Crop rotations for increased soil carbon: perenniality as a guiding principle

Metagenomic insights into microbial variation and carbon cycling function in crop rotation systems

The decomposition and utilization of plant-derived carbon by microorganisms and carbon fixation are crucial pathways for enhancing soil organic carbon (SOC) storage. However, a gap remains in our understanding of the impact of microorganisms on the decomposition of plant-derived carbon and their capacity for carbon fixation in crop rotation systems. Based on a 12-year experiment with wheat-maize (WM), wheat-cotton (WC), and wheat-soybean (WS) rotations, the microbial communities and carbon cycle function were investigated. The results indicated that WS rotation significantly increased SOC content compared to WM and WC. In addition, a significant increase was observed in microbially available carbon and microbial biomass carbon in the WS soil compared with those in the others. Further analysis of the microbial community factors that influenced SOC content revealed that WS rotation, in contrast to WM rotation, enhanced the diversity and richness of bacteria and fungi. Analysis of microbial carbon decomposition functions revealed an increase in starch, lignin, and hemicellulose decomposition genes in the WS soil compared to the others. The changes in carbon decomposition genes were primarily attributed to six bacterial genera, namely Nocardioides, Agromyces, Microvirga, Skermanella, Anaeromyxobacter, and Arthrobacter, as well as four fungal genera, namely Dendryphion, Staphylotrichum, Apiotrichum, and Abortiporus, which were significantly influenced by the crop rotation systems. In addition, microbial carbon fixation-related genes such as ACAT, IDH1, GAPDH, rpiA, and rbcS were significantly enriched in WS. Species annotation of differential carbon fixation genes identified 18 genera that play a role in soil carbon fixation variation within the crop rotation systems. This study highlights the impact of crop rotation systems on SOC content and alterations in specific microbial communities on carbon cycle function.

Response of soil organic carbon to straw return in farmland soil in China: A meta-analysis

Straw return is an effective measure to promote sustainable agriculture by significantly improving soil fertility. At present, few studies have been conducted on the most effective carbon enhancing management measures for various crops. Therefore, we conducted a meta-analysis using data collected from 184 literature sources, comprising 3297 data sets to analyze the carbon increase effects of straw returning in three main crops (rice, maize, and wheat) in China and to explore the influence mechanism of natural factors, soil properties, straw return measures, and cropping systems on the carbon enhancement effect. The study showed that straw return significantly increased soil organic carbon and the rate of increase was higher for wheat at 15.88% (14.74%-17.03%) than for rice at 12.7% (11.5%-13.91%) and maize at 12.42% (11.42%-13.42%), with varying degrees of improvement in other soil physicochemical properties. Natural factors have the greatest impact on the carbon increasing effect of rice fields, reaching 28.8%, especially at temperature between 10 °C and 15 °C, less than 800 mm precipitation, low latitude, and short frost-free period. Maize and wheat are most affected by soil properties, reaching 41% and 34.5% respectively. Furthermore, field management practices also play a pivotal role, organic carbon increasing obviously was observed when the C/N ratio of exogenous nutrients is bigger than 20 with the low initial organic matter. Shallow tillage and less than 7.5 t hm-2 straw returning with 3-10 years to the field are ideal for rice and maize. Crop rotation, especially in drylands, increased soil organic carbon more significantly than continuous. The results of our analysis can provide valuable insights into the effect of straw return on carbon increase. In the future, the soil carbon can be improved by adopting rational cropping patterns and straw return measures with taking into account climate and soil characteristics for different crops.

Soybean inclusion reduces soil organic matter mineralization despite increasing its temperature sensitivity

Legume-based cropping increased the diversity of residues and rhizodeposition input into the soil, thus affecting soil organic matter (SOM) stabilization. Despite this, a comprehensive understanding of the mechanisms governing SOM mineralization and its temperature sensitivity across bulk soil and aggregate scales concerning legume inclusion remains incomplete. Here, a 6-year field experiment was conducted to investigate the effects of three cropping systems (i.e., winter wheat/summer maize, winter wheat/summer maize-soybean, and nature fallow) on SOM mineralization, its temperature sensitivity, and the main drivers in both topsoil (0-20 cm) and subsoil (20-40 cm). Soybean inclusion decreased the SOM mineralization by 17%-24%, while concurrently increasing the majority of soil biochemical properties, such as carbon (C) acquisition enzyme activities (5%-22%) and microbial biomass C (5%-9%), within the topsoil regardless of temperature. This is attributed to the increased substrate availability (e.g., dissolved organic C) facilitating microbial utilization, thus devoting less energy to mining nutrients under diversified cropping. In addition, SOM mineralization was lower within macroaggregates (∼12%), largely driven by substrate availability irrespective of aggregate sizes. In contrast, diversified cropping amplified the Q10 of SOM mineralization in mesoaggregates (+6%) and microaggregates (+5%) rather than in macroaggregates. This underscores the pivotal role of mesoaggregates and microaggregates in dominating the Q10 of SOM mineralization under soybean-based cropping. In conclusion, legume-based cropping diminishes soil organic matter mineralization despite increasing its temperature sensitivity, which proposes a potential strategy for C-neutral agriculture and climate warming mitigation.

Soil pore characteristics and the fate of new switchgrass-derived carbon in switchgrass and prairie bioenergy cropping systems

Monoculture switchgrass and restored prairie are promising perennial feedstock sources for bioenergy production on the lands unsuitable for conventional agriculture. Such lands often display contrasting topography that influences soil characteristics and interactions between plant growth and soil C gains. This study aimed at elucidating the influences of topography and plant systems on the fate of C originated from switchgrass plants and on its relationships with soil pore characteristics. For that, switchgrass plants were grown in intact soil cores collected from two contrasting topographies, namely steep slopes and topographical depressions, in the fields in multi-year monoculture switchgrass and restored prairie vegetation. The 13C pulse labeling allowed tracing the C of switchgrass origin, which X-ray computed micro-tomography enabled in-detail characterization of soil pore structure. In eroded slopes, the differences between the monoculture switchgrass and prairie in terms of total and microbial biomass C were greater than those in topographical depressions. While new switchgrass increased the CO2 emission in depressions, it did not significantly affect the CO2 emission in slopes. Pores of 18-90 µm Ø facilitated the accumulation of new C in soil, while > 150 µm Ø pores enhanced the mineralization of the new C. These findings suggest that polyculture prairie located in slopes can be particularly beneficial in facilitating soil C accrual and reduce C losses as CO2.

Crop diversification promotes soil aggregation and carbon accumulation in global agroecosystems: A meta-analysis

Soil aggregation contributes to the stability of soil structure and the sequestration of soil organic carbon (SOC), making it an important indicator of soil health in agroecosystems. Crop diversification is considered a rational management practice for promoting sustainable agriculture. However, the complexity of cropping systems and crop species across different regions limits our comprehensive understanding of soil aggregation and associated carbon (C) content under crop diversification. Therefore, we conducted a meta-analysis by integrating 1924 observations from three diversification strategies (cover crops, crop rotation, and intercropping) in global agroecosystems to explore the effects of crop diversification on soil aggregates and associated C content. The results showed that compared to monoculture, crop diversification significantly increased the mean weight diameter and bulk soil C by 7.5% and 3.3%, respectively. Furthermore, there was a significant increase in the proportion of macroaggregates and their associated C content by 5.0% and 12.5%, while there was a significant decrease in the proportion of microaggregates as well as silt-clay fractions along with their associated C under crop diversification. Through further analysis, we identified several important factors that influence changes in soil aggregation and C content induced by crop diversification including climatic conditions, soil properties, crop species, and agronomic practices at the experimental sites. Interestingly, no significant differences were found among the three cropping systems (cover crops, crop rotation, and intercropping), while the effects induced by crop diversifications showed relatively consistent results for monoculture crops as well as additive crops and crop diversity. Moreover, the impact of crop diversification on soil aggregates and associated C content is influenced by soil properties such as pH and SOC. In general, our findings demonstrate that crop diversification promotes soil aggregation and enhances SOC levels in agroecosystems worldwide.

Restoring particulate and mineral-associated organic carbon through regenerative agriculture

Sustainability of agricultural production and mitigation of global warming rely on the regeneration of soil organic carbon (SOC), in particulate organic carbon (POC) and mineral-associated organic carbon (MAOC) forms. We conducted a global systematic meta-analysis of the effects of regenerative management practices on SOC, POC, and MAOC in cropland, finding: 1) no-till (NT) and cropping system intensification increase SOC (11.3% and 12.4%, respectively), MAOC (8.5% and 7.1%, respectively), and POC (19.7% and 33.3%, respectively) in topsoil (0 to 20 cm), but not in subsoil (>20 cm); 2) experimental duration, tillage frequency, the intensification type, and rotation diversity moderate the effects of regenerative management; and 3) NT synergized with integrated crop-livestock (ICL) systems to greatly increase POC (38.1%) and cropping intensification synergized with ICL systems to greatly increase MAOC (33.1 to 53.6%). This analysis shows that regenerative agriculture is a key strategy to reduce the soil C deficit inherent to agriculture to promote both soil health and long-term C stabilization.

Diversifying and perennializing plants in agroecosystems alters retention of new C and N from crop residues

Managing soils to retain new plant inputs is key to moving toward a sustainable and regenerative agriculture. Management practices, like diversifying and perennializing agroecosystems, may affect the decomposer organisms that regulate how new residue is converted to persistent soil organic matter. Here we tested whether 12 years of diversifying/perennializing plants in agroecosystems through extended rotations or grassland restoration would decrease losses of new plant residue inputs and, thus, increase retention of carbon (C) and nitrogen (N) in soil. We tracked dual-labeled (¹³ C and ¹⁵ N), isotopically enriched wheat (Triticum aestivum) residue in situ for 2 years as it decomposed in three agroecosystems: maize-soybean (CS) rotation, maize-soybean-wheat plus red clover and cereal rye cover crops (CSW2), and spring fallow management with regeneration of natural grassland species (seven to 10 species; SF). We measured losses of wheat residue (C_wheat and N_wheat ) in leached soil solution and greenhouse gas fluxes, as well as how much was recovered in microbial biomass and bulk soil at 5-cm increments down to 20 cm. CSW2 and SF both had unique, significant effects on residue decomposition and retention dynamics that were clear only when using nuanced metrics that able to tease apart subtle differences. For example, SF retained a greater portion of C_wheat in 0-5 cm surface soils (155%, p = 0.035) and narrowed the C_wheat to N_wheat ratio (p < 0.030) compared to CS. CSW2 increased an index of carbon-retention efficiency, C_wheat retained in the mesocosm divided by total measured, from 0.18 to 0.27 (49%, p = 0.001), compared to CS. Overall, we found that diversifying and extending the duration of living plants in agroecosystems can lead to greater retention of new residue inputs in subtle ways that require further investigation to fully understand.

Effects of tillage and cropping sequences on crop production and environmental benefits in the North China Plain

The ever-increasing trend of greenhouse gas (GHG) emissions is accelerating global warming and threatening food security. Environmental benefits and sustainable food production must be pursued locally and globally. Thus, a field experiment was conducted in 2015 to understand how to balance the trade-offs between agronomic productivity and environment quality in the North China Plain (NCP). Eight treatments consisted of two factors, i.e., (1) tillage practices: rotary tillage (RT) and no-till (NT), and (2) cropping sequences (CS): maize-wheat-soybean-wheat (MWSW), soybean-wheat-maize-wheat (SWMW), soybean-wheat (SW), and maize-wheat (MW). The economic and environmental benefits were evaluated by multiple indicators including the carbon footprint (CF), maize equivalent economic yield (MEEY), energy yield (EY), and carbon sustainability index (CSI). Compared with NT, RT increased the EY and MEEY, but emitted 9.4% higher GHGs. Among different CSs, no significant reduction was observed in CF. The lowest (2.0 Mg CO₂-eq ha^-1 year^-1) and the highest (5.6 Mg CO₂-eq ha^-1 year^-1) CF values were observed under MW and SWMW, respectively. However, CSs with soybean enhanced MEEY and the net revenue due to their higher price compared to that of MW. Although the highest CSI was observed under RT-MW, soybean-based crop rotation could offset the decline in CSI under NT when compared to that for RT. These findings suggest that conservation agriculture (CA) could enhance the balance in trade-offs between economic and environmental benefits. Additional research is needed on how to achieve high crop production by establishing a highly efficient CA system in the NCP.

Perennial Crops Can Compensate for Low Soil Carbon Inputs from Maize in Ley-Arable Systems

(1) Background: Soil organic carbon (SOC) in agricultural soils plays a crucial role in mitigating global climate change but also, and maybe more importantly, in soil fertility and thus food security. Therefore, the influence of contrasting cropping systems on SOC not only in the topsoil, but also in the subsoil, needs to be understood. (2) Methods: In this study, we analyzed SOC content and δ¹³C values from a crop rotation experiment for biogas production, established in southern Germany in 2004. We compared two crop rotations, differing in their proportions of maize (0 vs. 50%) and perennial legume-grass leys as main crops (75 vs. 25%). Maize was cultivated with an undersown white clover. Both rotations had an unfertilized variant and a variant that was fertilized with biogas digestate according to the nutrient demand of crops. Sixteen years after the experiment was established, the effects of crop rotation, fertilization, and soil depth on SOC were analyzed. Furthermore, we defined a simple carbon balance model to estimate the dynamics of δ¹³C in soil. Simulations were compared to topsoil data (0-30 cm) from 2009, 2017, and 2020, and to subsoil data (30-60 cm) from 2020. (3) Results: Crop rotation and soil depth had significant effects, but fertilization had no effect on SOC content and δ¹³C. SOC significantly differed between the two crop rotations regarding δ¹³C in both depths but not regarding content. Annual enrichment in C₄ (maize) carbon was 290, 34, 353, and 70 kg C ha^-1 per maize year in the topsoil and subsoil of the unfertilized and fertilized treatments, respectively. These amounts corresponded to carbon turnover rates of 0.8, 0.3, 0.9, and 0.5% per maize year. Despite there being 50% maize in the rotation, maize carbon only accounted for 20% of the observed carbon sequestration in the topsoil. Even with pre-defined parameter values, the simple carbon model reproduced observed δ¹³C well. The optimization of model parameters decreased the carbon use efficiency of digestate carbon in the soil, as well as the response of belowground carbon allocation to increased aboveground productivity of maize. (4) Conclusions: Two main findings resulted from this combination of measurement and modelling: (i) the retention of digestate carbon in soil was low and its effect on δ¹³C was negligible, and (ii) soil carbon inputs from maize only responded slightly to increased above-ground productivity. We conclude that SOC stocks in silage maize rotations can be preserved or enhanced if leys with perennial crops are included that compensate for the comparably low maize carbon inputs.

Impact of cattle slurry application methods on ammonia losses and grassland nitrogen use efficiency

Optimal manure management is required to ensure efficient nutrient supply to farmland and to avoid adverse environmental impacts. Accordingly, ammonia (NH₃) emissions associated with different slurry application techniques were investigated in grassland trials under different soil and weather conditions across Germany. Cattle slurry was applied in two dressings, early in spring and after the first silage cut, with a target amount of 170 kg N ha^-1. The application treatments comprised: trailing shoe (TS), acidified slurry applied with trailing shoe (TS + A), open slot injection (SI), and slurry treated with a nitrification inhibitor (NI) applied by slot injection (SI + NI). In addition, slurry application techniques were compared with a non-N-fertilized control and a mineral fertilizer treatment (calcium ammonium nitrate, CAN). NH₃ measurements followed each N application event. NH₃ losses were equivalent to 1-39% of total ammoniacal nitrogen (TAN) applied. The average NH₃ mitigation potential of the different slurry application techniques compared to TS was 45.7 ± 7, 21.2 ± 6.2 and 13.7 ± 8.2% for TS + A, SI and SI + NI, respectively. The use of nitrification inhibitor with slot injected slurry did not increase NH₃ losses relative to TS (p > 0.05). Mean apparent N use efficiency was two times higher for CAN (49%) than the slurry treatments (24%) but was comparable between SI + NI and CAN in five out of the eight cases. Our results indicate that mean TAN related NH₃ emissions of tested treatments (3.3, 22.6, 12.2, 17.8 and 19.3% for CAN, TS, TS + A, SI and SI + NI, respectively) were generally lower than described in previous studies. Moreover, the results suggested possible increases in NH₃ mitigation and N use efficiency when cattle slurry is applied with acidification or injection techniques. We found no evidence that NI addition to slot injected slurry, a treatment discussed as a measure to reduce N₂O emission and nitrate leaching, changed NH₃ emission.

Integrated weed management with strategic tillage can maintain soil quality in continuous living cover systems

Maximizing living cover and minimizing soil disturbance with no-till are key strategies in regenerative row-crop production. Although living cover and no-till can increase beneficial soil carbon and water stable aggregates (WSA), annual crops in rotation with perennials often rely on herbicides to control weeds and terminate perennials. Integrated weed management (IWM) reduces reliance on herbicides by employing multiple weed control strategies including tillage and/or cultivation. However, many no-till growers are reluctant to implement some soil disturbance due to concerns about negative impacts on soil health. For that reason, we hypothesized that compared to continuous no-till and standard herbicides (NT-SH), a strategic inversion tillage in IWM (ST-IWM) would result in lower soil carbon and WSA in the year following the tillage event. We also hypothesized that soil carbon and WSA would not differ between the two systems when sampled after cover cropping and 2 years of perennials. We tested these hypotheses within a 6-year, diverse, dairy crop rotation initiated in 2010 in central Pennsylvania in a channery silt loam soil. The systems were compared in split-plots in a full crop entry experiment, where the six phases of the crop rotation were planted every year in a randomized complete block design, replicated four times. We compared the soil health indicators in spring 2010 prior to the start of the experiment and in 2013 and 2019 following inversion tillage (ST-IWM) or herbicide termination (NT-SH) of the perennial forage in the first year of the rotation. We also compared these indicators in the sixth year of the rotation after 3 years of annual and cover crops and 2 years of perennial forage. We sampled at two depths: 0–5 and 5–15 cm for total carbon and bulk density, 0–5 cm for labile carbon and 0–15 cm for WSA. Results indicate that despite initial smaller soil health values in the ST-IWM system following inversion tillage, all properties except labile carbon were similar to the NT-SH system in the sixth year of the rotation.

Advancing the science and practice of ecological nutrient management for smallholder farmers

Soil degradation is widespread in smallholder agrarian communities across the globe where limited resource farmers struggle to overcome poverty and malnutrition. This review lays out the scientific basis and practical management options for an ecologically based approach to sustainably managing soil fertility, with particular attention to smallholder subsistence systems. We seek to change the trajectory of development programs that continue to promote inorganic fertilizers and other high input strategies to resource constrained smallholders, despite ample evidence that this approach is falling short of food security goals and contributing to resource degradation. Ecological nutrient management (ENM) is an agroecological approach to managing the biogeochemical cycles that govern soil ecosystem services and soil fertility. The portfolio of ENM strategies extends beyond reliance on inorganic fertilizers and is guided by the following five principles: (1) Build soil organic matter and other nutrient reserves. (2) Minimize the size of N and P pools that are the most susceptible to loss. (3) Maximize agroecosystem capacity to use soluble, inorganic N and P. (4) Use functional and phylogenetic biodiversity to minimize bare fallows and maximize presence of growing plants. (5) Construct agroecosystem and field scale mass balances to track net nutrient flows over multiple growing seasons. Strategic increases in spatial and temporal plant species diversity is a core ENM tactic that expands agroecosystem multifunctionality to meet smallholder priorities beyond soil restoration and crop yields. Examples of ENM practices include the use of functionally designed polycultures, diversified rotations, reduced fallow periods, increased reliance on legumes, integrated crop-livestock production, and use of variety of soil amendments. These practices foster soil organic matter accrual and restoration of soil function, both of which underpin agroecosystem resilience. When ENM is first implemented, short-term yield outcomes are variable; however, over the long-term, management systems that employ ENM can increase yields, yield stability, profitability and food security. ENM rests on a solid foundation of ecosystem and biogeochemical science, and despite the many barriers imposed by current agricultural policies, successful ENM systems are being promoted by some development actors and used by smallholder farmers, with promising results.

Climate change induces carbon loss of arable mineral soils in boreal conditions

One-fourth of the global soil organic carbon (SOC) is stored in the boreal region, where climate change is predicted to be faster than the global average. Planetary warming is accelerated if climate change promotes SOC release into the atmosphere as carbon dioxide. However, the soil carbon-climate feedbacks have been poorly confirmed by SOC measurements despite their importance on global climate. In this study, we used data collected as part of the Finnish arable soil monitoring program to study the influence of climate change, management practices, and historical land use on changes in SOC content using a Bayesian approach. Topsoil samples (n = 385) collected nationwide in 2009 and 2018 showed that SOC content has decreased at the rate of 0.35% year-1 on average. Based on the Bayesian modeling of our data, we can say with a certainty of 79%-91% that increase in summertime (May-Sep) temperature has resulted in SOC loss while increased precipitation has resulted in SOC loss with a certainty of 90%-97%. The exact percentages depend on the climate dataset used. Historical land use was found to influence the SOC content for decades after conversion to cropland. Former organic soils with a high SOC-to-fine-fraction ratio were prone to high SOC loss. In fields with long cultivation history (>100 years), however, the SOC-to-fine-fraction ratio had stabilized to approximately 0.03-0.04 and the changes in SOC content leveled off. Our results showed that, although arable SOC sequestration can be promoted by diversifying crop rotations and by cultivating perennial grasses, it is unlikely that improved management practices are sufficient to counterbalance the climate change-induced SOC losses in boreal conditions. This underlines the importance of the reduction of greenhouse gas emissions to avoid the acceleration of planetary warming.

How the Nitrogen Economy of a Perennial Cereal-Legume Intercrop Affects Productivity: Can Synchrony Be Achieved?

The UN's Sustainable Development goal of Zero Hunger encompasses a holistic set of targets that range from ending hunger by 2030, to increasing environmental sustainability and resilience of food production. Securing and managing soil nutrients remains one of the most basic challenges to growing adequate food while simultaneously protecting biodiversity and the integrity of ecosystems. To achieve these objectives, it is increasingly clear that the management of ecological processes will need to supplant reliance on non-renewable and environmentally damaging inputs. In recent years, progress has been made in developing perennial grain crops that show promise to improve on a range of ecological functions such as efficient nitrogen cycling and soil carbon accretion that tend to be well-developed in natural ecosystems but become compromised following land conversion to row crop agriculture. Here we report on a multi-faceted, 5-year experiment in which intermediate wheatgrass (IWG) (Thinopyrum intermedium), a perennial relative of wheat that is bred to produce the grain Kernza®, was intercropped in alternating rows with the perennial legume alfalfa (Medicago sativa). The performance of the unfertilized intercrop was compared to monocropped IWG treatments, with and without urea-N applications, planted at two row densities such that the intercrop could be interpreted as either an addition or substitution design. Comparisons of relative IWG yields (RYs) in the intercrop with unfertilized monocrops suggest net competitive interactions between alfalfa and IWG in the establishment year, followed by increasing degrees of facilitation over the next 4 years. Evidence from N fertilizer responsiveness, SPAD readings, net N mineralization assays, and N balance calculations suggest that alfalfa contributed to an aggrading pool of soil organic nitrogen over the course of the experiment. Comparisons of grain RYs of intercropped IWG and fertilized IWG monocultures suggest N-limitation in the first half of the experiment, and N sufficiency in the second half. Grain yields in the intercrop did not decline significantly over 5 years in contrast to all IWG monocrop treatments that did significantly decline. This study contributes to a growing literature on approaches to ecological nutrient management that incorporate diversity and perenniality to increase food security and resilience.

Links Among Crop Diversification, Microbial Diversity, and Soil Organic Carbon: Mini Review and Case Studies

Interactions between species above- and belowground are among the top factors that govern ecosystem functioning including soil organic carbon (SOC) storage. In agroecosystems, understanding how crop diversification affects soil biodiversity and SOC storage at the local scale remains a key challenge for addressing soil degradation and biodiversity loss that plague these systems. Yet, outcomes of crop diversification for soil microbial diversity and SOC storage, which are key indicators of soil health, are not always positive but rather they are highly idiosyncratic to agroecosystems. Using five case studies, we highlight the importance of selecting ideal crop functional types (as opposed to focusing on plant diversity) when considering diversification options for maximizing SOC accumulation. Some crop functional types and crop diversification approaches are better suited for enhancing SOC at particular sites, though SOC responses to crop diversification can vary annually and with duration of crop cover. We also highlight how SOC responses to crop diversification are more easily interpretable through changes in microbial community composition (as opposed to microbial diversity). We then develop suggestions for future crop diversification experiment standardization including (1) optimizing sampling effort and sequencing depth for soil microbial communities and (2) understanding the mechanisms guiding responses of SOC functional pools with varying stability to crop diversification. We expect that these suggestions will move knowledge forward about biodiversity and ecosystem functioning in agroecosystems, and ultimately be of use to producers for optimizing soil health in their croplands.

Should Gene Editing Be Used to Develop Crops for Continuous-Living-Cover Agriculture? A Multi-Sector Stakeholder Assessment Using a Cooperative Governance Approach

Continuous-living-cover (CLC) agriculture integrates multiple crops to create diversified agroecosystems in which soils are covered by living plants across time and space continuously. CLC agriculture can greatly improve production of many different ecosystem services from agroecosystems, including climate adaptation and mitigation. To go to scale, CLC agriculture requires crops that not only provide continuous living cover but are viable in economic and social terms. At present, lack of such viable crops is strongly limiting the scaling of CLC agriculture. Gene editing (GE) might provide a powerful tool for developing the crops needed to expand CLC agriculture to scale. To assess this possibility, a broad multi-sector deliberative group considered the merits of GE-relative to alternative plant-breeding methods-as means for improving crops for CLC agriculture. The group included many of the sectors whose support is necessary to scaling agricultural innovations, including actors involved in markets, finance, policy, and R&D. In this article, we report findings from interviews and deliberative workshops. Many in the group were enthusiastic about prospects for applications of GE to develop crops for CLC agriculture, relative to alternative plant-breeding options. However, the group noted many issues, risks, and contingencies, all of which are likely to require responsive and adaptive management. Conversely, if these issues, risks, and contingencies cannot be managed, it appears unlikely that a strong multi-sector base of support can be sustained for such applications, limiting their scaling. Emerging methods for responsible innovation and scaling have potential to manage these issues, risks, and contingencies; we propose that outcomes from GE crops for CLC agriculture are likely to be much improved if these emerging methods are used to govern such projects. However, both GE of CLC crops and responsible innovation and scaling are unrefined innovations. Therefore, we suggest that the best pathway for exploring GE of CLC crops is to intentionally couple implementation and refinement of both kinds of innovations. More broadly, we argue that such pilot projects are urgently needed to navigate intensifying grand challenges around food and agriculture, which are likely to create intense pressures to develop genetically-engineered agricultural products and equally intense social conflict.

Global variation in soil carbon sequestration potential through improved cropland management

Widespread adoption of improved cropland management measures is advocated to increase soil organic carbon (SOC) levels, thereby improving soil fertility and mitigating climate change. However, spatially explicit insight on management impacts is limited, which is crucial for region-specific and climate-smart practices. To overcome these limitations, we combined global meta-analytical results on improved management practices on SOC sequestration with spatially explicit data on current management practices and potential areas for the adoption of these measures. We included (a) fertilization practices, i.e., use of organic fertilizer compared to inorganic fertilizer or no fertilizer, (b) soil tillage practices, i.e., no-tillage relative to high or intermediate intensity tillage, and (c) crop management practices, i.e., use of cover crops and enhanced crop residue incorporation. We show that the estimated global C sequestration potential varies between 0.44 and 0.68 Gt C yr^-1 , assuming maximum complementarity among all measures taken. A more realistic estimate, not assuming maximum complementarity, is from 0.28 to 0.43 Gt C yr^-1 , being on the lower end of the current range of 0.1-2 Gt C yr^-1 found in the literature. One reason for the lower estimate is the limited availability of manure that has not yet been recycled. Another reason is the limited area for the adoption of improved measures, considering their current application and application limitations. We found large regional differences in carbon sequestration potential due to differences in yield gaps, SOC levels, and current practices applied. The highest potential is found in regions with low crop production, low initial SOC levels, and in regions where livestock manure and crop residues are only partially recycled. Supporting previous findings, we highlight that to encourage both soil fertility and SOC sequestration, it is best to focus on agricultural soils with large yield gaps and/or where SOC values are below levels that may limit crop production.

Restoring Soil Fertility on Degraded Lands to Meet Food, Fuel, and Climate Security Needs via Perennialization

A continuously growing pressure to increase food, fiber, and fuel production to meet worldwide demand and achieve zero hunger has put severe pressure on soil resources. Abandoned, degraded, and marginal lands with significant agricultural constraints—many still used for agricultural production—result from inappropriately intensive management, insufficient attention to soil conservation, and climate change. Continued use for agricultural production will often require ever more external inputs such as fertilizers and herbicides, further exacerbating soil degradation and impeding nutrient recycling and retention. Growing evidence suggests that degraded lands have a large potential for restoration, perhaps most effectively via perennial cropping systems that can simultaneously provide additional ecosystem services. Here we synthesize the advantages of and potentials for using perennial vegetation to restore soil fertility on degraded croplands, by summarizing the principal mechanisms underpinning soil carbon stabilization and nitrogen and phosphorus availability and retention. We illustrate restoration potentials with example systems that deliver climate mitigation (cellulosic bioenergy), animal production (intensive rotational grazing), and biodiversity conservation (natural ecological succession). Perennialization has substantial promise for restoring fertility to degraded croplands, helping to meet future food security needs.

Positive but variable effects of crop diversification on biodiversity and ecosystem services

Ecological theory suggests that biodiversity has a positive and stabilizing effect on the delivery of ecosystem services. Yet, the impacts of increasing the diversity of cultivated crop species or varieties in agroecosystems are still under scrutiny. The available empirical evidence is scattered in scope, agronomic and geographic contexts, and impacts on ecosystem services may depend on the type of diversification strategy used. To robustly assess the effects of crop diversification in agroecosystems, we compiled the results of 95 meta-analyses integrating 5156 experiments conducted over 84 experimental years and representing more than 54,500 paired observations on 120 crop species in 85 countries. Overall, our synthesis of experimental data from across the globe shows that crop diversification enhances not only crop production (median effect +14%) but also the associated biodiversity (+24%, i.e., the biodiversity of non-cultivated plants and animals), and several supporting and regulating ecosystem services including water quality (+51%), pest and disease control (+63%) and soil quality (+11%). However, there was substantial variability in the results for each individual ecosystem service between different diversification strategies such as agroforestry, intercropping, cover crops, crop rotation or variety mixtures. Agroforestry is particularly effective in delivering multiple ecosystem services, that is, water regulation and quality, pest and diseases regulation, associated biodiversity, long-term soil productivity and quality. Variety mixtures, instead, provide the lowest benefits, whereas the other strategies show intermediate results. Our results highlight that while increasing the diversity of cultivated crop species or varieties in agroecosystems represents a very promising strategy for more sustainable land management, contributing to enhanced yields, enhanced biodiversity and ecosystem services, some crop diversification strategies are more effective than others in supporting key ecosystem services.

Improvement of Maize Productivity and N Use Efficiency in a No-Tillage Irrigated Farming System: Effect of Cropping Sequence and Fertilization Management

The sequence of the preceding crops in a no-tillage farming system, could interact with the integrated use of mineral and organic nitrogen (N) sources in a way that improves the growth and productivity of the terminal maize crop, meanwhile, enhancing its N use efficiency (NUE). In the current study, six legume-cereal crop sequences, including faba bean, soybean, Egyptian clover, wheat, and maize were evaluated along two experimental rotations that ended up by planting the terminal maize crop. In addition, the effects of applying variable mineral nitrogen (MN) rates with and without the incorporation of farmyard manure (FYM) on the productive performance of maize and its NUE were tested. The field experiments were conducted in a no-tillage irrigated farming system in Northern Egypt, a location that is characterized by its arid, Mediterranean climate. Results revealed that increasing the legume component in the evaluated crop sequences, up to 75%, resulted in improved maize ear leaf area, 1000-grain weight, and harvest index, thus, a higher final grain yield, with the inclusion of Egyptian clover was slightly better than faba bean. Comparing the crop sequences with 50% legume contribution uncovered the positive effects of soybean preceding crop on the terminal maize crop. Substituting 25% of the applied MN with FYM resulted in similar maize yields to the application of the equivalent 100% MN rates. The fertilizer treatments significantly interacted with the crop sequences in determining the maize grain yield, where the highest legume crop contribution in the crop sequence (75%) equalized the effects of the different fertilizer treatments on maize grain yield. The integrated use of FYM with MN in maize fertilization improved the NUE compared to the application of MN alone. Comparing fertilization treatments with similar MN content, with and without FYM, revealed that the difference in NUE was attributed to the additional amount of FYM. In similar conditions to the current study, it is recommended to grow faba bean two years before maize, while Egyptian clover could be grown directly preceding maize growth, with frequent inclusion of soybean in the sequence, this could be combined with the application of an average of 200 kg MN ha^-1 in addition to FYM.

Forage Species Identity Shapes Soil Biota in a Temperate Agroecosystem

Increasing plant diversity in the perennial phase of pasture-crop rotations is predicted to positively affect belowground productivity and microbial communities and, in turn, augment belowground agroecosystem services including soil health and carbon storage. Using two grass and one legume forage species grown as monocultures and combined in four intercropped combinations, we evaluated how species identity and richness influence belowground productivity, soil microbial communities, and soil C pools. Though grass-legume intercrops demonstrated higher aboveground productivity than component species grown in monoculture, higher species richness was not associated with increased productivity belowground. Root biomass was greatest in tall fescue (Festuca arundinacea Schreb.) monoculture, and intercrops including this species. Species identity was similarly associated with soil microbial community attributes. Orchardgrass (Dactylis glomerata L.) monoculture exhibited lower total microbial abundance and lower bacterial abundance than grass-legume intercrops. Bacterial abundance was also lower in orchardgrass compared to white clover (Trifolium repens L.) monoculture. A common indictor of soil function, the fungal:bacterial ratio, was higher in grass-only than clover-only stands. The prevalence of species-specific impacts on roots and microbial communities in this study suggests that species identity may have a stronger influence than species richness on belowground agroecosystem services from perennial forages in temperate regions.

Management of cover crops in temperate climates influences soil organic carbon stocks: a meta-analysis

Increasing the quantity and quality of plant biomass production in space and time can improve the capacity of agroecosystems to capture and store atmospheric carbon (C) in the soil. Cover cropping is a key practice to increase system net primary productivity (NPP) and increase the quantity of high-quality plant residues available for integration into soil organic matter (SOM). Cover crop management and local environmental conditions, however, influence the magnitude of soil C stock change. Here, we used a comprehensive meta-analysis approach to quantify the effect of cover crops on soil C stocks from the 0-30 cm soil depth in temperate climates and to identify key management and ecological factors that impact variation in this response. A total of 40 publications with 181 observations were included in the meta-analysis representing six countries across three different continents. Overall, cover crops had a strong positive effect on soil C stocks (P < 0.0001) leading to a 12% increase, averaging 1.11 Mg C/ha more soil C relative to a no cover crop control. The strongest predictors of SOC response to cover cropping were planting and termination date (i.e., growing window), annual cover crop biomass production, and soil clay content. Cover crops planted as continuous cover or autumn planted and terminated led to 20-30% greater total soil C stocks relative to other cover crop growing windows. Likewise, high annual cover crop biomass production (>7 Mg·ha^-1 ·yr^-1 ) resulted in 30% higher total soil C stocks than lower levels of biomass production. Managing for greater NPP by improving synchronization in cover crop growing windows and climate will enhance the capacity of this practice to drawdown carbon dioxide (CO₂ ) from the atmosphere across agroecosystems. The integration of growing window (potentially as a proxy for biomass growth), climate, and soil factors in decision-support tools are relevant for improving the quantification of soil C stock change under cover crops, particularly with the expansion of terrestrial soil C markets.

Can N2 O emissions offset the benefits from soil organic carbon storage?

To respect the Paris agreement targeting a limitation of global warming below 2°C by 2100, and possibly below 1.5°C, drastic reductions of greenhouse gas emissions are mandatory but not sufficient. Large-scale deployment of other climate mitigation strategies is also necessary. Among these, increasing soil organic carbon (SOC) stocks is an important lever because carbon in soils can be stored for long periods and land management options to achieve this already exist and have been widely tested. However, agricultural soils are also an important source of nitrous oxide (N₂ O), a powerful greenhouse gas, and increasing SOC may influence N₂ O emissions, likely causing an increase in many cases, thus tending to offset the climate change benefit from increased SOC storage. Here we review the main agricultural management options for increasing SOC stocks. We evaluate the amount of SOC that can be stored as well as resulting changes in N₂ O emissions to better estimate the climate benefits of these management options. Based on quantitative data obtained from published meta-analyses and from our current level of understanding, we conclude that the climate mitigation induced by increased SOC storage is generally overestimated if associated N₂ O emissions are not considered but, with the exception of reduced tillage, is never fully offset. Some options (e.g. biochar or non-pyrogenic C amendment application) may even decrease N₂ O emissions.

Soil as an extended composite phenotype of the microbial metagenome

We use a unique set of terrestrial experiments to demonstrate how soil management practises result in emergence of distinct associations between physical structure and biological functions. These associations have a significant effect on the flux, resilience and efficiency of nutrient delivery to plants (including water). Physical structure, determining the air–water balance in soil as well as transport rates, is influenced by nutrient and physical interventions. Contrasting emergent soil structures exert selective pressures upon the microbiome metagenome. These selective pressures are associated with the quality of organic carbon inputs, the prevalence of anaerobic microsites and delivery of nutrients to microorganisms attached to soil surfaces. This variety results in distinctive gene assemblages characterising each state. The nature of the interactions provide evidence that soil behaves as an extended composite phenotype of the resident microbiome, responsive to the input and turnover of plant-derived organic carbon. We provide new evidence supporting the theory that soil-microbe systems are self-organising states with organic carbon acting as a critical determining parameter. This perspective leads us to propose carbon flux, rather than soil organic carbon content as the critical factor in soil systems, and we present evidence to support this view.

Short-term grazing of cover crops and maize residue impacts on soil greenhouse gas fluxes in two Mollisols

An integrated crop-livestock system (ICLS), when managed properly, can help in mitigating soil surface greenhouse gas (GHG) fluxes, especially carbon dioxide (CO₂ ), methane (CH₄ ), and nitrous oxide (N₂ O). However, the impacts of an ICLS on GHG fluxes are poorly understood. The present study was conducted at two sites (northern Brookings [Brookings-N] and northwestern Brookings [Brookings-NW]) established in 2016 and 2017, respectively, under loamy soils in South Dakota. The specific objective was to evaluate the impact of cover crops (CCs) and grazed CCs under oat (Avena sativa L.)-CCs-maize (Zea mays L.) rotation on GHG fluxes. Study treatments included the following: (a) a legume-dominated CC (LdC), (b) a cattle-grazed LdC (LdC+G), (c) a grass-dominated CC (GdC), (d) a cattle-grazed GdC (GdC+G), and (e) one without CC or grazing (NC). Greenhouse gas monitoring occurred weekly during the growing crop seasons in 2016 and 2017 for Brookings-N and in 2017 and 2018 for Brookings-NW. Data showed that cumulative CO₂ and N₂ O fluxes at Brookings-N were lower for GdC+G (4042 kg C ha^-1 for CO₂ and 1499 g N ha^-1 for N₂ O) than for LdC+G (4819 kg C ha^-1 for CO₂ and 2017 g N ha^-1 for N₂ O), indicating the superiority of GdC+G over LdC+G in reducing GHG fluxes. However, no effect from grazed CC on cumulative CO₂ and N₂ O fluxes were observed at the Brookings-NW site. Cumulative CH₄ flux was not affected by an ICLS at either site. This short-term investigation showed that, in general, CCs and grazing of CCs and maize residue did not impact GHG fluxes.

Agriculture, dairy and fishery farming practices and greenhouse gas emission footprint: a strategic appraisal for mitigation

Rising global population would force farmers to amplify food production substantially in upcoming 3-4 decades. The easiest way to increase grain production is through expanding cropping area by clearing uncultivated land. This is attained by permitting deadly loss of carbon (C) stocks, jeopardizing ecosystem biodiversity and deteriorating environmental quality. We aim to propose key agronomical tactics, livestock management strategy and advance approaches for aquaculture to increase productivity and simultaneously reduce the environmental impacts of farming sector. For this, we considered three major sectors of farming, i.e. agriculture, fishery and dairy. We collected literatures stating approaches or technologies that could reduce GHG emission from these sectors. Thereafter, we synthesized strategies or options that are more feasible and accessible for inclusion in farm sector to reduce GHG emission. Having comprehensively reviewed several publications, we propose potential strategies to reduce GHG emission. Agronomic practices like crop diversification, reducing summer fallow, soil organic carbon sequestration, tillage and crop residue management and inclusion of N₂-fixing pulses in crop rotations are some of those. Livestock management through changing animals' diets, optimal use of the gas produced from manures, frequent and complete manure removal from animal housing and aquaculture management strategies to improve fish health and improve feed conversion efficiency could reduce their GHG emission footprint too. Adapting of effective and economic practices GHG emission footprint reduction potential of farming sector could make farming sector a C neutral enterprise. To overcome the ecological, technological and institutional barriers, policy on trade, tax, grazing practice and GHG pricing should be implemented properly.

Molecular mapping and identification of quantitative trait loci for domestication traits in the field cress (Lepidium campestre L.) genome

Lepidium campestre (L.) or field cress is a multifaceted oilseed plant, which is not yet domesticated. Moreover, the molecular and genetic mechanisms underlying the domestication traits of field cress remain largely elusive. The overarching goal of this study is to identify quantitative trait loci (QTL) that are fundamental for domestication of field cress. Mapping and dissecting quantitative trait variation may provide important insights into genomic trajectories underlying field cress domestication. We used 7624 single nucleotide polymorphism (SNP) markers for QTL mapping in 428 F₂ interspecific hybrid individuals, while field phenotyping was conducted in F_2:3 segregating families. We applied multiple QTL mapping algorithms to detect and estimate the QTL effects for seven important domestication traits of field cress. Verification of pod shattering across sites revealed that the non-shattering lines declined drastically whereas the shattering lines increased sharply, possibly due to inbreeding followed by selection events. In total, 1461 of the 7624 SNP loci were mapped to eight linkage groups (LGs), spanning 571.9 cM map length. We identified 27 QTL across all LGs of field cress genome, which captured medium to high heritability, implying that genomics-assisted selection could deliver domesticated lines in field cress breeding. The use of high throughput genotyping can accelerate the process of domestication in novel crop species. This is the first QTL mapping analysis in the field cress genome that may lay a foundational framework for positional or functional QTL cloning, introgression as well as genomics-assisted breeding in field cress domestication.

Feedbacks between nitrogen fixation and soil organic matter increase ecosystem functions in diversified agroecosystems

Nitrogen (N) losses from intensified agriculture are a major cause of global change, due to nitrate (NO₃^- ) export and the eutrophication of aquatic systems as well as emissions of nitrous oxide (N₂ O) into the atmosphere. Diversified agroecosystems with legume cover crops couple N and carbon (C) inputs to soil and reduce N pollution, but there is a need to identify controls on legume N₂ fixation across ecosystems with variable soil conditions. Here, I tested the hypothesis that N mineralization from turnover of soil organic matter (SOM) regulates legume N₂ fixation across 10 farms that spanned a gradient of SOM levels. I separated soil samples into two SOM fractions, based on size and density, which are indicators of soil nutrient cycling and N availability (free particulate organic matter and intra-aggregate particulate organic matter [POM]). This study indicates downregulation of legume N₂ fixation in diversified agroecosystems with increasing N availability in intra-aggregate POM and increasing N mineralization. Intercropping the legume with a grass weakened the relationship between N in POM and N₂ fixation due to N assimilation by the grass. Further, mean rates of N and C mineralization across sites increased with two seasons of a legume-grass cover crop mixture, which could enhance this stabilizing feedback between soil N availability and N₂ fixation over time. These results suggest a potential mechanism for the diversity-ecosystem-function relationships measured in long-term studies of agroecosystems, in which regular use of legume cover crops increases total soil organic C and N and reduces negative environmental impacts of crop production.

Does diversifying crop rotations suppress weeds? A meta-analysis

Over the past half-century, crop rotations have become increasingly simplified, with whole regions producing only one or two crops in succession. Simplification is problematic from a weed management perspective, because it results in weeds' repeated exposure to the same set of ecological and agronomic conditions. This can exacerbate weed infestations and promote the evolution of herbicide resistance. Diversifying crop rotations through addition of crop species and their associated managements may suppress weeds and reduce selection pressure for herbicide resistance by altering stress and mortality factors affecting weed dynamics. Here we report the results of a meta-analysis using 298 paired observations from 54 studies across six continents to compare weed responses due to simple and more diverse crop rotations. We found diversifying from simple rotations reduced weed density (49%), but did not have a significant effect on weed biomass. We investigated the effect of management practices, environmental factors, and rotation design on this effect. Diversification that increased the variance around crop planting dates was more effective in suppressing weeds than increasing crop species richness alone. Increasing rotational diversity reduced weed density more under zero-tillage conditions (65%) than tilled conditions (41%), and did so regardless of environmental context and auxiliary herbicide use. Our findings highlight the value of diversifying crop rotations to control weed populations, and support its efficacy under varied environmental conditions and management scenarios.

Impacts of crop rotational diversity and grazing under integrated crop-livestock system on soil surface greenhouse gas fluxes

Integrated crop-livestock (ICL) system is beneficial in enhancing soil organic carbon and nutrient cycling. However, the benefits of the ICL system on mitigation of GHG emissions are poorly understood. Thus, the present study was initiated in 2011 to assess the effect of crop rotation diversity and grazing managed under the ICL system on GHG emissions. The cropping system investigated here included spring wheat grown continuously for five years and a 5-yr crop rotation (spring wheat-cover crops-corn-pea/barley-sunflower). Each phase was present each year. Yearling steers grazed only the pea/barley, corn and cover crops plots in 2016 and 2017. Exclusion areas avoided the grazing in these crops to compare the GHG fluxes under grazed vs. non-grazed areas. The GHG fluxes were measured weekly from all crop phases during the growing season for both years using a static chamber. Cumulative CO₂ and CH₄ fluxes were similar from all crop phases over the study period. However, continuous spring wheat recorded higher cumulative N₂O fluxes (671 g N ha^-1) than that under spring wheat in rotation (571 g N ha^-1). Grazing decreased cumulative CO₂ fluxes (359 kg C ha^-1) compared to ungrazed (409 kg C ha^-1), however, no effect from grazing on cumulative CH₄ and N₂O fluxes over the study period were found. The present study shows that grazing and crop rotational diversity affected carbon and nitrogen inputs, which in turn affected soil CO₂ and N₂O fluxes. Long-term monitoring is needed to evaluate the response of soil GHG emissions to grazing and crop rotation interactions under the ICL system.