19 Works

Data from: Postglacial climate changes and rise of three ecotypes of harbor porpoises, Phocoena phocoena, in western Palearctic waters

Michaël C. Fontaine, Kathleen Roland, Isabelle Calves, Frederic Austerlitz, Friso P. Palstra, Krystal A. Tolley, Sean Ryan, Marisa Ferreira, Thierry Jauniaux, Angela Llavona, Bayram Öztürk, Ayaka A. Öztürk, Vincent Ridoux, Emer Rogan, Ursula Siebert, Marina Sequeira, Gísli A. Vikingsson, Asunción Borrell, Johan R. Michaux & Alex Aguilar
Despite no obvious barriers to gene flow in the marine realm, environmental variation and ecological specializations can lead to genetic differentiation in highly mobile predators. Here, we investigated the genetic structure of the harbor porpoise over the entire species distribution range in western Palearctic waters. Combined analyses of ten microsatellite loci and a 5,085 bases-pairs portion of the mitochondrial genome revealed the existence of three ecotypes, equally divergent at the mitochondrial genome, distributed in the...

Data from: Trans-oceanic genomic divergence of Atlantic cod ecotypes is associated with large inversions

Paul R. Berg, Bastiaan Star, Christophe Pampoulie, Ian R. Bradbury, Paul Bentzen, Jeffrey A. Hutchings, Sissel Jentoft & Kjetill S. Jakobsen
Chromosomal rearrangements such as inversions can play a crucial role in maintaining polymorphism underlying complex traits and contribute to the process of speciation. In Atlantic cod (Gadus morhua), inversions of several megabases have been identified that dominate genomic differentiation between migratory and non-migratory ecotypes in the Northeast Atlantic. Here, we show that the same genomic regions display elevated divergence and contribute to ecotype divergence in the Northwest Atlantic as well. The occurrence of these inversions...

Data from: Historical DNA documents long distance natal homing in marine fish

Sara Bonanomi, Nina Overgaard Therkildsen, Anja Retzel, Rasmus Berg Hedeholm, Martin Wæver Wæver Pedersen, Dorte Meldrup, Christophe Pampoulie, Jakob Hemmer-Hansen, Peter Grønkjær & Einar Nielsen
The occurrence of natal homing in marine fish remains a fundamental question in fish ecology as its unequivocal demonstration requires tracking of individuals from fertilization to reproduction. Here, we provide evidence of long distance natal homing (> 1000 km) over more than sixty years in Atlantic cod (Gadus morhua), through genetic analysis of archived samples from marked and recaptured individuals. Using a high differentiation Single Nucleotide Polymorphism assay we demonstrate that the vast majority of...

Data from: Can collective memories shape fish distributions? A test, linking space-time occurrence models and population demographics

Jed I. Macdonald, Kai Logemann, Elias T. Krainski, Þorsteinn Sigurðsson, Colin M. Beale, Geir Huse, Solfrid S. Hjøllo & Guðrún Marteinsdóttir
Social learning can be fundamental to cohesive group living, and schooling fishes have proven ideal test subjects for recent work in this field. For many species, both demographic factors, and inter- (and intra-) generational information exchange are considered vital ingredients in how movement decisions are reached. Yet key information is often missing on the spatial outcomes of such decisions, and questions concerning how migratory traditions are influenced by collective memory, density-dependent and density-independent processes remain...

Data from: Invertebrate biodiversity in cold groundwater fissures in Iceland

Jónína H. Ólafsdóttir, Jóhann G. Þorbjörnsson, Bjarni K. Kristjánsson & Jón S. Ólafsson
Iceland has an abundance of fissures that are parallel to the Mid-Atlantic ridge where bedrock cracks as a result of continental rifting. Some fissures penetrate the aquifer and expose the groundwater within the bedrock, becoming springs. As such, groundwater fissures have uniform and constant physical and chemical environment but they can differ greatly in morphology. In addition, there is often great variation in depth within fissures and substrate types contrast between vertical rock wall and...

Data from: Ancient DNA reveals the Arctic origin of Viking Age cod from Haithabu, Germany

Bastiaan Star, Sanne Boessenkool, Agata T. Gondek, Elena A. Nikulina, Anne Karin Hufthammer, Christophe Pampoelie, Halvor Knutsen, Carl Andre, Heidi M. Nistelberger, Jan Dierking, Christoph Petereit, Dirk Heinrich, Kjetill S. Jakobsen, Nils Chr. Stenseth, Sissel Jentoft & James H. Barrett
Knowledge of the range and chronology of historic trade and long-distance transport of natural resources is essential for determining the impacts of past human activities on marine environments. However, the specific biological sources of imported fauna are often difficult to identify, in particular if species have a wide spatial distribution and lack clear osteological or isotopic differentiation between populations. Here, we report that ancient fish-bone remains, despite being porous, brittle, and light, provide an excellent...

Data from: Origins of the Greenland shark (Somniosus microcephalus): impacts of ice-olation and introgression

Ryan P. Walter, Denis Roy, Nigel E. Hussey, Björn Stelbrink, Kit M. Kovacs, Christian Lydersen, Bailey C. McMeans, Jörundur Svavarsson, Steven T. Kessel, Sebastian Biton Porsmoguer, Sharon Wildes, Cindy A. Tribuzio, Steven E. Campana, Stephen D. Petersen, R. Dean Grubbs, Daniel D. Heath, Kevin J. Hedges & Aaron T. Fisk
Herein, we use genetic data from 277 sleeper sharks to perform coalescent-based modeling to test the hypothesis of early Quaternary emergence of the Greenland shark (Somniosus microcephalus) from ancestral sleeper sharks in the Canadian Arctic-Subarctic region. Our results show that morphologically cryptic somniosids S. microcephalus and Somniosus pacificus can be genetically distinguished using combined mitochondrial and nuclear DNA markers. Our data confirm the presence of genetically admixed individuals in the Canadian Arctic and sub-Arctic, and...

Timing is everything: survival of Atlantic salmon (Salmo salar) postsmolts during events of high salmon lice densities

Thomas Bøhn, Karl Øystein Gjelland, Rosa Serra-Llinares, Bengt Finstad, Raul Primicerio, Rune Nilsen, Ørjan Karlsen, Anne Sandvik, Ove Skilbrei, Kristine Marit Elvik, Øystein Skaala & Pål Bjørn
Atlantic salmon in aquaculture act as reservoir hosts and vectors of parasites like salmon lice and this parasite is shown to harm wild salmonid populations. In the present study, n=29817 tagged Atlantic salmon were studied in four release trials. Half of the released fish were given prophylactic treatment against lice, the other half represented sham control fish. We used a nested design comparing years with low and high lice density and seasonal dynamics in infestation...

Data from: Present-day genetic structure of Atlantic salmon (Salmo salar) in Icelandic rivers and ice-cap retreat models

Kristinn Olafsson, Christophe Pampoulie, Sigridur Hjorleifsdottir, Sigurdur Gudjonsson & Gudmundur O. Hreggvidsson
Due to an improved understanding of past climatological conditions, it has now become possible to study the potential concordance between former climatological models and present-day genetic structure. Genetic variability was assessed in 26 samples from different rivers of Atlantic salmon in Iceland (total of 2,352 individuals), using 15 microsatellite loci. F-statistics revealed significant differences between the majority of the populations that were sampled. Bayesian cluster analyses using both prior information and no prior information on...

Data from: Investigating population genetic structure in a highly mobile marine organism: the minke whale Balaenoptera acutorostrata acutorostrata in the North East Atlantic

María Quintela, Hans J. Skaug, Nils Øien, Tore Haug, Bjørghild B. Seliussen, Hiroko K. Solvang, Christophe Pampoulie, Naohisa Kanda, Luis A. Pastene & Kevin A. Glover
Inferring the number of genetically distinct populations and their levels of connectivity is of key importance for the sustainable management and conservation of wildlife. This represents an extra challenge in the marine environment where there are few physical barriers to gene-flow, and populations may overlap in time and space. Several studies have investigated the population genetic structure within the North Atlantic minke whale with contrasting results. In order to address this issue, we analyzed ten...

Data from: A genomic island linked to ecotype divergence in Atlantic cod

Jakob Hemmer-Hansen, Einar E. Nielsen, Nina O. Therkildsen, Martin I. Taylor, Rob Ogden, Audrey J. Geffen, Dorte Bekkevold, Sarah Helyar, Christophe Pampoulie, Torild Johansen & Gary R. Carvalho
The genomic architecture underlying ecological divergence and ecological speciation with gene flow is still largely unknown for most organisms. One central question is whether divergence is genome-wide or localized in “genomic mosaics” during early stages when gene flow is still pronounced. Empirical work has so far been limited, and the relative impacts of gene flow and natural selection on genomic patterns have not been fully explored. Here, we use ecotypes of Atlantic cod to investigate...

Data from: Ocean warming expands habitat of a rich natural resource and benefits a national economy

Teunis Jansen, Søren Post, Trond Kristiansen, Guðmundur J. Óskarsson, Jesper Boje, Brian R. MacKenzie, Mala Broberg & Helle Siegstad
Geographic redistribution of living natural resources changes access and thereby harvesting opportunities between countries. Internationally shared fish resources can be sensitive to shifts in the marine environment and this may have great impact on the economies of countries and regions that rely most heavily on fisheries to provide employment and food supply. Here we present a climate change-related biotic expansion of a rich natural resource with substantial economic consequences, namely the appearance of northeast Atlantic...

Data from: Disentangling structural genomic and behavioral barriers in a sea of connectivity

Julia M. I. Barth, David Villegas-Ríos, Carla Freitas, Even Moland, Bastiaan Star, Carl André, Halvor Knutsen, Ian Bradbury, Jan Dierking, Christoph Petereit, David Righton, Julian Metcalfe, Kjetill S. Jakobsen, Esben M. Olsen, Sissel Jentoft & Julia M.I. Barth
Genetic divergence among populations arises through natural selection or drift and is counteracted by connectivity and gene flow. In sympatric populations, isolating mechanisms are thus needed to limit the homogenizing effects of gene flow to allow for adaptation and speciation. Chromosomal inversions act as an important mechanism maintaining isolating barriers, yet their role in sympatric populations and divergence with gene flow is not entirely understood. Here, we revisit the question whether inversions play a role...

Data from: Spatiotemporal SNP analysis reveals pronounced biocomplexity at the northern range margin of Atlantic cod Gadus morhua

Nina Overgaard Therkildsen, Jakob Hemmer-Hansen, Rasmus Berg Hedeholm, Mary S. Wisz, Dorte Meldrup, Sara Bonanomi, Anja Retzel, Steffen Malskær Olsen, Einar Eg Nielsen & Christophe Pampoulie
Accurate prediction of species distribution shifts in the face of climate change requires a sound understanding of population diversity and local adaptations. Previous modeling has suggested that global warming will lead to increased abundance of Atlantic cod (Gadus morhua) in the ocean around Greenland, but the dynamics of earlier abundance fluctuations are not well understood. We applied a retrospective spatiotemporal population genomics approach to examine the temporal stability of cod population structure in this region...

Data from: Ontogenetic changes in embryonic and brain gene expression in progeny produced from migratory and resident Oncorhynchus mykiss

Garrett J. McKinney, Matthew C. Hale, Giles Goetz, Michael Gribskov, Frank P. Thrower & Krista M. Nichols
Little information has been gathered regarding the ontogenetic changes that contribute to differentiation between resident and migrant individuals, particularly before the onset of gross morphological and physiological changes in migratory individuals. The aim of this study was to evaluate gene expression during early development in Oncorhynchus mykiss populations with different life histories, in a tissue known to integrate environmental cues to regulate complex developmental processes and behaviours. We sampled offspring produced from migrant and resident...

Data from: A genomewide catalogue of single nucleotide polymorphisms in white-beaked and Atlantic white-sided dolphins

Ruth Fernández, Mikkel Schubert, A. M. Vargas-Velázquez, Andrew Brownlow, Gisli A. Víkingsson, Ursula Siebert, Lasse Fast Jensen, Nils Øien, Dave Wall, Emer Rogan, Bjarni Mikkelsen, Willy Dabin, Gilles Guillot, Ludovic Orlando, A. H. Alfarhan, S. A. Alquraishi & K. A. S. Al-Rasheid
The field of population genetics is rapidly moving into population genomics as the quantity of data generated by high-throughput sequencing platforms increases. In this study, we used restriction-site-associated DNA sequencing (RADSeq) to recover genomewide genotypes from 70 white-beaked (Lagenorhynchus albirostris) and 43 Atlantic white-sided dolphins (L. acutus) gathered throughout their north-east Atlantic distribution range. Both species are at a high risk of being negatively affected by climate change. Here, we provide a resource of 38...

Data from: Three-dimensional post-glacial expansion and diversification of an exploited oceanic fish

Peter Shum, Christophe Pampoulie, Kristján Kristinsson & Stefano Mariani
Vertical divergence in marine organisms is being increasingly documented, yet much remains to be carried out to understand the role of depth in the context of phylogeographic reconstruction and the identification of management units. An ideal study system to address this issue is the beaked redfish, Sebastes mentella – one of four species of ‘redfish’ occurring in the North Atlantic – which is known for a widely distributed ‘shallow-pelagic’ oceanic type inhabiting waters between 250...

Species richness in North Atlantic fish: process concealed by pattern

Henrik Gislason, Jeremy Collie, Brian R. MacKenzie, Anders Nielsen, Maria De Fatima Borges, Teresa Bottari, Corina Chavez, Andrey V. Dolgov, Jakov Dulčić, Daniel Duplisea, Heino O. Fock, Didier Gascuel, Luís Gil De Sola, Jan Geert Hiddink, Remment Ter Hofstede, Igor Isajlović, Jónas Páll Jonasson, Ole Jørgensen, Kristján Kristinsson, Gudrun Marteinsdottir, Hicham Masski, Sanja Matić-Skoko, Mark R. Payne, Melita Peharda, Jakup Reinert … & Lilja Stefansdottir
Aim Previous analyses of marine fish species richness based on presence-absence data have shown changes with latitude and average species size, but little is known about the underlying processes. To elucidate these processes we use metabolic, neutral, and descriptive statistical models to analyse how richness responds to maximum species length, fish abundance, temperature, primary production, depth, latitude, and longitude, while accounting for differences in species catchability, sampling effort, and mesh size. Data Results from 53,382...

MALDI-TOF MS data: Species delimitation of Hexacorallia and Octocorallia around Iceland using nuclear and mitochondrial DNA and proteome fingerprinting

Severin A. Korfhage, Sven Rossel, Saskia Brix, Catherine McFadden, Steinunn Hilma Ólafsdóttir & Pedro Martínez Abizu
Cold-water corals build up reef structures or coral gardens and play an important role for many organisms in the deep sea. Climate change, deep-sea mining, and bottom trawling are severely compromising these ecosystems, making it all the more important to document the diversity, distribution, and impacts on corals. This goes hand in hand with species identification, which is morphologically and genetically challenging for Hexa- and Octocorallia. Morphological variation and slowly evolving molecular markers both contribute...

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