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Spatial capture–recapture (SCR) has emerged as the industry standard for estimating population density by leveraging information from spatial locations of repeat encounters of individuals. The precision of density estimates depends fundamentally on the number and spatial configuration of traps. Despite this knowledge, existing sampling design recommendations are heuristic and their performance remains untested for most practical applications. To address this issue, we propose a genetic algorithm that minimizes any sensible, criteria-based objective function to produce near-optimal sampling designs. To motivate the idea of optimality, we compare the performance of designs optimized using three model-based criteria related to the probability of capture. We use simulation to show that these designs outperform those based on existing recommendations in terms of bias, precision, and accuracy in the estimation of population size. Our approach, available as a function in the R package oSCR, allows conservation practitioners and researchers to generate customized and improved sampling designs for wildlife monitoring.

Species distribution models (SDMs) are frequently data‐limited. In aquatic habitats, emerging environmental DNA (eDNA) sampling methods can be quicker and more cost‐efficient than traditional count and capture surveys, but their utility for fitting SDMs is complicated by dilution, transport, and loss processes that modulate DNA concentrations and mix eDNA from different locations. Past models for estimating organism densities from measured species‐specific eDNA concentrations have accounted for how these processes affect expected concentrations. We built off this previous work to construct a linear hierarchical model that also accounts for how they give rise to spatially correlated concentration errors. We applied our model to 60 simulated stream networks and three types of species niches in order to answer two questions: 1) what is the D‐optimal sampling design, i.e. where should eDNA samples be positioned to most precisely estimate species–environment relationships? and 2) How does parameter estimation accuracy depend on the stream network's topological and hydrologic properties? We found that correcting for eDNA dynamics was necessary to obtain consistent parameter estimates, and that relative to a heuristic benchmark design, optimizing sampling locations improved design efficiency by an average of 41.5%. Samples in the D‐optimal design tended to be positioned near downstream ends of stream reaches high in the watershed, where eDNA concentration was high and mostly from homogeneous source areas, and they collectively spanned the full ranges of covariates. When measurement error was large, it was often optimal to collect replicate samples from high‐information reaches. eDNA‐based estimates of species–environment regression parameters were most precise in stream networks that had many reaches, large geographic size, slow flows, and/or high eDNA loss rates. Our study demonstrates the importance and viability of accounting for eDNA dilution, transport, and loss in order to optimize sampling designs and improve the accuracy of eDNA‐based species distribution models.

Machine learning classifiers are being increasingly used nowadays for Land Use and Land Cover (LULC) mapping from remote sensing images. However, arriving at the right choice of classifier requires understanding the main factors influencing their performance. The present study investigated firstly the effect of training sampling design on the classification results obtained by Random Forest (RF) classifier and, secondly, it compared its performance with other machine learning classifiers for LULC mapping using multi-temporal satellite remote sensing data and the Google Earth Engine (GEE) platform. We evaluated the impact of three sampling methods, namely Stratified Equal Random Sampling (SRS(Eq)), Stratified Proportional Random Sampling (SRS(Prop)), and Stratified Systematic Sampling (SSS) upon the classification results obtained by the RF trained LULC model. Our results showed that the SRS(Prop) method favors major classes while achieving good overall accuracy. The SRS(Eq) method provides good class-level accuracies, even for minority classes, whereas the SSS method performs well for areas with large intra-class variability. Toward evaluating the performance of machine learning classifiers, RF outperformed Classification and Regression Trees (CART), Support Vector Machine (SVM), and Relevance Vector Machine (RVM) with a >95% confidence level. The performance of CART and SVM classifiers were found to be similar. RVM achieved good classification results with a limited number of training samples.

The current land cover (LC) mapping paradigm relies on automatic satellite imagery classification, predominantly through supervised methods, which depend on training data to calibrate classification algorithms. Hence, training data have a critical influence on classification accuracy. Although research on specific aspects of training data in the LC classification context exists, a study that organizes and synthetizes the multiplicity of aspects and findings of these researches is needed. In this article, we review the training data used for LC classification of satellite imagery. A protocol of identification and selection of relevant documents was followed, resulting in 114 peer-reviewed studies included. Main research topics were identified and documents were characterized according to their contribution to each topic, which allowed uncovering subtopics and categories and synthetizing the main findings regarding different aspects of the training dataset. The analysis found four research topics, namely construction of the training dataset, sample quality, sampling design and advanced learning techniques. Subtopics included sample collection method, sample cleaning procedures, sample size, sampling method, class balance and distribution, among others. A summary of the main findings and approaches provided an overview of the research in this area, which may serve as a starting point for new LC mapping initiatives.

Although ecosystems respond to global change at regional to continental scales (i.e., macroscales), model predictions of ecosystem responses often rely on data from targeted monitoring of a small proportion of sampled ecosystems within a particular geographic area. In this study, we examined how the sampling strategy used to collect data for such models influences predictive performance. We subsampled a large and spatially extensive data set to investigate how macroscale sampling strategy affects prediction of ecosystem characteristics in 6,784 lakes across a 1.8-million-km² area. We estimated model predictive performance for different subsets of the data set to mimic three common sampling strategies for collecting observations of ecosystem characteristics: random sampling design, stratified random sampling design, and targeted sampling. We found that sampling strategy influenced model predictive performance such that (1) stratified random sampling designs did not improve predictive performance compared to simple random sampling designs and (2) although one of the scenarios that mimicked targeted (non-random) sampling had the poorest performing predictive models, the other targeted sampling scenarios resulted in models with similar predictive performance to that of the random sampling scenarios. Our results suggest that although potential biases in data sets from some forms of targeted sampling may limit predictive performance, compiling existing spatially extensive data sets can result in models with good predictive performance that may inform a wide range of science questions and policy goals related to global change.

A traditional grid model for soil sampling may suffer from poor efficiency and low accuracy. With a nonferrous metal processing plant as the study area, a three-dimensional kriging interpolation model was built based on this plant’s preliminary investigation data for arsenic (As), and a detailed survey sampling programme was proposed. The sampling density at the pollution interval of the surface soil was estimated by the coefficient of variation method, and the sampling depth was determined by the pollution interval of the vertical prediction results. The results showed that the encrypted soil sampling distribution optimisation method obtains greater pointing accuracy with fewer points. The sampling accuracy was 87.62% after optimising the depth of pointing. Moreover, this approach could save 66.13% of the sampling costs and 56.93% of the testing costs compared to a full deployment programme. This study provides a new and cost-effective method for predicting the extent of contamination exceedance at a site and provides valuable information to guide post-remediation strategies for contaminated sites.

The spatial representativeness of the in-situ data is an important prerequisite for ensuring the reliability and accuracy of remote sensing product retrieval and verification. Limited by the collection cost and time window, it is essential to simultaneously collect multiple water parameter data in water tests. In the shipboard measurements, sampling design faces problems, such as heterogeneity of water quality multi-parameter spatial distribution and variability of sampling plan under multiple constraints. Aiming at these problems, a water multi-parameter sampling design method is proposed. This method constructs a regional multi-parameter weighted space based on the single-parameter sampling design and performs adaptive weighted fusion according to the spatial variation trend of each water parameter within it to obtain multi-parameter optimal sampling points. The in-situ datasets of three water parameters (chlorophyll a, total suspended matter, and Secchi-disk Depth) were used to test the spatial representativeness of the sampling method. The results showed that the sampling method could give the sampling points an excellent spatial representation in each water parameter. This method can provide a fast and efficient sampling design for in-situ data for water parameters, thereby reducing the uncertainty of inversion and the validation of water remote sensing products.

The diversity observed among crop wild relatives (CWRs) and their ability to flourish in unfavorable and harsh environments have drawn the attention of plant scientists and breeders for many decades. However, it is also recognized that the benefit gained from using CWRs in breeding is a potential rose between thorns of detrimental genetic variation that is linked to the trait of interest. Despite the increased interest in CWRs, little attention was given so far to the statistical, analytical, and technical considerations that should guide the sampling design, the germplasm characterization, and later its implementation in breeding. Here, we review the entire process of sampling and identifying beneficial genetic variation in CWRs and the challenge of using it in breeding. The ability to detect beneficial genetic variation in CWRs is strongly affected by the sampling design which should be adjusted to the spatial and temporal variation of the target species, the trait of interest, and the analytical approach used. Moreover, linkage disequilibrium is a key factor that constrains the resolution of searching for beneficial alleles along the genome, and later, the ability to deplete linked deleterious genetic variation as a consequence of genetic drag. We also discuss how technological advances in genomics, phenomics, biotechnology, and data science can improve the ability to identify beneficial genetic variation in CWRs and to exploit it in strive for higher-yielding and sustainable crops.

Correctly identifying the effects of a human impact on a system is a persistent challenge in ecology, driven partly by the variable nature of natural systems. This is particularly true in many marine fishery species, which frequently experience large temporal fluctuations in recruitment that produce interannual variations in populations. This variability complicates efforts to maintain stocks at management targets or detect the effects of rebuilding efforts. We address this challenge in the context of no-take marine reserves by exploring how variable larval recruitment could interact with the timing of reserve establishment and choice of sampling design to affect population dynamics and the detectability of reserve effects. To predict population changes in the years following a no-take reserve implementation, we first tested for periodicity in larval recruitment in an important U.S. Pacific coast recreational fishery species (kelp bass, Paralabrax clathratus) and then included that pattern in a population model. We also used this model to determine the detectability of population increases under alternative sampling approaches and minimum age sampled. Kelp bass larval recruitment in the Channel Islands, California, peaked every about six (major) and about two (minor) years. Our model showed that establishing a reserve during a peak or trough enhanced or delayed, respectively, the post-reserve population increases. However, establishing a reserve during a recruitment peak could obscure a failing reserve, that is, a reserve that is unable to secure longer-term metapopulation persistence. Recruitment peaks and troughs also interacted with sampling design to affect the detectability of reserve effects. Designs that compared inside-outside were the most robust to variable recruitment, but failed to capture whether the reserve has improved metapopulation growth. Designs that included a time element (e.g., before-after) are more suited to assessing reserve effectiveness, but were sensitive to recruitment variation and detectability can change year-to-year. Notably, detectability did not always increase monotonically with reserve age; the optimal time for detectability depended on the minimum age of organisms sampled and was greatest when the cohort of a major recruitment peak first appeared in the sampling. We encourage managers to account for variable recruitment when planning monitoring and assessment programs.

ContextBiodiversity monitoring programs require fast, reliable and cost-effective methods for biodiversity assessment in landscapes. Sampling pollinators across entire landscapes is challenging, as trapping needs to cover many habitat types.ObjectivesWe developed and tested a landscape-wide sampling design for pollinators. We assessed the predictability and stability of pollinator biodiversity estimates in agricultural landscapes, and tested how estimates were affected by sampled habitat, landscape composition and spatial scale.MethodsWe sampled pollinators using pan traps at 250 locations in 10 replicated landscapes measuring 1 × 1 km and calculated bee richness predictions based on different sample sizes. Traps were placed regularly in each landscape, sampling each habitat proportionally to its area. Landscapes contained semi-natural habitats, crop fields and forests and differed in the amount of a mass-flowering crop (oilseed rape).ResultsRegular sampling reflected local habitat amount. Compared with cereal fields, significantly more pollinators occurred in oilseed rape, and fewer in forests. Sampling in only one habitat type led to biased estimates of landscape-wide bee species richness, even when sample size was increased. The spatial scale of best predictions depended on the sampled habitat. Species richness was overestimated when sampling was limited to semi-natural habitats and underestimated in oilseed rape fields. Precision increased with the number of sampling points per landscape.ConclusionsTo study landscape-wide pollinator biodiversity, we suggest to sample multiple sites per landscape in a broad range of resource-providing habitat types, with sample sizes proportional to habitat amount. Our approach will also be useful for biodiversity monitoring programs in general.