Dataset Information

New microsatellite markers for examining genetic variation in peripheral and core populations of the Coastal Giant Salamander (Dicamptodon tenebrosus).

ABSTRACT: The Coastal Giant Salamander (Dicamptodon tenebrosus) is classified as threatened at the northern periphery of its range in British Columbia (BC), Canada, primarily due to forestry practices and habitat fragmentation. Characterising dispersal behaviour and population connectivity is therefore a priority for this region, while genetic differentiation in core versus peripheral locations remains unstudied in this wide-ranging species. We present seven new polymorphic microsatellite markers for use in population genetic analyses of D. tenebrosus. We examine locus characteristics and genetic variation in 12 streams at the species' northern range limit in BC, and within two regions representing sub-peripheral (North Cascades) and core localities (South Cascades) in Washington State, United States. In BC, the number of alleles per locus ranged from 2-5 and observed heterozygosity ranged from 0.044-0.825. Genetic differentiation was highest between BC and the South Cascades, and intermediate between BC and the North Cascades. Across loci, mean allelic richness was similar across regions, while private allelic richness was highest in the core locality (corrected for sample size). These new microsatellite loci will be a valuable addition to existing markers for detailed landscape and population genetic analyses of D. tenebrosus across its range.

SUBMITTER: Dudaniec RY

PROVIDER: S-EPMC3002275 | biostudies-literature | 2010

REPOSITORIES: biostudies-literature

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New microsatellite markers for examining genetic variation in peripheral and core populations of the Coastal Giant Salamander (Dicamptodon tenebrosus).

Dudaniec Rachael Y RY Storfer Andrew A Spear Stephen F SF Richardson John S JS

PloS one 20101215 12

The Coastal Giant Salamander (Dicamptodon tenebrosus) is classified as threatened at the northern periphery of its range in British Columbia (BC), Canada, primarily due to forestry practices and habitat fragmentation. Characterising dispersal behaviour and population connectivity is therefore a priority for this region, while genetic differentiation in core versus peripheral locations remains unstudied in this wide-ranging species. We present seven new polymorphic microsatellite markers for use ...[more]

PMID: 21179519

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Project description:The red-backed salamander (Plethodon cinereus) has long-served as a model system in ecology, evolution, and behavior, and studies surveying molecular variation in this species have become increasingly common over the past decade. However, difficulties are commonly encountered when extending microsatellite markers to populations that are unstudied from a genetic perspective due to high levels of genetic differentiation across this species' range. To ameliorate this issue, we used 454 pyrosequencing to identify hundreds of microsatellite loci. We then screened 40 of our top candidate loci in populations in Virginia, Pennsylvania, and Ohio-including an isolated island population ~ 4.5 km off the shore of Lake Erie (South Bass Island). We identified 25 loci that are polymorphic in a well-studied region of Virginia and 11 of these loci were polymorphic in populations located in the genetically unstudied regions of Ohio and Pennsylvania. Use of these loci to examine patterns of variation within populations revealed that South Bass Island has low diversity in comparison to other sites. However, neither South Bass Island nor isolated populations around Cleveland are inbred. Assessment of variation between populations revealed three well defined genetic clusters corresponding to Virginia, mainland Ohio/Pennsylvania, and South Bass Island. Comparisons of our results to those of others working in various parts of the range are consistent with the idea that differentiation is lower in regions that were once glaciated. However, these comparisons also suggest that well differentiated isolated populations in the formerly glaciated portion of the range are not uncommon. This work provides novel genetic resources that will facilitate population genetic studies in a part of the red-backed salamander's range that has not previously been studied in this manner. Moreover, this work refines our understanding of how neutral variation is distributed in this ecologically important organism.

Project description:Determining the genetic consequences of both historical and contemporary events can clarify the effects of the environment on population connectivity and inform conservation decisions. Historical events (like glaciations) and contemporary factors (like logging) can disrupt gene flow between populations. This is especially true among species with specialized ecological requirements and low dispersal ability, like amphibians. We test for the genetic consequences of historical and contemporary disturbances in the coastal giant salamander (Dicamptodon tenebrosus) in the Pacific Northwest of the United States. We consider predictions based on the contemporary landscape (habitat connectivity, logging, forest fires, and topography), in addition to relatively ancient post-Pleistocene range expansion (following the last glacial retreat). To assess local versus larger-scale effects, we sampled 318 individuals across 23 sites, which were clustered in five sampling regions. Genetic variation was assessed using five microsatellite markers. We found evidence of (i) historical regional isolation, with decreased genetic diversity among more recently colonized northern sites, as well as (ii) high levels of inbreeding and loss of heterozygosity at local scales, despite relatively low overall population differentiation (FST) or strong evidence for population bottlenecks. Genetic diversity was not associated with contemporary disturbances (logging or fire), and there were no detectable effects on the genetic connectivity of populations based on intervening landscape features (habitat fragmentation and topography). However, lower genetic diversity in more northern regions indicates a lag in recovery of genetic diversity following post-Pleistocene expansion. Additionally, some populations had evidence of having undergone a recent genetic bottleneck or had high inbreeding (FIS) values. Lower genetic diversity in more northern sites means populations may be more vulnerable to future environmental changes, and managing for connectivity alone may not be sufficient given low mobility. Recent apparent reductions in some populations were not clearly linked to anthropogenic disturbances we examined. This suggests the type of disturbances this species is sensitive to may not be well understood.

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Dataset Information

New microsatellite markers for examining genetic variation in peripheral and core populations of the Coastal Giant Salamander (Dicamptodon tenebrosus).

Publications

New microsatellite markers for examining genetic variation in peripheral and core populations of the Coastal Giant Salamander (Dicamptodon tenebrosus).

Similar Datasets

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