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While non-invasive genetic methods have become increasingly important for estimating the abundance of wildlife populations, finding sufficient high-quality samples for accurate genotyping and population estimation remains a challenge. We tested whether salivary DNA from twigs browsed by moose (Alces alces) could complement fecal samples for individual identification and population size estimation using genetic mark-recapture. Browsed twigs and fecal samples were collected from two adjacent plateau mountains in Southern Sweden with a potentially isolated moose population. Twig samples were first genotyped with SNP (single nucleotide polymorphism) assays developed for cervid identification. The moose-positive twig and fecal samples were then genotyped on a SNP assay developed for individual identification. Both sample types generated genotypes of sufficient quality for individual identification and the total population size was estimated to be 37 moose, 95% CI [30, 52]. Average amplification rates of twig samples identified as moose and fecal samples were 0.81 and 0.61, respectively. However, genotyping error rates were relatively high in both sample types and only 10% of twig samples and 35% of fecal samples could be used in population genetic analyses. Amplification rate was not useful for filtering out samples with a high error rate, since some samples displayed high error rates despite 100% amplification. We found that graphical analysis of the distribution of allelic differences between all samples is an efficient way of separating real genetic variation from genotyping errors and for deciding the rate of genotyping errors that can be tolerated when grouping genotypes for individual identification.

Inbreeding depression (ID) is a fundamental selective pressure that shapes mating systems and population genetic structures in plants. Although it has been shown that ID varies over the life stages of shorter-lived plants, less is known about how the fitness effects of inbreeding vary across life stages in long-lived species. We conducted a literature survey in the Pinaceae, a tree family known to harbour some of the highest mutational loads ever reported. Using a meta-regression model, we investigated distributions of inbreeding depression over life stages, adjusting for effects of inbreeding levels and the genetic differentiation of populations within species. The final dataset contained 147 estimates of ID across life stages from 41 studies. 44 Fst estimates were collected from 40 peer-reviewed studies for the 18 species to aid genetic differentiation modelling. Partitioning species into fragmented and well-connected groups using Fst resulted in the best way (i.e. trade-off between high goodness-of-fit of the model to the data and reduced model complexity) to incorporate genetic connectivity in the meta-regression analysis. Inclusion of a life stage term and its interaction with the inbreeding coefficient (F) dramatically increased model precision. We observed that the correlation between ID and F was significant at the earliest life stage. Although partitioning of species populations into fragmented and well-connected groups explained little of the between-study heterogeneity, the inclusion of an interaction between life stage and population differentiation revealed that populations with fragmented distributions suffered lower inbreeding depression at early embryonic stages than species with well-connected populations. There was no evidence for increased ID in late life stages in well-connected populations, although ID tended to increase across life stages in the fragmented group. These findings suggest that life stage data should be included in inbreeding depression studies and that inbreeding needs to be managed over life stages in commercial populations of long-lived plants.

We use data from species of the anther-smut fungi and the host plants Lychnis alpina and Silene dioica to show that spatial structuring at different scales can influence patterns of disease and host resistance. Patterns of disease and host resistance were surveyed in an archipelago subject to land-uplift where populations of S. dioica constitute an age-structured metapopulation, and in three contrasting areas within the mainland range of L. alpina, where population distributions range from continuous, through patchy but spatially connected to highly isolated demes. In S. dioica, disease levels depend on the age, size and density of local patches and populations. Disease is most predictably found in larger dense host patches and populations of intermediate age, and more frequently goes extinct in small old populations. The rate of local disease spread is affected by the level of host resistance; S. dioica populations showing an increase in disease over time are more susceptible than populations where the disease has remained at low levels. Among-population variation in resistance is driven by founding events and populations remain differentiated due to limited gene flow between islands. As observed in the L. alpina system, when populations are more connected, a greater fraction of populations have disease present. Results from a simulation model argue that, while increased dispersal in connected systems can increase disease spread, it may also favour selection of host resistance which ultimately reduces disease levels within populations. This could explain the observed lower disease prevalence in L. alpina in regions where populations are more continuous.

The repeated occurrence of habitat-specific polyphyletic evolved ecotypes throughout the ranges of widely distributed species implies that multiple, independent and parallel selection events have taken place. Ecological transitions across altitudinal gradients over short geographical distances are often associated with variation in habitat-related fitness, these patterns suggest the action of strong selective forces. Genetic markers will therefore contribute differently to differences between ecotypes in local hybrid zones. Here we have studied the adaptive divergence between ecotypes of the water beetle Agabus bipustulatus along several parallel altitudinal gradients in northern Scandinavia. This water beetle is well known for its remarkable morphological variation associated with mountain regions throughout the western Palaearctic. Two morphological ecotypes are recognised: a montane type with reduced flight muscles and a lowland type with fully developed muscles. Using a multilocus survey of allozyme variation and a morphological analysis with landmark-based morphometrics, across thirty-three populations and seven altitudinal gradients, we studied the local adaptive process of gene flow and selection in detail. Populations were sampled at three different elevations: below, at and above the tree line. The results indicate that the levels of divergence observed between ecotypes in morphology and allele frequencies at alpha-Glycerophosphate dehydrogenase relative to those shown by neutral molecular markers reflects local diversifying selection in situ. Four main lines of evidence are shown here: (1) A repeated morphological pattern of differentiation is observed across all altitudinal transects, with high reclassification probabilities. (2) Allele and genotype frequencies at the alpha-Gpdh locus are strongly correlated with altitude, in sharp contrast to the presumable neutral markers. (3) Genetic differentiation is two to three times higher among populations across the tree line than among populations at or below. (4) Genetic differentiation between ecotypes within independent mountain areas is reflected by different sets of allozymes.

Using the wind-dispersed plant Mycelis muralis, we examined how landscape fragmentation affects variation in seed traits contributing to dispersal. Inverse terminal velocity () of field-collected achenes was used as a proxy for individual seed dispersal ability. We related this measure to different metrics of landscape connectivity, at two spatial scales: in a detailed analysis of eight landscapes in Spain and along a latitudinal gradient using 29 landscapes across three European regions. In the highly patchy Spanish landscapes, seed increased significantly with increasing connectivity. A common garden experiment suggested that differences in may be in part genetically based. The was also found to increase with landscape occupancy, a coarser measure of connectivity, on a much broader (European) scale. Finally, was found to increase along a south2013north latitudinal gradient. Our results for M. muralis are consistent with 'Darwin's wind dispersal hypothesis' that high cost of dispersal may select for lower dispersal ability in fragmented landscapes, as well as with the 'leading edge hypothesis' that most recently colonized populations harbour more dispersive phenotypes.

Breeding systems exert profound effects on the amount and distribution of genetic diversity within and among populations. Knowledge of breeding systems is also important for understanding dynamics between coevolving organisms, e.g., pathogen‐host interactions. Here we study the breeding system of the obligate anther smut Microbotryum violaceum on Silene dioica. Microbotryum violaceum is capable of both inbreeding and outcrossing, but several recent studies on other host races have indicated that automixis via intrapromycelial mating is the predominant breeding system. Compared with conjugations between cells from different meioses, automixis results in slower loss of heterozygosity and faster production of infectious hypha. However, high rates of intrapromycelial matings have been suggested to invoke a fitness cost due to production of fewer infectious dikaryons. Working with single strains under standardized laboratory conditions, we studied traits that could influence the distribution of genetic variability and pathogen fitness. We found that intrapromycelial mating is the dominant conjugation form for M. violaceum var. dioica but that the breeding system varies, partly because of genetic differences, both within and among populations. Further, we did not find the predicted fitness reduction for intrapromycelial matings, suggesting that intrapromycelial mating is a highly favorable breeding system for M. violaceum.

The distribution of genetic diversity in Mycelis muralis, or wall lettuce, was investigated at a European scale using 12 microsatellite markers to infer historical and contemporary forces from genetic patterns. Mycelis muralis has the potential for long-distance seed dispersal by wind, is mainly self-pollinated, and has patchily distributed populations, some of which may show metapopulation dynamics. A total of 359 individuals were sampled from 17 populations located in three regions, designated southern Europe (Spain and France), the Netherlands, and Sweden. At this within-region scale, contemporary evolutionary forces (selfing and metapopulation dynamics) are responsible for high differentiation between populations (0.34 < F_ST < 0.60) but, contrary to expectation, levels of within-population diversity, estimated by Nei's unbiased expected heterozygosity (H_E) (0.24 < H_E < 0.68) or analyses of molecular variance (50% of the variation found within-populations), were not low. We suggest that the latter results, which are unusual in selfing species, arise from efficient seed dispersal that counteracts population turnover and thus maintains genetic diversity within populations. At the European scale, northern regions showed lower allelic richness (A = 2.38) than populations from southern Europe (A = 3.34). In light of postglacial colonization hypotheses, these results suggest that rare alleles may have been lost during recolonization northwards. Our results further suggest that mutation has contributed to genetic differentiation between southern and northern Europe, and that Sweden may have been colonized by dispersers originating from at least two different refugia.