Deviations of genotypic frequencies from Hardy-Weinberg equilibrium (HWE) expectations could reveal important aspects of the biology of populations. Deviations from HWE due to heterozygote deficits have been recorded for three plant-parasitic nematode species. However, it has never been determined whether the observed deficits were due (i) to the presence of null alleles, (ii) to a high level of consanguinity and/or (iii) to a Wahlund effect. The aim of the present work was, while taking into the possible confounding effect of null alleles, to disentangle consanguinity and Wahlund effect in natural populations of those three economically important cyst nematodes using microsatellite markers: Globodera pallida, G. tabacum and Heterodera schachtii, pests of potato, tobacco and sugar beet, respectively. The results show a consistent pattern of heterozygote deficiency in the three nematode species sampled at the spatial scale of the host plant. We demonstrate that the prevalence of null alleles is weak and that heterozygote deficits do not have a single origin. Our results suggested that it is restricted dispersal that leads to heterozygote deficits through both consanguinity and substructure, which effects can be linked to soil movement, cyst density, and the number of generations per year. We discuss potential implications for the durability of plant resistances that are used to protect crops against parasites in which mating between relatives occur. While consanguineous mating leads to homozygosity at all loci, including loci governing avirulence/virulence, which favours the expression of virulence when recessive, the Wahlund effect is expected to have no particular effect on the adaptation of nematodes to resistances.

The sustainability of modern agriculture relies on strategies that can control the ability of pathogens to overcome chemicals or genetic resistances through natural selection. This evolutionary potential, which depends partly on effective population size (N e), is greatly influenced by human activities. In this context, wild pathogen populations can provide valuable information for assessing the long‐term risk associated with crop pests. In this study, we estimated the effective population size of the beet cyst nematode, Heterodera schachtii, by sampling 34 populations infecting the sea beet Beta vulgaris spp. maritima twice within a one‐year period. Only 20 populations produced enough generations to analyze the variation in allele frequencies, with the remaining populations showing a high mortality rate of the host plant after only 1 year. The 20 analyzed populations showed surprisingly low effective population sizes, with most having N e close to 85 individuals. We attribute these low values to the variation in population size through time, systematic inbreeding, and unbalanced sex‐ratios. Our results suggest that H. schachtii has low evolutionary potential in natural environments. Pest control strategies in which populations on crops mimic wild populations may help prevent parasite adaptation to host resistance.

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pH is one of the major ambient factors affecting life history traits of soilborne phytopathogenic fungi. The diversity of phenotypic responses to pH changes has not been extensively explored within fungal populations. To investigate this question, the ability of 82 strains of a worldwide collection of the take-all agent Gaeumannomyces graminis var. tritici (Ggt) to grow in controlled pH conditions, reflecting their pH sensitivity, was measured. Of these 82 strains, 37 belonged to the G1 type and 45 to the G2 type, the two main genetic groups identified in Ggt populations. The experiments were conducted in Petri dishes on Fahraeus solid media buffered at pH 4Á6, 6Á0 or 7Á0 with citrate-disodium phosphate solutions. The 82 strains exhibited a wide range of hyphal growth rates at the three pH levels. Ten statistically different pH profiles were described. The G2 strains grew significantly better than the G1 on the slightly acidic (pH 6Á0) and the neutral (pH 7Á0) buffered media. The ability of three strains to change ambient pH was also measured on unbuffered Fahraeus solid media initially adjusted to pH 5Á6 or 8Á0. All three strains were able to alkalinize the acidic medium. However, important variations between strains in the intensity, range and persistence of this alkalinization were measured. These results provide the first evidence of intraspecific variability in pH sensitivity within soilborne fungal species.

Most populations of crop pathogens have wild relative populations from which they can originate but for which basic knowledge of their ecological requirements in natura is scarce. However, the study of spatial distribution and ecology of wild pathogen populations may help control them in crops through a better understanding of the environmental factors driving population dynamics.Here, we focused on Heterodera schachtii and H. betae, two cyst nematodes that cause severe damage to sugar beet (Beta vulgaris ssp. vulgaris) crops and can develop on a wild beet relative, the sea beet (B. vulgaris ssp. maritima). We investigated the occurrence of both nematode species in the wild and explored some environmental factors that may influence their geographical distribution. To do so, we sampled the wild host B. v. ssp. maritima along the European Atlantic and North Sea coastlines. Results showed that H. schachtii mainly occurred in the colder environments of northern Europe, whereas H. betae was preferentially distributed in the warm environments of southern Europe. It was previously established that H. betae only recently appeared in The Netherlands, which are in the north of Europe. Thus, our results do not support this hypothesis. Overall, this study accurately documents the geographical occurrence of two nematode crop pest species in the wild and helps identify the main environmental factors affecting their distribution range.

Studying wild pathogen populations in natural ecosystems offers the opportunity to better understand the evolutionary dynamics of biotic diseases in crops and to enhance pest control strategies. We used simulations and genetic markers to investigate the spatial and temporal population genetic structure of wild populations of the beet cyst nematode Heterodera schachtii on a wild host plant species, the sea beet (Beta vulgaris spp. maritima), the wild ancestor of cultivated beets. Our analysis of the variation of eight microsatellite loci across four study sites showed that (i) wild H. schachtii populations displayed fine‐scaled genetic structure with no evidence of substantial levels of gene flow beyond the scale of the host plant, and comparisons with simulations indicated that (ii) genetic drift substantially affected the residual signals of isolation‐by‐distance processes, leading to departures from migration–drift equilibrium. In contrast to what can be suspected for (crop) field populations, this showed that wild cyst nematodes have very low dispersal capabilities and are strongly disconnected from each other. Our results provide some key elements for designing pest control strategies, such as decreasing passive dispersal events to limit the spread of virulence among field nematode populations.

Quantitative estimation of seismic risk over a region requires both an underlying probabilistic seismic hazard model and a means to characterise shallow site response over a large scale. The 2020 European Seismic Risk Model (ESRM20) builds on the 2020 European Seismic Hazard Model (ESHM20), requiring additional information to firstly parameterise the local site condition across all of Europe, and subsequently determine its influence on the prediction of seismic ground motion. Initially, a harmonised digital geological database for Europe is compiled, alongside a model of topographic/bathymetric elevation and a database of 30 m averaged shearwave velocity measurements ($$V_{S30}$$ V S 30 ), in order to produce separate 30 arc-second maps of inferred $$V_{S30}$$ V S 30 based on topography and on geology. We then capitalise on a large database of seismic recording stations in Europe for which site-to-site ground motion residuals ($$\delta S2S_{S}$$ δ S 2 S S ) have been determined with respect to the shallow crustal ground motion model used in the ESHM20. These residuals allow us to incorporate site amplification functions into the European GMM calibrated upon either observed or inferred $$V_{S30}$$ V S 30 , or on the European geology and topography models. We present the resulting pan-European seismic site amplification model and assess its impact on seismic hazard and risk compared against other approaches. The new site amplification model fulfils the requirements of the ESRM20 and, providing uncertainty is fully propagated, yields estimates of seismic hazard and risk at a large space scale that may be comparable to other methods often applied at local/urban scale where better-constrained site information is available.

Significance and Impact of the Study: This tool clearly improves previously published methods of specific real-time quantitative PCR for Phytophthora infestans by allowing the intraspecific detection and quantification of Avr3a/avr3a genotypes. This reliable and sensitive assay has enabled to assess zoospore production as a fitness proxy and thus offers new opportunities for future researches on P. infestans/ host quantitative interactions. Abstract Molecular tools that allow intraspecific quantification and discrimination of pathogen isolates are useful to assess fitness of competitors during mixed infections. However, methods that were developed for quantifying Phytophthora infestans are only specific at the species level. Here, we reported a TaqMan-based real-time PCR assay allowing, according to the specificity of the used probes, an accurate quantification of different proportions of two genetically distinct clones of P. infestans in mixed fractions. Indeed, in addition to a primer specific to P. infestans, two primers and two TaqMan â probes that target single-nucleotide polymorphisms located in the Avr3a/avr3a virulence gene sequence were designed. The reliability of the method was tested on serially diluted fractions containing plasmid DNA with either the Avr3a or the avr3a sequences at concentrations ranging from 10 2 to 10 8 copies per ll. Based on its specificity, sensitivity and repeatability, the proposed assay allowed a quantification of the targeted DNA sequence in fractions with a Avr3a/avr3a ratio in the range 1/99 to 99/1. The reliability of the test was also checked for counting zoospores. Applications for future research in P. infestans/host quantitative interactions were also discussed.