Temporal dynamics of genetic clines of invasive European green crab (Carcinus maenas) in eastern North America

Evolutionary Applications published by John Wiley & Sons Ltd. Reproduced with the permission of the Minister of Fisheries and Oceans Canada. Two genetically distinct lineages of European green crabs (Carcinus maenas) were independently introduced to eastern North America, the first in the early 19th century and the second in the late 20th century. These lineages first came into secondary contact in southeastern Nova Scotia, Canada (NS), where they hybridized, producing latitudinal genetic clines. Previous studies have documented a persistent southward shift in the clines of different marker types, consistent with existing dispersal and recruitment pathways. We evaluated current clinal structure by quantifying the distribution of lineages and fine-scale hybridization patterns across the eastern North American range (25 locations, ~39 to 49°N) using informative single nucleotide polymorphisms (SNPs; n = 96). In addition, temporal changes in the genetic clines were evaluated using mitochondrial DNA and microsatellite loci (n = 9–11) over a 15-year period (2000–2015). Clinal structure was consistent with prior work demonstrating the existence of both northern and southern lineages with a hybrid zone occurring between southern New Brunswick (NB) and southern NS. Extensive later generation hybrids were detected in this region and in southeastern Newfoundland. Temporal genetic analysis confirmed the southward progression of clines over time; however, the rate of this progression was slower than predicted by forecasting models, and current clines for all marker types deviated significantly from these predictions. Our results suggest that neutral and selective processes contribute to cline dynamics, and ultimately, highlight how selection, hybridization, and dispersal can collectively influence invasion success

Experimental evidence for concentration-dependence and intra-specific variation of movement behaviour in American lobster (Homarus americanus) larvae

Predicting dispersal paths of marine larvae with extended pelagic durations, such as American lobster (Homarus americanus (Milne Edwards, 1837)), requires understanding the cues to which larvae respond, and how that response reflects changes in larval behaviour. If larvae respond to conspecific presence by varying their movement, this behaviour can bias laboratory estimates of environmental responses. We tested whether larvae actively decreased their local intraspecific density by measuring how the vertical distribution of larvae changed under high versus low concentrations of conspecifics. We observed weak increases in vertical dispersion at higher concentrations in both newly-hatched larvae and in post-larvae, but not in intermediate larval stages. We also tested for differences in horizontal swimming behaviour in high and low concentrations, by fitting a novel random walk model that allowed us to model both larval interactions and persistent turning behaviours. We showed substantial reduction in diffusive behaviour under high concentration conditions resulting from more frequent turns by each larva, but no evidence for consistent avoidance of conspecifics. Our study is the first to demonstrate concentration-dependent behaviours in lobster larvae.The accepted manuscript in pdf format is listed with the files at the bottom of this page. The presentation of the authors' names and (or) special characters in the title of the manuscript may differ slightly between what is listed on this page and what is listed in the pdf file of the accepted manuscript; that in the pdf file of the accepted manuscript is what was submitted by the author

Climate change, species thermal emergence, and conservation design: a case study in the Canadian Northwest Atlantic

Marine Protected Areas (MPAs) are conservation tools that promote biodiversity by regulating human impacts. However, because MPAs are fixed in space and, by design, difficult to change, climate change may challenge their long-term effectiveness. It is therefore imperative to consider anticipated ecological changes in their design. We predict the time of emergence (ToE: year when temperatures will exceed a species’ tolerance) of 30 fish and invertebrate species in the Scotian Shelf-Bay of Fundy draft network of conservation areas based on climate projections under two contrasting emission scenarios (RCP 2.6 and RCP 8.5). We demonstrate a strong Southwest-to-Northeast gradient of change under both scenarios. Cold water-associated species had earlier ToEs, particularly in southwesterly areas. Under low emissions, 20.0% of habitat and 12.6% of species emerged from the network as a whole by 2100. Under high emissions, 51% of habitat and 42% of species emerged. These impacts are expected within the next 30–50 years in some southwestern areas. The magnitude and velocity of change will be tempered by reduced emissions. Our identification of high- and low-risk areas for species of direct and indirect conservation interest can support decisions regarding site and network design (and designation scheduling), promoting climate resilience

DataSheet_1_Fine-scale ensemble species distribution modeling of eelgrass (Zostera marina) to inform nearshore conservation planning and habitat management.docx

Baseline data on the distribution and extent of biogenic habitat-forming species at a high spatial resolution are essential to inform habitat management strategies, preserve ecosystem integrity, and achieve effective conservation objectives in the nearshore. Model-based approaches to map suitable habitat for these species are a key tool to address this need, filling in gaps where observations are otherwise unavailable and remote sensing methods are limited by turbid waters or cannot be applied at scale. We developed a high resolution (35 m) ensemble species distribution model to predict the distribution of eelgrass (Zostera marina) along the Atlantic coast of Nova Scotia, Canada where the observational coverage of eelgrass occurrence is sparse and nearshore waters are optically complex. Our ensemble model was derived as a performance-weighted average prediction of 7 different modeling methods fit to 6 physical predictors (substrate type, depth, wave exposure, slope, and two bathymetric position indices) and evaluated with a 5-fold spatially-blocked cross-validation procedure. The ensemble model showed moderate predictive performance (Area Under the Receiver-Operating Characteristic Curve (AUC) = 0.803 ± 0.061, True Skill Statistic (TSS) = 0.531 ± 0.100; mean ± SD), high sensitivity (92.0 ± 4.5), and offered some improvement over individual models. Substrate type, depth, and relative wave exposure were the most influential predictors associated with eelgrass occurrence, where the highest probabilities were associated with sandy and sandy-mud sediments, depths ranging 0 m – 4 m, and low to intermediate wave exposure. Within our study region, we predicted a total extent of suitable eelgrass habitat of 38,130 ha. We found suitable habitat was particularly extensive within the long narrow inlets and extensive shallow flats of the South Shore, Eastern Shore, and Bras d’Or Lakes. We also identified substantial overlap of eelgrass habitat with previously identified Ecologically and Biologically Significant Areas that guide regional conservation planning while also highlighting areas of greater prediction uncertainty arising from disagreement among modeling methods. By offering improved sensitivity and insights into the fine-scale regional distribution of a habitat-forming species with associated uncertainties, our ensemble-based modeling approach provides improved support to numerous nearshore applications including conservation planning and restoration, marine spatial and emergency response planning, environmental impact assessments, and fish habitat protection.</p

Development and evaluation of SNP panels for the detection of hybridization between wild and escaped Atlantic salmon (Salmo salar) in the West Atlantic

Hybridization between wild and escaped cultured Atlantic salmon (Salmo salar) can threaten the stability and persistence of locally adapted wild populations. Here we describe the development and validation of a genomic-based approach to quantify recent hybridization between escapee and wild salmon in the Western Atlantic. Based on genome-wide single nucleotide polymorphism (SNP) scans of wild and cultured salmon, collectively diagnostic panels were created for Newfoundland and the Canadian Maritimes. These panels were capable of both discriminating hybrids from non-hybrids, and of correctly assigning individuals to hybrid class (i.e. pure wild, pure farm, F1, F2 and backcrosses) with a high degree of accuracy (Newfoundland 96 SNPs >90%, Maritimes 720 SNPs >80%). These genomic panels permit the assessment of the impacts of past and future farmed salmon escape events on wild populations, and can inform the protection and conservation of wild Atlantic salmon genetic integrity in the western Atlantic.The accepted manuscript in pdf format is listed with the files at the bottom of this page. The presentation of the authors' names and (or) special characters in the title of the manuscript may differ slightly between what is listed on this page and what is listed in the pdf file of the accepted manuscript; that in the pdf file of the accepted manuscript is what was submitted by the author

Data from: Genome-wide evidence of environmentally mediated secondary contact of European green crab (Carcinus maenas) lineages in eastern North America

Genetic-environment associations are increasingly revealed through population genomic data and can occur through a number of processes, including secondary contact, divergent natural selection, or isolation-by-distance. Here we investigate the influence of the environment, including seasonal temperature and salinity, on the population structure of the invasive European green crab (Carcinus maenas) in eastern North America. Green crab populations in eastern North America are associated with two independent invasions, previously shown to consist of distinct northern and southern ecotypes, with a contact zone in southern Nova Scotia, Canada. Using a RAD-seq panel of 9137 genome-wide SNPs, we detected 41 SNPs (0.49%) whose allele frequencies were highly correlated with environmental data. A principal components analysis of 25 environmental variables differentiated populations into northern, southern, and admixed sites in concordance with the observed genomic spatial structure. Furthermore, a spatial principal components analysis conducted on genomic and geographic data revealed a high degree of global structure (p<0.0001) partitioning a northern and southern ecotype. Redundancy and partial redundancy analyses revealed that among the environmental variables tested, winter sea surface temperature had the strongest association with spatial structuring, suggesting that it is an important factor defining range and expansion limits of each ecotype. Understanding environmental thresholds associated with intraspecific diversity will facilitate the ability to manage current and predict future distributions of this aquatic invasive species

Microsat_Genepop

Genepop file of all microsatellite alleles for green cra

Simulated_RAD_Data_ForNewHybrids

Simulated Pure 1, Pure 2, F1, F2, and BC1 and BC2 individuals using the top 200 high Fst low linkage disequilibrium loci for testing power of the SNP panel

Data from: Genomic evidence of hybridization between two independent invasions of European green crab (Carcinus maenas) in the Northwest Atlantic

Invasive species have been associated with significant negative impacts in their introduced range often outcompeting native species, yet the long-term evolutionary dynamics of biological invasions are not well understood. Hybridization, either among waves of invasion or between native and introduced populations, could alter the ecological and evolutionary impacts of invasions yet has rarely been studied in marine invasive species. The European green crab (Carcinus maenas) invaded eastern North America twice from northern and southern locations in its native range. Here we examine the frequency of hybridization among these two distinct invasions at locations from New Jersey, USA to Newfoundland, Canada using restriction-site associated DNA sequencing (RAD-seq), microsatellite loci, and COI mtDNA sequences. We used Bayesian clustering and hybrid assignment analyses to investigate hybridization between the northern and southern populations. Of the samples analyzed, six locations contained at least one hybrid individual, while two locations were characterized by extensive hybridization, with 95% of individuals collected from Placentia Bay, Newfoundland being hybrids (mostly F2), and 90% of individuals from Kejimkujik, Nova Scotia being classified as hybrids, mostly backcrosses to the northern ecotype. The presence of both F2 hybrids and backcrossed individuals suggests that these hybrids are viable and introgression is occurring between invasions. Our results provide insight into the demographic and evolutionary consequences of hybridization between independent invasions, and will inform the management of green crabs in eastern North America

green_crab_RAD_Filtered

Genepop file of RAD-seq derived loci after filtering for missing data and individuals with low coverage