Human‐facilitated jump dispersal of a non‐native frog species on Hawai'i Island

The way that genetic variation is distributed geographically has important conservation and evolutionary implications. Here, we examined the distribution of genetic variation within and among populations of the montane perennial Ipomopsis aggregata. We sampled plants in western Colorado and examined (1) population genetic structure over a geographic area that spanned 130 km, including genetic variation within disturbed and undisturbed sites; (2) the relationship between genetic differentiation and geographic distance; and (3) the relationship between flowering time and genetic differentiation among plants within and among geographic areas. F IS was significantly higher (t test, P = 0.006), expected heterozygosity was significantly lower (t test, P = 0.04), and allelic richness was marginally significantly lower (t test, P = 0.078) among anthropogenically-disturbed sites compared to undisturbed sites. We found moderate genetic differentiation over the area sampled (average pairwise F ST = 0.04; average pairwise $$F^{\prime}_{ST} = 0.19$$ ), but no association of genetic and geographic distance (Mantel test P values 0.44 for F ST and 0.36 for $$F^{\prime}_{ST}$$ ). We found a strong association of flowering time and genetic differentiation over small and large spatial scales. Genetic differentiation between early and late flowering plants within a focal site was statistically significant (genic test for population differentiation combined P value <0.001; F ST = 0.05). There was a significant correlation between genetic distance ( $$F^{\prime}_{ST}$$ ) and distance in flowering time, when controlling for geographic distance, over the whole geographic area (Partial Mantel test R xy = 0.32, P = 0.013). A multiple regression with randomization further supported the inference that flowering time, but not geographic distance or elevation, predicted $$F^{\prime}_{ST}$$ (geographic distance: β = −0.03, P = 0.89; elevation: β = 0.01, P = 0.96; phenological distance: β = 0.30, P = 0.05), but not F st (geographic distance: β = −0.02, P = 0.92; elevation: β = 0.14, P = 0.38; phenological distance: β = 0.25, P = 0.11), unless elevation was left out of the model (geographic distance: β = −0.03, P = 0.9; phenological distance: β = 0.29, P = 0.03). The association of flowering time and genetic distance despite the lack of isolation by distance provides further evidence for the usefulness of incorporating this variable into plant landscape genetic studies when possible.

Corylus avellana L. (hazel) is a long-lived, monoecious and wind-pollinated shrub species, widespread all over Europe. In Germany, hazel is intensively traded and planted, and thus is of central interest from a nature conservancy point of view. To assess the within- and between-population differentiation of hazel, 20 natural populations (18 from Germany, one from Italy and one from Hungary) were investigated genetically. Seven isozyme systems comprising 11 gene loci were analysed in up to 100 samples (average 92.6) per population, amplified fragment length polymorphisms (AFLP) were analysed in up to 50 samples (average 47.4) and nine cpDNA-SSR markers were assessed in 20 samples per population. Results for overall isozyme variability with Na 2.46 alleles per locus, allelic diversity (Ne) 1.39, expected heterozygosity He 21 % and 79 % polymorphic loci were in accordance with the findings of previous studies. The respective values for AFLPs were lower, but both marker systems revealed the same level of about 3.5 % differentiation between populations. For cpSSR only the Italian sample showed within-population variation and the two haplotypes were completely differentiated from all other populations expressing a unique genetic structure with one single haplotype. Among the three marker systems AFLPs showed the best ability to differentiate between populations. While only one isozyme locus revealed significant differentiation, 41 AFLP loci showed highly significant differentiation between all populations, but 26 loci when only German populations were considered. Consequently geographic differentiation analyses focused mainly on molecular markers. Mantel tests showed significant correlations between genetic and geographic distance, but in the unweighted pair-group method with arithmetic mean analyses, adjacent populations did not always form clusters. While chloroplast markers were able to clearly distinguish only the Hungarian population, the nuclear markers revealed clear spatial genetic structures. The correlations between geographic and genetic distance was high for AFLPs. The correlograms illustrate this effect for all populations as well as for the German populations.

ABSTRACTVenezuelan savannas are exposed to land‐use changes and biological invasions which compromise their persistence and function. The native C4 grass Trachypogon plumosus is the most important component of the savannas under diverse combinations of climate and soils, suggesting substantial interpopulation variation. We examined quantitative traits and isozyme variation of nine populations of this grass and related these estimates to geographical and environmental features of sampled locations. Isozyme diversity estimates were based on 10 polymorphic enzyme systems whereas 21 quantitative traits, from field and controlled growth conditions, were evaluated. Distance matrices for quantitative traits, isozyme, geographical and environmental data were subjected to clustering analysis. Correspondence between quantitative trait distance and genetic distance, and their association to geographical and environmental distances were analysed with Mantel tests. All quantitative traits differed significantly among populations. The average QST calculated for eight quantitative traits measured in the greenhouse was 0.157. Isozyme diversity differed significantly among populations. About 28% of total isozyme variation occurred among populations. Significant positive associations were detected between environmental, quantitative field traits, and geographical distance as well as between the later and genetic distances. Genetic distances did not correspond significantly with quantitative traits nor did environmental distances. Ecologically meaningful associations were detected between field quantitative traits, environmental, and geographical data using cluster analysis. Our results support the hypothesis that processes of the neutral type are mainly responsible for the variation patterns observed in T. plumosus populations in Venezuelan savannas. Variation observed for quantitative traits among populations seems to be due to the effect of environmental conditions on phenotypically plastic traits, and not the result of directional selection favouring different phenotypes in different populations.

The population structure of seven rural communities from the island of Krk (Croatia) was studied on the basis of its genetic constitution and genetic structure, and different sets of biological (genetic), biocultural (migration), cultural (linguistic), and geographic data. Genetic constitution was estimated from the allelic frequencies of nine tetranucleotide STR loci, three HLA class I loci, five HLA class II loci, and five red blood cell enzyme and serum protein loci. Genetic structure was based on coefficients of genetic diversity GST and genetic kinship RST. Population structure was assessed by the structure of mutual relationships among biological, biocultural, cultural, and geographic matrices through Mantel's test, or by relationships among biological, biocultural, cultural measures of distance and/or similarity, and geographic distance with regression analysis of the “isolation by distance” model. One group of genetic markers (red blood enzymes, serum proteins, and HLA polymorphisms) reflects heterogeneity of the rural communities (a reflection of important historical processes and migration patterns), and a second group of genetic markers (STR polymorphisms) reflects the currently observed genetic homogeneity of the rural population. The positive correlations between the matrices of genetic (HLA) and linguistic distances indicate their possible co-evolution under conditions of genetic isolation (low gene flow). Furthermore, the negative correlations between the matrices of genetic (STR) distances and the migration kinship of the second and the third cohort indicate temporal coincidence between genetic constitution and structure assessed from STRs and migration patterns in the period between 1892 and 1940. Finally, the positive correlations between the matrices of genetic (STR) and geographic distances indicate isolation by distance. Am. J. Hum. Biol. 12:509–525, 2000. © 2000 Wiley-Liss, Inc.

The population structure of seven rural communities from the island of Krk (Croatia) was studied on the basis of its genetic constitution and genetic structure, and different sets of biological (genetic), biocultural (migration), cultural (linguistic), and geographic data. Genetic constitution was estimated from the allelic frequencies of nine tetranucleotide STR loci, three HLA class I loci, five HLA class II loci, and five red blood cell enzyme and serum protein loci. Genetic structure was based on coefficients of genetic diversity G(ST) and genetic kinship R(ST). Population structure was assessed by the structure of mutual relationships among biological, biocultural, cultural, and geographic matrices through Mantel's test, or by relationships among biological, biocultural, cultural measures of distance and/or similarity, and geographic distance with regression analysis of the "isolation by distance" model. One group of genetic markers (red blood enzymes, serum proteins, and HLA polymorphisms) reflects heterogeneity of the rural communities (a reflection of important historical processes and migration patterns), and a second group of genetic markers (STR polymorphisms) reflects the currently observed genetic homogeneity of the rural population. The positive correlations between the matrices of genetic (HLA) and linguistic distances indicate their possible co-evolution under conditions of genetic isolation (low gene flow). Furthermore, the negative correlations between the matrices of genetic (STR) distances and the migration kinship of the second and the third cohort indicate temporal coincidence between genetic constitution and structure assessed from STRs and migration patterns in the period between 1892 and 1940. Finally, the positive correlations between the matrices of genetic (STR) and geographic distances indicate isolation by distance. Am. J. Hum. Biol. 12:509-525, 2000. Copyright 2000 Wiley-Liss, Inc.

Cyclura ricordii is an endemic iguana from Hispaniola Island and is threatened on the IUCN Red List. The main threats are predation by introduced mammals, habitat destruction, and hunting pressure. The present study focused on two nesting sites from Pedernales Province in the Dominican Republic. The hypothesis that natal philopatry influences dispersal and nest‐site selection was tested. Monitoring and sampling took place in 2012 and 2013. Polymorphic markers were used to evaluate whether natal philopatry limits dispersal at multiple spatial scales. Ripley's K revealed that nests were significantly clustered at multiple scales, when both nesting sites were considered and within each nesting site. This suggests a patchy, nonrandom distribution of nests within nest sites. Hierarchical AMOVA revealed that nest‐site aggregations did not explain a significant portion of genetic variation within nesting sites. However, a small but positive correlation between geographic and genetic distance was detected using a Mantel's test. Hence, the relationship between geographic distance and genetic distance among hatchlings within nest sites, while detectable, was not strong enough to have a marked effect on fine‐scale genetic structure. Spatial and genetic data combined determined that the nesting sites included nesting females from multiple locations, and the hypothesis of “natal philopatry” was not supported because females nesting in the same cluster were no more closely related to each other than to other females from the same nesting site. These findings imply that nesting aggregations are more likely associated with cryptic habitat variables contributing to optimal nesting conditions.

BackgroundUnderstanding genetic diversity of wild plant germplasm and the relationships between ecogeographic and genetic characteristics may provide insights for better utilizing and conserving genetic resources. Elymus tangutorum (Nevski) Hand.-Mazz, a cool-season hexaploid perennial, is an important pasture bunchgrass species used for forages and grassland restoration in Qinghai-Tibet Plateau and northwest China. In this study, 27 E. tangutorum accessions from diverse origins of western China were evaluated using AFLP markers in an effort to delve into the genetic relationships among them. The effects of eco-environmental factors and geographical isolation on the genetic diversity and population structure were also elucidated.ResultsOn account of 554 polymorphic fragments amplified with 14 primer combinations, the mean values of some marker parameters including polymorphic information content, resolving power and marker index were 0.2504, 14.10 and 23.07, respectively, validating the high efficiency and reliability of the markers selected. Genetic dissimilarity index values among accessions ranged from 0.1024 to 0.7137 with a mean of 0.2773. STRUCTURE, UPGMA clustering and PCoA analyses showed that all accessions could be divided into the three main clusters; however, this results do not exactly coincide with geographic groups. We found medium differentiation (FST = 0.162) between Qinghai-Tibet Plateau (QTP) and Xinjiang (XJC), and high differentiation (FST = 0.188) among three Bayesian subgroups. A significant correlation (r = 0.312) between genetic and geographical distance was observed by Mantel test in the species level, while the weak correlation was detected between genetic and environmental distance for all accessions and most of geographical groups. In addition, a significant ecological influence of average annual precipitation on genetic distance was revealed in XJC group and the Bayesian subgroup A.ConclusionThis study indicates that AFLP technique are a useful tool to measure genetic diversity in E. tangutorum, showing that geographical and environmental factors (especially precipitation) together, play a crucial role in genetic differentiation patterns. These findings underline the importance of local adaptation in shaping patterns of genetic variability and population structure in E. tangutorum germplasm collected in Western China.

Phylogenetics, biogeography and population genetics of the ascidian Botryllus schlosseri in the Mediterranean Sea and beyond

BackgroundQuercus liaotungensis Koidz. is an ecologically and economically important tree species widely distributed in Northern China. However, the effective assessment, utilization, and protection of Q. liaotungensis resources remain unexplored.MethodsIn total, 120 samples obtained from 12 Q. liaotungensis populations of Northern China were investigated for genetic diversity and structure using 19 simple sequence repeat (SSR) primer pairs.ResultsThe total number of alleles detected was 293, the average number of effective allele (Ne) was 6.084, the genetic differentiation coefficient (Fst) was 0.033, and the mean observed heterozygosity (Ho) and expected heterozygosity (He) were 0.690 and 0.801, respectively. Moreover, analysis of molecular variance (AMOVA) showed a 5.5% genetic variation among 12 Q. liaotungensis populations, indicating that a high level of genetic diversity and a low degree of genetic differentiation among Q. liaotungensis populations. STRUCTURE and cluster analysis divided the 12 Q. liaotungensis populations into the following three subpopulations: Bashang Plateau subpopulation (SH), Liaodong Peninsula subpopulation (NC), and Loess Plateau subpopulation (other 10 populations). The cluster analysis based on 19 climatic factors was consistent with the genetic structure. A positive correlation was found between genetic distance and geographical distance (r = 0.638, p = 0.028) by the Mantel test, and two boundaries were found among the 12 Q. liaotungensis populations by the Barrier analysis, indicating that Q. liaotungensis populations existed isolated by geographical distance and physical barrier.ConclusionThis study suggests that geographical isolation, physical barrier, climatic types, and natural hybridization promote the formation of genetic structures, which can contribute to future protection and genetic improvement of Q. liaotungensis.

Management of game species requires an understanding not just of population abundance, but also the structure of and connections between populations. Like other large-bodied carnivores, the cougar (Puma concolor) exhibits density –dependent dispersal and is capable of long-distance movement; in the absence of barriers to movement, these traits should lead to high connectivity between individuals and a lack of genetic differentiation across areas of continuous habitat. Previous research has suggested that cougar movement may be influenced by landscape variables such as forest cover, elevation, human population density, and highways. I assessed the population structure of cougars (Puma concolor) in Washington and southern British Columbia by examining patterns of genetic variation in 17 microsatellite loci, and the contribution of landscape variables to this genetic variation. I evaluated population structure using genetic clustering algorithms and spatial principal components analysis. I quantified the effect of distance on genetic variation by calculating the correlation between the genetic distance and geographic distance between every pair of individuals, as well as the spatial autocorrelation of genetic distances. To compare the observed pattern of genetic differentiation with that which would arise solely from isolation by distance, I simulated allele frequencies across the study area where the cost to movement between individuals was proportional to the distance between them. I also evaluated the support for evidence of male-biased dispersal in allele frequencies. Bayesian clustering analyses identified four populations in the study area, corresponding to the Olympic Peninsula, Cascade Mountains, northeastern Washington and Blue Mountains; these clusters were supported by patterns of genetic differentiation revealed with spatial PCA. v Although I found a significant relationship between the geographic and genetic distance between individuals, simulated allele frequencies displayed no meaningful spatial pattern of differentiation, suggesting that male dispersal would be adequate within the scale of the study area to prevent genetic isolation from occurring if the only factor to affect dispersal was geographic distance. While cougars are capable of long-distance dispersal movements, dispersal in heterogeneous landscapes may be mediated by the resistance of the landscape to movement. I derived resistance surfaces for forest canopy cover, elevation, human population density and highways based on GIS data and estimated the landscape resistance between pairs of individuals using circuit theory. I quantified the effect of the resistance to movement due to each landscape factor on genetic distance using multiple regression on distance matrices and boosted regression tree analysis. Both models indicated that only forest canopy cover and the geographic distance between individuals had an effect on genetic distance, with forest cover exhibiting the greatest relative influence. The boundaries between the genetic clusters I found largely corresponded with breaks in forest cover, showing agreement between population structure and landscape variable selection. The greater relative influence of forest cover may also explain why a significant relationship was found between geographic and genetic distance, yet geographic distance alone could not explain the observed pattern of allele frequencies. While cougars inhabit unforested areas in other parts of their range, forested corridors appear to be important for maintaining population connectivity in the northwest.

Contrasting population makeup of two intertidal gastropod species that differ in dispersal opportunities

The carob moth, Ectomyelois ceratoniae (Zeller 1839) (Lepidoptera: Pyralidae) is the most important pest of pomegranate, Punica granatum L. (Myrtales: Ponicaceae), in Iran. In this study, 6 amplified fragment length polymorphism primer combinations were used to survey the genetic structure of the geographic and putative host-associated populations of this pest in Iran. An AMOVA was performed on test populations. Pairwise differences, Mantel test, multidimensional analysis, cluster analysis and migration rate were calculated for 5 geographic populations of E. ceratoniae sharing the same host, pomegranate. In another part of the study, 3 comparisons were performed on pairwise populations that were collected on different hosts (pomegranate, fig, pistachio and walnut) in same geographic regions. The results showed high within population variation (85.51% of total variation), however geographic populations differed significantly. The Mantel test did not show correlations between genetic and geographic distances. The probable factors that affect genetic distances are discussed. Multidimensional scaling analysis, migration rate and cluster analysis on geographic populations showed that the Arsanjan population was the most different from the others while the Saveh population was more similar to the Sabzevar population. The comparisons didn't show any host fidelity in test populations. It seems that the ability of E. ceratoniae to broaden its host range with no fidelity to hosts can decrease the efficiency of common control methods that are used on pomegranate. The results of this study suggest that in spite of the effects of geographic barriers, high within-population genetic variation, migration rate and gene flow can provide the opportunity for emerging new phenotypes or behaviors in pest populations, such as broadening host range, changing egg lying places, or changing over-wintering sites to adapt to difficult conditions such as those caused by intensive control methods.

Introduction: Since Aedes aegypti invaded Yunnan Province in 2002, its total population has continued to expand. Shi et al. used microsatellite and mitochondrial molecular markers to study the Ae. aegypti populations in Yunnan Province in 2015 and 2016, found that it showed high genetic diversity and genetic structure. However, there are few studies on the population genetic characteristics of Ae. aegypti in Yunnan Province under different levels of human intervention. This study mainly used two common types of molecular markers to analyze the genetic characteristics of Ae. aegypti, revealing the influence of different input, prevention and control pressures on the genetic diversity and structure of this species. Understanding the genetic characteristics of Ae. aegypti populations and clarifying the diversity, spread status, and source of invasion are essential for the prevention, control and elimination of this disease vector.Methods: We analyzed the genetic diversity and genetic structure of 22 populations sampled in Yunnan Province in 2019 and 17 populations sampled in 2020 through nine microsatellite loci and COI and ND4 fragments of mitochondrial DNA. In 2019, a total of 22 natural populations were obtained, each containing 30 samples, a total of 660 samples. In 2020, a total of 17 natural populations were obtained. Similarly, each population had 30 samples, and a total of 510 samples were obtained.Results: Analysis of Ae. aegypti populations in 2019 and 2020 based on microsatellite markers revealed 67 and 72 alleles, respectively. The average allelic richness of the populations in 2019 was 3.659, while that in 2020 was 3.965. The HWE analysis of the 22 populations sampled in 2019 revealed significant departure only in the QSH-2 population. The 17 populations sampled in 2020 were all in HWE. The average polymorphic information content (PIC) values were 0.546 and 0.545, respectively, showing high polymorphism. The average observed heterozygosity of the 2019 and 2020 populations was 0.538 and 0.514, respectively, and the expected average heterozygosity was 0.517 and 0.519, showing high genetic diversity in all mosquito populations. By analyzing the COI and ND4 fragments in the mitochondrial DNA of Ae. aegypti, the populations sampled in 2019 had a total of 10 COI haplotypes and 17 ND4 haplotypes. A total of 20 COI haplotypes were found in the populations sampled in 2020, and a total of 24 ND4 haplotypes were obtained. STRUCTURE, UPGMA and DAPC cluster analyses and a network diagram constructed based on COI and ND4 fragments showed that the populations of Ae. aegypti in Yunnan Province sampled in 2019 and 2020 could be divided into two clusters. At the beginning of 2020, due to the impact of COVID-19, the flow of goods between the port areas of Yunnan Province and neighboring countries was reduced, and the sterilization was more effective when goods enter the customs, leading to different immigration pressures on Ae. aegypti population in Yunnan Province between 2019 and 2020, the source populations of the 2019 and 2020 populations changed. Mantel test is generally used to detect the correlation between genetic distance and geographical distance, the analysis indicated that population geographic distance and genetic distance had a moderately significant correlation in 2019 and 2020 (2019: p < 0.05 R2 = 0.4807, 2020: p < 0.05 R2 = 0.4233).Conclusion:Ae. aegypti in Yunnan Province maintains a high degree of genetic diversity. Human interference is one reason for the changes in the genetic characteristics of this disease vector.

Genetic structure and essential oil composition in wild populations of Salvia multicaulis Vahl.

Among the animal species first introduced in Brazil during the country's discovery, horses (Equus caballus) stand out because of their evolutionary history and relationship with humans. Among the Brazilian horse breeds, the Pantaneiro draws attention due to its adaptative traits. Blood samples of 116 Pantaneiro horses were divided into six populations based on their sampling location, aiming to identify the existence of genetic structure and quantify genetic diversity within and between them. Populations were compared to elucidate genetic variability and differentiation better and assess the impact of Pantanal's natural geographic barriers on gene flow between populations. Data from the GGP Equine BeadChip (Geneseek-Neogen, 65.157 SNPs) was used to assess basic diversity parameters, genetic distance (FST), principal component analysis (PCA), and population structure (ADMIXTURE) for the sampled animals. Mantel test was also performed to investigate the correlation between the populations' genetic and geographic distances. Results showed high genetic variability in all populations, with elevated levels of admixture in their structure. High levels of admixture make it challenging to establish a racial pattern and, consequently, populations within the breed, being that only one of the populations differentiated itself from the others. No significant correlations between genetic and geographic distances were observed, indicating that environmental barriers did not hinder gene flow between populations, and neither farmers' selection practices might have change breed genetic composition significantly. Low genetic distance and similar heterozygosity values were observed among populations, suggesting strong genetic proximity and low differentiation. Thereby, the Pantaneiro breed does not exhibit genetic subpopulations and could be considered, for conservation purposes, a single big population in the Panatnal region. This study will support sampling strategies for National genebank.