Environment and microbiome drive different microbial traits and functions in the macroscale soil organic carbon cycle.

Soil microbial traits and functions play a central role in soil organic carbon (SOC) dynamics. However, at the macroscale (regional to global) it is still unresolved whether (i) specific environmental attributes (e.g., climate, geology, soil types) or (ii) microbial community composition drive key microbial traits and functions directly. To address this knowledge gap, we used 33 grassland topsoils (0-10 cm) from a geoclimatic gradient in Chile. First, we incubated the soils for 1 week in favorable standardized conditions and quantified a wide range of soil microbial traits and functions such as microbial biomass carbon (MBC), enzyme kinetics, microbial respiration, growth rates as well as carbon use efficiency (CUE). Second, we characterized climatic and physicochemical properties as well as bacterial and fungal community composition of the soils. We then applied regression analysis to investigate how strongly the measured microbial traits and functions were linked with the environmental setting versus microbial community composition. We show that environmental attributes (predominantly the amount of soil organic matter) determined patterns of MBC along the gradient, which in turn explained microbial respiration and growth rates. However, respiration and growth normalized for MBC (i.e., specific respiration and growth) were more linked to microbial community composition than environmental attributes. Notably, both specific respiration and growth followed distinct trends and were related to different parts of the microbial community, which in turn resulted in strong effects on microbial CUE. We conclude that even at the macroscale, CUE is the result of physiologically decoupled aspects of microbial metabolism, which in turn is partially determined by microbial community composition. The environmental setting and microbial community composition affect different microbial traits and functions, and therefore both factors need to be considered in the context of macroscale SOC dynamics.

A large net carbon loss attributed to anthropogenic and natural disturbances in the Amazon Arc of Deforestation.

The Amazon forest contains globally important carbon stocks, but in recent years, atmospheric measurements suggest that it has been releasing more carbon than it has absorbed because of deforestation and forest degradation. Accurately attributing the sources of carbon loss to forest degradation and natural disturbances remains a challenge because of the difficulty of classifying disturbances and simultaneously estimating carbon changes. We used a unique, randomized, repeated, very high-resolution airborne laser scanning survey to provide a direct, detailed, and high-resolution partitioning of aboveground carbon gains and losses in the Brazilian Arc of Deforestation. Our analysis revealed that disturbances directly attributed to human activity impacted 4.2% of the survey area while windthrows and other disturbances affected 2.7% and 14.7%, respectively. Extrapolating the lidar-based statistics to the study area (544,300 km2), we found that 24.1, 24.2, and 14.5 Tg C y-1 were lost through clearing, fires, and logging, respectively. The losses due to large windthrows (21.5 Tg C y-1) and other disturbances (50.3 Tg C y-1) were partially counterbalanced by forest growth (44.1 Tg C y-1). Our high-resolution estimates demonstrated a greater loss of carbon through forest degradation than through deforestation and a net loss of carbon of 90.5 ± 16.6 Tg C y-1 for the study region attributable to both anthropogenic and natural processes. This study highlights the role of forest degradation in the carbon balance for this critical region in the Earth system.

Living in mangroves: a syntrophic scenario unveiling a resourceful microbiome.

BACKGROUND: Mangroves are complex and dynamic coastal ecosystems under frequent fluctuations in physicochemical conditions related to the tidal regime. The frequent variation in organic matter concentration, nutrients, and oxygen availability, among other factors, drives the microbial community composition, favoring syntrophic populations harboring a rich and diverse, stress-driven metabolism. Mangroves are known for their carbon sequestration capability, and their complex and integrated metabolic activity is essential to global biogeochemical cycling. Here, we present a metabolic reconstruction based on the genomic functional capability and flux profile between sympatric MAGs co-assembled from a tropical restored mangrove. RESULTS: Eleven MAGs were assigned to six Bacteria phyla, all distantly related to the available reference genomes. The metabolic reconstruction showed several potential coupling points and shortcuts between complementary routes and predicted syntrophic interactions. Two metabolic scenarios were drawn: a heterotrophic scenario with plenty of carbon sources and an autotrophic scenario with limited carbon sources or under inhibitory conditions. The sulfur cycle was dominant over methane and the major pathways identified were acetate oxidation coupled to sulfate reduction, heterotrophic acetogenesis coupled to carbohydrate catabolism, ethanol production and carbon fixation. Interestingly, several gene sets and metabolic routes similar to those described for wastewater and organic effluent treatment processes were identified. CONCLUSION: The mangrove microbial community metabolic reconstruction reflected the flexibility required to survive in fluctuating environments as the microhabitats created by the tidal regime in mangrove sediments. The metabolic components related to wastewater and organic effluent treatment processes identified strongly suggest that mangrove microbial communities could represent a resourceful microbial model for biotechnological applications that occur naturally in the environment.

Mixed effects of climate and species richness on aboveground carbon stock in subtropical Atlantic forests.

Tropical forests are global biodiversity hotspots and are crucial in the global carbon (C) cycle. Understanding the drivers of aboveground carbon stock (AGC) in a heterogeneous and biodiverse system can shed light on the processes underlying the relationship between biodiversity and carbon accumulation. Here, we investigate how biodiversity, environment, and landscape structure affect AGC. We examined such associations in 349 plots comprising over 95,346 km2 the Atlantic Forest of southern Brazil, encompassing three forest types: Dense Ombrophylous Forest (DF), Mixed Ombrophylous Forest (MF), and Seasonal Deciduous Forest (SF). Each plot was described by environmental variables, landscape metrics, and biodiversity (species richness and functional diversity). We used diversity, environmental, and landscape variables to build generalized linear mixed models and understand which can affect the forest AGC. We found that species richness is associated positively with AGC in all forest types, combined and separately. Seasonal temperature and isothermality affect AGC in all forest types; additionally, stocks are positively influenced by annual precipitation in SF and isothermality in MF. Among landscape metrics, total fragment edge negatively affects carbon stocks in MF. Our results show the importance of species diversity for carbon stocks in subtropical forests. The climate effect was also relevant, showing the importance of these factors, especially in a world where climate change tends to affect forest stock capacity negatively.

Climate change dominates the interannual variation of carbon export efficiency in each season in the Northern Gulf of Mexico during 1998-2011.

Carbon export efficiency is a key indicator of the capacity of biological pump, but the controlling mechanism of the efficiency remains unclear. Our findings revealed that interannual variations in seasonal carbon export efficiency are determined by direct factors including riverine nutrient fluxes, stratification, residence time. These direct factors are finally attributed to two indirect factors (human activities and climate change). We quantified the absolute contributions of direct and indirect factors to carbon export efficiency. The results showed that the carbon export efficiency in the northern Gulf of Mexico in spring (summer; autumn; winter) was driven by human activities, which accounted for an absolute contribution of 16.02% (7.20%; 4.00%; 8.49%, respectively) through riverine nutrient fluxes, and by climate change, which accounted for an absolute contribution of 33.51% (21.43%; 25.73%; 15.80%, respectively) through stratification and water residence time. Moreover, carbon export efficiency could be predicted by MEI of 8 months earlier.

Inferred drought-induced plant allocation shifts and their impact on drought legacy at a tropical forest site.

While droughts predominantly induce immediate reductions in plant carbon uptake, they can also exert long-lasting effects on carbon fluxes through associated changes in leaf area, soil carbon, etc. Among other mechanisms, shifts in carbon allocation due to water stress can contribute to the legacy effects of drought on carbon fluxes. However, the magnitude and impact of these allocation shifts on carbon fluxes and pools remain poorly understood. Using data from a wet tropical flux tower site in French Guiana, we demonstrate that drought-induced carbon allocation shifts can be reliably inferred by assimilating Net Biosphere Exchange (NBE) and other observations within the CARbon DAta MOdel fraMework. This model-data fusion system allows inference of optimized carbon and water cycle parameters and states from multiple observational data streams. We then examined how these inferred shifts affected the duration and magnitude of drought's impact on NBE during and after the extreme event. Compared to a static allocation scheme analogous to those typically implemented in land surface models, dynamic allocation reduced average carbon uptake during drought recovery by a factor of 2.8. Additionally, the dynamic model extended the average recovery time by 5 months. The inferred allocation shifts influenced the post-drought period by altering foliage and fine root pools, which in turn modulated gross primary productivity and heterotrophic respiration for up to a decade. These changes can create a bust-boom cycle where carbon uptake is enhanced some years after a drought, compared to what would have occurred under drought-free conditions. Overall, allocation shifts accounted for 65% [45%-75%] of drought legacy effects in modeled NBE. In summary, drought-induced carbon allocation shifts can play a substantial role in the enduring influence of drought on cumulative land-atmosphere CO2 exchanges and should be accounted for in ecosystem models.

Single-cell analysis reveals an active and heterotrophic microbiome in the Guaymas Basin deep subsurface with significant inorganic carbon fixation by heterotrophs.

The marine subsurface is a long-term sink of atmospheric carbon dioxide with significant implications for climate on geologic timescales. Subsurface microbial cells can either enhance or reduce carbon sequestration in the subsurface, depending on their metabolic lifestyle. However, the activity of subsurface microbes is rarely measured. Here, we used nanoscale secondary ion mass spectrometry (nanoSIMS) to quantify anabolic activity in 3,203 individual cells from the thermally altered deep subsurface in the Guaymas Basin, Mexico (3-75 m below the seafloor, 0-14°C). We observed that a large majority of cells were active (83%-100%), although the rates of biomass generation were low, suggesting cellular maintenance rather than doubling. Mean single-cell activity decreased with increasing sediment depth and temperature and was most strongly correlated with porewater sulfate concentrations. Intracommunity heterogeneity in microbial activity decreased with increasing sediment depth and age. Using a dual-isotope labeling approach, we determined that all active cells analyzed were heterotrophic, deriving the majority of their cellular carbon from organic sources. However, we also detected inorganic carbon assimilation in these heterotrophic cells, likely via processes such as anaplerosis, and determined that inorganic carbon contributes at least 5% of the total biomass carbon in heterotrophs in this community. Our results demonstrate that the deep marine biosphere at Guaymas Basin is largely active and contributes to subsurface carbon cycling primarily by not only assimilating organic carbon but also fixing inorganic carbon. Heterotrophic assimilation of inorganic carbon may be a small yet significant and widespread underappreciated source of labile carbon in the global subsurface. IMPORTANCE: The global subsurface is the largest reservoir of microbial life on the planet yet remains poorly characterized. The activity of life in this realm has implications for long-term elemental cycling, particularly of carbon, as well as how life survives in extreme environments. Here, we recovered cells from the deep subsurface of the Guaymas Basin and investigated the level and distribution of microbial activity, the physicochemical drivers of activity, and the relative significance of organic versus inorganic carbon to subsurface biomass. Using a sensitive single-cell assay, we found that the majority of cells are active, that activity is likely driven by the availability of energy, and that although heterotrophy is the dominant metabolism, both organic and inorganic carbon are used to generate biomass. Using a new approach, we quantified inorganic carbon assimilation by heterotrophs and highlighted the importance of this often-overlooked mode of carbon assimilation in the subsurface and beyond.

Abiotic processes control carbon dioxide dynamics in temperate karst lakes.

Inland waters are crucial in the carbon cycle, contributing significantly to the global CO2 fluxes. Carbonate lakes may act as both sources and sinks of CO2 depending on the interactions between the amount of dissolved inorganic carbon (DIC) inputs, lake metabolisms, and geochemical processes. It is often difficult to distinguish the dominant mechanisms driving CO2 dynamics and their effects on CO2 emissions. This study was undertaken in three groundwater-fed carbonate-rich lakes in central Spain (Ruidera Lakes), severely polluted with nitrates from agricultural overfertilization. Diel and seasonal (summer and winter) changes in CO2 concentration (CCO2) DIC, and CO2 emissions-(FCO2)-, as well as physical and chemical variables, including primary production and phytoplanktonic chlorophyll-a were measured. In addition, δ13C-DIC, δ13C-CO2 in lake waters, and δ13C of the sedimentary organic matter were measured seasonally to identify the primary CO2 sources and processes. While the lakes were consistently CCO2 supersaturated and FCO2 was released to the atmosphere during both seasons, the highest CCO2 and DIC were in summer (0.36-2.26 µmol L-1). Our results support a strong phosphorus limitation for primary production in these lakes, which impinges on CO2 dynamics. External DIC inputs to the lake waters primarily drive the CCO2 and, therefore, the FCO2. The δ13C-DIC signatures below -12‰  confirmed the primary geogenic influence on DIC. As also suggested by the high values on the calcite saturation index, the Miller-Tans plot revealed that the CO2 source in the lakes was close to the signature provided by the fractionation of δ13C-CO2 from calcite precipitation. Therefore, the main contribution behind the CCO2 values found in these karst lakes should be attributed to the calcite precipitation process, which is temperature-dependent according to the seasonal change observed in δ13C-DIC values. Finally, co-precipitation of phosphate with calcite could partly explain the observed low phytoplankton production in these lakes and the impact on the contribution to increasing greenhouse gas emissions. However, as eutrophication increases and the soluble reactive phosphorus (SRP) content increases, the co-precipitation of phosphate is expected to be progressively inhibited. These thresholds must be assessed to understand how the CO32- ions drive lake co-precipitation dynamics. Carbonate regions extend over 15% of the Earth's surface but seem essential in the CO2 dynamics at a global scale.

The drivers and impacts of Amazon forest degradation.

Approximately 2.5 × 106 square kilometers of the Amazon forest are currently degraded by fire, edge effects, timber extraction, and/or extreme drought, representing 38% of all remaining forests in the region. Carbon emissions from this degradation total up to 0.2 petagrams of carbon per year (Pg C year-1), which is equivalent to, if not greater than, the emissions from Amazon deforestation (0.06 to 0.21 Pg C year-1). Amazon forest degradation can reduce dry-season evapotranspiration by up to 34% and cause as much biodiversity loss as deforestation in human-modified landscapes, generating uneven socioeconomic burdens, mainly to forest dwellers. Projections indicate that degradation will remain a dominant source of carbon emissions independent of deforestation rates. Policies to tackle degradation should be integrated with efforts to curb deforestation and complemented with innovative measures addressing the disturbances that degrade the Amazon forest.

Natural carbon fixation and advances in synthetic engineering for redesigning and creating new fixation pathways.

BACKGROUND: Autotrophic carbon fixation is the primary route through which organic carbon enters the biosphere, and it is a key step in the biogeochemical carbon cycle. The Calvin-Benson-Bassham pathway, which is predominantly found in plants, algae, and some bacteria (mainly cyanobacteria), was previously considered to be the sole carbon-fixation pathway. However, the discovery of a new carbon-fixation pathway in sulfurous green bacteria almost two decades ago encouraged further research on previously overlooked ancient carbon-fixation pathways in taxonomically and phylogenetically distinct microorganisms. AIM OF REVIEW: In this review, we summarize the six known natural carbon-fixation pathways and outline the newly proposed additions to this list. We also discuss the recent achievements in synthetic carbon fixation and the importance of the metabolism of thermophilic microorganisms in this field. KEY SCIENTIFIC CONCEPTS OF REVIEW: Currently, at least six carbon-fixation routes have been confirmed in Bacteria and Archaea. Other possible candidate routes have also been suggested on the basis of emerging "omics" data analyses, expanding our knowledge and stimulating discussions on the importance of these pathways in the way organisms acquire carbon. Notably, the currently known natural fixation routes cannot balance the excessive anthropogenic carbon emissions in a highly unbalanced global carbon cycle. Therefore, significant efforts have also been made to improve the existing carbon-fixation pathways and/or design new efficient in vitro and in vivo synthetic pathways.

Extreme rainstorms drive exceptional organic carbon export from forested humid-tropical rivers in Puerto Rico.

Extreme rainfall events in the humid-tropical Luquillo Mountains, Puerto Rico export the bulk of suspended sediment and particulate organic carbon. Using 25 years of river carbon and suspended sediment data, which targeted hurricanes and other large rainstorms, we estimated biogenic particulate organic carbon yields of 65 ± 16 tC km-2 yr-1 for the Icacos and 17.7 ± 5.1 tC km-2 yr-1 for the Mameyes rivers. These granitic and volcaniclastic catchments function as substantial atmospheric carbon-dioxide sinks, largely through export of river biogenic particulate organic carbon during extreme rainstorms. Compared to other regions, these high biogenic particulate organic carbon yields are accompanied by lower suspended sediment yields. Accordingly, particulate organic carbon export from these catchments is underpredicted by previous yield relationships, which are derived mainly from catchments with easily erodible sedimentary rocks. Therefore, rivers that drain petrogenic-carbon-poor bedrock require separate accounting to estimate their contributions to the geological carbon cycle.

Potencial de reducción de emisiones y captura de carbono en bosques y sistemas agroforestales con cacao en el Pacífico colombiano / Potential for reducing emissions and carbon sequestration in forests and cocoa agroforestry systems in the Colombian Pacific

Resumen Introducción: Los bosques y sistemas agroforestales (SAF) suministran bienes y servicios ecosistémicos para la sociedad, tal como la mitigación del cambio climático. Objetivo: Se estimó el potencial de reducción de emisiones y captura de carbono en bosques y SAF con cacao de la subcuenca del río Munguidó, Colombia. Métodos: Se seleccionaron tres sistemas de uso del suelo (bosque primario, bosque secundario y SAF con cacao). Se establecieron 18 parcelas temporales de muestreo, seis por sistema, para medir los árboles (diámetro a la altura del pecho -dap ≥ 10 cm) y arbustos de cacao. Se cuantificó la biomasa aérea con ecuaciones alométricas y una fracción de carbono de 0.5. Se estimó la fijación de carbono en el bosque secundario y el SAF con cacao como la razón entre el carbono almacenado y su edad. La pérdida de carbono del bosque primario se estimó con base en la deforestación para Chocó y dicha subcuenca (0.6 y 0.3 %/año, respectivamente). Se realizó un análisis de varianza y comparación de medias LSD Fisher para determinar las diferencias en el almacenamiento y la fijación de carbono entre los usos. Resultados: El bosque primario almacenó más carbono que el bosque secundario y el SAF con cacao (190.1, 22.3 y 5.3 Mg/ha, respectivamente). La fijación de carbono del bosque secundario y el SAF con cacao no difirieron (2.23 vs 1.33 Mg/ha/año). En 20 años, el bosque primario presentaría una reducción de emisiones de 1.4-2.6 Tg CO2; y el bosque secundario y el SAF con cacao presentarían una captura de 100.8 y 30.7 Gg CO2, respectivamente. Conclusiones: En la subcuenca del río Munguidó es posible establecer proyectos para la reducción de emisiones en bosque primario y captura de carbono en bosques secundarios y SAF con cacao, con lo cual se podría emitir 1.4-2.6 millones de toneladas de CO2.

Abstract Introduction: Forests and agroforestry systems (AFS) provide ecosystem goods and services for society, such as climate change mitigation. Objective: The potential for emission reductions and carbon sequestration in forests and cocoa agroforestry systems in the Munguidó river sub-basin in Colombia was estimated. Methods: Three land use systems were selected (primary forest, secondary forest and AFS with cocoa). Eighteen temporary sampling plots were established, six per system, to measure trees (diameter at breast height -dbh ≥ 10 cm) and cocoa shrubs. Aboveground biomass was quantified with allometric equations and a carbon fraction of 0.5. Carbon fixation in secondary forest and AFS with cocoa was estimated as the ratio of carbon stored to its age. Carbon loss from primary forest was estimated based on deforestation for Chocó and that sub-basin (0.6 and 0.3 %/year, respectively). An analysis of variance and LSD Fisher mean comparison was performed to determine differences in carbon storage and carbon sequestration between uses. Results: Primary Forest stored more carbon than secondary forest and AFS with cocoa (190.1, 22.3 and 5.3 Mg/ha, respectively). The carbon fixation of secondary forest and AFS with cocoa did not differ (2.23 vs. 1.33 Mg/ha/year). In 20 years, the primary forest would present an emission reduction of 1.4-2.6 Tg CO2; and the secondary forest and the PFS with cocoa would present a sequestration of 100.8 and 30.7 Gg CO2, respectively. Conclusion: In the Munguidó river sub-basin, it is possible to establish projects for the reduction of emissions in primary forest and carbon sequestration in secondary forests and AFS with cocoa, which could emit 1.4-2.6 million tons of CO2.

Goldilocks at the dawn of complex life: mountains might have damaged Ediacaran-Cambrian ecosystems and prompted an early Cambrian greenhouse world.

We combine U-Pb in-situ carbonate dating, elemental and isotope constraints to calibrate the synergy of integrated mountain-basin evolution in western Gondwana. We show that deposition of the Bambuí Group coincides with closure of the Goiás-Pharusian (630-600 Ma) and Adamastor (585-530 Ma) oceans. Metazoans thrived for a brief moment of balanced redox and nutrient conditions. This was followed, however, by closure of the Clymene ocean (540-500 Ma), eventually landlocking the basin. This hindered seawater renewal and led to uncontrolled nutrient input, shallowing of the redoxcline and anoxic incursions, fueling positive productivity feedbacks and preventing the development of typical Ediacaran-Cambrian ecosystems. Thus, mountains provide the conditions, such as oxygen and nutrients, but may also preclude life development if basins become too restricted, characterizing a Goldilocks or optimal level effect. During the late Neoproterozoic-Cambrian fan-like transition from Rodinia to Gondwana, the newborn marginal basins of Laurentia, Baltica and Siberia remained open to the global sea, while intracontinental basins of Gondwana became progressively landlocked. The extent to which basin restriction might have affected the global carbon cycle and climate, e.g. through the input of gases such as methane that could eventually have collaborated to an early Cambrian greenhouse world, needs to be further considered.

Assessing the carbon capture potential of a reforestation project.

The number of reforestation projects worldwide is increasing. In many cases funding is obtained through the claimed carbon capture of the trees, presented as immediate and durable, whereas reforested plots need time and maintenance to realise their carbon capture potential. Further, claims usually overlook the environmental costs of natural or anthropogenic disturbances during the forest's lifetime, and greenhouse gas (GHG) emissions associated with the reforestation are not allowed for. This study uses life cycle assessment to quantify the carbon footprint of setting up a reforestation plot in the Peruvian Amazon. In parallel, we combine a soil carbon model with an above- and below-ground plant carbon model to predict the increase in carbon stocks after planting. We compare our results with the carbon capture claims made by a reforestation platform. Our results show major errors in carbon accounting in reforestation projects if they (1) ignore the time needed for trees to reach their carbon capture potential; (2) ignore the GHG emissions involved in setting up a plot; (3) report the carbon capture potential per tree planted, thereby ignoring limitations at the forest ecosystem level; or (4) under-estimate tree losses due to inevitable human and climatic disturbances. Further, we show that applications of biochar during reforestation can partially compensate for project emissions.

Effects of human-induced land degradation on water and carbon fluxes in two different Brazilian dryland soil covers.

The Brazilian semiarid region presents a physical water scarcity and high seasonal and interannual irregularities of precipitation, known as a region with periodic droughts. This region is mainly covered by the Caatinga biome, recognized as a Seasonally Dry Tropical Forest (SDTF). Soil water availability directly impacts the ecosystem's functioning, characterized by low fertility and sparse vegetation cover during the dry season, making it a fragile ecosystem vulnerable to climatic variations. Additionally, this region has been suffering from several issues due to human activities over the centuries, which has resulted in extensive areas being severely degraded, which aggravates the impacts from climatic variations and the susceptibility to desertification. Thus, studying the soil-plant-atmosphere continuum in this region can help better understand the seasonal and annual behavior of the water and carbon fluxes. This study investigated the dynamics of water and carbon fluxes during four years (2013-2016) by using eddy covariance (EC) measurements within two areas of Caatinga (dense Caatinga (DC) and sparse Caatinga (SC)) that suffered anthropic pressures. The two study areas showed similar behavior in relation to physical parameters (air temperature, incoming radiation, vapor pressure deficit, and relative humidity), except for soil temperature. The SC area presented a surface temperature of 3 °C higher than the DC, related to their vegetation cover differences. The SC area had higher annual evapotranspiration, representing 74% of the precipitation for the DC area and 90% for the SC area. The two areas acted as a carbon sink during the study period, with the SC area showing a lower CO2 absorption capacity. On average, the DC area absorbs 2.5 times more carbon than the SC area, indicating that Caatinga deforestation affects evaporative fluxes, reducing atmospheric carbon fixation and influencing the ability to mitigate the effects of increased greenhouse gas concentrations in the atmosphere.

Sedimentary pyrite sulfur isotopes track the local dynamics of the Peruvian oxygen minimum zone.

Sulfur cycling is ubiquitous in sedimentary environments, where it mediates organic carbon remineralization, impacting both local and global redox budgets, and leaving an imprint in pyrite sulfur isotope ratios (δ34Spyr). It is unclear to what extent stratigraphic δ34Spyr variations reflect local aspects of the depositional environment or microbial activity versus global sulfur-cycle variations. Here, we couple carbon-nitrogen-sulfur concentrations and stable isotopes to identify clear influences on δ34Spyr of local environmental changes along the Peru margin. Stratigraphically coherent glacial-interglacial δ34Spyr fluctuations (>30‰) were mediated by Oxygen Minimum Zone intensification/expansion and local enhancement of organic matter deposition. The higher resulting microbial sulfate reduction rates led to more effective drawdown and 34S-enrichment of residual porewater sulfate and sulfide produced from it, some of which is preserved in pyrite. We identify organic carbon loading as a major influence on δ34Spyr, adding to the growing body of evidence highlighting the local controls on these records.

Amazonia as a carbon source linked to deforestation and climate change.

Amazonia hosts the Earth's largest tropical forests and has been shown to be an important carbon sink over recent decades1-3. This carbon sink seems to be in decline, however, as a result of factors such as deforestation and climate change1-3. Here we investigate Amazonia's carbon budget and the main drivers responsible for its change into a carbon source. We performed 590 aircraft vertical profiling measurements of lower-tropospheric concentrations of carbon dioxide and carbon monoxide at four sites in Amazonia from 2010 to 20184. We find that total carbon emissions are greater in eastern Amazonia than in the western part, mostly as a result of spatial differences in carbon-monoxide-derived fire emissions. Southeastern Amazonia, in particular, acts as a net carbon source (total carbon flux minus fire emissions) to the atmosphere. Over the past 40 years, eastern Amazonia has been subjected to more deforestation, warming and moisture stress than the western part, especially during the dry season, with the southeast experiencing the strongest trends5-9. We explore the effect of climate change and deforestation trends on carbon emissions at our study sites, and find that the intensification of the dry season and an increase in deforestation seem to promote ecosystem stress, increase in fire occurrence, and higher carbon emissions in the eastern Amazon. This is in line with recent studies that indicate an increase in tree mortality and a reduction in photosynthesis as a result of climatic changes across Amazonia1,10.

Holocene life and microbiome profiling in ancient tropical Lake Chalco, Mexico.

Metagenomic and traditional paleolimnological approaches are suitable to infer past biological and environmental changes, however, they are often applied independently, especially in tropical regions. We combined both approaches to investigate Holocene Prokaryote and Eukaryote diversity and microbial metabolic pathways in ancient Lake Chalco, Mexico. Here, we report on diversity among a large number of lineages (36,722 OTUs) and functional diversity (27,636,243 non-clustered predicted proteins, and 6,144 annotated protein-family genes). The most abundant domain is Bacteria (81%), followed by Archaea (15%) and Eukarya (3%). We also determined the diversity of protein families and their relationship to metabolic pathways. The early Holocene (> 11,000 cal years BP) lake was characterized by cool, freshwater conditions, which later became warmer and hyposaline (11,000-6,000 cal years BP). We found high abundances of cyanobacteria, and fungi groups associated with mature forests in these sediments. Bacteria and Archaea include mainly anaerobes and extremophiles that are involved in the sulfur, nitrogen, and carbon cycles. We found evidence for early human impacts, including landscape modifications and lake eutrophication, which began ~ 6,000 cal years BP. Subsaline, temperate conditions were inferred for the past 5,000 years. Finally, we found nitrogen-fixing bacteria and protein-family genes that are linked to contaminated environments, as well as several fungal pathogens of crops in near-surface sediments.

Tracking the impacts of El Niño drought and fire in human-modified Amazonian forests.

With humanity facing an unprecedented climate crisis, the conservation of tropical forests has never been so important - their vast terrestrial carbon stocks can be turned into emissions by climatic and human disturbances. However, the duration of these effects is poorly understood, and it is unclear whether impacts are amplified in forests with a history of previous human disturbance. Here, we focus on the Amazonian epicenter of the 2015-16 El Niño, a region that encompasses 1.2% of the Brazilian Amazon. We quantify, at high temporal resolution, the impacts of an extreme El Niño (EN) drought and extensive forest fires on plant mortality and carbon loss in undisturbed and human-modified forests. Mortality remained higher than pre-El Niño levels for 36 mo in EN-drought-affected forests and for 30 mo in EN-fire-affected forests. In EN-fire-affected forests, human disturbance significantly increased plant mortality. Our investigation of the ecological and physiological predictors of tree mortality showed that trees with lower wood density, bark thickness and leaf nitrogen content, as well as those that experienced greater fire intensity, were more vulnerable. Across the region, the 2015-16 El Niño led to the death of an estimated 2.5 ± 0.3 billion stems, resulting in emissions of 495 ± 94 Tg CO2 Three years after the El Niño, plant growth and recruitment had offset only 37% of emissions. Our results show that limiting forest disturbance will not only help maintain carbon stocks, but will also maximize the resistance of Amazonian forests if fires do occur.

Implications of size-dependent tree mortality for tropical forest carbon dynamics.

Tropical forests are mitigating the ongoing climate crisis by absorbing more atmospheric carbon than they emit. However, widespread increases in tree mortality rates are decreasing the ability of tropical forests to assimilate and store carbon. A relatively small number of large trees dominate the contributions of these forests to the global carbon budget, yet we know remarkably little about how these large trees die. Here, we propose a cohesive and empirically informed framework for understanding and investigating size-dependent drivers of tree mortality. This theory-based framework enables us to posit that abiotic drivers of tree mortality-particularly drought, wind and lightning-regulate tropical forest carbon cycling via their disproportionate effects on large trees. As global change is predicted to increase the pressure from abiotic drivers, the associated deaths of large trees could rapidly and lastingly reduce tropical forest biomass stocks. Focused investigations of large tree death are needed to understand how shifting drivers of mortality are restructuring carbon cycling in tropical forests.