In recent decades, parasite community ecology has produced hundreds of studies on an ever-growing number of host species, and developed into an active sub-discipline of parasitology. However, this growth has been characterized by a lack of standards in the practices used by researchers, with many common approaches being flawed, unjustified or misleading. Here, in the hope of promoting advances in the study of parasite community ecology, I identify some of the most common errors or weaknesses in past studies, and propose ten simple rules for best practice in the field. They cover issues including, among others, taxonomic resolution, proper and justifiable analytical methods, higher-level replication, controlling for sampling effort or species richness, accounting for spatial distances, using experimental approaches, and placing raw data in the public domain. While knowledge of parasite communities has expanded in breadth, with more and more host species being studied, true progress has been very limited with respect to our understanding of fundamental general processes shaping these communities. It is hoped that the guidelines presented here can direct researchers away from the entrenched use of certain approaches flawed in design, analysis or interpretation, by offering a more rigorous and standardized set of practices, and, hopefully, a way forward.

Field survey by a taxonomist or specialist biologist (‘taxonomic survey’) provides a comprehensive inventory of species in a habitat. Common and conspicuous species are rapidly recorded and search effort can be targeted to inconspicuous or rare species. However, the subjective nature of taxonomic survey limits its usefulness in ecological monitoring and analysis. In contrast, ‘ecological sampling’, focused on the standardized use of repeated sub-units such as quadrats, is designed to quantify the observational error of results, allowing for more robust statistical treatment. Nevertheless, the spatial extent of recording will be lower during ecological sampling, and rarities might be missed. Despite their differences, these two approaches are often assumed to be congruent for decision making. Taxonomic survey is commonly used to identify priority sites for conservation (including species-rich sites, or those with many rare/threatened species) while ecological sampling is used to design conservation strategy by relating species richness or composition to habitat dynamics. If these contrasting approaches are indeed congruent, then trends in species richness and community composition, detected by ecological sampling, will mirror the results of taxonomic survey so that management confidently protects the attributes for which a site was prioritized. This study performed both taxonomic survey and ecological sampling for lichen epiphytes in 13 woodland study sites in Scotland. To understand the procedure of taxonomic survey, fieldwork by a professional taxonomist was structured by effort into 15-minute time intervals. As expected, taxonomic survey discovered more species per site, while ecological sampling (allowing a measure of species frequency) resolved greater variation in community composition. However, the patterns of richness and species composition obtained from the different methods were correlated, suggesting an overall high degree of congruence in identifying and then managing priority sites. Furthermore, when exploring the taxonomic survey in detail, we found that a minimum effort of 45 minutes was required to accurately determine species richness differences among contrasting woodland sites.

Two core questions in plant community ecology are to what extent the distributions of species are structured by local environmental conditions, and whether taxa differ in this regard. We compared the distributions of trees, Melastomataceae and ferns on soil and topographic gradients in a Costa Rican lowland rain forest (trees and ferns 983 plots, Melastomataceae 277 plots). To test whether these plant groups differed in the prevalence or type of habitat specialization, we calculated species’ environmental optima and tolerances on each gradient. Habitat specialization was defined as a significantly biased optimum, or a narrow tolerance, relative to values obtained under spatially restricted randomizations of species occurrences. Within plant groups, we also asked whether the dispersion of species optima differed from random expectation on each gradient. Fern optima were over-dispersed on multiple gradients, implying considerable interspecific habitat partitioning, and tree optima were over-dispersed in relation to topographic position. Habitat specialization was more prevalent in the two predominantly understorey groups than in trees (75% of Melastomataceae species, 81–87% of ferns, 57–58% of trees). Species optima of Melastomataceae and ferns also tended towards lower landscape positions than did those of trees, perhaps reflecting a higher proportion of drought-sensitive species in these two groups.

Antarctic seaweeds play an important ecological role, but the vast macroalgal beds, typical of the shallow-water zone, are not efficiently grazed. However, macroalgal thalli are covered by epiphytic diatoms which represent a rich food source for higher trophic levels. We describe the abundances, growth form structure, species composition and distribution patterns in the diatom communities associated with Phyllophora antarctica from selected sites within the Ross Sea. The goal of this work was to learn more about the relationships between various components of the epiphytic community and its habitat. To examine diatoms at the microscale, four relatively well described sampling sites were chosen and analyses were performed on a large number of diatoms. All observations and counts were made with the scanning electron microscope. Samples collected in the same season but from different sites and under different sea and ice conditions differed significantly in terms of species composition, but all represented abundant and well-developed diatom communities. A list of species associated with P. antarctica from the investigated area is provided and the influence of the sampling effort on the observed diatom diversity is assessed.

It is generally recommended to perform multiple stool examinations in order to improve the diagnostic accuracy when assessing the impact of mass drug administration programmes to control human intestinal worm infections and determining efficacy of the drugs administered. However, the collection and diagnostic work-up of multiple stool samples increases costs and workload. It has been hypothesized that these increased efforts provide more accurate results when infection and drug efficacy are summarized by prevalence (proportion of subjects infected) and cure rate (CR, proportion of infected subjects that become egg-negative after drug administration), respectively, but not when these indicators are expressed in terms of infection intensity and egg reduction rate (ERR). We performed a meta-analysis of six drug efficacy trials and one epidemiological survey. We compared prevalence and intensity of infection, CR and ERR based on collection of one or two stool samples that were processed with single or duplicate Kato-Katz thick smears. We found that the accuracy of prevalence estimates and CR was lowest with the minimal sampling effort, but that this was not the case for estimating infection intensity and ERR. Hence, a single Kato-Katz thick smear is sufficient for reporting infection intensity and ERR following drug treatment.

Asia’s rangelands and mountains are strongholds for several endemic ungulate species. Little is known about the ecology of these species because of the region’s remoteness and the lack of robust scientific studies. Hunting, habitat modification, increased livestock grazing, disease and development are the major threats to the species. There is an urgent need for better monitoring to identify the size, distribution and dynamics of the populations of these species, and the threats to them, for effective conservation. The feasibility of standard scientific monitoring is greatly influenced by the remoteness of the region, the pre-existing scientific ideology, lack of expertise in the latest monitoring methods and awareness of biases and errors, and low capacity and logistical and financial constraints. We review the existing methods used for monitoring ungulates, identify the practical and institutional challenges to effective monitoring in Central Asia and categorize the methods based on various criteria so that researchers can plan better monitoring studies suited to particular species. We illustrate these issues using examples from several contrasting ungulate species. We recommend that scientific surveys should be complemented by increases in participatory monitoring, involving local people. The future of ungulate monitoring in Central Asia lies in a better recognition of the existing errors and biases in monitoring programmes and methods, allocation of more monitoring effort in terms of manpower, finances and logistics, understanding of robust scientific methods and sampling theory, and changing the scientific culture, as well as a commitment to ensuring that we monitor the things that matter.

Studies in tropical streams are relatively few, and one of the still-unresolved methodological issues is sample size. Adequate sample size for temperate streams cannot be extrapolated for tropical sites, because of the differences in species richness and the proportions of rare species. We evaluated reliable sample size for estimation of resemblance among samples of macroinvertebrate assemblages inhabiting riffles of tropical streams, using the autosimilarity approach. Sample sizes were much larger than those currently employed in tropical studies. Sampling units consisted of individuals associated with single stones (15–20 cm). Evaluations employed the Bray-Curtis index for abundance data and the equivalent Sorensen index for presence-absence data. Autosimilarity curves were constructed using both sampling units and individuals. The estimation of resemblance among samples was strongly dependent upon sample size at reduced sampling effort, particularly for the Bray-Curtis index. For the same sampling effort, fixed counts of individuals obtained randomly from sampling units gave better estimations of resemblance, and their similarity curves tended to stabilize earlier than those using sampling units. A minimum of 9–15 sampling units (stones) or 150–850 individuals is necessary for adequate estimations of resemblance using presence-absence data, and 13–18 sampling units or 750–1550 individuals are required for relative abundance data in tropical streams.

Spodoptera frugiperda (J.E. Smith) is a major pest in maize fields in Argentina. However, a sampling method that accounts for spatial pattern and allows reliable pest density estimations is still lacking. This paper addresses the issue of how sampling unit size can influence the characterization of S. frugiperda spatial pattern and the performance of sampling plans. An intensive sampling programme for S. frugiperda larvae was carried out in maize fields from October until March in four growing seasons. On each sampling date, 12 to 20 sampling units were taken at random. Each unit consisted of 1, 2, 4, 6, 8, 10 or 12 consecutive plants along a row. The linearized version of the Taylor's power law (TPL) was fitted to mean and variance estimated for each sampling date and data set through least squares regression. In general, b values from TPL were significantly >1 (P<0.05), indicating an aggregated sampling distribution. Regression slopes (b) ranged from 1.28 to 1.48 in small larvae and from 1.06 to 1.24 in large larvae, indicating stronger clumping in the former. TPL parameters were used to develop constant precision sampling plans. The efficiency of these plans in terms of expected total cost (searching and handling sampling units) was very sensitive to the size of the sampling units with small larvae but not with large larvae. The influence of sampling unit size and spatial pattern on TPL parameters and sampling costs is discussed.