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1. Next-generation phylogeography resolves post-glacial colonization patterns in a widespread carnivore, the red fox (Vulpes vulpes), in Europe

Author

McDevitt, Allan D., Coscia, Ilaria, Browett, Samuel S., Ruiz-González, Aritz, Statham, Mark J., Ruczyńska, Iwona, Roberts, Liam, Stojak, Joanna, Frantz, Alain C., Norén, Karin, Ågren, Erik O., Learmount, Jane, Basto, Mafalda, Fernandes, Carlos, Stuart, Peter, Tosh, David G., Sindicic, Magda, Andreanszky, Tibor, Isomursu, Marja, Panek, Marek, Korolev, Andrey, Okhlopkov, Innokentiy M., Saveljev, Alexander P., Pokorny, Boštjan, Flajšman, Katarina, Harrison, Stephen W. R., Lobkov, Vladimir, Ćirović, Duško, Mullins, Jacinta, Pertoldi, Cino, Randi, Ettore, Sacks, Benjamin N., Kowalczyk, Rafał, Wójcik, Jan M., McDevitt, Allan D., Coscia, Ilaria, Browett, Samuel S., Ruiz-González, Aritz, Statham, Mark J., Ruczyńska, Iwona, Roberts, Liam, Stojak, Joanna, Frantz, Alain C., Norén, Karin, Ågren, Erik O., Learmount, Jane, Basto, Mafalda, Fernandes, Carlos, Stuart, Peter, Tosh, David G., Sindicic, Magda, Andreanszky, Tibor, Isomursu, Marja, Panek, Marek, Korolev, Andrey, Okhlopkov, Innokentiy M., Saveljev, Alexander P., Pokorny, Boštjan, Flajšman, Katarina, Harrison, Stephen W. R., Lobkov, Vladimir, Ćirović, Duško, Mullins, Jacinta, Pertoldi, Cino, Randi, Ettore, Sacks, Benjamin N., Kowalczyk, Rafał, and Wójcik, Jan M.

Abstract

Carnivores tend to exhibit a lack of (or less pronounced) genetic structure at continental scales in both a geographic and temporal sense and this can confound the identification of post-glacial colonization patterns in this group. In this study we used genome-wide data (using genotyping by sequencing [GBS]) to reconstruct the phylogeographic history of a widespread carnivore, the red fox (Vulpes vulpes), by investigating broad-scale patterns of genomic variation, differentiation and admixture amongst contemporary populations in Europe. Using 15,003 single nucleotide polymorphisms (SNPs) from 524 individuals allowed us to identify the importance of refugial regions for the red fox in terms of endemism (e.g., Iberia). In addition, we tested multiple post-glacial recolonization scenarios of previously glaciated regions during the Last Glacial Maximum using an Approximate Bayesian Computation (ABC) approach that were unresolved from previous studies. This allowed us to identify the role of admixture from multiple source population post-Younger Dryas in the case of Scandinavia and ancient land-bridges in the colonization of the British Isles. A natural colonization of Ireland was deemed more likely than an ancient human-mediated introduction as has previously been proposed and potentially points to a larger mammalian community on the island in the early post-glacial period. Using genome-wide data has allowed us to tease apart broad-scale patterns of structure and diversity in a widespread carnivore in Europe that was not evident from using more limited marker sets and provides a foundation for next-generation phylogeographic studies in other non-model species.

Published
2022
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2. Study protocol : International joint research project 'climate change resilience of Indigenous socioecological systems' (RISE)

Author

Molinos, Jorge Garcia, Gavrilyeva, Tuyara, Joompa, Pattamaporn, Narita, Daiju, Chotiboriboon, Sinee, Parilova, Varvara, Sirisai, Solot, Okhlopkov, Innokentiy, Zhang, Zhixin, Yakovleva, Natalia, Kongpunya, Prapa, Gowachirapant, Sueppong, Gabyshev, Viacheslav, Kriengsinyos, Wantanee, Molinos, Jorge Garcia, Gavrilyeva, Tuyara, Joompa, Pattamaporn, Narita, Daiju, Chotiboriboon, Sinee, Parilova, Varvara, Sirisai, Solot, Okhlopkov, Innokentiy, Zhang, Zhixin, Yakovleva, Natalia, Kongpunya, Prapa, Gowachirapant, Sueppong, Gabyshev, Viacheslav, and Kriengsinyos, Wantanee

Abstract

Background Anthropogenic changes in the environment are increasingly threatening the sustainability of socioecological systems on a global scale. As stewards of the natural capital of over a quarter of the world's surface area, Indigenous Peoples (IPs), are at the frontline of these changes. Indigenous socioecological systems (ISES) are particularly exposed and sensitive to exogenous changes because of the intimate bounds of IPs with nature. Traditional food systems (TFS) represent one of the most prominent components of ISES, providing not only diverse and nutritious food but also critical socioeconomic, cultural, and spiritual assets. However, a proper understanding of how future climate change may compromise TFS through alterations of related human-nature interactions is still lacking. Climate change resilience of indigenous socioecological systems (RISE) is a new joint international project that aims to fill this gap in knowledge. Methods and design RISE will use a comparative case study approach coupling on-site socioeconomic, nutritional, and ecological surveys of the target ISES of Sakha (Republic of Sakha, Russian Federation) and Karen (Kanchanaburi, Thailand) people with statistical models projecting future changes in the distribution and composition of traditional food species under contrasting climate change scenarios. The results presented as alternative narratives of future climate change impacts on TFS will be integrated into a risk assessment framework to explore potential vulnerabilities of ISES operating through altered TFS, and possible adaptation options through stakeholder consultation so that lessons learned can be applied in practice. Discussion By undertaking a comprehensive analysis of the socioeconomic and nutritional contributions of TFS toward the sustainability of ISES and projecting future changes under alternative climate change scenarios, RISE is strategically designed to deliver novel and robust science that will contribute towards th

Published
2022

3. Study protocol : International joint research project 'climate change resilience of Indigenous socioecological systems' (RISE)

Author

Molinos, Jorge Garcia, Gavrilyeva, Tuyara, Joompa, Pattamaporn, Narita, Daiju, Chotiboriboon, Sinee, Parilova, Varvara, Sirisai, Solot, Okhlopkov, Innokentiy, Zhang, Zhixin, Yakovleva, Natalia, Kongpunya, Prapa, Gowachirapant, Sueppong, Gabyshev, Viacheslav, Kriengsinyos, Wantanee, Molinos, Jorge Garcia, Gavrilyeva, Tuyara, Joompa, Pattamaporn, Narita, Daiju, Chotiboriboon, Sinee, Parilova, Varvara, Sirisai, Solot, Okhlopkov, Innokentiy, Zhang, Zhixin, Yakovleva, Natalia, Kongpunya, Prapa, Gowachirapant, Sueppong, Gabyshev, Viacheslav, and Kriengsinyos, Wantanee

Abstract

Background Anthropogenic changes in the environment are increasingly threatening the sustainability of socioecological systems on a global scale. As stewards of the natural capital of over a quarter of the world's surface area, Indigenous Peoples (IPs), are at the frontline of these changes. Indigenous socioecological systems (ISES) are particularly exposed and sensitive to exogenous changes because of the intimate bounds of IPs with nature. Traditional food systems (TFS) represent one of the most prominent components of ISES, providing not only diverse and nutritious food but also critical socioeconomic, cultural, and spiritual assets. However, a proper understanding of how future climate change may compromise TFS through alterations of related human-nature interactions is still lacking. Climate change resilience of indigenous socioecological systems (RISE) is a new joint international project that aims to fill this gap in knowledge. Methods and design RISE will use a comparative case study approach coupling on-site socioeconomic, nutritional, and ecological surveys of the target ISES of Sakha (Republic of Sakha, Russian Federation) and Karen (Kanchanaburi, Thailand) people with statistical models projecting future changes in the distribution and composition of traditional food species under contrasting climate change scenarios. The results presented as alternative narratives of future climate change impacts on TFS will be integrated into a risk assessment framework to explore potential vulnerabilities of ISES operating through altered TFS, and possible adaptation options through stakeholder consultation so that lessons learned can be applied in practice. Discussion By undertaking a comprehensive analysis of the socioeconomic and nutritional contributions of TFS toward the sustainability of ISES and projecting future changes under alternative climate change scenarios, RISE is strategically designed to deliver novel and robust science that will contribute towards th

Published
2022

4. Biological Earth observation with animal sensors

Author

Jetz, Walter, Tertitski, Grigori, Kays, Roland, Mueller, Uschi, Wikelski, Martin, Akesson, Susanne, Anisimov, Yury, Antonov, Aleksey, Arnold, Walter, Bairlein, Franz, Balta, Oriol, Baum, Diane, Beck, Mario, Belonovich, Olga, Belyaev, Mikhail, Berger, Matthias, Berthold, Peter, Bittner, Steffen, Blake, Stephen, Block, Barbara, Bloche, Daniel, Boehning-Gaese, Katrin, Bohrer, Gil, Bojarinova, Julia, Bommas, Gerhard, Bourski, Oleg, Bragin, Albert, Bragin, Alexandr, Bristol, Rachel, Brlik, Vojtech, Bulyuk, Victor, Cagnacci, Francesca, Carlson, Ben, Chapple, Taylor K., Chefira, Kalkidan F., Cheng, Yachang, Chernetsov, Nikita, Cierlik, Grzegorz, Christiansen, Simon S., Clarabuch, Oriol, Cochran, William, Cornelius, Jamie Margaret, Couzin, Iain, Crofoot, Margret C., Cruz, Sebastian, Davydov, Alexander, Davidson, Sarah, Dech, Stefan, Dechmann, Dina, Demidova, Ekaterina, Dettmann, Jan, Dittmar, Sven, Dorofeev, Dmitry, Drenckhahn, Detlev, Dubyanskiy, Vladimir, Egorov, Nikolay, Ehnbom, Sophie, Ellis-Soto, Diego, Ewald, Ralf, Feare, Chris, Fefelov, Igor, Fehervari, Peter, Fiedler, Wolfgang, Flack, Andrea, Froboese, Magnus, Fufachev, Ivan, Futoran, Pavel, Gabyshev, Vyachaslav, Gagliardo, Anna, Garthe, Stefan, Gashkov, Sergey, Gibson, Luke, Goymann, Wolfgang, Gruppe, Gerd, Guglielmo, Chris, Hartl, Phil, Hedenstrom, Anders, Hegemann, Arne, Heine, Georg, Ruiz, Maggi Hieber, Hofer, Heribert, Huber, Felix, Hurme, Edward, Iannarilli, Fabiola, Illa, Marc, Isaev, Arkadiy, Jakobsen, Bent, Jenni, Lukas, Jenni-Eiermann, Susi, Jesmer, Brett R., Jiguet, Frederic, Karimova, Tatiana, Kasdin, N. Jeremy, Kazansky, Fedor, Kirillin, Ruslan, Klinner, Thomas, Knopp, Andreas, Koelzsch, Andrea, Kondratyev, Alexander, Krondorf, Marco, Ktitorov, Pavel, Kulikova, Olga, Kumar, R. Suresh, Kuenzer, Claudia, Larionov, Anatoliy, Larose, Christine, Liechti, Felix, Linek, Nils, Lohr, Ashley, Lushchekina, Anna, Mansfield, Kate, Matantseva, Maria, Markovets, Mikhail, Marra, Peter, Masello, Juan F., Melzheimer, Joerg, Menz, Myles HM M., Menzie, Stephen, Meshcheryagina, Swetlana, Miquelle, Dale, Morozov, Vladimir, Mukhin, Andrey, Mueller, Inge, Mueller, Thomas, Navedo, Juan G., Nathan, Ran, Nelson, Luke, Nemeth, Zoltan, Newman, Scott, Norris, Ryan, Nsengimana, Olivier, Okhlopkov, Innokentiy, Oles, Wioleta, Oliver, Ruth, O'Mara, Teague, Palatitz, Peter, Partecke, Jesko, Pavlick, Ryan, Pedenko, Anastasia, Perry, Alys, Pham, Julie, Piechowski, Daniel, Pierce, Allison, Piersma, Theunis, Pitz, Wolfgang, Plettemeier, Dirk, Pokrovskaya, Irina, Pokrovskaya, Liya, Pokrovsky, Ivan, Pot, Morrison, Prochazka, Petr, Quillfeldt, Petra, Rakhimberdiev, Eldar, Ramenofsky, Marilyn, Ranipeta, Ajay, Rapczynski, Jan, Remisiewicz, Magdalena, Rozhnov, Viatcheslav, Rienks, Froukje, Rozhnov, Vyacheslav, Rutz, Christian, Sakhvon, Vital, Sapir, Nir, Safi, Kamran, Schaeuffelhut, Friedrich, Schimel, David, Schmidt, Andreas, Shamoun-Baranes, Judy, Sharikov, Alexander, Shearer, Laura, Shemyakin, Evgeny, Sherub, Sherub, Shipley, Ryan, Sica, Yanina, Smith, Thomas B., Simonov, Sergey, Snell, Katherine, Sokolov, Aleksandr, Sokolov, Vasiliy, Solomina, Olga, Spina, Fernando, Spoelstra, Kamiel, Storhas, Martin, Sviridova, Tatiana, Swenson, George, Taylor, Phil, Thorup, Kasper, Tsvey, Arseny, Tucker, Marlee, Tuppen, Sophie, Turner, Woody, Twizeyimana, Innocent, van der Jeugd, Henk, van Schalkwyk, Louis, van Toor, Marielle, Viljoen, Pauli, Visser, Marcel E., Volkmer, Tamara, Volkov, Andrey, Volkov, Sergey, Volkov, Oleg, von Ronn, Jan AC C., Vorneweg, Bernd, Wachter, Bettina, Waldenstrom, Jonas, Weber, Natalie, Wegmann, Martin, Wehr, Aloysius, Weinzierl, Rolf, Weppler, Johannes, Wilcove, David, Wild, Timm, Williams, Hannah J., Wilshire, John H., Wingfield, John, Wunder, Michael, Yachmennikova, Anna, Yanco, Scott, Yohannes, Elisabeth, Zeller, Amelie, Ziegler, Christian, Ziecik, Anna, Zook, Cheryl, Jetz, Walter, Tertitski, Grigori, Kays, Roland, Mueller, Uschi, Wikelski, Martin, Akesson, Susanne, Anisimov, Yury, Antonov, Aleksey, Arnold, Walter, Bairlein, Franz, Balta, Oriol, Baum, Diane, Beck, Mario, Belonovich, Olga, Belyaev, Mikhail, Berger, Matthias, Berthold, Peter, Bittner, Steffen, Blake, Stephen, Block, Barbara, Bloche, Daniel, Boehning-Gaese, Katrin, Bohrer, Gil, Bojarinova, Julia, Bommas, Gerhard, Bourski, Oleg, Bragin, Albert, Bragin, Alexandr, Bristol, Rachel, Brlik, Vojtech, Bulyuk, Victor, Cagnacci, Francesca, Carlson, Ben, Chapple, Taylor K., Chefira, Kalkidan F., Cheng, Yachang, Chernetsov, Nikita, Cierlik, Grzegorz, Christiansen, Simon S., Clarabuch, Oriol, Cochran, William, Cornelius, Jamie Margaret, Couzin, Iain, Crofoot, Margret C., Cruz, Sebastian, Davydov, Alexander, Davidson, Sarah, Dech, Stefan, Dechmann, Dina, Demidova, Ekaterina, Dettmann, Jan, Dittmar, Sven, Dorofeev, Dmitry, Drenckhahn, Detlev, Dubyanskiy, Vladimir, Egorov, Nikolay, Ehnbom, Sophie, Ellis-Soto, Diego, Ewald, Ralf, Feare, Chris, Fefelov, Igor, Fehervari, Peter, Fiedler, Wolfgang, Flack, Andrea, Froboese, Magnus, Fufachev, Ivan, Futoran, Pavel, Gabyshev, Vyachaslav, Gagliardo, Anna, Garthe, Stefan, Gashkov, Sergey, Gibson, Luke, Goymann, Wolfgang, Gruppe, Gerd, Guglielmo, Chris, Hartl, Phil, Hedenstrom, Anders, Hegemann, Arne, Heine, Georg, Ruiz, Maggi Hieber, Hofer, Heribert, Huber, Felix, Hurme, Edward, Iannarilli, Fabiola, Illa, Marc, Isaev, Arkadiy, Jakobsen, Bent, Jenni, Lukas, Jenni-Eiermann, Susi, Jesmer, Brett R., Jiguet, Frederic, Karimova, Tatiana, Kasdin, N. Jeremy, Kazansky, Fedor, Kirillin, Ruslan, Klinner, Thomas, Knopp, Andreas, Koelzsch, Andrea, Kondratyev, Alexander, Krondorf, Marco, Ktitorov, Pavel, Kulikova, Olga, Kumar, R. Suresh, Kuenzer, Claudia, Larionov, Anatoliy, Larose, Christine, Liechti, Felix, Linek, Nils, Lohr, Ashley, Lushchekina, Anna, Mansfield, Kate, Matantseva, Maria, Markovets, Mikhail, Marra, Peter, Masello, Juan F., Melzheimer, Joerg, Menz, Myles HM M., Menzie, Stephen, Meshcheryagina, Swetlana, Miquelle, Dale, Morozov, Vladimir, Mukhin, Andrey, Mueller, Inge, Mueller, Thomas, Navedo, Juan G., Nathan, Ran, Nelson, Luke, Nemeth, Zoltan, Newman, Scott, Norris, Ryan, Nsengimana, Olivier, Okhlopkov, Innokentiy, Oles, Wioleta, Oliver, Ruth, O'Mara, Teague, Palatitz, Peter, Partecke, Jesko, Pavlick, Ryan, Pedenko, Anastasia, Perry, Alys, Pham, Julie, Piechowski, Daniel, Pierce, Allison, Piersma, Theunis, Pitz, Wolfgang, Plettemeier, Dirk, Pokrovskaya, Irina, Pokrovskaya, Liya, Pokrovsky, Ivan, Pot, Morrison, Prochazka, Petr, Quillfeldt, Petra, Rakhimberdiev, Eldar, Ramenofsky, Marilyn, Ranipeta, Ajay, Rapczynski, Jan, Remisiewicz, Magdalena, Rozhnov, Viatcheslav, Rienks, Froukje, Rozhnov, Vyacheslav, Rutz, Christian, Sakhvon, Vital, Sapir, Nir, Safi, Kamran, Schaeuffelhut, Friedrich, Schimel, David, Schmidt, Andreas, Shamoun-Baranes, Judy, Sharikov, Alexander, Shearer, Laura, Shemyakin, Evgeny, Sherub, Sherub, Shipley, Ryan, Sica, Yanina, Smith, Thomas B., Simonov, Sergey, Snell, Katherine, Sokolov, Aleksandr, Sokolov, Vasiliy, Solomina, Olga, Spina, Fernando, Spoelstra, Kamiel, Storhas, Martin, Sviridova, Tatiana, Swenson, George, Taylor, Phil, Thorup, Kasper, Tsvey, Arseny, Tucker, Marlee, Tuppen, Sophie, Turner, Woody, Twizeyimana, Innocent, van der Jeugd, Henk, van Schalkwyk, Louis, van Toor, Marielle, Viljoen, Pauli, Visser, Marcel E., Volkmer, Tamara, Volkov, Andrey, Volkov, Sergey, Volkov, Oleg, von Ronn, Jan AC C., Vorneweg, Bernd, Wachter, Bettina, Waldenstrom, Jonas, Weber, Natalie, Wegmann, Martin, Wehr, Aloysius, Weinzierl, Rolf, Weppler, Johannes, Wilcove, David, Wild, Timm, Williams, Hannah J., Wilshire, John H., Wingfield, John, Wunder, Michael, Yachmennikova, Anna, Yanco, Scott, Yohannes, Elisabeth, Zeller, Amelie, Ziegler, Christian, Ziecik, Anna, and Zook, Cheryl

Abstract

Space-based tracking technology using low-cost miniature tags is now delivering data on fine-scale animal movement at near-global scale. Linked with remotely sensed environmental data, this offers a biological lens on habitat integrity and connectivity for conservation and human health; a global network of animal sentinels of environmental change.

Published
2022

5. On the origin of mongrels: evolutionary history of free-breeding dogs in Eurasia

Author

Pilot, Malgorzata, Malewski, Tadeusz, Moura, Andre, Grzybowski, Tomasz, Olenski, Kamil, Rusc, Anna, Kaminski, Stanislaw, Fadel, Fernanda, Mills, Daniel, Alagaili, Abdulaziz, Mohammed, Osama, Klys, Grzegorz, Okhlopkov, Innokentiy, Suchecka, Ewa, Bogdanowicz, Wieslaw, Pilot, Malgorzata, Malewski, Tadeusz, Moura, Andre, Grzybowski, Tomasz, Olenski, Kamil, Rusc, Anna, Kaminski, Stanislaw, Fadel, Fernanda, Mills, Daniel, Alagaili, Abdulaziz, Mohammed, Osama, Klys, Grzegorz, Okhlopkov, Innokentiy, Suchecka, Ewa, and Bogdanowicz, Wieslaw

Abstract

Although a large part of the global domestic dog population is free-ranging and free- breeding, knowledge of genetic diversity in these free-breeding dogs (FBDs) and their ancestry relations to pure-breed dogs is limited, and indigenous status of FBDs in Asia is uncertain. We analyse genome-wide SNP variability of FBDs across Eurasia, and show that they display weak genetic structure, and are genetically distinct from pure-breed dogs rather than constituting an admixture of breeds. Our results suggest that modern European breeds originated locally from European FBDs. East Asian and Arctic breeds show closest affinity to East Asian FBDs, and they both represent earliest-branching lineages in the phylogeny of extant Eurasian dogs. Our biogeographic reconstruction of ancestral distributions indicates a gradual westward expansion of East Asian indigenous dogs to the Middle East and Europe through Central and West Asia, providing evidence for a major expansion that shaped the patterns of genetic differentiation in modern dogs. This expansion was probably secondary and could have led to the replacement of earlier resident populations in Western Eurasia. This could explain why earlier studies based on modern DNA suggest East Asia as the region of dog origin, while ancient DNA and archaeological data point to Western Eurasia.

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