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1. Severe hurricanes increase recruitment and gene flow in the clonal sponge Aplysina cauliformis

   https://doi.org/10.1111/mec.17307  

   Segura‐García, Iris ; Olson, Julie B. ; Gochfeld, Deborah J. ; Brandt, Marilyn E. ; Chaves‐Fonnegra, Andia ( March 2024 , Molecular Ecology)

   Upright branching sponges, such asAplysina cauliformis, provide critical three‐dimensional habitat for other organisms and assist in stabilizing coral reef substrata, but are highly susceptible to breakage during storms. Breakage can increase sponge fragmentation, contributing to population clonality and inbreeding. Conversely, storms could provide opportunities for new genotypes to enter populations via larval recruitment, resulting in greater genetic diversity in locations with frequent storms. The unprecedented occurrence of two Category 5 hurricanes in close succession during 2017 in the U.S. Virgin Islands (USVI) provided a unique opportunity to evaluate whether recolonization of newly available substrata on coral reefs was due to local (e.g. re‐growth of remnants, fragmentation, larval recruitment) or remote (e.g. larval transport and immigration) sponge genotypes. We sampledA. cauliformisadults and juveniles from four reefs around St. Thomas and two in St. Croix (USVI). Using a 2bRAD protocol, all samples were genotyped for single‐nucleotide polymorphisms (SNPs). Results showed that these major storm events favoured sponge larval recruitment but did not increase the genetic diversity ofA. cauliformispopulations. Recolonization of substratum post‐storms via clonality was lower (15%) than expected and instead was mainly due to sexual reproduction (85%) via local larval recruitment. Storms did enhance gene flow among and within reef sites located south of St. Thomas and north of St. Croix. Therefore, populations of clonal marine species with low pelagic dispersion, such asA. cauliformis, may benefit from increased frequency and magnitude of hurricanes for the maintenance of genetic diversity and to combat inbreeding, enhancing the resilience of Caribbean sponge communities to extreme storm events.

    

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2. Dispersive currents explain patterns of population connectivity in an ecologically and economically important fish

   https://doi.org/10.1111/eva.13567  

   Schraidt, Claire E. ; Ackiss, Amanda S. ; Larson, Wesley A. ; Rowe, Mark D. ; Höök, Tomas O. ; Christie, Mark R. ( June 2023 , Evolutionary Applications)

   How to identify the drivers of population connectivity remains a fundamental question in ecology and evolution. Answering this question can be challenging in aquatic environments where dynamic lake and ocean currents coupled with high levels of dispersal and gene flow can decrease the utility of modern population genetic tools. To address this challenge, we used RAD‐Seq to genotype 959 yellow perch (Perca flavescens), a species with an ~40‐day pelagic larval duration (PLD), collected from 20 sites circumscribing Lake Michigan. We also developed a novel, integrative approach that couples detailed biophysical models with eco‐genetic agent‐based models to generate “predictive” values of genetic differentiation. By comparing predictive and empirical values of genetic differentiation, we estimated the relative contributions for known drivers of population connectivity (e.g., currents, behavior, PLD). For the main basin populations (i.e., the largest contiguous portion of the lake), we found that high gene flow led to low overall levels of genetic differentiation among populations (F_ST = 0.003). By far the best predictors of genetic differentiation were connectivity matrices that were derived from periods of time when there were strong and highly dispersive currents. Thus, these highly dispersive currents are driving the patterns of population connectivity in the main basin. We also found that populations from the northern and southern main basin are slightly divergent from one another, while those from Green Bay and the main basin are highly divergent (F_ST = 0.11). By integrating biophysical and eco‐genetic models with genome‐wide data, we illustrate that the drivers of population connectivity can be identified in high gene flow systems.

    

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3. RAD‐tag and mitochondrial DNA sequencing reveal the genetic structure of a widespread and regionally imperiled freshwater mussel, Obovaria olivaria (Bivalvia: Unionidae)

   https://doi.org/10.1002/ece3.8560  

   Bucholz, Jamie R. ; Sard, Nicholas M. ; VanTassel, Nichelle M. ; Lozier, Jeffrey D. ; Morris, Todd J. ; Paquet, Annie ; Zanatta, David T. ( January 2022 , Ecology and Evolution)

   Obovaria olivariais a species of freshwater mussel native to the Mississippi River and Laurentian Great Lakes‐St. Lawrence River drainages of North America. This mussel has experienced population declines across large parts of its distribution and is imperiled in many jurisdictions.Obovaria olivariauses the similarly imperiledAcipenser fulvescens(Lake Sturgeon) as a host for its glochidia. We employed mitochondrial DNA sequencing and restriction site‐associated DNA sequencing (RAD‐seq) to assess patterns of genetic diversity and population structure ofO. olivariafrom 19 collection locations including the St. Lawrence River drainage, the Great Lakes drainage, the Upper Mississippi River drainage, the Ohioan River drainage, and the Mississippi Embayment. Heterozygosity was highest in Upper Mississippi and Great Lakes populations, followed by a reduction in diversity and relative effective population size in the St. Lawrence populations. PairwiseF_STranged from 0.00 to 0.20, and analyses of genetic structure revealed two major ancestral populations, one including all St. Lawrence River/Ottawa River sites and the other including remaining sites; however, significant admixture and isolation by river distance across the range were evident. The genetic diversity and structure ofO. olivariais consistent with the existing literature onAcipenser fulvescensand suggests that, although northern and southernO. olivariapopulations are genetically distinct, genetic structure inO. olivariais largely clinal rather than discrete across its range. Conservation and restoration efforts ofO. olivariashould prioritize the maintenance and restoration of locations whereO. olivariaremain, especially in northern rivers, and to ensure connectivity that will facilitate dispersal ofAcipenser fulvescensand movement of encysted glochidia.

    

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4. Metapopulation dynamics of oysters: sources, sinks, and implications for conservation and restoration

   https://doi.org/10.1002/ecs2.3573  

   Theuerkauf, Seth J. ; Puckett, Brandon J. ; Eggleston, David B. ( July 2021 , Ecosphere)

   Metapopulation and source–sink dynamics are increasingly considered within spatially explicit management of wildlife populations, yet the application of these concepts has generally been limited to comparisons of the performance (e.g., demographic rates or dispersal) inside vs. outside protected areas, and at spatial scales that do not encompass an entire metapopulation. In the present study, a spatially explicit, size‐structured matrix model was applied to simulate the dynamics of an Eastern oyster (Crassostrea virginica) metapopulation in the second largest estuary in the United States—the Albemarle‐Pamlico Estuarine System in North Carolina. The model integrated larval dispersal simulations with empirical measures of oyster demographic rates to simulate the dynamics of the entire oyster metapopulation consisting of 646 reefs and five reef types: (1) restored subtidal reefs closed to harvest (i.e., sanctuaries or protected areas;n = 14), (2) restored subtidal reefs open to harvest (n = 53), (3) natural subtidal reefs open to harvest (n = 301), (4) natural intertidal reefs open to harvest (n = 129), and (5) oyster reefs on manmade, hard structures such as seawalls (n = 149). Key findings included (1) an overall stable, yet slightly declining oyster metapopulation, (2) variable reef type‐specific population trajectories, largely dependent on spatiotemporal variation in larval recruitment, (3) a greater relative importance of inter‐reef larval connectivity on metapopulation dynamics than local larval retention processes, and (4) spatiotemporal variation in the source–sink status of reef subpopulations wherein subtidal sanctuaries and reefs located in the northeastern portion of the estuary were frequent sources. From a management perspective, continued protection of oyster sanctuaries is warranted. Sanctuaries represented only 6.2% of the total reef area, however, they harbored 19% (± 2%) of all oysters and produced 25% (± 6%) of all larvae settling within the metapopulation. Additional management priorities should focus on restoration or conservation of subpopulations that serve as frequent source subpopulations (including those with poor demographic rates, but high connectivity potential), and management of harvest from sink subpopulations. The application of a source–sink framework and similar integrated modeling approach could inform management of oysters in other systems, as well as other species that exhibit similar metapopulation characteristics.

    

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5. Population genomics of rapidly invading lionfish in the Caribbean reveals signals of range expansion in the absence of spatial population structure

   https://doi.org/10.1002/ece3.4952  

   Bors, Eleanor K. ; Herrera, Santiago ; Morris, Jr, James A. ; Shank, Timothy M. ( February 2019 , Ecology and Evolution)

   Range expansions driven by global change and species invasions may have significant genomic, evolutionary, and ecological implications. During range expansions, strong genetic drift characterized by repeated founder events can result in decreased genetic diversity with increased distance from the center of the historic range, or the point of invasion. The invasion of the Indo‐Pacific lionfish,Pterois volitans, into waters off the US East Coast, Gulf of Mexico, and Caribbean Sea provides a natural system to study rapid range expansion in an invasive marine fish with high dispersal capabilities. We report results from 12,759 single nucleotide polymorphism loci sequenced by restriction enzyme‐associated DNA sequencing for nineP. volitanssampling areas in the invaded range, including Florida and other sites throughout the Caribbean, as well as mitochondrial control region D‐loop data. Analyses revealed low to no spatially explicit metapopulation genetic structure, which is partly consistent with previous finding of little structure within ocean basins, but partly divergent from initial reports of between‐basin structure. Genetic diversity, however, was not homogeneous across all sampled sites. Patterns of genetic diversity correlate with invasion pathway. Observed heterozygosity, averaged across all loci within a population, decreases with distance from Florida while expected heterozygosity is mostly constant in sampled populations, indicating population genetic disequilibrium correlated with distance from the point of invasion. Using anF_SToutlier analysis and a Bayesian environmental correlation analysis, we identified 256 and 616 loci, respectively, that could be experiencing selection or genetic drift. Of these, 24 loci were shared between the two methods.

    

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