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Abstract From hillslope to small catchment scales (< 50 km 2 ), soil carbon management and mitigation policies rely on estimates and projections of soil organic carbon (SOC) stocks. Here we apply a process-based modeling approach that parameterizes the MIcrobial-MIneral Carbon Stabilization (MIMICS) model with SOC measurements and remotely sensed environmental data from the Reynolds Creek Experimental Watershed in SW Idaho, USA. Calibrating model parameters reduced error between simulated and observed SOC stocks by 25%, relative to the initial parameter estimates and better captured local gradients in climate and productivity. The calibrated parameter ensemble was used to produce spatially continuous, high-resolution (10 m 2 ) estimates of stocks and associated uncertainties of litter, microbial biomass, particulate, and protected SOC pools across the complex landscape. Subsequent projections of SOC response to idealized environmental disturbances illustrate the spatial complexity of potential SOC vulnerabilities across the watershed. Parametric uncertainty generated physicochemically protected soil C stocks that varied by a mean factor of 4.4 × across individual locations in the watershed and a − 14.9 to + 20.4% range in potential SOC stock response to idealized disturbances, illustrating the need for additional measurements of soil carbon fractions and their turnover time to improve confidence in the MIMICS simulations of SOC dynamics. 

Abstract Increased ecological disturbances, species invasions, and climate change are creating severe conservation problems for several plant species that are widespread and foundational. Understanding the genetic diversity of these species and how it relates to adaptation to these stressors are necessary for guiding conservation and restoration efforts. This need is particularly acute for big sagebrush (Artemisia tridentata; Asteraceae), which was once the dominant shrub over 1,000,000 km2 in western North America but has since retracted by half and thus has become the target of one of the largest restoration seeding efforts globally. Here, we present the first reference-quality genome assembly for an ecologically important subspecies of big sagebrush (A. tridentata subsp. tridentata) based on short and long reads, as well as chromatin proximity ligation data analyzed using the HiRise pipeline. The final 4.2 Gb assembly consists of 5,492 scaffolds, with nine pseudo-chromosomal scaffolds (nine scaffolds comprising at least 90% of the assembled genome; n = 9). The assembly contains an estimated 43,377 genes based on ab initio gene discovery and transcriptional data analyzed using the MAKER pipeline, with 91.37% of BUSCOs being completely assembled. The final assembly was highly repetitive, with repeat elements comprising 77.99% of the genome, making the Artemisia tridentata subsp. tridentata genome one of the most highly-repetitive plant genomes to be sequenced and assembled. This genome assembly advances studies on plant adaptation to drought and heat stress and provides a valuable tool for future genomic research. 

The structure and composition of plant communities in drylands are highly variable across scales, from microsites to landscapes. Fine spatial resolution field surveys of dryland plants are essential to unravel the impact of climate change; however, traditional field data collection is challenging considering sampling efforts and costs. Unoccupied aerial systems (UAS) can alleviate this challenge by providing standardized measurements of plant community attributes with high resolution. However, given widespread heterogeneity in plant communities in drylands, and especially across environmental gradients, the transferability of UAS imagery protocols is unclear. Plant functional types (PFTs) are a classification scheme that aggregates the diversity of plant structure and function. We mapped and modeled PFTs and fractional photosynthetic cover using the same UAS imagery protocol across three dryland communities, differentiated by a landscape‐scale gradient of elevation and precipitation. We compared the accuracy of the UAS products between the three dryland sites. PFT classifications and modeled photosynthetic cover had highest accuracies at higher elevations (2241 m) with denser vegetation. The lowest site (1101 m), with more bare ground, had the least agreement with the field data. Notably, shrub cover was well predicted across the gradient of elevation and precipitation (~230–1100 mm/year). UAS surveys captured the heterogeneity of plant cover across sites and presented options to measure leaf‐level composition and structure at landscape levels. Our results demonstrate that some PFTs (i.e., shrubs) can readily be detected across sites using the same UAS imagery protocols, while others (i.e., grasses) may require site‐specific flight protocols for best accuracy. As UAS are increasingly used to monitor dryland vegetation, developing protocols that maximize information and efficiency is a research and management priority.

 

Abstract. Data collected from research networks presentopportunities to test theories and develop models about factors responsiblefor the long-term persistence and vulnerability of soil organic matter(SOM). Synthesizing datasets collected by different research networkspresents opportunities to expand the ecological gradients and scientificbreadth of information available for inquiry. Synthesizing these data ischallenging, especially considering the legacy of soil data that havealready been collected and an expansion of new network science initiatives.To facilitate this effort, here we present the SOils DAta Harmonizationdatabase (SoDaH; https://lter.github.io/som-website, last access: 22 December 2020), a flexible database designed to harmonize diverse SOM datasets frommultiple research networks. SoDaH is built on several network scienceefforts in the United States, but the tools built for SoDaH aim to providean open-access resource to facilitate synthesis of soil carbon data.Moreover, SoDaH allows for individual locations to contribute results fromexperimental manipulations, repeated measurements from long-term studies,and local- to regional-scale gradients across ecosystems or landscapes.Finally, we also provide data visualization and analysis tools that can beused to query and analyze the aggregated database. The SoDaH v1.0 dataset isarchived and availableat https://doi.org/10.6073/pasta/9733f6b6d2ffd12bf126dc36a763e0b4 (Wieder et al., 2020). 

This SOils DAta Harmonization (SoDaH) database is designed to bring together soil carbon data from diverse research networks into a harmonized dataset that can be used for synthesis activities and model development. The research network sources for SoDaH span different biomes and climates, encompass multiple ecosystem types, and have collected data across a range of spatial, temporal, and depth gradients. The rich data sets assembled in SoDaH consist of observations from monitoring efforts and long-term ecological experiments. The SoDaH database also incorporates related environmental covariate data pertaining to climate, vegetation, soil chemistry, and soil physical properties. The data are harmonized and aggregated using open-source code that enables a scripted, repeatable approach for soil data synthesis. 

Understanding soil systems is critical because they form the structural and nutritional foundation for plants and thus every terrestrial habitat and agricultural system. In this paper, we encourage increased use of mathematical models to drive forward understanding of interactions in soil ecological systems. We discuss several distinctive features of soil ecosystems and empirical studies of them. We explore some perceptions that have previously deterred more extensive use of models in soil ecology and some advances that have already been made using models to elucidate soil ecological interactions. We provide examples where mathematical models have been used to test the plausibility of hypothesized mechanisms, to explore systems where experimental manipulations are currently impossible, or to determine the most important variables to measure in experimental and natural systems. To aid in the development of theory in this field, we present a table describing major soil ecology topics, the theory previously used, and providing key terms for theoretical approaches that could potentially address them. We then provide examples from the table that may either contribute to important incremental developments in soil science or potentially revolutionize our understanding of plant–soil systems. We challenge scientists and mathematicians to push theoretical explorations in soil systems further and highlight three major areas for the development of mathematical models in soil ecology: theory spanning scales and ecological hierarchies, processes, and evolution.