsoGenieDB is a public and private data infrastructure designed to store and query data generated by the IsoGenie Project, a ~10 year DOE-funded project focused on discovering ecosystem climate feedbacks in a thawing permafrost landscape. The IsoGenieDB provides (i) a platform for IsoGenie Project members to explore the project's interdisciplinary datasets across scales through the inherent relationships among data entities, (ii) a framework to consolidate and harmonize the datasets needed by the team's modelers, and (iii) a public venue that leverages the same spatially explicit, disciplinarily integrated data structure to share published datasets. The IsoGenieDB is also being expanded to cover the NASA-funded Archaea to Atmosphere (A2A) project, which scales the findings of IsoGenie to a broader suite of Arctic peatlands, via the umbrella A2A Database (A2A-DB). The IsoGenieDB's expandability and flexible architecture allow it to serve as an example ecosystems database.

Projected 21st century changes in high-latitude climate are expected to have significant impacts on permafrost thaw, which could cause substantial increases in emissions to the atmosphere of carbon dioxide (CO2) and methane (CH4, which has a global warming potential 28 times larger than CO2 over a 100-year horizon). However, predicted CH4 emission rates are very uncertain due to difficulties in modeling complex interactions among hydrological, thermal, biogeochemical, and plant processes. Methanogenic production pathways (i.e., acetoclastic [AM] and hydrogenotrophic [HM]) and the magnitude of CH4 emissions may both change as permafrost thaws, but a mechanistic analysis of controls on such shifts in CH4 dynamics is lacking. In this study, we reproduced observed shifts in CH4 emissions and production pathways with a comprehensive biogeochemical model (ecosys) at the Stordalen Mire in subarctic Sweden. Our results demonstrate that soil temperature changes differently affect AM and HM substrate availability, which regulates magnitudes of AM, HM, and thereby net CH4 emissions. We predict very large landscape-scale, vertical, and temporal variations in the modeled HM fraction, highlighting that measurement strategies for metrics that compare CH4 production pathways could benefit from model informed scale of temporal and spatial variance. Finally, our findings suggest that the warming and wetting trends projected in northern peatlands could enhance peatland AM fraction and CH4 emissions even without further permafrost degradation.

Permafrost peatlands store large amounts of carbon potentially vulnerable to decomposition. However, the fate of that carbon in a changing climate remains uncertain in models due to complex interactions among hydrological, biogeochemical, microbial, and plant processes. In this study, we estimated effects of climate forcing biases present in global climate reanalysis products on carbon cycle predictions at a thawing permafrost peatland in subarctic Sweden. The analysis was conducted with a comprehensive biogeochemical model (ecosys) across a permafrost thaw gradient encompassing intact permafrost palsa with an ice core and a shallow active layer, partly thawed bog with a deeper active layer and a variable water table, and fen with a water table close to the surface, each with distinct vegetation and microbiota. Using in situ observations to correct local cold and wet biases found in the Global Soil Wetness Project Phase 3 (GSWP3) climate reanalysis forcing, we demonstrate good model performance by comparing predicted and observed carbon dioxide (CO 2 ) and methane (CH 4 ) exchanges, thaw depth, and water table depth. The simulations driven by the bias-corrected climate suggest that the three peatland types currently accumulate carbon from the atmosphere, although the bog and fen sites can have annual positive radiative forcing impacts due to their higher CH 4 emissions. Our simulations indicate that projected precipitation increases could accelerate CH 4 emissions from the palsa area, even without further degradation of palsa permafrost. The GSWP3 cold and wet biases for this site significantly alter simulation results and lead to erroneous active layer depth (ALD) and carbon budget estimates. Biases in simulated CO 2 and CH 4 exchanges from biased climate forcing are as large as those among the thaw stages themselves at a landscape scale across the examined permafrost thaw gradient. Future studies should thus not only focus on changes in carbon budget associated with morphological changes in thawing permafrost, but also recognize the effects of climate forcing uncertainty on carbon cycling.

Climate change threatens to release abundant carbon that is sequestered at high latitudes, but the constraints on microbial metabolisms that mediate the release of methane and carbon dioxide are poorly understood1-7. The role of viruses, which are known to affect microbial dynamics, metabolism and biogeochemistry in the oceans8-10, remains largely unexplored in soil. Here, we aimed to investigate how viruses influence microbial ecology and carbon metabolism in peatland soils along a permafrost thaw gradient in Sweden. We recovered 1,907 viral populations (genomes and large genome fragments) from 197 bulk soil and size-fractionated metagenomes, 58% of which were detected in metatranscriptomes and presumed to be active. In silico predictions linked 35% of the viruses to microbial host populations, highlighting likely viral predators of key carbon-cycling microorganisms, including methanogens and methanotrophs. Lineage-specific virus/host ratios varied, suggesting that viral infection dynamics may differentially impact microbial responses to a changing climate. Virus-encoded glycoside hydrolases, including an endomannanase with confirmed functional activity, indicated that viruses influence complex carbon degradation and that viral abundances were significant predictors of methane dynamics. These findings suggest that viruses may impact ecosystem function in climate-critical, terrestrial habitats and identify multiple potential viral contributions to soil carbon cycling.

Three independent methods were used to measure net ecosystem production (NEP) in four wetlands near Thompson, Manitoba, Canada. The first method calculated NEP by subtracting heterotrophic respiration from net primary productivity, using both measurements and estimates derived from the literature. The second method used radiocarbon data from cores to derive long-term NEP averaged over the past several decades. The third method used direct measurement of NEP combined with a model to fill in for days with no data. The three methods, with their independently derived uncertainties, all show the same magnitude and pattern of NEP variation across four different wetland types. However, direct measurement yielded distinctly lower estimates of NEP in the most productive sites. Highest NEP (31–180 gC m−2 yr−1) was observed in the two wetlands with the highest proportion of sedge vegetation. A bog collapse scar and a nutrient-rich fen had NEP values not significantly different from zero. The maximum NEP at sites with intermediate nutrient status is due to slower overall decomposition and is likely associated with greater allocation of production below ground by sedges. The three methods for estimating NEP differ in the effort required, the sources of error, and in the timescale over which they apply. Used in combination, they allow estimation of parameters such as below- ground production and the contribution of heterotrophic decomposition to total soil respiration. Using the radiocarbon method, we also derived estimates of the rate of N accumulation in the four wetland types.

During the growing season, nighttime ecosystem respiration emits 30–100% of the daytime net photosynthetic uptake of carbon, and therefore measurements of rates and understanding of its control by the environment are important for understanding net ecosystem exchange. Ecosystem respiration can be measured at night by eddy covariance methods, but the data may not be reliable because of low turbulence or other methodological problems. We used relationships between woody tissue, foliage, and soil respiration rates and temperature, with temperature records collected on site to estimate ecosystem respiration rates at six coniferous BOREAS sites at half-hour or 1-hour intervals, and then compared these estimates to nocturnal measurements of CO2 exchange by eddy covariance. Soil surface respiration was the largest source of CO2 at all sites (48–71%), and foliar respiration made a large contribution to ecosystem respiration at all sites (25–43%). Woody tissue respiration contributed only 5–15% to ecosystem respiration. We estimated error for the scaled chamber predictions of ecosystem respiration by using the uncertainty associated with each respiration parameter and respiring biomass value. There was substantial uncertainty in estimates of foliar and soil respiration because of the spatial variability of specific respiration rates. In addition, more attention needs to be paid to estimating foliar respiration during the early part of the growing season, when new foliage is growing, and to determining seasonal trends of soil surface respiration. Nocturnal eddy covariance measurements were poorly correlated to scaled chamber estimates of ecosystem respiration (r 2=0.06–0.27) and were consistently lower than scaled chamber predictions (by 27% on average for the six sites). The bias in eddy covariance estimates of ecosystem respiration will alter estimates of gross assimilation in the light and of net ecosystem exchange rates over extended periods.

Stordalen Mire is a peatland in the discontinuous permafrost zone in arctic Sweden that exhibits a habitat gradient from permafrost palsa, to Sphagnum bog underlain by permafrost, to Eriophorum‐dominated fully thawed fen. We used three independent approaches to evaluate the annual, multi‐decadal, and millennial apparent carbon accumulation rates (aCAR) across this gradient: seven years of direct semi‐continuous measurement of CO2 and CH4 exchange, and 21 core profiles for 210Pb and 14C peat dating. Year‐round chamber measurements indicated net carbon balance of −13 ± 8, −49 ± 15, and −91 ± 43 g C m−2 y−1 for the years 2012–2018 in palsa, bog, and fen, respectively. Methane emission offset 2%, 7%, and 17% of the CO2 uptake rate across this gradient. Recent aCAR indicates higher C accumulation rates in surface peats in the palsa and bog compared to current CO2 fluxes, but these assessments are more similar in the fen. aCAR increased from low millennial‐scale levels (17–29 g C m−2 y−1) to moderate aCAR of the past century (72–81 g C m−2 y−1) to higher recent aCAR of 90–147 g C m−2 y−1. Recent permafrost collapse, greater inundation and vegetation response has made the landscape a stronger CO2 sink, but this CO2 sink is increasingly offset by rising CH4 emissions, dominated by modern carbon as determined by 14C. The higher CH4 emissions result in higher net CO2‐equivalent emissions, indicating that radiative forcing of this mire and similar permafrost ecosystems will exert a warming influence on future climate. Key Points: Stordalen Mire, a permafrost peatland, has become a stronger carbon sink due to shifts in vegetation and inundation accompanying thawThis stronger carbon sink is offset by an increase in methane emission, resulting in higher net CO2‐equivalent emissionsAnalysis of respiration products indicates that methane emission from the fen and bog are dominated by modern carbon [ABSTRACT FROM AUTHOR]

Northern lakes are important sources of the climate forcing trace gases methane (CH4) and carbon dioxide (CO2). A substantial portion of lakes' annual emissions can take place immediately after ice melt in spring. The drivers of these fluxes are neither well constrained nor fully understood. We present a detailed carbon gas budget for three subarctic lakes, using 6 years of eddy covariance and 9 years of manual flux measurements. We combine measurements of temperature, dissolved oxygen, and CH4 stable isotopologues to quantify functional relationships between carbon gas production and conversion, energy inputs, and the redox regime. Spring emissions were regulated by the availability of oxygen in winter, rather than temperature as during ice‐free conditions. Under‐ice storage increased predictably with ice‐cover duration, and CH4 accumulation rates (25 ± 2 mg CH4‐C·m−2·day−1) exceeded summer emissions (19 ± 1 mg CH4‐C·m−2·day−1). The seasonally ice‐covered lakes emitted 26–59% of the annual CH4 flux and 15–30% of the annual CO2 flux at ice‐off. Reduced spring emissions were associated with winter snowmelt events, which can transport water downstream and oxygenate the water column. Stable isotopes indicate that 64–96% of accumulated CH4 escaped oxidation, implying that a considerable portion of the dissolved gases produced over winter may evade to the atmosphere. Plain Language Summary: Northern lakes are globally significant sources of greenhouse gases methane and carbon dioxide, but the seasonal pattern of emissions from lakes that are ice covered in winter remains poorly resolved. Our multiyear, multilake study reveals the importance of emissions during the ice‐off period, when carbon gas that had accumulated under ice is released. We show that more than half of the annual methane emissions and a third of the yearly carbon dioxide flux can be released at spring ice‐out. Unlike emissions during summer, which tend to be closely correlated with temperature, spring emissions of both gases are in part regulated by the availability of oxygen under ice. The quantity of carbon gas accumulating under ice, and therefore the amount that can be emitted in spring, scales predictably with ice‐cover duration. Parameterizations of winter and spring carbon cycling processes, such as those described in this study, may contribute to more accurate models of annual, ecosystem‐level carbon fluxes and are essential tools to improve freshwater emission inventories and quantify critical Arctic warming feedbacks. Key Points: Multiyear flux measurements show that annual CH4 emissions from northern lakes can be dominated by emissions during ice‐off in springCH4 accumulates under ice at rates exceeding summer emissions, in part because prolonged anoxia limits methanotrophyUnder‐ice carbon gas storage scales predictably with ice‐cover season length, but meltwater advection or dilution can limit fluxes in spring [ABSTRACT FROM AUTHOR]