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2. The time for ambitious action is now: Science-based recommendations for plastic chemicals to inform an effective global plastic treaty

Author

Brander, Susanne M., Senathirajah, Kala, Fernandez, Marina O., Weis, Judith S., Kumar, Eva, Jahnke, Annika, Hartmann, Nanna B., Alava, Juan José, Farrelly, Trisia, Almroth, Bethanie Carney, Groh, Ksenia J., Syberg, Kristian, Buerkert, Johanna Sophie, Abeynayaka, Amila, Booth, Andy M., Cousin, Xavier, Herzke, Dorte, Monclús, Laura, Morales-Caselles, Carmen, Bonisoli-Alquati, Andrea, Al-jaibachi, Rana, and Wagner, Martin

Published
2024
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3. Observations of mixed parentage and male-biased primary sex ratio in Seaside Sparrow (Ammospiza maritima) nests along the Gulf of Mexico/Observaciones de parentela mixta y sesgo masculino de tasa sexual primaria en nidos de chingolo Ammospiza maritima a lo largo de la costa del Golfo de Mexico

Author

Woltmann, Stefan, Roeder, Mackenzie, Snider, Allison, Perez-Umphrey, Anna, Bonisoli-Alquati, Andrea, Stouffer, Philip C., and Taylor, Sabrina S.

Subjects
Polygamy -- Analysis -- Research, Animal behavior -- Analysis -- Behavior -- Research, Sex discrimination -- Analysis -- Research, Bird populations -- Behavior -- Research -- Analysis, Monogamy -- Analysis -- Research, Biological sciences
Abstract

Many bird species exhibit both social monogamy and genetic polygamy. Rates of genetic polygamy (often reported as the proportion of nests containing extra-pair young) in socially monogamous species vary widely, stimulating much research into the potentially adaptive value of these behaviors. Similarly, adult and nestling sex ratios of bird populations are not infrequently male-biased, leading to questions of the adaptive value of a female's ability to influence sex ratios within her nest. Empirical data on both aspects of reproductive behavior, however, are still scarce for a majority of species even within relatively well-studied bird communities. We sampled DNA from nestling (n = 153) and adult (n = 121) Seaside Sparrows (Ammospiza maritima) at 58 nests in southeastern Louisiana from 2012 to 2017. We used microsatellite genotype analyses to discover that (1) ~32% of nests contained broods with mixed paternity, and (2) ~4% of broods contained evidence of mixed maternity. We sexed all birds via PCR and found a significant male bias among nestlings (62% of all nestlings were males). Prevalence of mixed paternity and male bias among nestlings did not appear to be related to site oiling status following the Deepwater Horizon oil spill, site context, timing within breeding season, or density of adult Seaside Sparrows or nests. Nonetheless, these results indicate a need for further work to understand the breeding biology of Seaside Sparrows. Key words: breeding system, extra-pair mating, extra-pair paternity, Passerellidae, saltmarsh, sex bias. Muchas especies de aves muestran tanto monogamia social como poligamia genetica. Las tasas de poligamia genetica (muchas veces reportadas como la proporcion de nidos que contienen un polluelo fuera de la pareja) en especies monogamas sociales es muy variable, lo que favorece la investigacion en el potencial valor adaptativo de estos comportamientos. De la misma manera, las proporciones de sexo de adultos y de polluelos de las poblaciones de aves no son infrecuentemente sesgadas hacia los machos, lo que lleva a preguntarse sobre el valor adaptativo de la habilidad de la hembra en influir en las proporciones sexuales dentro de su nido. Datos empiricos en ambos aspectos de comportamiento reproductivo, sin embargo, son todavia escasos en la mayoria de especies aun dentro de comunidades de aves relativamente bien estudiadas. Muestreamos ADN de nidadas (n = 153) y adultos (n = 121) de chingolos Ammospiza maritima de 58 nidos del sudeste de Louisiana de 2021 al 2017. Utilizamos analisis genotipicos satelitales para descubrir que (1) ~32% de los nidos contenian nidadas con patemidad mixta, y alrededor de (2) ~4% de las nidadas contenian evidencia de maternidad mixta. Determinamos el sexo de todas las aves por medio de PCR y encontramos un sesgo masculino significativo en todas las nidadas (62% de todas las nidadas eran machos). La prevalencia de la patemidad mixta y el sesgo masculino entre las nidadas no parece estar relacionado con el estatus de contaminacion del sitio despues del derrame de petroleo del Deepwater Horizon, contexto del sitio, temporalidad al interior de la temporada reproductiva o densidad del adulto de chingolos Ammospiza maritima o de nidos. Sin embargo, estos resultados indican una necesidad de estudios posteriores para entender la biologia reproductiva de los chingolos Ammospiza maritima. Palabras clave: pantano, Passerellidae, produccion fuera de la pareja, reproduccion fuera de la pareja, sesgo reproductive, sistema reproductive., Many bird species exhibit social monogamy but genetic polygamy (most often in the form of extrapair paternity, or EPP). The traditional view that the co-occurrence of social monogamy and genetic [...]

Published
2023
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6. A chromosome-level reference genome and pangenome for barn swallow population genomics

Author

Secomandi, Simona, Gallo, Guido R., Sozzoni, Marcella, Iannucci, Alessio, Galati, Elena, Abueg, Linelle, Balacco, Jennifer, Caprioli, Manuela, Chow, William, Ciofi, Claudio, Collins, Joanna, Fedrigo, Olivier, Ferretti, Luca, Fungtammasan, Arkarachai, Haase, Bettina, Howe, Kerstin, Kwak, Woori, Lombardo, Gianluca, Masterson, Patrick, Messina, Graziella, Møller, Anders P., Mountcastle, Jacquelyn, Mousseau, Timothy A., Ferrer Obiol, Joan, Olivieri, Anna, Rhie, Arang, Rubolini, Diego, Saclier, Marielle, Stanyon, Roscoe, Stucki, David, Thibaud-Nissen, Françoise, Torrance, James, Torroni, Antonio, Weber, Kristina, Ambrosini, Roberto, Bonisoli-Alquati, Andrea, Jarvis, Erich D., Gianfranceschi, Luca, and Formenti, Giulio

Published
2023
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7. Turkey Vultures (Cathartes aura) from Southern California are Exposed to Anticoagulant Rodenticides Despite Recent Bans.

Author

Saggese, Miguel D., Bloom, Peter H., Bonisoli-Alquati, Andrea, Kinyon, Grace, Overby, Nicollet, Koedel, Alexandria, Eagleton, Alexandra, Blumhagen, EmaLee, Maestas, Jesse M., Casalins, Laura, Ojeda, Valeria, and Poppenga, Robert H.

Abstract

Copyright of Journal of Raptor Research is the property of Raptor Research Foundation and its content may not be copied or emailed to multiple sites or posted to a listserv without the copyright holder's express written permission. However, users may print, download, or email articles for individual use. This abstract may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full abstract. (Copyright applies to all Abstracts.)

Published
2024
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8. The era of reference genomes in conservation genomics

Author

Formenti, Giulio, Theissinger, Kathrin, Fernandes, Carlos, Bista, Iliana, Bombarely, Aureliano, Bleidorn, Christoph, Čiampor, Fedor, Ciofi, Claudio, Crottini, Angelica, Godoy, José A., Hoglund, Jacob, Malukiewicz, Joanna, Mouton, Alice, Oomen, Rebekah A., Paez, Sadye, Palsbøll, Per, Pampoulie, Christophe, Ruiz-López, María José, Svardal, Hannes, Theofanopoulou, Constantina, de Vries, Jan, Waldvogel, Ann-Marie, Zhang, Goujie, Mazzoni, Camila J., Jarvis, Erich, Bálint, Miklós, Aghayan, Sargis A., Alioto, Tyler S., Almudi, Isabel, Alvarez, Nadir, Alves, Paulo C., Amorim, Isabel R., Antunes, Agostinho, Arribas, Paula, Baldrian, Petr, Berg, Paul R., Bertorelle, Giorgio, Böhne, Astrid, Bonisoli-Alquati, Andrea, Boštjančić, Ljudevit L., Boussau, Bastien, Breton, Catherine M., Buzan, Elena, Campos, Paula F., Carreras, Carlos, Castro, L. FIlipe, Chueca, Luis J., Conti, Elena, Cook-Deegan, Robert, Croll, Daniel, Cunha, Mónica V., Delsuc, Frédéric, Dennis, Alice B., Dimitrov, Dimitar, Faria, Rui, Favre, Adrien, Fedrigo, Olivier D., Fernández, Rosa, Ficetola, Gentile Francesco, Flot, Jean-François, Gabaldón, Toni, Galea Agius, Dolores R., Gallo, Guido R., Giani, Alice M., Gilbert, M. Thomas P., Grebenc, Tine, Guschanski, Katerina, Guyot, Romain, Hausdorf, Bernhard, Hawlitschek, Oliver, Heintzman, Peter D., Heinze, Berthold, Hiller, Michael, Husemann, Martin, Iannucci, Alessio, Irisarri, Iker, Jakobsen, Kjetill S., Jentoft, Sissel, Klinga, Peter, Kloch, Agnieszka, Kratochwil, Claudius F., Kusche, Henrik, Layton, Kara K.S., Leonard, Jennifer A., Lerat, Emmanuelle, Liti, Gianni, Manousaki, Tereza, Marques-Bonet, Tomas, Matos-Maraví, Pável, Matschiner, Michael, Maumus, Florian, Mc Cartney, Ann M., Meiri, Shai, Melo-Ferreira, José, Mengual, Ximo, Monaghan, Michael T., Montagna, Matteo, Mysłajek, Robert W., Neiber, Marco T., Nicolas, Violaine, Novo, Marta, Ozretić, Petar, Palero, Ferran, Pârvulescu, Lucian, Pascual, Marta, Paulo, Octávio S., Pavlek, Martina, Pegueroles, Cinta, Pellissier, Loïc, Pesole, Graziano, Primmer, Craig R., Riesgo, Ana, Rüber, Lukas, Rubolini, Diego, Salvi, Daniele, Seehausen, Ole, Seidel, Matthias, Secomandi, Simona, Studer, Bruno, Theodoridis, Spyros, Thines, Marco, Urban, Lara, Vasemägi, Anti, Vella, Adriana, Vella, Noel, Vernes, Sonja C., Vernesi, Cristiano, Vieites, David R., Waterhouse, Robert M., Wheat, Christopher W., Wörheide, Gert, Wurm, Yannick, Zammit, Gabrielle, Höglund, Jacob, Palsbøll, Per J., Ruiz-López, María J., Zhang, Guojie, and Jarvis, Erich D.

Published
2022
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9. A chromosome-level reference genome and pangenome for barn swallow population genomics

Author

Simona Secomandi, Guido R. Gallo, Marcella Sozzoni, Alessio Iannucci, Elena Galati, Linelle Abueg, Jennifer Balacco, Manuela Caprioli, William Chow, Claudio Ciofi, Joanna Collins, Olivier Fedrigo, Luca Ferretti, Arkarachai Fungtammasan, Bettina Haase, Kerstin Howe, Woori Kwak, Gianluca Lombardo, Patrick Masterson, Graziella Messina, Anders P. Møller, Jacquelyn Mountcastle, Timothy A. Mousseau, Joan Ferrer Obiol, Anna Olivieri, Arang Rhie, Diego Rubolini, Marielle Saclier, Roscoe Stanyon, David Stucki, Françoise Thibaud-Nissen, James Torrance, Antonio Torroni, Kristina Weber, Roberto Ambrosini, Andrea Bonisoli-Alquati, Erich D. Jarvis, Luca Gianfranceschi, and Giulio Formenti

Subjects
CP: Molecular biology, Biology (General), QH301-705.5
Abstract

Summary: Insights into the evolution of non-model organisms are limited by the lack of reference genomes of high accuracy, completeness, and contiguity. Here, we present a chromosome-level, karyotype-validated reference genome and pangenome for the barn swallow (Hirundo rustica). We complement these resources with a reference-free multialignment of the reference genome with other bird genomes and with the most comprehensive catalog of genetic markers for the barn swallow. We identify potentially conserved and accelerated genes using the multialignment and estimate genome-wide linkage disequilibrium using the catalog. We use the pangenome to infer core and accessory genes and to detect variants using it as a reference. Overall, these resources will foster population genomics studies in the barn swallow, enable detection of candidate genes in comparative genomics studies, and help reduce bias toward a single reference genome.

Published
2023
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10. Diet and disturbance: Seaside Sparrow resource use driven by oiling and Hurricane Isaac

Author

Allison M. Snider, Andrea Bonisoli-Alquati, Anna A. Pérez-Umphrey, Stefan Woltmann, Philip C Stouffer, and Sabrina S. Taylor

Subjects
Seaside Sparrow, DNA metabarcoding, niche variation hypothesis, diet, hurricane, disturbance, Environmental sciences, GE1-350
Abstract

The 2010 Deepwater Horizon (DWH) disaster led to extensive oil deposition in Louisiana’s coastal wetlands, followed two years later by Hurricane Isaac. These disturbances led to changes in saltmarsh invertebrate communities, potentially affecting higher-level predators and the saltmarsh food web. Seaside Sparrows (Ammospiza maritima) are ubiquitous, year-round residents of the coastal saltmarsh affected by the DWH spill, where they consume diverse invertebrates and may be considered an indicator species for the ecosystem’s integrity. We used DNA metabarcoding to evaluate prey consumed by Seaside Sparrows to understand how sparrows responded to residual contamination from the DWH oil spill and ecosystem disturbance caused by Hurricane Isaac. To do so, we evaluated metrics of diet (prey richness, diversity, overall diet composition) and resource use (total niche width, individual specialization) from 2011 to 2017 on oiled, unoiled, and reference sites. We found that while diet composition varied across years and site type, Hurricane Isaac had an even greater effect on the richness and diversity of prey consumed. Resource use—as measured by the total niche width of the populations and degree of individual specialization—was most stable on unoiled sites compared to unoiled and reference sites. Finally, we analyzed resource use for each combination of site type and year (i.e.: “2014 oiled sites”), which indicated a strong correlation between individual specialization and total niche width: as total niche width increased, individuals became more specialized, following the predictions of the Niche Variation Hypothesis.

Published
2022
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11. The time for ambitious action is now: Science-based recommendations for plastic chemicals to inform an effective global plastic treaty

Author

Brander, S.M., Senathirajah, K., Fernandez, M.O., Weis, J.S., Kumar, E., Jahnke, Annika, Hartmann, N.B., Alava, J.J., Farrelly, T., Carney Almroth, B., Groh, K.J., Syberg, K., Buerkert, J.S., Abeynayaka, A., Booth, A.M., Cousin, X., Herzke, D., Monclús, L., Morales-Caselles, C., Bonisoli-Alquati, A., Al-jaibachi, R., Wagner, M., Brander, S.M., Senathirajah, K., Fernandez, M.O., Weis, J.S., Kumar, E., Jahnke, Annika, Hartmann, N.B., Alava, J.J., Farrelly, T., Carney Almroth, B., Groh, K.J., Syberg, K., Buerkert, J.S., Abeynayaka, A., Booth, A.M., Cousin, X., Herzke, D., Monclús, L., Morales-Caselles, C., Bonisoli-Alquati, A., Al-jaibachi, R., and Wagner, M.

Abstract

The ubiquitous and global ecological footprint arising from the rapidly increasing rates of plastic production, use, and release into the environment is an important modern environmental issue. Of increasing concern are the risks associated with at least 16,000 chemicals present in plastics, some of which are known to be toxic, and which may leach out both during use and once exposed to environmental conditions, leading to environmental and human exposure. In response, the United Nations member states agreed to establish an international legally binding instrument on plastic pollution, the global plastics treaty. The resolution acknowledges that the treaty should prevent plastic pollution and its related impacts, that effective prevention requires consideration of the transboundary nature of plastic production, use and pollution, and that the full life cycle of plastics must be addressed. As a group of scientific experts and members of the Scientists' Coalition for an Effective Plastics Treaty, we concur that there are six essential “pillars” necessary to truly reduce plastic pollution and allow for chemical detoxification across the full life cycle of plastics. These include a plastic chemical reduction and simplification, safe and sustainable design of plastic chemicals, incentives for change, holistic approaches for alternatives, just transition and equitable interventions, and centering human rights. There is a critical need for scientifically informed and globally harmonized information, transparency, and traceability criteria to protect the environment and public health. The right to a clean, healthy, and sustainable environment must be upheld, and thus it is crucial that scientists, industry, and policy makers work in concert to create a future free from hazardous plastic contamination.

Published
2024

12. Graduation Should Not Rhyme with Degradation

Author

Brambilla, Mattia, primary, Ambrosini, Roberto, additional, Babi Almenar, Javier, additional, Binelli, Andrea, additional, Bonisoli-Alquati, Andrea, additional, Casagrandi, Renato, additional, Chesta, Riccardo, additional, Costanzo, Alessandra, additional, De Felice, Beatrice, additional, Della Torre, Camilla, additional, Ilahiane, Luca, additional, Magni, Stefano, additional, Mari, Lorenzo, additional, Melià, Paco, additional, Parolini, Marco, additional, Pini, Elena, additional, Romano, Andrea, additional, Ronchi, Silvia, additional, Rubolini, Diego, additional, and Tremolada, Paolo, additional

Published
2024
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13. Sex and habitat drive hantavirus prevalence in marsh rice rat populations impacted by the Deepwater Horizon oil spill

Author

Anna A. Pérez‐Umphrey, Colleen B. Jonsson, Andrea Bonisoli‐Alquati, Allison M. Snider, Philip C. Stouffer, and Sabrina S. Taylor

Subjects
Bayou virus, coastal saltmarsh, Deepwater Horizon oil spill, demographics, hantavirus, Louisiana, Ecology, QH540-549.5
Abstract

Abstract Bayou orthohantavirus (BAYV) is one of several hantaviruses in the United States that cause hantavirus pulmonary syndrome in humans. Its host reservoir, the marsh rice rat (Oryzomys palustris), inhabits coastal saltmarshes of Louisiana, a region extensively impacted by anthropogenic disturbances, such as the 2010 Deepwater Horizon (DWH) oil spill. The oil spill presents an opportunity to investigate how a large‐scale ecological disturbance can influence the hantavirus host–pathogen dynamic by examining BAYV presence in its reservoir host species in areas with different oiling histories. Here, we: (1) quantify BAYV prevalence in the rice rat in coastal saltmarshes of Louisiana; (2) assess whether prevalence is driven by rice rat demographics, seasonality, or association with habitat characteristics; and (3) determine whether these factors differ by marsh oiling history. We collected mark–recapture data and blood and tissue samples over 5 years (2013–2017) at oiled, unoiled, and reference sites. Testing of the samples for BAYV revealed an antibody and RNA prevalence of 13.7%. Logistic regression analysis found that prevalence varied seasonally and inter‐annually, and in July of 2016 reached 30.8%. Sex (male) and increasing cover of Sporobolus alterniflorus and open water compared to Juncus roemerianus and bare ground were the strongest predictors of hantavirus prevalence. Abundance estimates derived from Huggins closed‐capture models were greatest at oiled sites, but oiling treatment had no residual influence on BAYV prevalence, and abundance and prevalence were not correlated. This study supports the hypothesis that habitat is a main driver of hantavirus prevalence in the host and implies that continued and future disturbances in the region will likely impact the rice rat–BAYV dynamic by altering plant communities and landscape structure.

Published
2022
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14. Stable isotope analyses identify trophic niche partitioning between sympatric terrestrial vertebrates in coastal saltmarshes with differing oiling histories

Author

Sydney Moyo, Hayat Bennadji, Danielle Laguaite, Anna A. Pérez-Umphrey, Allison M. Snider, Andrea Bonisoli-Alquati, Jill A. Olin, Philip C Stouffer, Sabrina S. Taylor, Paola C. López-Duarte, Brian J. Roberts, Linda Hooper-Bui, and Michael J. Polito

Subjects
Stable isotope analysis, Saltmarsh, Ammospiza maritima, Oryzomys palustris, Medicine, Biology (General), QH301-705.5
Abstract

Bioindicator species are commonly used as proxies to help identify the ecological effects of oil spills and other stressors. However, the utility of taxa as bioindicators is dependent on understanding their trophic niche and life history characteristics, as these factors mediate their ecological responses. Seaside sparrows (Ammospiza maritima) and marsh rice rats (Oryzomys palustris) are two ubiquitous terrestrial vertebrates that are thought to be bioindicators of oil spills in saltmarsh ecosystems. To improve the utility of these omnivorous taxa as bioindicators, we used carbon and nitrogen stable isotope analysis to quantify their trophic niches at saltmarshes in coastal Louisiana with differing oiling histories. We found that rats generally had lower trophic positions and incorporated more aquatic prey relative to seaside sparrows. The range of resources used (i.e.,trophic niche width) varied based on oiling history. Seaside sparrows had wider trophic niches than marsh rice rats at unoiled sites, but not at oiled sites. Trophic niche widths of conspecifics were less consistent at oiled sites, although marsh rice rats at oiled sites had wider trophic niches than rats at unoiled sites. These results suggest that past oiling histories may have imparted subtle, yet differing effects on the foraging ecology of these two co-occurring species. However, the temporal lag between initial oiling and our study makes identifying the ultimate drivers of differences between oiled and unoiled sites challenging. Even so, our findings provide a baseline quantification of the trophic niches of sympatric seaside sparrows and marsh rice rats that will aid in the use of these species as indicators of oiling and other environmental stressors in saltmarsh ecosystems.

Published
2021
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15. Same data, different analysts: variation in effect sizes due to analytical decisions in ecology and evolutionary biology

Author

Gould, Elliot, primary, Fraser, Hannah, additional, Parker, Timothy, additional, Nakagawa, Shinichi, additional, Griffith, Simon, additional, Vesk, Peter, additional, Fidler, Fiona, additional, Abbey-Lee, Robin, additional, Abbott, Jessica, additional, Aguirre, Luis, additional, Alcaraz, Carles, additional, Altschul, Drew, additional, Arekar, Kunal, additional, Atkins, Jeff, additional, Atkinson, Joe, additional, Barrett, Meghan, additional, Bell, Kristian, additional, Bello, Suleiman, additional, Berauer, Bernd, additional, Bertram, Michael, additional, Billman, Peter, additional, Blake, Charlie, additional, Blake, Shannon, additional, Bliard, Louis, additional, Bonisoli-Alquati, Andrea, additional, Bonnet, Timothée, additional, Bordes, Camille, additional, Bose, Aneesh, additional, Botterill-James, Thomas, additional, Boyd, Melissa, additional, Boyle, Sarah, additional, Bradfer-Lawrence, Tom, additional, Brand, Jack, additional, Brengdahl, Martin, additional, Bulla, Martin, additional, Bussière, Luc, additional, Camerlenghi, Ettore, additional, Campbell, Sara, additional, Campos, Leonardo, additional, Caravaggi, Anthony, additional, Cardoso, Pedro, additional, Carroll, Charles, additional, Catanach, Therese, additional, Chen, Xuan, additional, Chik, Heung Ying Janet, additional, Choy, Emily, additional, Christie, Alec, additional, Chuang, Angela, additional, Chunco, Amanda, additional, Clark, Bethany, additional, Cox, Murray, additional, Cressman, Kimberly, additional, Crouch, Connor, additional, D'Amelio, Pietro, additional, de Sousa, Alexandra, additional, Döbert, Timm, additional, Dobler, Ralph, additional, Dobson, Adam, additional, Doherty, Tim, additional, Drobniak, Szymon, additional, Duffy, Alexandra, additional, Dunn, Robert, additional, Dunning, Jamie, additional, Eberhart-Hertel, Luke, additional, Elmore, Jared, additional, Elsherif, Mahmoud, additional, English, Holly, additional, Ensminger, David, additional, Ernst, Ulrich, additional, Ferguson, Stephen, additional, Ferreira-Arruda, Thalita, additional, Fieberg, John, additional, Finch, Elizabeth, additional, Fiorenza, Evan, additional, Fisher, David, additional, Forstmeier, Wolfgang, additional, Fourcade, Yoan, additional, Francesca Santostefano, Francesca, additional, Frank, Graham, additional, Freund, Cathryn, additional, Gandy, Sara, additional, Gannon, Dustin, additional, García-Cervigón, Ana, additional, Géron, Charly, additional, Gilles, Marc, additional, Girndt, Antje, additional, Gliksman, Daniel, additional, Goldspiel, Harrison, additional, Gomes, Dylan, additional, Goslee, Sarah, additional, Gosnell, J., additional, Gratton, Paolo, additional, Grebe, Nicholas, additional, Greenler, Skye, additional, Griffith, Daniel, additional, Griffith, Frances, additional, Grossman, Jake, additional, Güncan, Ali, additional, Haesen, Stef, additional, Hagan, James, additional, Harrison, Natasha, additional, Hasnain, Sarah, additional, Havird, Justin, additional, Heaton, Andrew, additional, Hsu, Bin-Yan, additional, Iranzo, Esperanza, additional, Iverson, Erik, additional, Jimoh, Saheed, additional, Johnson, Douglas, additional, Johnsson, Martin, additional, Jorna, Jesse, additional, Jucker, Tommaso, additional, Jung, Martin, additional, Kačergytė, Ineta, additional, Ke, Alison, additional, Kelly, Clint, additional, Keogan, Katharine, additional, Keppeler, Friedrich, additional, Killion, Alexander, additional, Kim, Dongmin, additional, Kochan, David, additional, Korsten, Peter, additional, Kothari, Shan, additional, Kuppler, Jonas, additional, Kusch, Jillian, additional, Lagisz, Malgorzata, additional, Larkin, Daniel, additional, Larson, Courtney, additional, Lauck, Katherine, additional, Lauterbur, M., additional, Law, Alan, additional, Léandri-Breton, Don-Jean, additional, Lievens, Eva, additional, Lima, Daniela, additional, Lindsay, Shane, additional, Macphie, Kirsty, additional, Mair, Magdalena, additional, Malm, Lisa, additional, Mammola, Stefano, additional, Manhart, Michael, additional, Mäntylä, Elina, additional, Marchand, Philippe, additional, Marshall, Benjamin, additional, Martin, Dominic, additional, Martin, Jake, additional, Martin, Charles, additional, Martinig, April, additional, McCallum, Erin, additional, McNew, Sabrina, additional, Meiners, Scott, additional, Michelangeli, Marcus, additional, Moiron, Maria, additional, Moreira, Bruno, additional, Mortensen, Jennifer, additional, Mos, Benjamin, additional, Muraina, Taofeek, additional, Nelli, Luca, additional, Nilsonne, Gustav, additional, Nolazco, Sergio, additional, Nooten, Sabine, additional, Novotny, Jessie, additional, Olin, Agnes, additional, Organ, Chris, additional, Ostevik, Kate, additional, Palacio, Facundo, additional, Paquet, Matthieu, additional, Pascall, David, additional, Pasquarella, Valerie, additional, Payo-Payo, Ana, additional, Pedersen, Karen, additional, Perez, Grégoire, additional, Perry, Kayla, additional, Pottier, Patrice, additional, Proulx, Michael, additional, Proulx, Raphaël, additional, Pruett, Jessica, additional, Ramananjato, Veronarindra, additional, Randimbiarison, Finaritra, additional, Razafindratsima, Onja, additional, Rennison, Diana, additional, Riva, Federico, additional, Riyahi, Sepand, additional, Roast, Michael, additional, Rocha, Felipe, additional, Roche, Dominique, additional, Román-Palacios, Cristian, additional, Rosenberg, Michael, additional, Ross, Jessica, additional, Rowland, Freya, additional, Rugemalila, Deusdedith, additional, Russell, Avery, additional, Ruuskanen, Suvi, additional, Saccone, Patrick, additional, Sadeh, Asaf, additional, Salazar, Stephen, additional, sales, kris, additional, Salmón, Pablo, additional, Sanchez-Tojar, Alfredo, additional, Santos, Leticia, additional, Schilling, Hayden, additional, Schmidt, Marcus, additional, Schmoll, Tim, additional, Schneider, Adam, additional, Schrock, Allie, additional, Schroeder, Julia, additional, Schtickzelle, Nicolas, additional, Schultz, Nick, additional, Scott, Drew, additional, Shapiro, Julie, additional, Sharma, Nitika, additional, Shearer, Caroline, additional, Sitvarin, Michael, additional, Skupien, Fabrício, additional, Slinn, Heather, additional, Smith, Jeremy, additional, Smith, Grania, additional, Sollmann, Rahel, additional, Stack Whitney, Kaitlin, additional, Still, Shannon, additional, Stuber, Erica, additional, Sutton, Guy, additional, Swallow, Ben, additional, Taff, Conor, additional, Takola, Elina, additional, Tanentzap, Andrew, additional, Thawley, Christopher, additional, Tortorelli, Claire, additional, Trlica, Andrew, additional, Turnell, Biz, additional, Urban, Lara, additional, Van de Vondel, Stijn, additional, van Oordt, Francis, additional, Vanderwel, Mark, additional, Vanderwel, K., additional, Vanderwolf, Karen, additional, Verrelli, Brian, additional, Vieira, Marcus, additional, Vollering, Julien, additional, Walker, Xanthe, additional, Walter, Jonathan, additional, Waryszak, Pawel, additional, Weaver, Ryan, additional, Weller, Daniel, additional, Whelan, Shannon, additional, White, Rachel, additional, Wolfson, David, additional, Wood, Andrew, additional, Yanco, Scott, additional, Yen, Jian, additional, Youngflesh, Casey, additional, Zilio, Giacomo, additional, Zimmer, Cédric, additional, Zitomer, Rachel, additional, Villamil, Nora, additional, and Tompkins, Emily, additional

Published
2023
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16. Nest survival of Seaside Sparrows (Ammospiza maritima) in the wake of the Deepwater Horizon oil spill

Author

Megan E. Hart, Anna Perez-Umphrey, Philip C. Stouffer, Christine Bergeon Burns, Andrea Bonisoli-Alquati, Sabrina S. Taylor, and Stefan Woltmann

Subjects
Medicine, Science
Abstract

In 2010, the Deepwater Horizon oil spill released an estimated 4.9 million barrels of oil into the Gulf of Mexico, damaging coastal ecosystems. Seaside Sparrows (Ammospiza maritima)—a year-round resident of Gulf Coast salt marshes—were exposed to oil, as shown by published isotopic and molecular analyses, but fitness consequences have not been clarified. We monitored nests around two bays in Plaquemines Parish, Louisiana, USA from 2012–2017 to assess possible impacts on the nesting biology of Seaside Sparrows. A majority of nests failed (76% of known-fate nests, N = 252 nests, 3521 exposure-days) during our study, and predation was the main cause of nest failure (~91% of failed nests). Logistic exposure analysis revealed that daily nest survival rate: (1) was greater at nests with denser vegetation at nest height, (2) was higher in the more sheltered bay we studied, (3) decreased over the course of the breeding season in each year, and (4) was not correlated with either sediment polycyclic aromatic hydrocarbon concentrations or estimated predator abundance during the years for which we had those data. Although the Deepwater Horizon spill impacted other aspects of Seaside Sparrow ecology, we found no definitive effect of initial oiling or oiled sediment on nest survival during 2012–2017. Because predation was the overwhelming cause of nest failure in our study, additional work on these communities is needed to fully understand demographic and ecological impacts of storms, oil spills, other pollutants, and sea-level rise on Seaside Sparrows and their predators.

Published
2021

17. How genomics can help biodiversity conservation

Author

Theissinger, Kathrin, primary, Fernandes, Carlos, additional, Formenti, Giulio, additional, Bista, Iliana, additional, Berg, Paul R., additional, Bleidorn, Christoph, additional, Bombarely, Aureliano, additional, Crottini, Angelica, additional, Gallo, Guido R., additional, Godoy, José A., additional, Jentoft, Sissel, additional, Malukiewicz, Joanna, additional, Mouton, Alice, additional, Oomen, Rebekah A., additional, Paez, Sadye, additional, Palsbøll, Per J., additional, Pampoulie, Christophe, additional, Ruiz-López, María J., additional, Secomandi, Simona, additional, Svardal, Hannes, additional, Theofanopoulou, Constantina, additional, de Vries, Jan, additional, Waldvogel, Ann-Marie, additional, Zhang, Guojie, additional, Jarvis, Erich D., additional, Bálint, Miklós, additional, Ciofi, Claudio, additional, Waterhouse, Robert M., additional, Mazzoni, Camila J., additional, Höglund, Jacob, additional, Aghayan, Sargis A., additional, Alioto, Tyler S., additional, Almudi, Isabel, additional, Alvarez, Nadir, additional, Alves, Paulo C., additional, Amorim do Rosario, Isabel R., additional, Antunes, Agostinho, additional, Arribas, Paula, additional, Baldrian, Petr, additional, Bertorelle, Giorgio, additional, Böhne, Astrid, additional, Bonisoli-Alquati, Andrea, additional, Boštjančić, Ljudevit L., additional, Boussau, Bastien, additional, Breton, Catherine M., additional, Buzan, Elena, additional, Campos, Paula F., additional, Carreras, Carlos, additional, Castro, L. FIlipe C., additional, Chueca, Luis J., additional, Čiampor, Fedor, additional, Conti, Elena, additional, Cook-Deegan, Robert, additional, Croll, Daniel, additional, Cunha, Mónica V., additional, Delsuc, Frédéric, additional, Dennis, Alice B., additional, Dimitrov, Dimitar, additional, Faria, Rui, additional, Favre, Adrien, additional, Fedrigo, Olivier D., additional, Fernández, Rosa, additional, Ficetola, Gentile Francesco, additional, Flot, Jean-François, additional, Gabaldón, Toni, additional, Agius, Dolores R., additional, Giani, Alice M., additional, Gilbert, M. Thomas P., additional, Grebenc, Tine, additional, Guschanski, Katerina, additional, Guyot, Romain, additional, Hausdorf, Bernhard, additional, Hawlitschek, Oliver, additional, Heintzman, Peter D., additional, Heinze, Berthold, additional, Hiller, Michael, additional, Husemann, Martin, additional, Iannucci, Alessio, additional, Irisarri, Iker, additional, Jakobsen, Kjetill S., additional, Klinga, Peter, additional, Kloch, Agnieszka, additional, Kratochwil, Claudius F., additional, Kusche, Henrik, additional, Layton, Kara K.S., additional, Leonard, Jennifer A., additional, Lerat, Emmanuelle, additional, Liti, Gianni, additional, Manousaki, Tereza, additional, Marques-Bonet, Tomas, additional, Matos-Maraví, Pável, additional, Matschiner, Michael, additional, Maumus, Florian, additional, Mc Cartney, Ann M., additional, Meiri, Shai, additional, Melo-Ferreira, José, additional, Mengual, Ximo, additional, Monaghan, Michael T., additional, Montagna, Matteo, additional, Mysłajek, Robert W., additional, Neiber, Marco T., additional, Nicolas, Violaine, additional, Novo, Marta, additional, Ozretić, Petar, additional, Palero, Ferran, additional, Pârvulescu, Lucian, additional, Pascual, Marta, additional, Paulo, Octávio S., additional, Pavlek, Martina, additional, Pegueroles, Cinta, additional, Pellissier, Loïc, additional, Pesole, Graziano, additional, Primmer, Craig R., additional, Riesgo, Ana, additional, Rüber, Lukas, additional, Rubolini, Diego, additional, Salvi, Daniele, additional, Seehausen, Ole, additional, Seidel, Matthias, additional, Studer, Bruno, additional, Theodoridis, Spyros, additional, Thines, Marco, additional, Urban, Lara, additional, Vasemägi, Anti, additional, Vella, Adriana, additional, Vella, Noel, additional, Vernes, Sonja C., additional, Vernesi, Cristiano, additional, Vieites, David R., additional, Wheat, Christopher W., additional, Wörheide, Gert, additional, Wurm, Yannick, additional, and Zammit, Gabrielle, additional

Published
2023
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18. How genomics can help biodiversity conservation

Author

Kathrin Theissinger, Carlos Fernandes, Giulio Formenti, Iliana Bista, Paul R. Berg, Christoph Bleidorn, Aureliano Bombarely, Angelica Crottini, Guido R. Gallo, José A. Godoy, Sissel Jentoft, Joanna Malukiewicz, Alice Mouton, Rebekah A. Oomen, Sadye Paez, Per J. Palsbøll, Christophe Pampoulie, María J. Ruiz-López, Simona Secomandi, Hannes Svardal, Constantina Theofanopoulou, Jan de Vries, Ann-Marie Waldvogel, Guojie Zhang, Erich D. Jarvis, Miklós Bálint, Claudio Ciofi, Robert M. Waterhouse, Camila J. Mazzoni, Jacob Höglund, Sargis A. Aghayan, Tyler S. Alioto, Isabel Almudi, Nadir Alvarez, Paulo C. Alves, Isabel R. Amorim do Rosario, Agostinho Antunes, Paula Arribas, Petr Baldrian, Giorgio Bertorelle, Astrid Böhne, Andrea Bonisoli-Alquati, Ljudevit L. Boštjančić, Bastien Boussau, Catherine M. Breton, Elena Buzan, Paula F. Campos, Carlos Carreras, L. FIlipe C. Castro, Luis J. Chueca, Fedor Čiampor, Elena Conti, Robert Cook-Deegan, Daniel Croll, Mónica V. Cunha, Frédéric Delsuc, Alice B. Dennis, Dimitar Dimitrov, Rui Faria, Adrien Favre, Olivier D. Fedrigo, Rosa Fernández, Gentile Francesco Ficetola, Jean-François Flot, Toni Gabaldón, Dolores R. Agius, Alice M. Giani, M. Thomas P. Gilbert, Tine Grebenc, Katerina Guschanski, Romain Guyot, Bernhard Hausdorf, Oliver Hawlitschek, Peter D. Heintzman, Berthold Heinze, Michael Hiller, Martin Husemann, Alessio Iannucci, Iker Irisarri, Kjetill S. Jakobsen, Peter Klinga, Agnieszka Kloch, Claudius F. Kratochwil, Henrik Kusche, Kara K.S. Layton, Jennifer A. Leonard, Emmanuelle Lerat, Gianni Liti, Tereza Manousaki, Tomas Marques-Bonet, Pável Matos-Maraví, Michael Matschiner, Florian Maumus, Ann M. Mc Cartney, Shai Meiri, José Melo-Ferreira, Ximo Mengual, Michael T. Monaghan, Matteo Montagna, Robert W. Mysłajek, Marco T. Neiber, Violaine Nicolas, Marta Novo, Petar Ozretić, Ferran Palero, Lucian Pârvulescu, Marta Pascual, Octávio S. Paulo, Martina Pavlek, Cinta Pegueroles, Loïc Pellissier, Graziano Pesole, Craig R. Primmer, Ana Riesgo, Lukas Rüber, Diego Rubolini, Daniele Salvi, Ole Seehausen, Matthias Seidel, Bruno Studer, Spyros Theodoridis, Marco Thines, Lara Urban, Anti Vasemägi, Adriana Vella, Noel Vella, Sonja C. Vernes, Cristiano Vernesi, David R. Vieites, Christopher W. Wheat, Gert Wörheide, Yannick Wurm, Gabrielle Zammit, University of Zurich, Höglund, Jacob, Repositório da Universidade de Lisboa, and European Reference Genome Atlas Consortium

Subjects
genomic toolbox, Biodiversity conservation -- Research, Genetics, Evolution and Phylogenetics, Settore BIO/18 - GENETICA, udc:575.111, biotska pestrost, 580 Plants (Botany), Genomics -- Observations, biodiversity genomics, Genomics -- Practice -- Evaluation, 1311 Genetics, European Reference Genome Atlas (ERGA), Conservation applications, Genomic toolbox, reference genomes, Anthropocene, genomics, Genetics, biotska pestrost, genetika, genomics, biodiversity conservation, 10211 Zurich-Basel Plant Science Center, Biology, conservation applications, Genomics -- Technological innovations, Anthropocene biodiversity genomics genomic toolbox reference genomes conservation applications European Reference Genome Atlas (ERGA), Genomics -- Technique, Biodiversity genomics, Geference genomes, 10121 Department of Systematic and Evolutionary Botany, genetika, 570 Life sciences, biology, biodiversity conservation
Abstract

The availability of public genomic resources can greatly assist biodiversity assessment, conservation, and restoration efforts by providing evidence for scientifically informed management decisions. Here we survey the main approaches and applications in biodiversity and conservation genomics, considering practical factors, such as cost, time, prerequisite skills, and current shortcomings of applications. Most approaches perform best in combination with reference genomes from the target species or closely related species. We review case studies to illustrate how reference genomes can facilitate biodiversity research and conservation across the tree of life. We conclude that the time is ripe to view reference genomes as fundamental resources and to integrate their use as a best practice in conservation genomics., Trends in Genetics, 39 (7), ISSN:0168-9525

Published
2023
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19. Addressing ecological effects of radiation on populations and ecosystems to improve protection of the environment against radiation: Agreed statements from a Consensus Symposium

Author

Bréchignac, François, Oughton, Deborah, Mays, Claire, Barnthouse, Lawrence, Beasley, James C., Bonisoli-Alquati, Andrea, Bradshaw, Clare, Brown, Justin, Dray, Stéphane, Geras'kin, Stanislav, Glenn, Travis, Higley, Kathy, Ishida, Ken, Kapustka, Lawrence, Kautsky, Ulrik, Kuhne, Wendy, Lynch, Michael, Mappes, Tapio, Mihok, Steve, Møller, Anders P., Mothersill, Carmel, Mousseau, Timothy A., Otaki, Joji M., Pryakhin, Evgeny, Rhodes, Olin E., Jr., Salbu, Brit, Strand, Per, and Tsukada, Hirofumi

Published
2016
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20. A chromosome-level reference genome and pangenome for barn swallow population genomics

Author

Secomandi, S., Gallo, G.R., Sozzoni, M., Iannucci, A., Galati, E., Abueg, L., Balacco, J., Caprioli, M., Chow, W., Ciofi, C., Collins, J., Fedrigo, O., Ferretti, L., Fungtammasan, A., Haase, B., Howe, K., Kwak, W., Lombardo, G., Masterson, P., Messina, G., Møller, A.P., Mountcastle, J., Mousseau, T.A., Ferrer Obiol, J., Olivieri, A., Rhie, A., Rubolini, D., Saclier, M., Stanyon, R., Stucki, D., Thibaud-Nissen, F., Torrance, J., Torroni, A., Weber, K., Ambrosini, R., Bonisoli-Alquati, A., Jarvis, E.D., Gianfranceschi, L., and Formenti, G.

Subjects
Settore BIO/07 - Ecologia, population genomics, CP: Molecular biology, barn swallow, comparative genomics, genetic marker catalog, genome assembly, linkage disequilibrium, pangenome graph, pangenomics, reference genome, synanthropy, Settore BIO/11 - Biologia Molecolare, Settore BIO/18 - Genetica
Published
2023

21. The Mitogenome Relationships and Phylogeography of Barn Swallows (Hirundo rustica)

Author

Gianluca Lombardo, Nicola Rambaldi Migliore, Giulia Colombo, Marco Rosario Capodiferro, Giulio Formenti, Manuela Caprioli, Elisabetta Moroni, Leonardo Caporali, Hovirag Lancioni, Simona Secomandi, Guido Roberto Gallo, Alessandra Costanzo, Andrea Romano, Maria Garofalo, Cristina Cereda, Valerio Carelli, Lauren Gillespie, Yang Liu, Yosef Kiat, Alfonso Marzal, Cosme López-Calderón, Javier Balbontín, Timothy A. Mousseau, Piotr Matyjasiak, Anders Pape Møller, Ornella Semino, Roberto Ambrosini, Andrea Bonisoli-Alquati, Diego Rubolini, Luca Ferretti, Alessandro Achilli, Luca Gianfranceschi, Anna Olivieri, Antonio Torroni, Lombardo G., Rambaldi Migliore N., Colombo G., Capodiferro M.R., Formenti G., Caprioli M., Moroni E., Caporali L., Lancioni H., Secomandi S., Gallo G.R., Costanzo A., Romano A., Garofalo M., Cereda C., Carelli V., Gillespie L., Liu Y., Kiat Y., Marzal A., Lopez-Calderon C., Balbontin J., Mousseau T.A., Matyjasiak P., Moller A.P., Semino O., Ambrosini R., Bonisoli-Alquati A., Rubolini D., Ferretti L., Achilli A., Gianfranceschi L., Olivieri A., and Torroni A.

Subjects
Settore BIO/07 - Ecologia, haplogroup, Hirundo rustica subspecie, Asia, mitogenome, Animal, barn swallow phylogeny, mitochondrial, Phylogeography, Swallows, Hirundo rustica subspecies, haplogroups, Africa, animals, female, humans, phylogeography, genome, mitochondrial, swallows, Genome, Mitochondrial, Genetics, Animals, Humans, Female, genome, Molecular Biology, Ecology, Evolution, Behavior and Systematics, Human
Abstract

The barn swallow (Hirundo rustica) poses a number of fascinating scientific questions, including the taxonomic status of postulated subspecies. Here, we obtained and assessed the sequence variation of 411 complete mitogenomes, mainly from the European H. r. rustica, but other subspecies as well. In almost every case, we observed subspecies-specific haplogroups, which we employed together with estimated radiation times to postulate a model for the geographical and temporal worldwide spread of the species. The female barn swallow carrying the Hirundo rustica ancestral mitogenome left Africa (or its vicinity) around 280 thousand years ago (kya), and her descendants expanded first into Eurasia and then, at least 51 kya, into the Americas, from where a relatively recent (

Published
2022
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23. The era of reference genomes in conservation genomics

Author

Giulio Formenti, Kathrin Theissinger, Carlos Fernandes, Iliana Bista, Aureliano Bombarely, Christoph Bleidorn, Claudio Ciofi, Angelica Crottini, José A. Godoy, Jacob Höglund, Joanna Malukiewicz, Alice Mouton, Rebekah A. Oomen, Sadye Paez, Per J. Palsbøll, Christophe Pampoulie, María J. Ruiz-López, Hannes Svardal, Constantina Theofanopoulou, Jan de Vries, Ann-Marie Waldvogel, Guojie Zhang, Camila J. Mazzoni, Erich D. Jarvis, Miklós Bálint, Fedor Čiampor, Jacob Hoglund, Per Palsbøll, María José Ruiz-López, Goujie Zhang, Erich Jarvis, Sargis A. Aghayan, Tyler S. Alioto, Isabel Almudi, Nadir Alvarez, Paulo C. Alves, Isabel R. Amorim, Agostinho Antunes, Paula Arribas, Petr Baldrian, Paul R. Berg, Giorgio Bertorelle, Astrid Böhne, Andrea Bonisoli-Alquati, Ljudevit L. Boštjančić, Bastien Boussau, Catherine M. Breton, Elena Buzan, Paula F. Campos, Carlos Carreras, L. FIlipe Castro, Luis J. Chueca, Elena Conti, Robert Cook-Deegan, Daniel Croll, Mónica V. Cunha, Frédéric Delsuc, Alice B. Dennis, Dimitar Dimitrov, Rui Faria, Adrien Favre, Olivier D. Fedrigo, Rosa Fernández, Gentile Francesco Ficetola, Jean-François Flot, Toni Gabaldón, Dolores R. Galea Agius, Guido R. Gallo, Alice M. Giani, M. Thomas P. Gilbert, Tine Grebenc, Katerina Guschanski, Romain Guyot, Bernhard Hausdorf, Oliver Hawlitschek, Peter D. Heintzman, Berthold Heinze, Michael Hiller, Martin Husemann, Alessio Iannucci, Iker Irisarri, Kjetill S. Jakobsen, Sissel Jentoft, Peter Klinga, Agnieszka Kloch, Claudius F. Kratochwil, Henrik Kusche, Kara K.S. Layton, Jennifer A. Leonard, Emmanuelle Lerat, Gianni Liti, Tereza Manousaki, Tomas Marques-Bonet, Pável Matos-Maraví, Michael Matschiner, Florian Maumus, Ann M. Mc Cartney, Shai Meiri, José Melo-Ferreira, Ximo Mengual, Michael T. Monaghan, Matteo Montagna, Robert W. Mysłajek, Marco T. Neiber, Violaine Nicolas, Marta Novo, Petar Ozretić, Ferran Palero, Lucian Pârvulescu, Marta Pascual, Octávio S. Paulo, Martina Pavlek, Cinta Pegueroles, Loïc Pellissier, Graziano Pesole, Craig R. Primmer, Ana Riesgo, Lukas Rüber, Diego Rubolini, Daniele Salvi, Ole Seehausen, Matthias Seidel, Simona Secomandi, Bruno Studer, Spyros Theodoridis, Marco Thines, Lara Urban, Anti Vasemägi, Adriana Vella, Noel Vella, Sonja C. Vernes, Cristiano Vernesi, David R. Vieites, Robert M. Waterhouse, Christopher W. Wheat, Gert Wörheide, Yannick Wurm, Gabrielle Zammit, Repositório da Universidade de Lisboa, Formenti, Giulio, Theissinger, Kathrin, Fernandes, Carlo, Bista, Iliana, Bombarely, Aureliano, Bleidorn, Christoph, Ciofi, Claudio, Crottini, Angelica, Godoy, José A., Höglund, Jacob, Malukiewicz, Joanna, Mouton, Alice, Oomen, Rebekah A., Paez, Sadye, Palsbøll, Per J., Pampoulie, Christophe, Ruiz-López, María J., Svardal, Hanne, Theofanopoulou, Constantina, de Vries, Jan, Waldvogel, Ann-Marie, Zhang, Guojie, Mazzoni, Camila J., Jarvis, Erich D., Bálint, Mikló, Čiampor, Fedor, Hoglund, Jacob, Palsbøll, Per, José Ruiz-López, María, Zhang, Goujie, Jarvis, Erich, Aghayan, Sargis A., Alioto, Tyler S., Almudi, Isabel, Alvarez, Nadir, Alves, Paulo C., R Amorim, Isabel, Antunes, Agostinho, Arribas, Paula, Baldrian, Petr, R Berg, Paul, Bertorelle, Giorgio, Böhne, Astrid, Bonisoli-Alquati, Andrea, L Boštjančić, Ljudevit, Boussau, Bastien, M Breton, Catherine, Buzan, Elena, F Campos, Paula, Carreras, Carlo, FIlipe Castro, L., Chueca, Luis J., Conti, Elena, Cook-Deegan, Robert, Croll, Daniel, V Cunha, Mónica, Delsuc, Frédéric, Dennis, Alice B., Dimitrov, Dimitar, Faria, Rui, Favre, Adrien, Fedrigo, Olivier D., Fernández, Rosa, Francesco Ficetola, Gentile, Flot, Jean-Françoi, Gabaldón, Toni, Galea Agius, Dolores R., Gallo, Guido R., Giani, Alice M., Thomas P Gilbert, M., Grebenc, Tine, Guschanski, Katerina, Guyot, Romain, Hausdorf, Bernhard, Hawlitschek, Oliver, D Heintzman, Peter, Heinze, Berthold, Hiller, Michael, Husemann, Martin, Iannucci, Alessio, Irisarri, Iker, S Jakobsen, Kjetill, Jentoft, Sissel, Klinga, Peter, Kloch, Agnieszka, F Kratochwil, Claudiu, Kusche, Henrik, KS Layton, Kara, A Leonard, Jennifer, Lerat, Emmanuelle, Liti, Gianni, Manousaki, Tereza, Marques-Bonet, Toma, Matos-Maraví, Pável, Matschiner, Michael, Maumus, Florian, Mc Cartney, Ann M., Meiri, Shai, Melo-Ferreira, José, Mengual, Ximo, Monaghan, Michael T., Montagna, Matteo, Robertwmysłajek, T Neiber, Marco, Nicolas, Violaine, Novo, Marta, Ozretić, Petar, Palero, Ferran, Pârvulescu, Lucian, Pascual, Marta, Paulo, Octávio S., Pavlek, Martina, Pegueroles, Cinta, Pellissier, Loc, Pesole, Graziano, R Primmer, Craig, Riesgo, Ana, Rüber, Luka, Rubolini, Diego, Salvi, Daniele, Seehausen, Ole, Seidel, Matthia, Secomandi, Simona, Studer, Bruno, Theodoridis, Spyro, Thines, Marco, Urban, Lara, Vasemägi, Anti, Vella, Adriana, Vella, Noel, C Vernes, Sonja, Vernesi, Cristiano, R Vieites, David, M Waterhouse, Robert, W Wheat, Christopher, Wörheide, Gert, Wurm, Yannick, Zammit., and Gabrielle, Bioinformatique, phylogénie et génomique évolutive (BPGE), Département PEGASE [LBBE] (PEGASE), Laboratoire de Biométrie et Biologie Evolutive - UMR 5558 (LBBE), Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Institut National de Recherche en Informatique et en Automatique (Inria)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Institut National de Recherche en Informatique et en Automatique (Inria)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS)-Laboratoire de Biométrie et Biologie Evolutive - UMR 5558 (LBBE), Université de Lyon-Université de Lyon-Institut National de Recherche en Informatique et en Automatique (Inria)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS), Eléments transposables, évolution, populations, Département génétique, interactions et évolution des génomes [LBBE] (GINSENG), Institut des Sciences de l'Evolution de Montpellier (UMR ISEM), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université de Montpellier (UM)-Institut de recherche pour le développement [IRD] : UR226-Centre National de la Recherche Scientifique (CNRS), Barcelona Supercomputing Center, European Reference Genome Atlas (ERGA) Consortium, University of St Andrews. School of Biology, University of St Andrews. St Andrews Bioinformatics Unit, Palsbøll lab, Marine Biology, University of Zurich, and Bálint, Miklós

Subjects
QH301 Biology, 580 Plants (Botany), Genetics -- Research, Evolutionsbiologi, biodiversity conservation, conservation genetics, ERGA, European Reference Genome Atlas, Conservation genetics, Biodiversity conservation, Animal genome mapping, udc:630*1, Genome, GE, [SDV.BID.EVO]Life Sciences [q-bio]/Biodiversity/Populations and Evolution [q-bio.PE], [SDE.BE.BIOD]Environmental Sciences/Biodiversity and Ecology/domain_sde.be.biod, Biodiversity [MeSH], Genomics [MeSH], Ecology, Evolution, Behavior and Systematics, Genome [MeSH], 3rd-DAS, Genomics, Biodiversity, referenčni genomi, [SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM], [SDE.BE.BEC]Environmental Sciences/Biodiversity and Ecology/domain_sde.be.bec, Chemistry, 10121 Department of Systematic and Evolutionary Botany, genomika, GE Environmental Sciences, Informàtica::Aplicacions de la informàtica::Bioinformàtica [Àrees temàtiques de la UPC], biodiverziteta, Settore BIO/18 - GENETICA, education, QH426 Genetics, QH301, VDP::Matematikk og Naturvitenskap: 400::Basale biofag: 470, [SDE.BE.EVO]Environmental Sciences/Biodiversity and Ecology/domain_sde.be.evo, Genetics, genomi, 10211 Zurich-Basel Plant Science Center, Genomes, Genetik, Biology, QH426, Evolutionary Biology, Ambientale, Ecología, Genética, 1105 Ecology, Evolution, Behavior and Systematics, Wildlife conservation, 570 Life sciences, biology, Human medicine, Animal genetics, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, Genètica
Abstract

Progress in genome sequencing now enables the large-scale generation of reference genomes. Various international initiatives aim to generate reference genomes representing global biodiversity. These genomes provide unique insights into genomic diversity and architecture, thereby enabling comprehensive analyses of population and functional genomics, and are expected to revolutionize conservation genomics., Trends in Ecology & Evolution, 37 (3), ISSN:0169-5347, ISSN:1872-8383

Published
2022
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26. From tangled banks to toxic bunnies; a reflection on the issues involved in developing an ecosystem approach for environmental radiation protection

Author

Mothersill, Carmel E., Oughton, Deborah H., Schofield, Paul N., Abend, Michael, Adam-Guillermin, Christelle, Ariyoshi, Kentaro, Beresford, Nicholas A., Bonisoli-Alquati, Andrea, Cohen, Jason, Dubrova, Yuri, Geras’kin, Stanislav A., Hevrøy, Tanya Helena, Higley, Kathryn A., Horemans, Nele, Jha, Awadhesh N., Kapustka, Lawrence A., Kiang, Juliann G., Madas, Balázs G., Powathil, Gibin, Sarapultseva, Elena I., Seymour, Colin B., Vo, Nguyen T.K., Wood, Michael D., Mothersill, Carmel E., Oughton, Deborah H., Schofield, Paul N., Abend, Michael, Adam-Guillermin, Christelle, Ariyoshi, Kentaro, Beresford, Nicholas A., Bonisoli-Alquati, Andrea, Cohen, Jason, Dubrova, Yuri, Geras’kin, Stanislav A., Hevrøy, Tanya Helena, Higley, Kathryn A., Horemans, Nele, Jha, Awadhesh N., Kapustka, Lawrence A., Kiang, Juliann G., Madas, Balázs G., Powathil, Gibin, Sarapultseva, Elena I., Seymour, Colin B., Vo, Nguyen T.K., and Wood, Michael D.

Abstract

The objective of this paper is to present the results of discussions at a workshop held as part of the International Congress of Radiation Research (Environmental Health stream) in Manchester UK, 2019. The main objective of the workshop was to provide a platform for radioecologists to engage with radiobiologists to address major questions around developing an Ecosystem approach in radioecology and radiation protection of the environment. The aim was to establish a critical framework to guide research that would permit integration of a pan-ecosystem approach into radiation protection guidelines and regulation for the environment. The conclusions were that the interaction between radioecologists and radiobiologists is useful in particular in addressing field versus laboratory issues where there are issues and challenges in designing good field experiments and a need to cross validate field data against laboratory data and vice versa. Other main conclusions were that there is a need to appreciate wider issues in ecology to design good approaches for an ecosystems approach in radioecology and that with the capture of ‘Big Data’, novel tools such as machine learning can now be applied to help with the complex issues involved in developing an ecosystem approach.

Published
2022

27. The Mitogenome Relationships and Phylogeography of Barn Swallows (Hirundo rustica)

Author

Lombardo, Gianluca, primary, Rambaldi Migliore, Nicola, additional, Colombo, Giulia, additional, Capodiferro, Marco Rosario, additional, Formenti, Giulio, additional, Caprioli, Manuela, additional, Moroni, Elisabetta, additional, Caporali, Leonardo, additional, Lancioni, Hovirag, additional, Secomandi, Simona, additional, Gallo, Guido Roberto, additional, Costanzo, Alessandra, additional, Romano, Andrea, additional, Garofalo, Maria, additional, Cereda, Cristina, additional, Carelli, Valerio, additional, Gillespie, Lauren, additional, Liu, Yang, additional, Kiat, Yosef, additional, Marzal, Alfonso, additional, López-Calderón, Cosme, additional, Balbontín, Javier, additional, Mousseau, Timothy A., additional, Matyjasiak, Piotr, additional, Møller, Anders Pape, additional, Semino, Ornella, additional, Ambrosini, Roberto, additional, Bonisoli-Alquati, Andrea, additional, Rubolini, Diego, additional, Ferretti, Luca, additional, Achilli, Alessandro, additional, Gianfranceschi, Luca, additional, Olivieri, Anna, additional, and Torroni, Antonio, additional

Published
2022
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30. Pangenomics provides insights into the role of synanthropy in barn swallow evolution

Author

Simona Secomandi, Guido Roberto Gallo, Marcella Sozzoni, Alessio Iannucci, Elena Galati, Linelle Abueg, Jennifer Balacco, Manuela Caprioli, William Chow, Claudio Ciofi, Joanna Collins, Olivier Fedrigo, Luca Ferretti, Arkarachai Fungtammasan, Bettina Haase, Kerstin Howe, Woori Kwak, Gianluca Lombardo, Patrick Masterson, Graziella Messina, Anders Pape Møller, Jacquelyn Mountcastle, Timothy A. Mousseau, Joan Ferrer-Obiol, Anna Olivieri, Arang Rhie, Diego Rubolini, Marielle Saclier, Roscoe Stanyon, David Stucki, Françoise Thibaud-Nissen, James Torrance, Antonio Torroni, Kristina Weber, Roberto Ambrosini, Andrea Bonisoli-Alquati, Erich D. Jarvis, Luca Gianfranceschi, and Giulio Formenti

Abstract

Insights into the evolution of non-model organisms are often limited by the lack of reference genomes. As part of the Vertebrate Genomes Project, we present a new reference genome and a pangenome produced with High-Fidelity long reads for the barn swallow Hirundo rustica. We then generated a reference-free multialignment with other bird genomes to identify genes under selection. Conservation analyses pointed at genes enriched for transcriptional regulation and neurodevelopment. The most conserved gene is CAMK2N2, with a potential role in fear memory formation. In addition, using all publicly available data, we generated a comprehensive catalogue of genetic markers. Genome-wide linkage disequilibrium scans identified potential selection signatures at multiple loci. The top candidate region comprises several genes and includes BDNF, a gene involved in stress response, fear memory formation, and tameness. We propose that the strict association with humans in this species is linked with the evolution of pathways typically under selection in domesticated taxa.

Published
2022
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37. Pangenomics provides insights into the role of synanthropy in barn swallow evolution

Author

Secomandi, Simona, primary, Gallo, Guido Roberto, additional, Sozzoni, Marcella, additional, Iannucci, Alessio, additional, Galati, Elena, additional, Abueg, Linelle, additional, Balacco, Jennifer, additional, Caprioli, Manuela, additional, Chow, William, additional, Ciofi, Claudio, additional, Collins, Joanna, additional, Fedrigo, Olivier, additional, Ferretti, Luca, additional, Fungtammasan, Arkarachai, additional, Haase, Bettina, additional, Howe, Kerstin, additional, Kwak, Woori, additional, Lombardo, Gianluca, additional, Masterson, Patrick, additional, Messina, Graziella, additional, Møller, Anders Pape, additional, Mountcastle, Jacquelyn, additional, Mousseau, Timothy A., additional, Ferrer-Obiol, Joan, additional, Olivieri, Anna, additional, Rhie, Arang, additional, Rubolini, Diego, additional, Saclier, Marielle, additional, Stanyon, Roscoe, additional, Stucki, David, additional, Thibaud-Nissen, Françoise, additional, Torrance, James, additional, Torroni, Antonio, additional, Weber, Kristina, additional, Ambrosini, Roberto, additional, Bonisoli-Alquati, Andrea, additional, Jarvis, Erich D., additional, Gianfranceschi, Luca, additional, and Formenti, Giulio, additional

Published
2022
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42. Aspermy, sperm quality and radiation in Chernobyl birds.

Author

Anders Pape Møller, Andrea Bonisoli-Alquati, Timothy A Mousseau, and Geir Rudolfsen

Subjects
Medicine, Science
Abstract

BackgroundFollowing the Chernobyl nuclear power plant accident, large amounts of radionuclides were emitted and spread in the environment. Animals living in such contaminated areas are predicted to suffer fitness costs including reductions in the quality and quantity of gametes.Methodology/principal findingsWe studied whether aspermy and sperm quality were affected by radioactive contamination by examining ejaculates from wild caught birds breeding in areas varying in background radiation level by more than three orders of magnitude around Chernobyl, Ukraine. The frequency of males with aspermy increased logarithmically with radiation level. While 18.4% of males from contaminated areas had no sperm that was only the case for 3.0% of males from uncontaminated control areas. Furthermore, there were negative relationships between sperm quality as reflected by reduced sperm velocity and motility, respectively, and radiation.Conclusions/significanceOur results suggest that radioactive contamination around Chernobyl affects sperm production and quality. We are the first to report an interspecific difference in sperm quality in relation to radioactive contamination.

Published
2014
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44. Stable isotope analyses identify trophic niche partitioning between sympatric terrestrial vertebrates in coastal saltmarshes with differing oiling histories

Author

Moyo, Sydney, primary, Bennadji, Hayat, additional, Laguaite, Danielle, additional, Pérez-Umphrey, Anna A., additional, Snider, Allison M., additional, Bonisoli-Alquati, Andrea, additional, Olin, Jill A., additional, Stouffer, Philip C, additional, Taylor, Sabrina S., additional, López-Duarte, Paola C., additional, Roberts, Brian J., additional, Hooper-Bui, Linda, additional, and Polito, Michael J., additional

Published
2021
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46. Incorporation of Deepwater Horizon oil in a terrestrial bird

Author

A Bonisoli-Alquati, P C Stouffer, R E Turner, S Woltmann, and S S Taylor

Subjects
deepwater horizon, Macondo oil, oil pollution, oil spill, radiocarbon, environmental forensics, Environmental technology. Sanitary engineering, TD1-1066, Environmental sciences, GE1-350, Science, Physics, QC1-999
Abstract

Carbon isotopic evidence revealed Deepwater Horizon (DWH) oil entering coastal planktonic and lower terrestrial food webs. The integration of spilled oil into higher terrestrial trophic levels, however, remains uncertain. We measured radiocarbon ( ^14 C) and stable carbon ( ^13 C) in seaside sparrow ( Ammodramus maritimus ) feathers and crop contents. Lower ^14 C and ^13 C values in feathers and crop contents of birds from contaminated areas indicated incorporation of carbon from oil. Our results, although based on a small sample of birds, thus reveal a food-web link between oil exposure and a terrestrial ecosystem. They also suggest that the reduction in reproductive success previously documented in the same population might be due to the (direct) toxic effect of oil exposure, rather than to (indirect) ecological effects. We recommend future studies test our results by using larger samples of birds from a wider area in order to assess the extent and implications of DWH oil incorporation into the terrestrial food web.

Published
2016
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47. Integration of ecosystem science into radioecology: A consensus perspective

Author

James C. Beasley, Cara N. Love, Garth Gladfelder, Nicole E. Martinez, Austin Coleman, Teresa J. Mathews, E. A. Pryakhin, Travis C. Glenn, Arthur McKee, Steve Mihok, David S. White, François Bréchignac, Amelia K. Ward, Gary L. Mills, Jess K. Zimmerman, Caitlin Condon, Olin E. Rhodes, Ben Parrott, Robert A. Kennamer, William J. McShea, Lawrence W. Barnthouse, Dean E. Fletcher, Bernard Clément, Maryna Shkvyria, Carmel Mothersill, David E. Scott, John A. Arnone, Susan P. Hendricks, Michael Wood, Timothy A. DeVol, Ulrik Kautsky, Stacey L. Lance, Doug P. Aubrey, Lindsay R. Boring, Krista A. Capps, Clare Bradshaw, Albert L. Bryan, Ken Ishida, Thomas G. Hinton, Lisa Manglass, Colin Seymour, Gennadiy Laptyev, Tim Jannik, John C. Seaman, Brian A. Powell, Wendy W. Kuhne, Wes Flynn, Fanny Coutelot, Larry Kapustka, Guha Dharmarajan, Andrea Bonisoli-Alquati, Ann L. Rypstra, Savannah River Ecology Laboratory (SREL), University of Georgia [USA], Södertörn University College, University College Cork (UCC), Laboratoire d'Ecologie des Hydrosystèmes Naturels et Anthropisés (LEHNA), Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-École Nationale des Travaux Publics de l'État (ENTPE)-Centre National de la Recherche Scientifique (CNRS), Géoressources et environnement, Institut Polytechnique de Bordeaux (Bordeaux INP)-Université Bordeaux Montaigne, and McMaster Univ, Med Phys & Appl Radiat Sci Dept, Hamilton, ON, Canada

Subjects
Ecosystem health, medicine.medical_specialty, Environmental Engineering, 010504 meteorology & atmospheric sciences, Ecosystem ecology Ecosystem health Ecotoxicology Radioecology Radionuclides Risk assessment, Inference, 010501 environmental sciences, 15. Life on land, 16. Peace & justice, 01 natural sciences, Pollution, Radioecology, 13. Climate action, Radiological weapon, Causal inference, medicine, Environmental Chemistry, Ecosystem, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, Ecosystem ecology, Risk assessment, Psychology, Waste Management and Disposal, Environmental planning, 0105 earth and related environmental sciences
Abstract

International audience; In the Fall of 2016 a workshop was held which brought together over 50 scientists from the ecological and radio- logical fields to discuss feasibility and challenges of reintegrating ecosystem science into radioecology. There is a growing desire to incorporate attributes of ecosystem science into radiological risk assessment and radioecological research more generally, fueled by recent advances in quantification of emergent ecosystem at- tributes and the desire to accurately reflect impacts of radiological stressors upon ecosystem function. This paper is a synthesis of the discussions and consensus of the workshop participant's responses to three primary questions, which were: 1) How can ecosystem science support radiological risk assessment? 2) What ecosystem level endpoints potentially could be used for radiological risk assessment? and 3) What inference strategies and associated methods would be most appropriate to assess the effects of radionuclides on ecosystem structure and function? The consensus of the participants was that ecosystem science can and should support radiological risk assessment through the incorporation of quantitative metrics that reflect ecosystem functions which are sensi- tive to radiological contaminants. The participants also agreed that many such endpoints exit or are thought to exit and while many are used in ecological risk assessment currently, additional data need to be collected that link the causal mechanisms of radiological exposure to these endpoints. Finally, the participants agreed that ra- diological risk assessments must be designed and informed by rigorous statistical frameworks capable of reveal- ing the causal inference tying radiological exposure to the endpoints selected for measurement.

Published
2020
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48. From tangled banks to toxic bunnies; a reflection on the issues involved in developing an ecosystem approach for environmental radiation protection

Author

Lawrence A. Kapustka, Tanya H. Hevrøy, Stanislav A. Geras’kin, Michael Wood, Carmel Mothersill, Nguyen T.K. Vo, Gibin G. Powathil, Nicholas A. Beresford, Nele Horemans, Christelle Adam-Guillermin, Yuri E. Dubrova, Elena I. Sarapultseva, Michael Abend, Balázs G. Madas, Deborah Oughton, Jason Cohen, Juliann G. Kiang, Kathryn A. Higley, Andrea Bonisoli-Alquati, Paul N. Schofield, Colin Seymour, Kentaro Ariyoshi, and Awadhesh N. Jha

Subjects
medicine.medical_specialty, Reflection (computer programming), Radiological and Ultrasound Technology, Ecology, business.industry, Computer science, Ecology (disciplines), Big data, Field (computer science), Ecology and Environment, 030218 nuclear medicine & medical imaging, 03 medical and health sciences, 0302 clinical medicine, Radioecology, Radiation Protection, Risk analysis (engineering), 030220 oncology & carcinogenesis, International congress, Ecosystem approach, medicine, Radiology, Nuclear Medicine and imaging, Radiation protection, business, Ecosystem
Abstract

The objective of this paper is to present the results of discussions at a workshop held as part of the International Congress of Radiation Research (Environmental Health stream) in Manchester UK, 2019. The main objective of the workshop was to provide a platform for radioecologists to engage with radiobiologists to address major questions around developing an Ecosystem approach in radioecology and radiation protection of the environment. The aim was to establish a critical framework to guide research that would permit integration of a pan-ecosystem approach into radiation protection guidelines and regulation for the environment. The conclusions were that the interaction between radioecologists and radiobiologists is useful in particular in addressing field versus laboratory issues where there are issues and challenges in designing good field experiments and a need to cross validate field data against laboratory data and vice versa. Other main conclusions were that there is a need to appreciate wider issues in ecology to design good approaches for an ecosystems approach in radioecology and that with the capture of 'Big Data', novel tools such as machine learning can now be applied to help with the complex issues involved in developing an ecosystem approach.

Published
2020

49. Elevated mortality among birds in Chernobyl as judged from skewed age and sex ratios.

Author

Anders Pape Møller, Andrea Bonisoli-Alquati, Geir Rudolfsen, and Timothy A Mousseau

Subjects
Medicine, Science
Abstract

BackgroundRadiation has negative effects on survival of animals including humans, although the generality of this claim is poorly documented under low-dose field conditions. Because females may suffer disproportionately from the effects of radiation on survival due to differences in sex roles during reproduction, radiation-induced mortality may result in male-skewed adult sex ratios.Methodology/principal findingWe estimated the effects of low-dose radiation on adult survival rates in birds by determining age ratios of adults captured in mist nets during the breeding season in relation to background radiation levels around Chernobyl and in nearby uncontaminated control areas. Age ratios were skewed towards yearlings, especially in the most contaminated areas, implying that adult survival rates were reduced in contaminated areas, and that populations in such areas could only be maintained through immigration from nearby uncontaminated areas. Differential mortality in females resulted in a strongly male-skewed sex ratio in the most contaminated areas. In addition, males sang disproportionately commonly in the most contaminated areas where the sex ratio was male skewed presumably because males had difficulty finding and acquiring mates when females were rare. The results were not caused by permanent emigration by females from the most contaminated areas because none of the recaptured birds had changed breeding site, and the proportion of individuals with morphological abnormalities did not differ significantly between the sexes for areas with normal and higher levels of contamination.Conclusions/significanceThese findings are consistent with the hypothesis that the adult survival rate of female birds is particularly susceptible to the effects of low-dose radiation, resulting in male skewed sex ratios at high levels of radiation. Such skewed age ratios towards yearlings in contaminated areas are consistent with the hypothesis that an area exceeding 30,000 km(2) in Chernobyl's surroundings constitutes an ecological trap that causes dramatic excess mortality.

Published
2012
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50. Integration of ecosystem science into radioecology : A consensus perspective

Author

Rhodes, Olin E., Brechignac, Francois, Bradshaw, Clare, Hinton, Thomas G., Mothersill, Carmel, Arnone, John A., Aubrey, Doug P., Barnthouse, Lawrence W., Beasley, James C., Bonisoli-Alquati, Andrea, Boring, Lindsay R., Bryan, Albert L., Capps, Krista A., Clement, Bernard, Coleman, Austin, Condon, Caitlin, Coutelot, Fanny, DeVol, Timothy, Dharmarajan, Guha, Fletcher, Dean, Flynn, Wes, Gladfelder, Garth, Glenn, Travis C., Hendricks, Susan, Ishida, Ken, Jannik, Tim, Kapustka, Larry, Kautsky, Ulrik, Kennamer, Robert, Kuhne, Wendy, Lance, Stacey, Laptyev, Gennadiy, Love, Cara, Manglass, Lisa, Martinez, Nicole, Mathews, Teresa, McKee, Arthur, McShea, William, Mihok, Steve, Mills, Gary, Parrott, Ben, Powell, Brian, Pryakhin, Evgeny, Rypstra, Ann, Scott, David, Seaman, John, Seymour, Colin, Shkvyria, Maryna, Ward, Amelia, White, David, Wood, Michael D., Zimmerman, Jess K., Rhodes, Olin E., Brechignac, Francois, Bradshaw, Clare, Hinton, Thomas G., Mothersill, Carmel, Arnone, John A., Aubrey, Doug P., Barnthouse, Lawrence W., Beasley, James C., Bonisoli-Alquati, Andrea, Boring, Lindsay R., Bryan, Albert L., Capps, Krista A., Clement, Bernard, Coleman, Austin, Condon, Caitlin, Coutelot, Fanny, DeVol, Timothy, Dharmarajan, Guha, Fletcher, Dean, Flynn, Wes, Gladfelder, Garth, Glenn, Travis C., Hendricks, Susan, Ishida, Ken, Jannik, Tim, Kapustka, Larry, Kautsky, Ulrik, Kennamer, Robert, Kuhne, Wendy, Lance, Stacey, Laptyev, Gennadiy, Love, Cara, Manglass, Lisa, Martinez, Nicole, Mathews, Teresa, McKee, Arthur, McShea, William, Mihok, Steve, Mills, Gary, Parrott, Ben, Powell, Brian, Pryakhin, Evgeny, Rypstra, Ann, Scott, David, Seaman, John, Seymour, Colin, Shkvyria, Maryna, Ward, Amelia, White, David, Wood, Michael D., and Zimmerman, Jess K.

Abstract

In the Fall of 2016 a workshop was held which brought together over 50 scientists from the ecological and radiological fields to discuss feasibility and challenges of reintegrating ecosystem science into radioecology. There is a growing desire to incorporate attributes of ecosystem science into radiological risk assessment and radioecological research more generally, fueled by recent advances in quantification of emergent ecosystem attributes and the desire to accurately reflect impacts of radiological stressors upon ecosystem function. This paper is a synthesis of the discussions and consensus of the workshop participant's responses to three primary questions, which were: 1) How can ecosystem science support radiological risk assessment? 2) What ecosystem level endpoints potentially could be used for radiological risk assessment? and 3) What inference strategies and associated methods would be most appropriate to assess the effects of radionuclides on ecosystem structure and function? The consensus of the participants was that ecosystem science can and should support radiological risk assessment through the incorporation of quantitative metrics that reflect ecosystem functions which are sensitive to radiological contaminants. The participants also agreed that many such endpoints exit or are thought to exit and while many are used in ecological risk assessment currently, additional data need to be collected that link the causal mechanisms of radiological exposure to these endpoints. Finally, the participants agreed that radiological risk assessments must be designed and informed by rigorous statistical frameworks capable of revealing the causal inference tying radiological exposure to the endpoints selected for measurement.

Published
2020
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