Figures
Abstract
The nature of gene flow in parasites with complex life cycles is poorly understood, particularly when intermediate and definitive hosts have contrasting movement potential. We examined whether the fine-scale population genetic structure of the diphyllobothriidean cestode Schistocephalus solidus reflects the habits of intermediate threespine stickleback hosts or those of its definitive hosts, semi-aquatic piscivorous birds, to better understand complex host-parasite interactions. Seventeen lakes in the Cook Inlet region of south-central Alaska were sampled, including ten in the Matanuska-Susitna Valley, five on the Kenai Peninsula, and two in the Bristol Bay drainage. We analyzed sequence variation across a 759 bp region of the mitochondrial DNA (mtDNA) cytochrome oxidase I region for 1,026 S. solidus individuals sampled from 2009-2012. We also analyzed allelic variation at 8 microsatellite loci for 1,243 individuals. Analysis of mtDNA haplotype and microsatellite genotype variation recovered evidence of significant population genetic structure within S. solidus. Host, location, and year were factors in structuring observed genetic variation. Pairwise measures revealed significant differentiation among lakes, including a pattern of isolation-by-distance. Bayesian analysis identified three distinct genotypic clusters in the study region, little admixture within hosts and lakes, and a shift in genotype frequencies over time. Evidence of fine-scale population structure in S. solidus indicates that movement of its vagile, definitive avian hosts has less influence on gene flow than expected based solely on movement potential. Observed patterns of genetic variation may reflect genetic drift, behaviors of definitive hosts that constrain dispersal, life history of intermediate hosts, and adaptive specificity of S. solidus to intermediate host genotype.
Citation: Sprehn CG, Blum MJ, Quinn TP, Heins DC (2015) Landscape Genetics of Schistocephalus solidus Parasites in Threespine Stickleback (Gasterosteus aculeatus) from Alaska. PLoS ONE 10(4): e0122307. https://doi.org/10.1371/journal.pone.0122307
Academic Editor: Robert Britton, Bournemouth University, UNITED KINGDOM
Received: September 19, 2014; Accepted: February 19, 2015; Published: April 13, 2015
Copyright: © 2015 Sprehn et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited
Data Availability: All relevant data are within the paper and its Supporting Information files. Sequences have been uploaded to Genbank with the following accession numbers: KP864727 - KP865752.
Funding: Laboratory funding was provided by the Newcomb College Institute at Tulane University (http://tulane.edu/newcomb/).
Competing interests: The authors have declared that no competing interests exist.
Introduction
Gene flow can be a key determinant of evolutionary potential, particularly for organisms engaging in interactions shaped by adaptation (i.e., Red Queen dynamics; [1–7]. Evolutionary potential can be influenced, for example, by dispersal promoting the influx of new alleles affecting interactions between a highly specialized parasite and its host [5]. Similarly, barriers to gene flow can influence the nature of host-parasite interactions by impeding the influx of adaptive or maladaptive alleles. Adaptive interactions may reciprocally affect gene flow, which in turn can give rise to dynamic changes in evolutionary potential. Accordingly, characterizing gene flow in parasites, which is often understudied relative to their hosts, can help identify factors shaping adaptive interactions.
The genetic structure and connectivity of parasite populations can be strongly influenced by host dispersal, particularly when parasites lack free-living stages or exhibit strong host specificity [8–11]. Pocket gopher chewing lice (Geomydooecus actuosi) and pocket gopher hosts (Thomomys bottae) show similarly high levels of genetic differentiation, as gene flow and dispersal of G. actuosi is constrained by infrequent host-host contact [10,12]. Although gene flow in Heligmosmoides polygyrus, a nematode infecting field mice (Apodemus sylvaticusi), reflects the genetic structure of its host, the nematode exhibits higher levels of genetic diversity and differentiation [13]. In contrast, evidence of little to no population genetic structure in Amblyomma americanum, a widespread tick, has been attributed to low host specificity and high capacity for dispersal in its mammalian host [14,15].
It is less clear how connectivity among parasite populations corresponds to host dispersal potential when parasites have complex life cycles involving multiple hosts that differ in movement potential [6,16–19]. Few studies have examined how host movement shapes the population genetic structure of parasites with complex life cycles [4,11,20–22]. The most mobile host is thought to have the greatest influence over parasite population genetic structure, but attributing connectivity among parasite populations to the movement potential of one host or another can be difficult because asymmetries can arise due to a number of factors that are not necessarily related to dispersal, such as life history variation, that may also influence infection and transmission [10].
Here we evaluate spatial and temporal patterns of mitochondrial and multilocus nuclear genetic variation among populations of the parasitic tapeworm Schistocephalus solidus in the threespine stickleback (Gasterosteus aculeatus). The Schistocephalus-stickleback model system affords opportunities for examining relationships between host dispersal and population connectivity in parasites with complex life cycles because the threespine stickleback—which serves as the second intermediate host of S. solidus—has lower dispersal potential than the piscivorous birds that serve as definitive hosts [16,23,24]. We tested the hypothesis that S. solidus populations exhibit little to no genetic structure, as prior studies suggest that parasites cycling through both freshwater and more vagile terrestrial hosts tend to have less structured populations with higher gene flow than parasites with life cycles restricted to freshwater hosts [vagile host hypothesis; 10,11,20]. Prior work has shown, however, that S. solidus exhibits signatures of intraspecific genetic structure and host specificity in intermediate stickleback hosts, suggesting that the movement potential of definitive hosts may not define the genetic structure of S. solidus or that the movement potential of definitive hosts is not fully realized [16,25,26]. Accordingly, we tested the alternative hypothesis that S. solidus exhibits pronounced population genetic structure, reflecting the habits of threespine stickleback. Understanding the fine-scale genetic structure of S. solidus populations will help clarify how host movement can influence the evolutionary potential of parasites, and further illustrate how gene flow can shape the geography of host-parasite interactions.
Materials and Methods
Study system
Schistocephalus solidus is a diphyllobothriidean cestode that exhibits a complex lifecycle involving cyclopoid copepods and threespine stickleback fish as first and second intermediate hosts, respectively, and piscivorous birds from any one of over 40 species as definitive hosts [16,24,27]. The parasite is transmitted to sticklebacks through consumption of infected copepods containing procercoid larvae [16]. Once established in host fish, the parasite transforms into a plerocercoid larvae in the coelom of the stickleback, wherein almost all of the parasite’s growth occurs [24,27]. Multiple infections are common, and the total mass of the parasites can equal or exceed the mass of the host fish [28,29]. Infected threespine sticklebacks are consumed by definitive hosts, in whose gut the parasites undergo sexual maturation and reproduction [16,24,30]. Reproduction is accomplished by either selfing or cross-fertilization, depending on the number of parasites infecting a definitive host [16,24]. Bird feces transmit eggs into water where they hatch into free-living coracidia larvae that are consumed by cyclopoid copepods [16,24,31].
Threespine sticklebacks likely have more constrained movement potential than definitive bird hosts. The stickleback hosts sampled in this study were all residents of freshwater lakes, which typically remain in the lake of origin throughout life, unless connecting freshwater drainages allow movement among proximate lakes [32]. Threespine sticklebacks exhibit territoriality and localized homing behaviors up to 200 m; significant genetic divergence also has been found between populations in neighboring lakes [32–35]. Though comparably little is known about landscape-level movement of definitive hosts, many (e.g., loons and grebes) migrate from Alaska to the Gulf of Mexico during the winter and exhibit little to no population genetic divergence [36–39]. Breeding territories of Common Loons (Gavia immer), which are dominant predators of threespine stickleback in southern Alaska, average around 70 ha and are frequently held by the same mating pair over several years [37,40–42]. Adult loons without territories and loons that are unsuccessful in breeding may move to establish new territories in nearby lakes [37,40,41].
Specimen collection
Infected threespine sticklebacks were sampled in late May to early June in 2009–2012 from 17 lakes in south-central and south-west Alaska. Collections were specifically approved by annual Fish Resource Permits from the Alaska Department of Fish and Game and animal care protocols from Tulane University Institutional Animal Care and Use Committee (protocols 0304R-UT-C and 0304R2) and the University of Washington Institutional Animal Care and Use Committee (protocol 3142–01). Fish were captured from ten lakes in the Matanuska-Susitna Valley (MatSu) north of Cook Inlet, five lakes on the Kenai Peninsula (Kenai) east of Cook Inlet, and two lakes west of Cook Inlet in Bristol Bay drainages (BB; Table 1; Fig 1). All of the sampled fish exhibited a benthic phenotype. Samples were taken with 3 mm and 6 mm wire-mesh minnow traps set near shore or with beach seines and tow nets. After euthanization with MS222, a ventral incision was made in each specimen prior to preservation in 95% ethanol. During necropsies all parasites were removed and preserved in 95% ethanol. Parasites were selected for analysis to maximize the number of hosts with large parasite loads (≥ 7 parasites) for within host and between lake comparisons (Table 1).
Overview of Alaska study site, including detail of the Matanuska-Sustina Valley, Kenai Peninsula, and Bristol Bay regions. Pie charts indicate the proportion of individuals of each genotype cluster by lake.
Mitochondrial DNA sequence data collection and analysis
Genomic DNA from S. solidus specimens was extracted using the DNeasy Blood & Tissue extraction kit following the manufacturer’s standard protocol (Qiagen, Inc., Valencia, CA, USA). Polymerase chain reactions (PCRs) were performed to amplify 759 base pairs (bp) of the mitochondrial cytochrome oxidase 1 gene (CO1) region for 1,026 individuals (Table 1) using primers CYTW3F2 (CTAATTGGTGTGTGATCTGG TTTTG) and CYTW3R5 (GGAGTGGGAGCCCAACACAAG) [26]. PCRs were carried out using Mastercycler Pro thermocyclers (Eppendorf AG, Hamburg) with conditions following Nishimura et al. [26]. PCR products were purified using ExoSAP-It (USB, Affymetrix, Cleveland, OH). Cycle-sequencing reactions were then carried out using BigDye (Applied Biosystems, Foster City, CA), 3.2 mM primers, 4 μL ddH2O, and purified PCR product. Sequencing reactions were purified using Sephadex (GE Healthcare Biosciences, Pittsburgh, PA) according to manufacturer protocols. An ABI 3730xl DNA sequencer (Applied Biosystems, Foster City, CA) was used to electrophorese cycle-sequencing products. Sequencher v4.9 and Genalex v6.5 [43] software (Gene Codes Corp., Ann Arbor, MI) were used to align and edit the resulting DNA sequence data.
DNAsp v5.10.1 and Arlequin v3.5 were used to estimate the total number of haplotypes, haplotype diversity, pairwise differences among haplotypes, nucleotide diversity among haplotypes, and effective number of haplotypes for each lake, region, and year [44,45]. Effective number of haplotypes was calculated as the reciprocal of the sum of squared frequencies. The distribution of haplotype diversity and relationships among haplotypes were evaluated with Network by creating minimum spanning haplotype networks labeled according to lake, collection year, region, and genotype cluster assignment [46,47]. Using Arlequin v3.5 software [44], Analysis of Molecular Variance (AMOVA) was carried out to estimate the proportion of variance attributable to different hierarchical scales. AMOVAs based on 10,000 permutations were performed to assess patterns according to host and year, lake and year, lake and region, and genotype cluster. For AMOVAs examining variation among hosts, tests were limited to individuals from fish hosts with ≥ 7 parasites (totaling 565 individuals) to reduce possible bias from small sample sizes. Arlequin v3.5 [44] was also used to estimate global ΦST values and pairwise ΦST values between each lake and region.
To determine whether patterns of genetic differentiation reflect the movement potential or habits of hosts, pairwise routes of potential movement between all lakes were calculated using Google Earth. The most parsimonious pathways for travel were measured as straight line distances between lakes, as compared to river distances between lakes within and among watersheds. Pairwise ΦST values were compared to the between-lake linear and riverine distance matrices with Mantel’s tests to evaluate the strength of relationships and to detect signatures of isolation-by-distance. Mantel’s tests were performed in Genalex v6.5 with 10,000 permutations [43].
Microsatellite data collection and analysis
A total of 1,243 individuals (Table 1) were genotyped at eight nuclear microsatellite loci—Scso33, Scso18, SsCAB6, Scso22, Scso29, Scso24, Scso35, and Scso9—following locus-specific amplification conditions described in Binz et al. [48]. Forward primers were labeled with HEX, FAM, or TAMRA fluorescent dyes to size amplicons against a 600 bp LIZ standard on an ABI 3730xl DNA sequencer. Electropherograms were scored and binned with GeneMarker v9.0 (Softgenetics, State College, PA).
Genetic diversity statistics, including expected (He) and observed (HO) heterozygosity, average number of alleles (N alleles), and average rarefied allelic richness (R) were calculated for each lake, region, and year using Arlequin v3.5; Shannon’s Index (I) also was calculated using MSA software [44,49]. Hardy-Weinberg Equilibrium (HWE), linkage disequilibrium (LD), and FIS values were calculated to test for equilibrium and to detect signatures of the Wahlund effect. HWE and FIS values were calculated in Arlequin v3.5. Tests for LD were performed in Genepop v4.3, and p-values were compared following a Bonferroni correction (p < 0.0018) [50]. To examine the hierarchical distribution of microsatellite variation, Arlequin v3.5 was used to conduct AMOVAs with 10,000 permutations run per analysis [44]. Samples were grouped by host and year, host and lake, lake and region, and genotype cluster. For AMOVAs examining variation among hosts, tests were limited to individuals from fish with ≥7 parasites (totaling 565 individuals) to reduce possible bias from small sample sizes. Pairwise FST values were also calculated using Arlequin v3.5.
Structure v2.1 was used to assess patterns of genetic differentiation without a priori hypotheses of population structure [51]. We used a burn-in period of 10,000 iterations and 5 independent runs with 100,000 iterations where K (number of populations) was set iteratively from 1 to 17. Runs intended to evaluate the likelihood of structure corresponding to fish host were conducted with a data subset including parasites from hosts with ≥ 7 parasites where K was set from 1 and 6 iteratively. Analyses of structure among years and within clusters revealed in previous runs also were conducted where K was set from 1 to 4.
To determine whether patterns of genetic differentiation reflect the movement potential or habits of hosts, pairwise linearized FST values were compared to between-lake distance matrices (as described above) with Mantel’s tests to evaluate the strength of relationships and to detect signatures of isolation-by-distance. Mantel’s tests were performed in Genalex 6.5 with 10,000 permutations [43].
Results
MtDNA haplotype diversity and differentiation
Analysis of a 759 bp region of the mitochondrial CO1 gene recovered 248 unique haplotypes in 1,026 individuals. Twelve polymorphisms separated the most divergent haplotypes from the most common haplotype (H1), which was found in all lakes except Hall Lake, and in all regions, years, and genotype clusters. Excluding Hall and Pollard lakes, which were not considered due to small sample sizes, the greatest haplotype diversity was detected in Big Beaver Lake (Table 1), where 24 unique haplotypes were recovered in 30 individuals. Minimum pairwise haplotype diversity occurred in Falk Lake, whereas maximum pairwise haplotype diversity occurred in Cornelius Lake (Table 1). Nucleotide diversity ranged from 0.0012 in Falk Lake to 0.0064 in Cornelius Lake, and the effective number of haplotypes ranged from 2.7 in Falk Lake to 20.32 in Loberg Lake. Haplotype diversity as well as pairwise and nucleotide diversity were consistent across regions (Table 1). The minimum effective number of haplotypes occurred in the Kenai region whereas the maximum was present in the MatSu region (Table 1). When partitioned by year, the highest haplotype diversity was recovered in 2009 and the lowest haplotype diversity was recovered in 2010. The effective number of haplotypes, and pairwise and nucleotide diversity were all highest in 2009 and lowest in 2010 (Table 1).
The haplotype networks revealed a high degree of heterogeneity across lakes and years (S1 Fig). There was a high degree of heterogeneity when haplotypes were identified by lake (S1 Fig), and though there was some evidence of structure by year, with early years (2009 and 2010) clustering relative to later years (2011 and 2012), some heterogeneity was still evident (S1 Fig).
Despite the absence of obvious structure in haplotype networks, mtDNA differentiation was significant across multiple hierarchical levels (Table 2). Significant global ΦST values were recovered, ranging from 0.027 to 0.08. The lowest global ΦST value was recovered when individuals were grouped by lake and region, whereas the highest global ΦST values were recovered when individuals were grouped by host and year (Table 2).
Significant pairwise ΦST values by lake ranged from 0.0138 (Walby Lake and Cheney Lake) to 0.142 (Lower Ohmer Lake and Falk Lake; Table 3). Pairwise ΦST values by region were not significant except between MatSu and Kenai (0.0087; S1 Table). Mantel’s tests for associations between geographic distance and genetic distance (ΦST values) were not significant when distance was measured by stream length or straight line distances.
Microsatellite genetic diversity and differentiation
Microsatellite-based measures of genetic diversity were similar across lakes except for Hall Lake and Pollard Lake, which were outliers likely due to small sample sizes. Observed heterozygosity was consistent across all lakes (Table 1) with values ranging from 0.61 (Lower Ohmer Lake) to 0.72 (Scout Lake). Only a few instances of departures from HWE were detected in a subset of populations at select loci (S2 Table). Significant FIS values were present in ten lakes, ranging from 0.04 (Falk Lake) to 0.167 (Lower Ohmer Lake; S2 Table). All loci were found to be in LD except in 4 of 476 comparisons between loci within lakes (Walby Lake, Scso18 & SsCAB6; Walby Lake, Scso18 & Scso35; Rocky Lake, Scso18 & Scso24; Iliamna Lake, Scso35 & Scso9). Specimens from Engineer Lake exhibited the highest average number of alleles, and Scout Lake exhibited the lowest (Table 1). Shannon Index values ranged from 1.42 (Aleknagik Lake) to 1.81 (Cornelius Lake). Rarefied allelic richness ranged from 6.38 (Rocky Lake) to 8.60 (Cornelius Lake). Individuals from the MatSu region exhibited the highest average number of alleles, and individuals from the BB region exhibited the lowest average number of alleles. Shannon Index by region ranged from 1.62 (BB) to 1.8 (MatSu). Rarefied allelic richness ranged from 7.16 (BB) to 7.63 (Kenai). When partitioned by year, the greatest Shannon Index values and average number of alleles was present in 2012 and the smallest respective values occurred in 2010 (Table 1).
Microsatellite-based estimates of genetic differentiation were highly significant (Table 2). All global FST values, which ranged from 0.04 to 0.062, were highly significant (Table 2). The lowest global FST value was recovered when individuals were grouped by host and lake, while the highest global FST value was recovered when individuals were grouped by host and year (Table 2). Pairwise FST values by lake ranged from 0.0018 to 0.142, with many comparisons being highly significant (Table 3). The highest pairwise values were between Pollard and Iliamna (0.142), Pollard and Aleknagik (0.135), and Scout and Aleknagik (0.13; Table 3). Pairwise FST values between regions were all significant (S1 Table). The highest pairwise value was between MatSu and Kenai (0.041), and the lowest was between BB and Kenai (0.022; S1 Table).
Mantel’s tests revealed evidence of isolation by distance. When all sites were considered, slightly stronger non-significant trends were recovered when distance was measured via stream length (Rxy = 0.35, R2 = 0.12, P = 0.072) than by straight line distances (Rxy = 0.32, R2 = 0.10, P = 0.086). When Hall and Pollard lakes were removed from the calculation to control for small sample sizes, highly significant relationships were detected, with distance based on stream length (Rxy = 0.491, R2 = 0.24, P = 0.007) being a stronger predictor than straight line distances (Rxy = 0.445, R2 = 0.198, P = 0.021; Fig 2).
Microsatellite based estimates of genetic differentiation (linearized FST) compared to (a) Euclidian distance between lakes, (b) Euclidian distance between lakes distance by streams without Hall and Pollard lakes to account for sample size variation, and (c) distance by streams, and (d) distance by streams without Hall and Pollard lakes.
The results of the Bayesian clustering analysis in STRUCTURE indicated a peak in posterior probabilities (-ln P(D)) at K = 2, and ΔK values also detected the coarsest level of genetic structure at K = 2 (Fig 1, S2 Fig). Most individuals from Aleknagik, Engineer, Hall, Lower Ohmer, Pollard, Seymour, and Wolf lakes were assigned to one cluster, and most individuals in Cheney, Falk, Willow, and Scout lakes were assigned to a second cluster (Fig 1, S2 Fig). Individuals from Big Beaver, Cornelius, Iliamna, Loberg, Rocky, and Walby lakes were assigned to both clusters. Most individuals in a host were assigned completely to one cluster or the other; only six fish hosted S. solidus from more than one cluster, and only a few hosts carried individuals with admixed genotypes (S2 Fig). The frequency of the two clusters varied over time; the second cluster became more frequent in the latter two years of the study (S2 Fig). At K = 5, individuals from Engineer Lake and some individuals from Walby Lake were assigned to a third cluster independent of most other samples (Fig 1, S2 Fig). When individuals from the two primary genetic clusters were run separately as subsets (i.e., cluster one and cluster two respectively), individuals from cluster one were assigned to two genetic clusters, and individuals in cluster two tended towards incomplete assignment when run as a subset, as was observed when all individuals were run together (S2 Fig).
Discussion
The evolutionary potential of a parasite can depend on gene flow, which frequently reflects host dispersal [52,53]. This study tested the hypotheses that the genetic structure of S. solidus reflects the habits of its intermediate host or, alternatively, those of its definitive hosts. We evaluated spatial and temporal patterns of genetic variation and found evidence of significant population genetic structure in S. solidus infecting threespine sticklebacks in lakes throughout south-central Alaska. The observed patterns of genetic differentiation and diversity showed that gene flow is constrained, and that variability over space and time likely reflects factors other than the movement of the most vagile host. We recovered significant mtDNA and microsatellite-based estimates of genetic differentiation, with genetic structure recovered in frequency-based and Bayesian clustering analysis (Tables 1 and 2; Figs 1 and 2). Even though levels of differentiation found in fish and parasites are frequently higher than in other systems, FST and ΦST values in S. solidus are comparably higher than levels of genetic differentiation in similar host-parasite systems [54–57]. For example, much lower levels of differentiation have been found in Ligula intestinalis, another geographically widespread cestode parasite, which has been attributed to transportation of eggs by vagile piscivorous birds [10,58].
Hierarchical signatures of genetic differentiation were attributable to differences among stickleback hosts within years and among lakes, indicating that parasite populations may be defined by intermediate host identity, host cohort, or lake of origin (Table 2). Though measures of hierarchical genetic differentiation likely captured other sources of differentiation due to samples being taken over time, pairwise measures of differentiation suggest that S. solidus is significantly differentiated among lakes (Table 3). Clustering analysis also suggests the presence of two populations across south-central Alaska that differ in frequency among lakes (Fig 1, S2 Fig). Lakes generally were assigned completely to one cluster or the other, though some (e.g. Big Beaver, Cornelius, Iliamna, Loberg, Rocky, and Walby) harbored both clusters (Fig 1). The highest numbers of effective mitochondrial haplotypes corresponded to lakes that harbored both clusters (Table 1). This indicates that the movement of its vagile, definitive hosts influences gene flow in S. solidus less than would be expected based on movement potential [4,9,10,20,59]. The observed patterns of genetic variation in S. solidus could be attributed to one or more possible mechanisms, including genetic drift, behaviors of definitive hosts constraining dispersal, feeding or movement of intermediate hosts, and adaptive specificity of S. solidus to intermediate host genotype.
Genetic variation
The high levels of genetic diversity observed in S. solidus (Tables 1, 2, and 3; Figs 1 and 2) likely reflects transmission across a complex life cycle. High levels of genetic diversity in S. solidus may arise because a single stickleback host can contain multiple parasite genotypes, as copepods containing cestodes are consumed individually and in great numbers by fish. Definitive avian host individuals may in turn consume many stickleback hosts [60]. Similar levels of genetic diversity have been observed in other host-parasite systems where intermediate hosts harbor multiple parasite genotypes and definitive hosts consume several intermediate hosts [11,61].
The observed hierarchical population structure in S. solidus also is likely an outcome of a complex life cycle. Observed patterns of genetic differentiation suggest that parasites within a stickleback intermediate host can be considered a subpopulation comprised of discrete or overlapping generational cohorts, and lakes a collection of multiple subpopulations [10]. Though subpopulations are well defined within intermediate hosts, subsequent mixing can occur within a lake because multiple infected fish may be consumed by a single definitive host. Further geographic nesting could reflect definitive hosts feeding and shedding parasites within a particular lake or region [10]; if definitive hosts feed on intermediate hosts in a single lake, the subsequent generation of parasites may be returned to the same or nearby lake if shedding occurs soon after consumption of infected stickleback.
Population connectivity
The observed patterns of genetic differentiation in S. solidus indicate that population connectivity is lower than what would be expected from the high dispersal potential of its definitive hosts. Semi-aquatic birds like Common Loons can readily carry S. solidus among lakes. Yet, 2.96% of mtDNA haplotype variation is attributable to differences among lakes (Table 2). Pairwise FST values based on microsatellite allelic variation also indicate that S. solidus in nearby lakes exhibit significant levels of genetic differentiation (e.g. Engineer and Lower Ohmer, FST = 0.11; Table 3). Additionally, we found that S. solidus exhibits signatures of isolation-by-distance, suggesting that there are stronger geographical barriers to gene flow in S. solidus than has been previously thought (Fig 2). The signature of isolation-by-distance was more pronounced when distance corresponded to riverine movement corridors, suggesting that watershed boundaries could be important in mediating gene flow among lakes. The movement of definitive avian hosts might be constrained if, for example, flight patterns correspond to drainage topography rather than straight-line pathways or if avian hosts exhibit site fidelity. It is also possible, however, that dispersal of definitive hosts does not coincide with periods of infection, which can be relatively brief (i.e., days to weeks). Reproduction and shedding of S. solidus also might occur prior to dispersal of definitive hosts. If so, then the observed pattern of IBD among lakes could be a reflection of small effective population sizes and genetic drift arising from stochastic synchronicity between infection, reproduction and dispersal of definitive hosts.
The strong signatures of temporal variation observed across the four-year study period appear to be tied to the habits of stickleback hosts. Among year differences in mtDNA haplotype frequencies (Table 2) and evidence of replacement of one by another microsatellite genotypic cluster over the study period (S2 Fig) are consistent with the feeding ecology of stickleback hosts [53,62]. Sticklebacks typically cease accumulating parasites when their diet shifts away from copepods late in their first year after hatching, which could result in a two year turnover cycle of genotypic clusters (i.e., generational cohorts) in lakes corresponding to the lifespan of stickleback hosts [16,23,32,63]. It is also possible, however, that transmission cycles could be acting in conjunction with genetic drift and constrained or variable definitive host movement to promote spatial and temporal genetic differentiation in S. solidus.
The observed patterns of restricted gene flow may also be an outcome of intermediate host specificity within S. solidus. Nishimura et al. (2011) recovered phylogenetic evidence indicating that continental patterns of genetic differentiation in Schistocephalus parasites reflect specificity between threespine and ninespine stickleback intermediate hosts [26,64]. Evidence of fine-scale geographical differences in parasite responses to host immune function suggests that S. solidus may also exhibit adaptive specificity to evolutionary lineages of threespine stickleback [65,66]. If so, then the observed patterns of genetic variation might reflect differential infection of the two genetically distinct but morphologically identical clades of threespine stickleback that occur in south-central Alaska [62,65,67,68]. Though the low percentage of hosts (~2.5%) infected by parasites assigned to two genotypic clusters and evidence of high genetic diversity and genetic differentiation in S. solidus are consistent with this scenario, further study is warranted to determine the likelihood of adaptive host specificity in mediating gene flow in S. solidus [3,55,65,69]. Comparisons of host haplotype to parasite genotype could, for example, reveal whether patterns of genetic relatedness are correlated. Additional comparisons focusing on functional genes associated with immune response could also prove informative, especially with reference to further information on life history and demographic factors that may influence host-parasite interactions.
Supporting Information
S1 Fig. Haplotype Networks.
Minimum spanning networks were constructed in Network and colored by (a) lake, (b) year collected, and (c) genotypic cluster assignment (K = 3). Lines represent one base pair difference between haplotypes, and black nodes represent transitional mutations.
https://doi.org/10.1371/journal.pone.0122307.s001
(TIFF)
S2 Fig. Bayesian Cluster Analysis.
Grouped by lake, with (a) K = 2, (b) K = 5, by (c) year collected K = 2, (d) fish host, with only hosts with greater than seven parasites, K = 2, (e) cluster one K = 2, (f) cluster two K = 2, and (g) mean ln P(D) plot.
https://doi.org/10.1371/journal.pone.0122307.s002
(TIFF)
S1 Table. Pairwise ΦST and FST Values by Region.
ΦST values are above the diagonal and FST values are below the diagonal. Significant values are bold (p>0.05). MatSu = Matanuska-Susitna Valley; Kenai = Kenai Peninsula; BB = Bristol Bay region.
https://doi.org/10.1371/journal.pone.0122307.s003
(DOCX)
S2 Table. Estimates of Hardy-Weinberg Equilibrium.
N: number of individuals per lake; HE: expected heterozygosity; HO: observed heterozygosity; FIS: inbreeding coefficient. Bolded HO values indicate significant departures from Hardy-Weinberg Equilibrium (p<0.05).
https://doi.org/10.1371/journal.pone.0122307.s004
(DOCX)
Acknowledgments
We thank Veronica Ely, Meredith Kurz, Helen Knoper, and Hannah Strobel, and many University of Washington field personnel but especially Brian Harmon for assisting with field collections and necropsies. We also thank Alex Gulachenski for assisting in laboratory analyses.
Author Contributions
Conceived and designed the experiments: CGS MB DH. Performed the experiments: CGS. Analyzed the data: CGS. Contributed reagents/materials/analysis tools: MB DH TQ. Wrote the paper: CGS MB TQ DH. Obtained specimens: DH TQ.
References
- 1. Dybdahl MF, Storfer A (2003) Parasite local adaptation: Red Queen versus Suicide King. Trends Ecol Evol 18: 523–530. Available: http://linkinghub.elsevier.com/retrieve/pii/S0169534703002234. Accessed 19 March 2014.
- 2. Johnson SG, Lively CM, Schrag S (1997) Evolution and ecological correlates of uniparental and biparental reproduction in freshwater snails. Evol Ecol Freshw Anim 82: 263–291. Available: http://link.springer.com/10.1007/978-3-0348-8880-6. Accessed 25 April 2014.
- 3. Dybdahl MF, Lively CM (1996) The geography of coevolution: comparative population structures for a snail and its trematode parasite. Evolution (N Y) 50: 2264–2275.
- 4. Jarne P, Théron A (2001) Genetic structure in natural populations of flukes and snails: a practical approach and review. Parasitology 123: S27–S40. Available: http://www.ncbi.nlm.nih.gov/pubmed/11769289. pmid:11769289
- 5. Gandon S, Michalakis Y (2002) Local adaptation, evolutionary potential and host-parasite coevolution: interactions between migration, mutation, population size and generation time. J Evol Biol 15: 451–462. Available: http://doi.wiley.com/10.1046/j.1420-9101.2002.00402.x.
- 6. Sork V, Nason J, Campbell D, Fernandez J (1999) Landscape approaches to historical and contemporary gene flow in plants. Trends Ecol Evol 14: 219–224. Available: http://www.ncbi.nlm.nih.gov/pubmed/10354623. pmid:10354623
- 7. Moore J-S, Hendry AP (2009) Can gene flow have negative demographic consequences? Mixed evidence from stream threespine stickleback. Philos Trans R Soc London 364: 1533–1542. Available: http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=2690503&tool=pmcentrez&rendertype=abstract. Accessed 27 August 2014.
- 8.
Price PW (1980) Evolutionary Biology of Parasites. Princeton University Press. Available: http://books.google.com/books?hl=en&lr=&id=rGO0QPfcFkMC&pgis=1. Accessed 17 April 2014.
- 9. Blouin MS, Yowell CA, Courtney CH, Dame JB (1995) Host movement and the genetic structure of populations of parasitic nematodes. Genetics 141: 1007–1014. pmid:8582607
- 10. Nadler SA (1995) Microevolution and the genetic structure of parasite populations. J Parasitol 81: 395–403. pmid:7776124
- 11. Criscione CD, Blouin MS (2004) Life Cycles Shape Parasite Evolution: Comparative Population Genetics of Salmon Trematodes. Evolution (N Y) 58: 198–202. Available: http://doi.wiley.com/10.1111/j.0014-3820.2004.tb01587.x. Accessed 17 April 2014.
- 12. Hafner JC, Hafner DJ, Patton JL, Smith MF (1983) Contact zones and the genetics of differentiation in the Pocket Gopher Thomomys Bottae (Rodentia: Geomyidae). Syst Biol 32: 1–20. Available: http://sysbio.oxfordjournals.org/content/32/1/1.short. Accessed 30 April 2014.
- 13. Nieberding C, Morand S, Libois R, Michaux JR (2004) A parasite reveals cryptic phylogeographic history of its host. Proc R Soc Biol Sci 271: 2559–2568. Available: http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=1691906&tool=pmcentrez&rendertype=abstract. Accessed 14 April 2014. pmid:15615681
- 14. Hilburn LR, Sattler PW (1986) Electrophoretically detectable protein variation in natural populations of the lone star tick, Amblyomma americanum (Acari: Ixodidae). Heredity (Edinb) 57: 67–74. Available: http://www.ncbi.nlm.nih.gov/pubmed/3744877.
- 15. Hilburn LR, Sattler PW (1986) Are tick populations really less variable and should they be? Heredity (Edinb) 57: 113–117. Available: http://dx.doi.org/10.1038/hdy.1986.94. Accessed 30 April 2014.
- 16.
Smyth JD (1962) Introduction to Animal Parasitology. Cambridge University Press. Available: http://books.google.com/books?id=j1TD9FiEY-sC&pgis=1. Accessed 18 April 2014.
- 17. Barrett LG, Thrall PH, Burdon JJ, Linde CC (2008) Life history determines genetic structure and evolutionary potential of host-parasite interactions. Trends Ecol Evol 23: 678–685. Available: http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=2653456&tool=pmcentrez&rendertype=abstract. Accessed 19 March 2014. pmid:18947899
- 18. Slatkin M (1987) Gene flow and the geographic structure of natural populations. Science (80-) 236: 787–792. Available: http://www.sciencemag.org/cgi/doi/10.1126/science.3576198. Accessed 23 March 2014.
- 19. Manel S, Schwartz MK, Luikart G, Taberlet P (2003) Landscape genetics: combining landscape ecology and population genetics. Trends Ecol Evol 18: 189–197. Available: http://linkinghub.elsevier.com/retrieve/pii/S0169534703000089. Accessed 21 March 2014.
- 20. Prugnolle F, Théron A, Pointier JP, Jabbour-zahab R, Jarne P, Durand P, et al. (2005) Dispersal in a parasitic worm and its two hosts: consequence for local adaptation. Evolution (N Y) 59: 296–303.
- 21. Louhi K-R, Karvonen A, Rellstab C, Jokela J (2010) Is the population genetic structure of complex life cycle parasites determined by the geographic range of the most motile host? Infect Genet Evol 10: 1271–1277. Available: http://www.sciencedirect.com/science/article/pii/S156713481000242X. Accessed 17 April 2014. pmid:20804859
- 22. Blasco-Costa I, Waters JM, Poulin R (2012) Swimming against the current: genetic structure, host mobility and the drift paradox in trematode parasites. Mol Ecol 21: 207–217. Available: http://www.ncbi.nlm.nih.gov/pubmed/22118193. Accessed 27 November 2014. pmid:22118193
- 23. Heins DC, Baker J (2008) The stickleback–Schistocephalus host–parasite system as a model for understanding the effect of a macroparasite on host reproduction. Behaviour 145: 625–645.
- 24. Barber I, Scharsack JP (2010) The three-spined stickleback-Schistocephalus solidus system: an experimental model for investigating host-parasite interactions in fish. Parasitology 137: 411–424. Available: http://www.ncbi.nlm.nih.gov/pubmed/19835650. Accessed 17 December 2013. pmid:19835650
- 25. Copp GH, Kovác V (2003) Sympatry between threespine Gasterosteus aculeatus and ninespine Pungitius pungitius sticklebacks in English lowland streams. Ann Zool Fennici 40: 341–355.
- 26. Nishimura N, Heins DC, Andersen RO, Barber I, Cresko W a (2011) Distinct lineages of Schistocephalus parasites in threespine and ninespine stickleback hosts revealed by DNA sequence analysis. PLoS One 6: 1–10. Available: http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=3139657&tool=pmcentrez&rendertype=abstract. Accessed 31 March 2014.
- 27. Thomas LJ (1947) Notes on the life cycle of Schistocephalus sp., a tapeworm from gulls. J Parasitol 33: 10. Available: http://europepmc.org/abstract/MED/20271931/reload=0. Accessed 31 March 2014. pmid:20340861
- 28. Pennycuick L (1971) Frequency distributions of parasites in a population of three-spined sticklebacks, Gasterosteus aculeatus L., with particular reference to the negative binomial distribution. Parasitology 63: 389. Available: http://journals.cambridge.org/abstract_S0031182000079920. Accessed 18 April 2014. pmid:5167773
- 29. Heins DC, Baker JA, Toups MA, Birden EL (2010) Evolutionary significance of fecundity reduction in threespine stickleback infected by the diphyllobothriidean cestode Schistocephalus solidus. Biol J Linn Soc 100: 835–846. Available: http://doi.wiley.com/10.1111/j.1095-8312.2010.01486.x. Accessed 17 December 2013.
- 30. Bråten T (1966) Host specificity in Schistocephalus solidus. Parasitology 56: 657. Available: http://journals.cambridge.org/abstract_S0031182000071687. Accessed 22 March 2014. pmid:5971584
- 31. Wedekind C (1997) The infectivity, growth, and virulence of the cestode Schistocephalus solidus in its first intermediate host, the copepod Macrocyclops albidus. Parasitology 115: 317–324. pmid:9300470
- 32.
Bell MA, Foster S (1994) The Evolutionary Biology of the Threespine Stickleback. Bell MA, Foster SA, editors Oxford University Press, USA.
- 33. Ward AJW, James R, Wilson ADM, Webster MM (2013) Site fidelity and localised homing behaviour in three-spined sticklebacks (Gasterosteus aculeatus). Behaviour 150: 1689–1708. Available: http://booksandjournals.brillonline.com/content/journals/10.1163/1568539x-00003115. Accessed 15 July 2014.
- 34. Caldera EJ, Bolnick DI (2008) Effects of colonization history and landscape structure on genetic variation within and among threespine stickleback (Gasterosteus aculeatus) populations in a single watershed. Evol Ecol Res 10: 575–598.
- 35. Hendry AP, Taylor EB (2004) How much of the variation in adaptive divergence can be explained by gene flow? An evaluation using lake-stream stickleback pairs. Evolution (N Y) 58: 2319–2331. pmid:15562693
- 36. Kenow KP, Meyer MW, Evers DC, Douglas DC, Hines J (2002) Use of satellite telemetry to identify common loon migration routes, staging areas and wintering range. Waterbirds 25: 449–458. Available: http://dx.doi.org/10.1675/1524-4695(2002)025[0449:UOSTTI]2.0.CO;2. Accessed 15 July 2014.
- 37.
Ruggles AK (1991) Habitat selection by common loons (Gavia immer) in the Matanuska-Susitna Valley, Alaska University of Alaska Fairbanks. Available: http://tulaneuniversity5461.worldcat.org/title/habitat-selection-by-common-loons-gavia-immer-in-the-matanuska-susitna-valley-alaska/oclc/31105946. Accessed 30 April 2014.
- 38.
Humple DL (2009) Genetic structure and demographic impacts of oil spills in Western and Clark’s Grebes Sonoma State University, California.
- 39. Bartolomé C, Maside X, Camphuysen K, Heubeck M, Bao R (2011) Multilocus population analysis of Gavia immer (Aves: Gaviidae) mtDNA reveals low genetic diversity and lack of differentiation across the species breeding range. Org Divers Evol 11: 307–316. Available: http://link.springer.com/10.1007/s13127-011-0052-4. Accessed 16 November 2014.
- 40. Piper WH, Paruk JD, Evers DC, Meyer MW, Keren B, Klich M, et al. (1997) Local movements of color-marked common loons. J Wildl Manage 61: 1253–1261.
- 41. Piper W, Mager J, Walcott C (2011) Marking loons, making progress. Am Sci 99: 220–227.
- 42. Barr JF (1996) Aspects of Common Loon (Gavia immer) feeding biology on its breeding ground. Hydrobiologia 321: 119–144.
- 43. Peakall R, Smouse PE (2012) GenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research—an update. Bioinformatics 28: 2537–2539. Available: http://bioinformatics.oxfordjournals.org/content/28/19/2537.short. Accessed 29 April 2014. pmid:22820204
- 44. Excoffier L, Lischer HEL (2010) Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows. Mol Ecol Resour 10: 564–567. Available: http://www.ncbi.nlm.nih.gov/pubmed/21565059. Accessed 21 March 2014. pmid:21565059
- 45. Librado P, Rozas J (2009) DnaSP v5: a software for comprehensive analysis of DNA polymorphism data. Bioinformatics 25: 1451–1452. Available: http://bioinformatics.oxfordjournals.org/content/25/11/1451.short. Accessed 19 March 2014. pmid:19346325
- 46.
Fluxus Engineering (n.d.). Available: flexus-engineering.com.
- 47. Polzin T, Daneschmand S V (2003) On Steiner trees and minimum spanning trees in hypergraphs. Oper Res Lett 31: 12–20.
- 48. Binz T, Reusch TBH, Wedekind C, Schärer L, Milinski M (2000) Isolation and characterization of microsatellite loci from the tapeworm Schistocephalus solidus. Mol Ecol 9: 1919–1952. pmid:11091329
- 49. Dieringer D, Schlotterer C (2003) Microsatellite analyser (MSA): a platform independent analysis tool for large microsatellite data sets. Mol Ecol Notes 3: 167–169. Available: http://doi.wiley.com/10.1046/j.1471-8286.2003.00351.x. Accessed 10 January 2015.
- 50. Rousset F (2008) genepop’007: a complete re-implementation of the genepop software for Windows and Linux. Mol Ecol Resour 8: 103–106. Available: http://www.ncbi.nlm.nih.gov/pubmed/21585727. Accessed 10 July 2014. pmid:21585727
- 51. Pritchard JK, Stephens M, Donnelly P (2000) Inference of population structure using multilocus genotype data. Genetics 155: 945–959. Available: http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=1461096&tool=pmcentrez&rendertype=abstract. pmid:10835412
- 52.
Hafner MS, Demastes JW, Spradling TA, Reed DL (2003) Cophylogeny Between Pocket Gophers and Chewing Lice. Tangled Trees: Phylogeny, Cospeciation, and Coevolution. University of Chicago Press. p. 350. Available: http://books.google.com/books?hl=en&lr=&id=3FurAywNLvMC&pgis=1. Accessed 17 April 2014.
- 53. Criscione CD, Poulin R, Blouin MS (2005) Molecular ecology of parasites: elucidating ecological and microevolutionary processes. Mol Ecol 14: 2247–2257. Available: http://www.ncbi.nlm.nih.gov/pubmed/15969711. Accessed 26 March 2014. pmid:15969711
- 54. Todd CD, Walker AM, Ritchie MG, Graves JA, Walker AF (2004) Population genetic differentiation of sea lice (Lepeophtheirus salmonis) parasitic on Atlantic and Pacific salmonids: analyses of microsatellite DNA variation among wild and farmed hosts. Can J Fish Aquat Sci 61: 1176–1190.
- 55. Davies CM, Webster JP, Krüger O, Munatsi A, Ndamba J, Woolhouse MEJ, et al. (1999) Host-parasite population genetics: a cross-sectional comparison of Bulinus globosus and Schistosoma haematobium. Parasitology 119: 295–302. Available: http://www.ncbi.nlm.nih.gov/pubmed/10503255. pmid:10503255
- 56. Lamphere B a., Blum MJ (2012) Genetic estimates of population structure and dispersal in a benthic stream fish. Ecol Freshw Fish 21: 75–86. Available: http://doi.wiley.com/10.1111/j.1600-0633.2011.00525.x. Accessed 28 March 2014.
- 57. Bouzid W, Stefka J, Hypsa V, Lek S, Scholz T, Legal L, et al. (2008) Geography and host specificity: two forces behind the genetic structure of the freshwater fish parasite Ligula intestinalis (Cestoda: Diphyllobothriidae). Int J Parasitol 38: 1465–1479. Available: http://www.sciencedirect.com/science/article/pii/S0020751908001434. Accessed 18 November 2014. pmid:18513725
- 58. McManus DP (1985) Enzyme analyses of natural populations of Schistocephalus solidus and Ligula intestinalis. J Helminthol 59: 323. Available: http://journals.cambridge.org/abstract_S0022149X00025906. Accessed 30 April 2014.
- 59. Blouin MS, Dame JB, Tarrant CA, Courtney CH (1992) Unusual population genetics of a parasitic nematode: mtDNA variation within and among populations. Evolution (N Y) 56: 470–476.
- 60. Reimchen TE, Douglas S (1980) Observations of loons (Gavia immer and G. stellata) at a bog lake on the Queen Charlotte Islands. Can Field-Naturalist 94: 398–404.
- 61. Criscione CD, Blouin MS (2006) Minimal Selfing, Few Clones, and No Among-Host Genetic Structure in a Hermaphroditic Parasite with Asexual Larval Popagation. Evolution (N Y) 60: 553–562.
- 62. Criscione CD (2008) Parasite co-structure: broad and local scale approaches. Parasite 15: 439–443. Available: http://dx.doi.org/10.1051/parasite/2008153439. Accessed 23 April 2014. pmid:18814719
- 63. Heins DC, Birden EL, Baker JA (2010) Host mortality and variability in epizootics of Schistocephalus solidus infecting the threespine stickleback, Gasterosteus aculeatus. Parasitology 137: 1681–1686. Available: http://www.ncbi.nlm.nih.gov/pubmed/20550751. Accessed 17 December 2013. pmid:20550751
- 64. Henrich T, Benesh DP, Kalbe M (2013) Hybridization between two cestode species and its consequences for intermediate host range. Parasit Vectors 6: 33. Available: http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=3584927&tool=pmcentrez&rendertype=abstract. Accessed 5 August 2014. pmid:23390985
- 65. Franke F, Rahn AK, Dittmar J, Erin N, Rieger JK, Rieger J, et al. (2014) In vitro leukocyte response of three-spined sticklebacks (Gasterosteus aculeatus) to helminth parasite antigens. Fish Shellfish Immunol 36: 130–140. Available: http://www.ncbi.nlm.nih.gov/pubmed/24176687. Accessed 4 April 2014. pmid:24176687
- 66. Eizaguirre C, Lenz TL, Kalbe M, Milinski M (2012) Divergent selection on locally adapted major histocompatibility complex immune genes experimentally proven in the field. Ecol Lett 15: 723–731. Available: http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=3440595&tool=pmcentrez&rendertype=abstract. Accessed 30 May 2014. pmid:22583762
- 67. Johnson LS, Taylor EB (2004) The distribution of divergent mitochondrial DNA lineages of threespine stickleback (Gasterosteus aculeatus) in the northeastern Pacific Basin: post-glacial dispersal and lake accessibility. J Biogeogr 31: 1073–1083. Available: http://doi.wiley.com/10.1111/j.1365-2699.2004.01078.x. Accessed 17 April 2014. pmid:15607489
- 68. Orti G, Bell MA, Reimchen TE, Meyer A (1994) Global survey of mitochondrial DNA sequences in the threespine stickleback: evidence for recent migrations. Evolution (N Y) 48: 608–622.
- 69. Greischar M a, Koskella B (2007) A synthesis of experimental work on parasite local adaptation. Ecol Lett 10: 418–434. Available: http://www.ncbi.nlm.nih.gov/pubmed/17498141. Accessed 19 March 2014. pmid:17498141