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Caizergues AE, Santangelo JS, Ness RW, Angeoletto F, Anstett DN, Anstett J, Baena-Diaz F, Carlen EJ, Chaves JA, Comerford MS, Dyson K, Falahati-Anbaran M, Fellowes MDE, Hodgins KA, Hood GR, Iñiguez-Armijos C, Kooyers NJ, Lázaro-Lobo A, Moles AT, Munshi-South J, Paule J, Porth IM, Santiago-Rosario LY, Whitney KS, Tack AJM, Johnson MTJ. Does urbanisation lead to parallel demographic shifts across the world in a cosmopolitan plant? Mol Ecol 2024; 33:e17311. [PMID: 38468155 DOI: 10.1111/mec.17311] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/15/2023] [Revised: 12/08/2023] [Accepted: 01/30/2024] [Indexed: 03/13/2024]
Abstract
Urbanisation is occurring globally, leading to dramatic environmental changes that are altering the ecology and evolution of species. In particular, the expansion of human infrastructure and the loss and fragmentation of natural habitats in cities is predicted to increase genetic drift and reduce gene flow by reducing the size and connectivity of populations. Alternatively, the 'urban facilitation model' suggests that some species will have greater gene flow into and within cities leading to higher diversity and lower differentiation in urban populations. These alternative hypotheses have not been contrasted across multiple cities. Here, we used the genomic data from the GLobal Urban Evolution project (GLUE), to study the effects of urbanisation on non-adaptive evolutionary processes of white clover (Trifolium repens) at a global scale. We found that white clover populations presented high genetic diversity and no evidence of reduced Ne linked to urbanisation. On the contrary, we found that urban populations were less likely to experience a recent decrease in effective population size than rural ones. In addition, we found little genetic structure among populations both globally and between urban and rural populations, which showed extensive gene flow between habitats. Interestingly, white clover displayed overall higher gene flow within urban areas than within rural habitats. Our study provides the largest comprehensive test of the demographic effects of urbanisation. Our results contrast with the common perception that heavily altered and fragmented urban environments will reduce the effective population size and genetic diversity of populations and contribute to their isolation.
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Affiliation(s)
- Aude E Caizergues
- Centre for Urban Environments, University of Toronto Mississauga, Mississauga, Ontario, Canada
- Department of Biology, University of Toronto Mississauga, Mississauga, Ontario, Canada
| | - James S Santangelo
- Department of Integrative Biology, University of California Berkeley, Berkeley, California, USA
| | - Rob W Ness
- Centre for Urban Environments, University of Toronto Mississauga, Mississauga, Ontario, Canada
- Department of Biology, University of Toronto Mississauga, Mississauga, Ontario, Canada
| | - Fabio Angeoletto
- Programa de Pós-Graduação em Gestão e Tecnologia Ambiental da Universidade Federal de Rondonópolis, Rondonópolis, Brasil
| | - Daniel N Anstett
- Department of Plant Biology, Department of Entomology, Plant Resilience Institute, Michigan State University, East Lansing, Michigan, USA
| | - Julia Anstett
- Genomic Sciences and Technology Program, University of British Columbia, Vancouver, British Columbia, Canada
- Department of Microbiology and Immunology, University of British Columbia, Vancouver, British Columbia, Canada
| | | | - Elizabeth J Carlen
- Living Earth Collaborative, Washington University in St. Louis, St. Louis, Missouri, USA
| | - Jaime A Chaves
- Universidad San Francisco de Quito, Ecuador, Quito
- San Francisco State University, San Francisco, California, USA
| | - Mattheau S Comerford
- Department of Biology, University of Massachusetts Boston, Boston, Massachusetts, USA
| | | | | | | | - Kathryn A Hodgins
- School of Biological Sciences, Monash University, Melbourne, Victoria, Australia
| | - Glen Ray Hood
- Department of Biological Sciences, Wayne State University, Detroit, Michigan, USA
| | - Carlos Iñiguez-Armijos
- Laboratorio de Ecología Tropical y Servicios Ecosistémicos (EcoSs-Lab), Universidad Técnica Particular de Loja, Loja, Ecuador
| | | | - Adrián Lázaro-Lobo
- Biodiversity Research Institute (IMIB), CSIC-University of Oviedo-Principality of Asturias, Mieres, Spain
| | - Angela T Moles
- Evolution & Ecology Research Centre, UNSW-University of New South Wales, Sydney, New South Wales, Australia
| | - Jason Munshi-South
- Department of Biology and Louis Calder Center, Fordham University, New York City, New York, USA
| | - Juraj Paule
- Botanischer Garten und Botanisches Museum Berlin, Freie Universität Berlin, Berlin, Germany
| | - Ilga M Porth
- Institut de biologie intégrative et des systèmes, Université Laval, Quebec City, Quebec, Canada
| | - Luis Y Santiago-Rosario
- Department of Ecology, Evolution and Behavior, University of Minnesota, St. Paul, Minnesota, USA
| | - Kaitlin Stack Whitney
- Science, Technology & Society Department, Rochester Institute of Technology, Rochester, New York, USA
| | - Ayko J M Tack
- Department of Ecology, Environment and Plant Sciences, Stockholm University, Stockholm, Sweden
| | - Marc T J Johnson
- Centre for Urban Environments, University of Toronto Mississauga, Mississauga, Ontario, Canada
- Department of Biology, University of Toronto Mississauga, Mississauga, Ontario, Canada
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2
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Urquía DO, Anslan S, Asadobay P, Moreira‐Mendieta A, Vences M, Chaves JA, Páez‐Rosas D. DNA-metabarcoding supports trophic flexibility and reveals new prey species for the Galapagos sea lion. Ecol Evol 2024; 14:e10921. [PMID: 38435015 PMCID: PMC10905234 DOI: 10.1002/ece3.10921] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2023] [Revised: 12/02/2023] [Accepted: 12/22/2023] [Indexed: 03/05/2024] Open
Abstract
Tropical ecosystems are challenging for pinnipeds due to fluctuating food availability. According to previous research, the Galapagos sea lion (GSL, Zalophus wollebaeki) adopts trophic flexibility to face such conditions. However, this hypothesis comes from studies using traditional methods (hard-parts analysis of scat and isotopic analysis from tissue). We studied the diet of five rookeries in the southeastern Galapagos bioregion (which harbors the highest GSL density), via DNA-metabarcoding of scat samples. The DNA-metabarcoding approach may identify consumed prey with a higher taxonomic resolution than isotopic analysis, while not depending on hard-parts remaining through digestion. Our study included five different rookeries to look for evidence of trophic flexibility at the bioregional level. We detected 98 prey OTUs (124 scats), mostly assigned to bony-fish taxa; we identified novel prey items, including a shark, rays, and several deep-sea fish. Our data supported the trophic flexibility of GSL throughout the studied bioregion since different individuals from the same rookery consumed prey coming from different habitats and trophic levels. Significant diet differentiations were found among rookeries, particularly between Punta Pitt and Santa Fe. Punta Pitt rookery, with a more pronounced bathymetry and lower productivity, was distinguished by a high trophic level and consumption of a high proportion of deep-sea prey; meanwhile, Santa Fe, located in more productive, shallow waters over the shelf, consumed a high proportion of epipelagic planktivorous fish. Geographic location and heterogeneous bathymetry of El Malecon, Española, and Floreana rookeries would allow the animals therein to access both, epipelagic prey over the shelf, and deep-sea prey out of the shelf; this would lead to a higher prey richness and diet variability there. These findings provide evidence of GSL adopting a trophic flexibility to tune their diets to different ecological contexts. This strategy would be crucial for this endangered species to overcome the challenges faced in a habitat with fluctuating foraging conditions.
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Affiliation(s)
- Diego O. Urquía
- Maestría en Ecología Tropical y Conservación, Universidad San Francisco de Quito USFQQuitoEcuador
- Galapagos Science Center, Universidad San Francisco de Quito USFQIslas GalápagosEcuador
| | - Sten Anslan
- Institute of Ecology and Earth SciencesUniversity of TartuTartuEstonia
- Deptartment of Biological and Environmental ScienceUniversity of JyväskyläJyväskyläFinland
| | - Pacarina Asadobay
- Galapagos Science Center, Universidad San Francisco de Quito USFQIslas GalápagosEcuador
| | - Andrés Moreira‐Mendieta
- Maestría en Ecología Tropical y Conservación, Universidad San Francisco de Quito USFQQuitoEcuador
- Galapagos Science Center, Universidad San Francisco de Quito USFQIslas GalápagosEcuador
| | - Miguel Vences
- Zoological Institute, Technische Universität BraunschweigBraunschweigGermany
| | - Jaime A. Chaves
- Galapagos Science Center, Universidad San Francisco de Quito USFQIslas GalápagosEcuador
- Department of BiologySan Francisco State UniversitySan FranciscoCaliforniaUSA
- Colegio de Ciencias Biológicas y AmbientalesUniversidad San Francisco de QuitoQuitoEcuador
| | - Diego Páez‐Rosas
- Galapagos Science Center, Universidad San Francisco de Quito USFQIslas GalápagosEcuador
- Colegio de Ciencias Biológicas y AmbientalesUniversidad San Francisco de QuitoQuitoEcuador
- Dirección Parque Nacional Galápagos, Unidad Técnica Operativa San CristóbalIslas GalápagosEcuador
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Knutie SA, Webster CN, Vaziri GJ, Albert L, Harvey JA, LaRue M, Verrett TB, Soldo A, Koop JAH, Chaves JA, Wegrzyn JL. Urban living can rescue Darwin's finches from the lethal effects of invasive vampire flies. Glob Chang Biol 2024; 30:e17145. [PMID: 38273516 DOI: 10.1111/gcb.17145] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/06/2023] [Revised: 12/15/2023] [Accepted: 12/21/2023] [Indexed: 01/27/2024]
Abstract
Human activity changes multiple factors in the environment, which can have positive or negative synergistic effects on organisms. However, few studies have explored the causal effects of multiple anthropogenic factors, such as urbanization and invasive species, on animals and the mechanisms that mediate these interactions. This study examines the influence of urbanization on the detrimental effect of invasive avian vampire flies (Philornis downsi) on endemic Darwin's finches in the Galápagos Islands. We experimentally manipulated nest fly abundance in urban and non-urban locations and then characterized nestling health, fledging success, diet, and gene expression patterns related to host defense. Fledging success of non-parasitized nestlings from urban (79%) and non-urban (75%) nests did not differ significantly. However, parasitized, non-urban nestlings lost more blood, and fewer nestlings survived (8%) compared to urban nestlings (50%). Stable isotopic values (δ15 N) from urban nestling feces were higher than those from non-urban nestlings, suggesting that urban nestlings are consuming more protein. δ15 N values correlated negatively with parasite abundance, which suggests that diet might influence host defenses (e.g., tolerance and resistance). Parasitized, urban nestlings differentially expressed genes within pathways associated with red blood cell production (tolerance) and pro-inflammatory response (innate immunological resistance), compared to parasitized, non-urban nestlings. In contrast, parasitized non-urban nestlings differentially expressed genes within pathways associated with immunoglobulin production (adaptive immunological resistance). Our results suggest that urban nestlings are investing more in pro-inflammatory responses to resist parasites but also recovering more blood cells to tolerate blood loss. Although non-urban nestlings are mounting an adaptive immune response, it is likely a last effort by the immune system rather than an effective defense against avian vampire flies since few nestlings survived.
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Affiliation(s)
- Sarah A Knutie
- Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, Connecticut, USA
- Institute for Systems Genomics, University of Connecticut, Storrs, Connecticut, USA
| | - Cynthia N Webster
- Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, Connecticut, USA
| | - Grace J Vaziri
- Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, Connecticut, USA
| | - Lauren Albert
- Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, Connecticut, USA
| | - Johanna A Harvey
- Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, Connecticut, USA
- Department of Science and Technology, University of Maryland, College Park, Maryland, USA
| | - Michelle LaRue
- School of Earth and Environment, University of Canterbury, Christchurch, New Zealand
| | - Taylor B Verrett
- Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, Connecticut, USA
| | - Alexandria Soldo
- Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, Connecticut, USA
| | - Jennifer A H Koop
- Department of Biological Sciences, Northern Illinois University, DeKalb, Illinois, USA
| | - Jaime A Chaves
- Department of Biology, San Francisco State University, San Francisco, California, USA
- Colegio de Ciencias Biológicas y Ambientales, Universidad San Francisco de Quito, Quito, Ecuador
| | - Jill L Wegrzyn
- Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, Connecticut, USA
- Institute for Systems Genomics, University of Connecticut, Storrs, Connecticut, USA
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4
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Beausoleil MO, Carrión PL, Podos J, Camacho C, Rabadán-González J, Richard R, Lalla K, Raeymaekers JAM, Knutie SA, De León LF, Chaves JA, Clayton DH, Koop JAH, Sharpe DMT, Gotanda KM, Huber SK, Barrett RDH, Hendry AP. The fitness landscape of a community of Darwin's finches. Evolution 2023; 77:2533-2546. [PMID: 37671423 DOI: 10.1093/evolut/qpad160] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/05/2023] [Revised: 06/22/2023] [Accepted: 08/31/2023] [Indexed: 09/07/2023]
Abstract
Divergent natural selection should lead to adaptive radiation-that is, the rapid evolution of phenotypic and ecological diversity originating from a single clade. The drivers of adaptive radiation have often been conceptualized through the concept of "adaptive landscapes," yet formal empirical estimates of adaptive landscapes for natural adaptive radiations have proven elusive. Here, we use a 17-year dataset of Darwin's ground finches (Geospiza spp.) at an intensively studied site on Santa Cruz (Galápagos) to estimate individual apparent lifespan in relation to beak traits. We use these estimates to model a multi-species fitness landscape, which we also convert to a formal adaptive landscape. We then assess the correspondence between estimated fitness peaks and observed phenotypes for each of five phenotypic modes (G. fuliginosa, G. fortis [small and large morphotypes], G. magnirostris, and G. scandens). The fitness and adaptive landscapes show 5 and 4 peaks, respectively, and, as expected, the adaptive landscape was smoother than the fitness landscape. Each of the five phenotypic modes appeared reasonably close to the corresponding fitness peak, yet interesting deviations were also documented and examined. By estimating adaptive landscapes in an ongoing adaptive radiation, our study demonstrates their utility as a quantitative tool for exploring and predicting adaptive radiation.
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Affiliation(s)
| | - Paola Lorena Carrión
- Redpath Museum and Department of Biology, McGill University, Montréal, Québec, Canada
| | - Jeffrey Podos
- Department of Biology, University of Massachusetts Amherst, Amherst, MA, United States
| | - Carlos Camacho
- Department of Ecology and Evolution, Estación Biológica de Doñana-CSIC, Sevilla, Spain
| | | | - Roxanne Richard
- Redpath Museum and Department of Biology, McGill University, Montréal, Québec, Canada
| | - Kristen Lalla
- Department of Natural Resource Sciences, McGill University, Sainte-Anne-de-Bellevue, Québec, Canada
| | | | - Sarah A Knutie
- Department of Ecology and Evolutionary Biology, Institute for Systems Genomics, University of Connecticut, Storrs, CT, United States
| | - Luis F De León
- Department of Biology, University of Massachusetts Boston, Boston, MA, United States
| | - Jaime A Chaves
- Department of Biology, San Francisco State University, San Francisco, CA, United States
- Colegio de Ciencias Biológicas y Ambientales, Universidad San Francisco de Quito, Quito, Ecuador
| | - Dale H Clayton
- School of Biological Sciences, University of Utah, Salt Lake City, UT, United States
| | - Jennifer A H Koop
- Department of Biological Sciences, Northern Illinois University, DeKalb, IL, United States
| | - Diana M T Sharpe
- Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA, United States
| | - Kiyoko M Gotanda
- Redpath Museum and Department of Biology, McGill University, Montréal, Québec, Canada
- Department of Biological Sciences, Brock University, St. Catharines, Ontario, Canada
- Department of Zoology, University of Cambridge, United Kingdom
- Département de biologie, Université de Sherbrooke, Québec, Canada
| | - Sarah K Huber
- Virginia Institute of Marine Science, William and Mary, Gloucester Point, VA, United States
| | - Rowan D H Barrett
- Redpath Museum and Department of Biology, McGill University, Montréal, Québec, Canada
| | - Andrew P Hendry
- Redpath Museum and Department of Biology, McGill University, Montréal, Québec, Canada
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5
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Solomon G, Love AC, Vaziri GJ, Harvey J, Verrett T, Chernicky K, Simons S, Albert L, Chaves JA, Knutie SA. Effect of urbanization and parasitism on the gut microbiota of Darwin's finch nestlings. Mol Ecol 2023; 32:6059-6069. [PMID: 37837269 DOI: 10.1111/mec.17164] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2023] [Revised: 09/20/2023] [Accepted: 10/02/2023] [Indexed: 10/15/2023]
Abstract
Host-associated microbiota can be affected by factors related to environmental change, such as urbanization and invasive species. For example, urban areas often affect food availability for animals, which can change their gut microbiota. Invasive parasites can also influence microbiota through competition or indirectly through a change in the host immune response. These interacting factors can have complex effects on host fitness, but few studies have disentangled the relationship between urbanization and parasitism on an organism's gut microbiota. To address this gap in knowledge, we investigated the effects of urbanization and parasitism by the invasive avian vampire fly (Philornis downsi) on the gut microbiota of nestling small ground finches (Geospiza fuliginosa) on San Cristóbal Island, Galápagos. We conducted a factorial study in which we experimentally manipulated parasite presence in an urban and nonurban area. Faeces were then collected from nestlings to characterize the gut microbiota (i.e. bacterial diversity and community composition). Although we did not find an interactive effect of urbanization and parasitism on the microbiota, we did find main effects of each variable. We found that urban nestlings had lower bacterial diversity and different relative abundances of taxa compared to nonurban nestlings, which could be mediated by introduction of the microbiota of the food items or changes in host physiology. Additionally, parasitized nestlings had lower bacterial richness than nonparasitized nestlings, which could be mediated by a change in the immune system. Overall, this study advances our understanding of the complex effects of anthropogenic stressors on the gut microbiota of birds.
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Affiliation(s)
- Gabrielle Solomon
- Department of Ecology and Evolutionary Biology, University of Connecticut, Connecticut, Storrs, USA
| | - Ashley C Love
- Department of Ecology and Evolutionary Biology, University of Connecticut, Connecticut, Storrs, USA
| | - Grace J Vaziri
- Department of Ecology and Evolutionary Biology, University of Connecticut, Connecticut, Storrs, USA
| | - Johanna Harvey
- Department of Ecology and Evolutionary Biology, University of Connecticut, Connecticut, Storrs, USA
| | - Taylor Verrett
- Department of Ecology and Evolutionary Biology, University of Connecticut, Connecticut, Storrs, USA
| | - Kiley Chernicky
- Department of Ecology and Evolutionary Biology, University of Connecticut, Connecticut, Storrs, USA
| | - Shelby Simons
- Department of Ecology and Evolutionary Biology, University of Connecticut, Connecticut, Storrs, USA
| | - Lauren Albert
- Department of Ecology and Evolutionary Biology, University of Connecticut, Connecticut, Storrs, USA
| | - Jaime A Chaves
- Colegio de Ciencias Biológicas y Ambientales, Universidad San Francisco de Quito, Quito, Ecuador
- Galapagos Science Center, Puerto Baquerizo Moreno, Galapagos, Ecuador
- Department of Biology, San Francisco State University, California, San Francisco, USA
| | - Sarah A Knutie
- Department of Ecology and Evolutionary Biology, University of Connecticut, Connecticut, Storrs, USA
- Colegio de Ciencias Biológicas y Ambientales, Universidad San Francisco de Quito, Quito, Ecuador
- Institute for Systems Genomics, University of Connecticut, Connecticut, Storrs, USA
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Zapata S, Galati EAB, Chaves JA, Artigas P, Gantier JC, Bargues MD, Mas-Coma S, Depaquit J. Molecular phylogeny of Psychodopygina (Diptera, Psychodidae) supporting morphological systematics of this group of vectors of New World tegumentary leishmaniasis. Parasite 2023; 30:18. [PMID: 37222517 DOI: 10.1051/parasite/2023018] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2023] [Accepted: 04/26/2023] [Indexed: 05/25/2023] Open
Abstract
New World sandflies are vectors of leishmaniasis, bartonellosis, and some arboviruses. A classification based on 88 morphological characters was proposed 27 years ago when the New World phlebotomines were organized into two tribes Hertigiini and Phlebotomini. The latter was structured into four subtribes (Brumptomyiina, Sergentomyiina, Lutzomyiina, and Psychodopygina) and 20 genera. The subtribe Psychodopygina, including most of the American vectors of tegumentary Leishmania comprises seven genera from which no molecular work has been produced to support this classification. Here, we carried out a molecular phylogeny based on combined sequences (1,334 bp) of two genes: partial 28S rDNA and mtDNA cytochrome b from 47 taxa belonging to the Psychodopygina. The Bayesian phylogenetic reconstruction agreed with the classification based on morphological characters, supporting the monophyly of the genera Psychodopygus and Psathyromyia, whereas Nyssomyia and Trichophoromyia seemed to be paraphyletic. The paraphylies of the two latter groups were exclusively caused by the doubtful position of the species Ny. richardwardi. Our molecular analysis provides additional support to adopt the morphologic classification of Psychodopygina.
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Affiliation(s)
- Sonia Zapata
- Instituto de Microbiología, Colegio de Ciencias Biológicas y Ambientales, Universidad San Francisco de Quito, 170901 Quito, Ecuador - Estación de Biodiversidad Tiputini, Colegio de Ciencias Biológicas y Ambientales, Universidad San Francisco de Quito USFQ, 170901 Quito, Ecuador
| | - Eunice A B Galati
- Departamento de Epidemiologia, Faculdade de Saúde Pública, Universidade de São Paulo, SP 01246-904, São Paulo, Brazil
| | - Jaime A Chaves
- Colegio de Ciencias Biológicas y Ambientales, Campus Cumbayá, Universidad San Francisco de Quito, Diego de Robles y Av. Interoceánica, Cumbayá, 170901 Quito, Ecuador - Department of Biology, San Francisco State University, 1600 Holloway Ave, San Francisco, CA 94132, USA
| | - Patricio Artigas
- Departamento de Parasitología, Facultad de Farmacia, Universidad de Valencia, Burjassot, Av. Vicente Andrés Estellés s/n, 46100 Burjassot, Valencia, Spain - CIBER de Enfermedades Infecciosas, Instituto de Salud Carlos III, C/Monforte de Lemos 3-5. Pabellón 11. Planta 0, 28029 Madrid, Spain
| | - Jean-Charles Gantier
- Laboratoire des Identifications Entomologiques et Fongiques, 91540 Mennecy, France
| | - Maria Dolores Bargues
- Departamento de Parasitología, Facultad de Farmacia, Universidad de Valencia, Burjassot, Av. Vicente Andrés Estellés s/n, 46100 Burjassot, Valencia, Spain - CIBER de Enfermedades Infecciosas, Instituto de Salud Carlos III, C/Monforte de Lemos 3-5. Pabellón 11. Planta 0, 28029 Madrid, Spain
| | - Santiago Mas-Coma
- Departamento de Parasitología, Facultad de Farmacia, Universidad de Valencia, Burjassot, Av. Vicente Andrés Estellés s/n, 46100 Burjassot, Valencia, Spain - CIBER de Enfermedades Infecciosas, Instituto de Salud Carlos III, C/Monforte de Lemos 3-5. Pabellón 11. Planta 0, 28029 Madrid, Spain
| | - Jérôme Depaquit
- Université de Reims Champagne-Ardenne, Structure Fédérative de Recherche Cap Santé, EA 7510 Escape, USC ANSES Petard, Reims, France - Laboratoire de Parasitologie-Mycologie, Pôle Biologie, Centre Hospitalier Universitaire, Reims, France
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Reyes‐Corral WD, Carvajal‐Endara S, Hetherington‐Rauth M, Chaves JA, Grant PR, Grant BR, Hendry AP, Johnson MTJ. Phenotypic divergence of traits that mediate antagonistic and mutualistic interactions between island and continental populations of the tropical plant, Tribulus cistoides (Zygophyllaceae). Ecol Evol 2023; 13:e9766. [PMID: 36969922 PMCID: PMC10031297 DOI: 10.1002/ece3.9766] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/26/2022] [Accepted: 01/08/2023] [Indexed: 03/24/2023] Open
Abstract
Island systems have long served as a model for evolutionary processes due to their unique species interactions. Many studies of the evolution of species interactions on islands have focused on endemic taxa. Fewer studies have focused on how antagonistic and mutualistic interactions shape the phenotypic divergence of widespread nonendemic species living on islands. We used the widespread plant Tribulus cistoides (Zygophyllaceae) to study phenotypic divergence in traits that mediate antagonistic interactions with vertebrate granivores (birds) and mutualistic interactions with pollinators, including how this is explained by bioclimatic variables. We used both herbarium specimens and field‐collected samples to compare phenotypic divergence between continental and island populations. Fruits from island populations were larger than on continents, but the presence of lower spines on mericarps was less frequent on islands. The presence of spines was largely explained by environmental variation among islands. Petal length was on average 9% smaller on island than continental populations, an effect that was especially accentuated on the Galápagos Islands. Our results show that Tribulus cistoides exhibits phenotypic divergence between island and continental habitats for antagonistic traits (seed defense) and mutualistic traits (floral traits). Furthermore, the evolution of phenotypic traits that mediate antagonistic and mutualistic interactions partially depended on the abiotic characteristics of specific islands. This study shows the potential of using a combination of herbarium and field samples for comparative studies on a globally distributed species to study phenotypic divergence on island habitats.
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Affiliation(s)
| | - Sofia Carvajal‐Endara
- Department of Biology and Redpath MuseumMcGill UniversityMontréalQuébecCanada
- Centro de Investigación en Biodiversidad y Cambio Climático (BioCamb), Ingeniería en Biodiversidad y Recursos Genéticos, Facultad de Ciencias del Medio AmbienteUniversidad Tecnológica IndoaméricaQuitoEcuador
| | | | - Jaime A. Chaves
- Colegio de Ciencias Biológicas y AmbientalesUniversidad San Francisco de QuitoQuitoEcuador
- Department of BiologyHensill HallSan FranciscoCaliforniaUSA
| | - Peter R. Grant
- Department of Ecology and Evolutionary BiologyPrinceton UniversityPrincetonNew JerseyUSA
| | - B. Rosemary Grant
- Department of Ecology and Evolutionary BiologyPrinceton UniversityPrincetonNew JerseyUSA
| | - Andrew P. Hendry
- Department of Biology and Redpath MuseumMcGill UniversityMontréalQuébecCanada
| | - Marc T. J. Johnson
- Department of BiologyUniversity of Toronto MississaugaMississaugaOntarioCanada
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8
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Cerca J, Cotoras DD, Bieker VC, De-Kayne R, Vargas P, Fernández-Mazuecos M, López-Delgado J, White O, Stervander M, Geneva AJ, Guevara Andino JE, Meier JI, Roeble L, Brée B, Patiño J, Guayasamin JM, Torres MDL, Valdebenito H, Castañeda MDR, Chaves JA, Díaz PJ, Valente L, Knope ML, Price JP, Rieseberg LH, Baldwin BG, Emerson BC, Rivas-Torres G, Gillespie R, Martin MD. Evolutionary genomics of oceanic island radiations. Trends Ecol Evol 2023:S0169-5347(23)00032-0. [PMID: 36870806 DOI: 10.1016/j.tree.2023.02.003] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2022] [Revised: 01/26/2023] [Accepted: 02/02/2023] [Indexed: 03/06/2023]
Abstract
A recurring feature of oceanic archipelagos is the presence of adaptive radiations that generate endemic, species-rich clades that can offer outstanding insight into the links between ecology and evolution. Recent developments in evolutionary genomics have contributed towards solving long-standing questions at this interface. Using a comprehensive literature search, we identify studies spanning 19 oceanic archipelagos and 110 putative adaptive radiations, but find that most of these radiations have not yet been investigated from an evolutionary genomics perspective. Our review reveals different gaps in knowledge related to the lack of implementation of genomic approaches, as well as undersampled taxonomic and geographic areas. Filling those gaps with the required data will help to deepen our understanding of adaptation, speciation, and other evolutionary processes.
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Affiliation(s)
- José Cerca
- Department of Natural History, NTNU University Museum, Norwegian University of Science and Technology (NTNU), Trondheim, Norway; Centre for Ecological and Evolutionary Synthesis (CEES), Department of Biosciences, University of Oslo, Oslo, Norway.
| | - Darko D Cotoras
- Department of Terrestrial Zoology, Senckenberg Research Institute and Natural History Museum, Senckenberganlage 25, 60325 Frankfurt am Main, Germany; Department of Entomology, California Academy of Sciences, 55 Music Concourse Drive, San Francisco, CA 94118, USA
| | - Vanessa C Bieker
- Department of Natural History, NTNU University Museum, Norwegian University of Science and Technology (NTNU), Trondheim, Norway
| | - Rishi De-Kayne
- Institute of Evolutionary Biology, University of Edinburgh, Edinburgh EH9 3FL, UK
| | - Pablo Vargas
- Biodiversity and Conservation, Real Jardín Botánico, 28014 Madrid, Spain
| | - Mario Fernández-Mazuecos
- Departamento de Biología (Botánica), Facultad de Ciencias, Universidad Autónoma de Madrid, Calle Darwin 2, 28049 Madrid, Spain; Centro de Investigación en Biodiversidad y Cambio Global, Universidad Autónoma de Madrid (CIBC-UAM), Calle Darwin 2, 28049 Madrid, Spain
| | - Julia López-Delgado
- School of Biology, Faculty of Biological Sciences, University of Leeds, Leeds, UK
| | - Oliver White
- Department of Life Sciences, The Natural History Museum, Cromwell Road, London, SW7 5BD, UK
| | - Martin Stervander
- Bird Group, Natural History Museum, Akeman Street, Tring, Hertfordshire HP23 6AP, UK
| | - Anthony J Geneva
- Department of Biology and Center for Computational and Integrative Biology, Rutgers University-Camden, Camden, NJ, USA
| | - Juan Ernesto Guevara Andino
- Grupo de Investigación en Biodiversidad Medio Ambiente y Salud (BIOMAS), Universidad de las Américas, Quito, Ecuador
| | - Joana Isabel Meier
- Department of Zoology, University of Cambridge, Downing Street, Cambridge CB2 3EJ, UK
| | - Lizzie Roeble
- Naturalis Biodiversity Center, Darwinweg 2, 2333 CR Leiden, The Netherlands; Groningen Institute for Evolutionary Life Sciences, University of Groningen, Box 11103, 9700, 5 CC Groningen, The Netherlands
| | - Baptiste Brée
- Université de Pau et des Pays de l'Adour (UPPA), Energy Environment Solutions (E2S), Centre National de la Recherche Scientifique (CNRS), Institut des Sciences Analytiques et de Physico-Chimie pour l'Environnement et les Matériaux (IPREM), 64000 Pau, France
| | - Jairo Patiño
- Island Ecology and Evolution Research Group, Instituto de Productos Naturales y Agrobiología (IPNA-CSIC), Calle Astrofísico Francisco Sánchez 3, 38206 La Laguna, Tenerife, Canary Islands, 38206, Spain
| | - Juan M Guayasamin
- Laboratorio de Biología Evolutiva, Instituto Biósfera, Colegio de Ciencias Biológicas y Ambientales, Universidad San Francisco de Quito (USFQ), Calle Diego de Robles y Avenida Pampite, Cumbayá, 170901 Quito, Ecuador; Galapagos Science Center, Universidad San Francisco de Quito (USFQ) and University of North Carolina (UNC) at Chapel Hill, San Cristobal, Galapagos, Ecuador
| | - María de Lourdes Torres
- Laboratorio de Biotecnología Vegetal, Colegio de Ciencias Biológicas y Ambientales, Universidad San Francisco de Quito (USFQ), Calle Diego de Robles y Avenida Pampite, Cumbayá, Quito, Ecuador; Galapagos Science Center, Universidad San Francisco de Quito (USFQ) and University of North Carolina (UNC) at Chapel Hill, San Cristobal, Galapagos, Ecuador
| | - Hugo Valdebenito
- Galapagos Science Center, Universidad San Francisco de Quito (USFQ) and University of North Carolina (UNC) at Chapel Hill, San Cristobal, Galapagos, Ecuador; Herbarium of Economic Botany of Ecuador (Herabario QUSF), Colegio de Ciencias Biológicas y Ambientales, Universidad San Francisco de Quito (USFQ), Calle Diego de Robles y Avenida Pampite, Cumbayá, Quito, Ecuador
| | | | - Jaime A Chaves
- Department of Biology, San Francisco State University, San Francisco, CA 94132, USA; Laboratorio de Biología Evolutiva, Instituto Biósfera, Colegio de Ciencias Biológicas y Ambientales, Universidad San Francisco de Quito (USFQ), Calle Diego de Robles y Avenida Pampite, Cumbayá, 170901 Quito, Ecuador
| | - Patricia Jaramillo Díaz
- Estación Científica Charles Darwin, Fundación Charles Darwin, Santa Cruz, Galápagos, Ecuador; Department of Botany and Plant Physiology, University of Málaga, Málaga, Spain
| | - Luis Valente
- Naturalis Biodiversity Center, Darwinweg 2, 2333 CR Leiden, The Netherlands; Groningen Institute for Evolutionary Life Sciences, University of Groningen, Box 11103, 9700, 5 CC Groningen, The Netherlands
| | - Matthew L Knope
- Department of Biology, University of Hawai'i at Hilo, 200 West Kawili Street, Hilo, 96720, HI, USA
| | - Jonathan P Price
- Department of Biology, University of Hawai'i at Hilo, 200 West Kawili Street, Hilo, 96720, HI, USA
| | - Loren H Rieseberg
- Department of Botany and Biodiversity Research Centre, University of British Columbia, Vancouver, BC, Canada
| | - Bruce G Baldwin
- Jepson Herbarium and Department of Integrative Biology, 1001 Valley Life Sciences Building 2465, University of California, Berkeley, CA 94720-2465, USA
| | - Brent C Emerson
- Island Ecology and Evolution Research Group, Instituto de Productos Naturales y Agrobiología (IPNA-CSIC), La Laguna, Spain
| | - Gonzalo Rivas-Torres
- Estación Científica Charles Darwin, Fundación Charles Darwin, Santa Cruz, Galápagos, Ecuador; Estación de Biodiversidad Tiputini, Colegio de Ciencias Biológicas y Ambientales, Universidad San Francisco de Quito (USFQ), Quito, Ecuador
| | - Rosemary Gillespie
- Department of Environmental Science, Policy and Management, University of California, Berkeley, Berkeley, CA, USA
| | - Michael D Martin
- Department of Natural History, NTNU University Museum, Norwegian University of Science and Technology (NTNU), Trondheim, Norway
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9
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Carrión PL, Raeymaekers JAM, De León LF, Chaves JA, Sharpe DMT, Huber SK, Herrel A, Vanhooydonck B, Gotanda KM, Koop JAH, Knutie SA, Clayton DH, Podos J, Hendry AP. The terroir of the finch: How spatial and temporal variation shapes phenotypic traits in DARWIN'S finches. Ecol Evol 2022; 12:e9399. [PMID: 36225827 PMCID: PMC9534727 DOI: 10.1002/ece3.9399] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/18/2022] [Accepted: 09/19/2022] [Indexed: 11/10/2022] Open
Abstract
The term terroir is used in viticulture to emphasize how the biotic and abiotic characteristics of a local site influence grape physiology and thus the properties of wine. In ecology and evolution, such terroir (i.e., the effect of space or “site”) is expected to play an important role in shaping phenotypic traits. Just how important is the pure spatial effect of terroir (e.g., differences between sites that persist across years) in comparison to temporal variation (e.g., differences between years that persist across sites), and the interaction between space and time (e.g., differences between sites change across years)? We answer this question by analyzing beak and body traits of 4388 medium ground finches (Geospiza fortis) collected across 10 years at three locations in Galápagos. Analyses of variance indicated that phenotypic variation was mostly explained by site for beak size (η2 = 0.42) and body size (η2 = 0.43), with a smaller contribution for beak shape (η2 = 0.05) and body shape (η2 = 0.12), but still higher compared to year and site‐by‐year effects. As such, the effect of terroir seems to be very strong in Darwin's finches, notwithstanding the oft‐emphasized interannual variation. However, these results changed dramatically when we excluded data from Daphne Major, indicating that the strong effect of terroir was mostly driven by that particular population. These phenotypic results were largely paralleled in analyses of environmental variables (rainfall and vegetation indices) expected to shape terroir in this system. These findings affirm the evolutionary importance of terroir, while also revealing its dependence on other factors, such as geographical isolation.
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Affiliation(s)
- Paola L. Carrión
- Redpath Museum, Department of BiologyMcGill UniversityMontréalQuébecCanada
| | | | - Luis Fernando De León
- Department of BiologyUniversity of Massachusetts BostonBostonMassachusettsUSA,Centro de Biodiversidad y Descubrimiento de DrogasInstituto de Investigaciones Científicas y Servicios de Alta Tecnología (INDICASAT‐AIP)PanamáRepública de Panamá,Smithsonian Tropical Research InstitutePanamáRepública de Panamá
| | - Jaime A. Chaves
- Department of BiologySan Francisco State UniversitySan FranciscoCaliforniaUSA,Colegio de Ciencias Biológicas y AmbientalesUniversidad San Francisco de QuitoQuitoEcuador
| | - Diana M. T. Sharpe
- Smithsonian Tropical Research InstitutePanamáRepública de Panamá,Worcester State UniversityWorcesterMassachusettsUSA
| | - Sarah K. Huber
- Virginia Institute of Marine ScienceCollege of William & MaryGloucester PointVirginiaUSA
| | - Anthony Herrel
- Muséum National d'Histoire NaturelleDépartement Adaptations du VivantBâtiment d'Anatomie ComparéeParisFrance
| | | | - Kiyoko M. Gotanda
- Department of Biological SciencesBrock UniversitySt. CatharinesOntarioCanada,Departement de BiologieUniversite de SherbrookeQuebecCanada
| | - Jennifer A. H. Koop
- Department of Biological SciencesNorthern Illinois UniversityDeKalbIllinoisUSA
| | - Sarah A. Knutie
- Department of Ecology and Evolutionary BiologyUniversity of ConnecticutStorrsConnecticutUSA,Institute for Systems GenomicsUniversity of ConnecticutStorrsConnecticutUSA
| | - Dale H. Clayton
- School of Biological SciencesUniversity of UtahSalt Lake CityUtahUSA
| | - Jeffrey Podos
- Department of BiologyUniversity of Massachusetts AmherstAmherstMassachusettsUSA
| | - Andrew P. Hendry
- Redpath Museum, Department of BiologyMcGill UniversityMontréalQuébecCanada
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10
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Muñoz-Abril L, Torres MDL, Valle CA, Rubianes-Landázuri F, Galván-Magaña F, Canty SWJ, Terán MA, Brandt M, Chaves JA, Grewe PM. Lack of genetic differentiation in yellowfin tuna has conservation implications in the Eastern Pacific Ocean. PLoS One 2022; 17:e0272713. [PMID: 36040879 PMCID: PMC9426925 DOI: 10.1371/journal.pone.0272713] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2021] [Accepted: 07/25/2022] [Indexed: 11/19/2022] Open
Abstract
Yellowfin tuna, Thunnus albacares, is an important global fishery and of particular importance in the Eastern Pacific Ocean (EPO). According to the 2019 Inter-American Tropical Tuna Commission (IATTC) assessment, yellowfin tuna within the EPO is a single stock, and is being managed as one stock. However, previous studies indicate site fidelity, or limited home ranges, of yellowfin tuna which suggests the potential for multiple yellowfin tuna stocks within the EPO, which was supported by a population genetic study using microsatellites. If numerous stocks are present, management at the wrong spatial scales could cause the loss of minor yellowfin tuna populations in the EPO. In this study we used double digestion RADseq to assess the genetic structure of yellowfin tuna in the EPO. A total of 164 yellowfin tuna from Cabo San Lucas, México, and the Galápagos Islands and Santa Elena, Ecuador, were analysed using 18,011 single nucleotide polymorphisms. Limited genetic differentiation (FST = 0.00058–0.00328) observed among the sampling locations (México, Ecuador, Peru, and within Ecuador) is consistent with presence of a single yellowfin tuna population within the EPO. Our findings are consistent with the IATTC assessment and provide further evidence of the need for transboundary cooperation for the successful management of this important fishery throughout the EPO.
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Affiliation(s)
- Laia Muñoz-Abril
- Colegio de Ciencias Biológicas y Ambientales COCIBA, Universidad San Francisco de Quito USFQ, Diego de Robles y Pampite, Quito, Ecuador
- Department of Marine Sciences, University of South Alabama, USA Drive North, Mobile, Alabama, United States of America
- * E-mail:
| | - Maria de Lourdes Torres
- Colegio de Ciencias Biológicas y Ambientales COCIBA, Universidad San Francisco de Quito USFQ, Diego de Robles y Pampite, Quito, Ecuador
| | - Carlos A. Valle
- Colegio de Ciencias Biológicas y Ambientales COCIBA, Universidad San Francisco de Quito USFQ, Diego de Robles y Pampite, Quito, Ecuador
| | - Francisco Rubianes-Landázuri
- Colegio de Ciencias Biológicas y Ambientales COCIBA, Universidad San Francisco de Quito USFQ, Diego de Robles y Pampite, Quito, Ecuador
| | - Felipe Galván-Magaña
- Instituto Politécnico Nacional, Centro Interdisciplinario de Ciencias Marinas, La Paz, México
| | - Steven W. J. Canty
- Smithsonian Marine Station Fort Pierce, Fort Pierce, Florida, United States of America
- Working Land and Seascapes, Smithsonian Institution, Washington, DC, United States of America
| | - Martin A. Terán
- Colegio de Ciencias Biológicas y Ambientales COCIBA, Universidad San Francisco de Quito USFQ, Diego de Robles y Pampite, Quito, Ecuador
| | - Margarita Brandt
- Colegio de Ciencias Biológicas y Ambientales COCIBA, Universidad San Francisco de Quito USFQ, Diego de Robles y Pampite, Quito, Ecuador
| | - Jaime A. Chaves
- Colegio de Ciencias Biológicas y Ambientales COCIBA, Universidad San Francisco de Quito USFQ, Diego de Robles y Pampite, Quito, Ecuador
- Department of Biology, San Francisco State University, San Francisco, CA, United States of America
| | - Peter M. Grewe
- CSIRO Oceans & Atmosphere, Castray Esplanade, Hobart, Tasmania, Australia
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11
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Chaves JA, Lopes F, Martínez D, Cueva DF, Gavilanes GI, Bonatto SL, de Oliveira LR, Páez-Rosas D. Population Genetics and Phylogeography of Galapagos Fur Seals. Front Genet 2022; 13:725772. [PMID: 35664327 PMCID: PMC9160918 DOI: 10.3389/fgene.2022.725772] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2021] [Accepted: 03/31/2022] [Indexed: 11/25/2022] Open
Abstract
Pinnipeds found across islands provide an ideal opportunity to examine the evolutionary process of population subdivision affected by several mechanisms. Here, we report the genetic consequences of the geographic distribution of rookeries in Galapagos fur seals (GFS: Arctocephalus galapagoensis) in creating population structure. We show that rookeries across four islands (nine rookeries) are genetically structured into the following major groups: 1) a western cluster of individuals from Fernandina; 2) a central group from north and east Isabela, Santiago, and Pinta; and possibly, 3) a third cluster in the northeast from Pinta. Furthermore, asymmetric levels of gene flow obtained from eight microsatellites found migration from west Isabela to Fernandina islands (number of migrants Nm = 1), with imperceptible Nm in any other direction. Our findings suggest that the marked structuring of populations recovered in GFS is likely related to an interplay between long-term site fidelity and long-distance migration in both male and female individuals, probably influenced by varying degrees of marine productivity.
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Affiliation(s)
- Jaime A. Chaves
- Colegio de Ciencias Biológicas y Ambientales, Universidad San Francisco de Quito USFQ, Diego de Robles y Pampite, Quito, Ecuador
- Department of Biology, San Francisco State University, San Francisco, CA, United States
- *Correspondence: Jaime A. Chaves,
| | - Fernando Lopes
- Escola de Ciências da Saúde e da Vida, Pontifícia Universidade Católica do Rio Grande do Sul, Porto Alegre, Brazil
- Laboratório de Ecologia de Mamíferos, Universidade do Vale do Rio dos Sinos (UNISINOS), São Leopoldo, Brazil
| | - Daniela Martínez
- Colegio de Ciencias Biológicas y Ambientales, Universidad San Francisco de Quito USFQ, Diego de Robles y Pampite, Quito, Ecuador
| | - Dario F. Cueva
- Colegio de Ciencias Biológicas y Ambientales, Universidad San Francisco de Quito USFQ, Diego de Robles y Pampite, Quito, Ecuador
| | - Gabriela I. Gavilanes
- Colegio de Ciencias Biológicas y Ambientales, Universidad San Francisco de Quito USFQ, Diego de Robles y Pampite, Quito, Ecuador
| | - Sandro L. Bonatto
- Escola de Ciências da Saúde e da Vida, Pontifícia Universidade Católica do Rio Grande do Sul, Porto Alegre, Brazil
| | - Larissa Rosa de Oliveira
- Laboratório de Ecologia de Mamíferos, Universidade do Vale do Rio dos Sinos (UNISINOS), São Leopoldo, Brazil
- Grupo de Estudos de Mamíferos Aquáticos do Rio Grande do Sul (GEMARS), Torres, Brazil
| | - Diego Páez-Rosas
- Colegio de Ciencias Biológicas y Ambientales, Universidad San Francisco de Quito USFQ, Diego de Robles y Pampite, Quito, Ecuador
- Unidad Técnica Operativa San Cristóbal, Dirección Parque Nacional Galápagos, San Cristobal-Galapagos, Ecuador
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12
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Santangelo JS, Ness RW, Cohan B, Fitzpatrick CR, Innes SG, Koch S, Miles LS, Munim S, Peres-Neto PR, Prashad C, Tong AT, Aguirre WE, Akinwole PO, Alberti M, Álvarez J, Anderson JT, Anderson JJ, Ando Y, Andrew NR, Angeoletto F, Anstett DN, Anstett J, Aoki-Gonçalves F, Arietta AZA, Arroyo MTK, Austen EJ, Baena-Díaz F, Barker CA, Baylis HA, Beliz JM, Benitez-Mora A, Bickford D, Biedebach G, Blackburn GS, Boehm MMA, Bonser SP, Bonte D, Bragger JR, Branquinho C, Brans KI, Bresciano JC, Brom PD, Bucharova A, Burt B, Cahill JF, Campbell KD, Carlen EJ, Carmona D, Castellanos MC, Centenaro G, Chalen I, Chaves JA, Chávez-Pesqueira M, Chen XY, Chilton AM, Chomiak KM, Cisneros-Heredia DF, Cisse IK, Classen AT, Comerford MS, Fradinger CC, Corney H, Crawford AJ, Crawford KM, Dahirel M, David S, De Haan R, Deacon NJ, Dean C, Del-Val E, Deligiannis EK, Denney D, Dettlaff MA, DiLeo MF, Ding YY, Domínguez-López ME, Dominoni DM, Draud SL, Dyson K, Ellers J, Espinosa CI, Essi L, Falahati-Anbaran M, Falcão JCF, Fargo HT, Fellowes MDE, Fitzpatrick RM, Flaherty LE, Flood PJ, Flores MF, Fornoni J, Foster AG, Frost CJ, Fuentes TL, Fulkerson JR, Gagnon E, Garbsch F, Garroway CJ, Gerstein AC, Giasson MM, Girdler EB, Gkelis S, Godsoe W, Golemiec AM, Golemiec M, González-Lagos C, Gorton AJ, Gotanda KM, Granath G, Greiner S, Griffiths JS, Grilo F, Gundel PE, Hamilton B, Hardin JM, He T, Heard SB, Henriques AF, Hernández-Poveda M, Hetherington-Rauth MC, Hill SJ, Hochuli DF, Hodgins KA, Hood GR, Hopkins GR, Hovanes KA, Howard AR, Hubbard SC, Ibarra-Cerdeña CN, Iñiguez-Armijos C, Jara-Arancio P, Jarrett BJM, Jeannot M, Jiménez-Lobato V, Johnson M, Johnson O, Johnson PP, Johnson R, Josephson MP, Jung MC, Just MG, Kahilainen A, Kailing OS, Kariñho-Betancourt E, Karousou R, Kirn LA, Kirschbaum A, Laine AL, LaMontagne JM, Lampei C, Lara C, Larson EL, Lázaro-Lobo A, Le JH, Leandro DS, Lee C, Lei Y, León CA, Lequerica Tamara ME, Levesque DC, Liao WJ, Ljubotina M, Locke H, Lockett MT, Longo TC, Lundholm JT, MacGillavry T, Mackin CR, Mahmoud AR, Manju IA, Mariën J, Martínez DN, Martínez-Bartolomé M, Meineke EK, Mendoza-Arroyo W, Merritt TJS, Merritt LEL, Migiani G, Minor ES, Mitchell N, Mohammadi Bazargani M, Moles AT, Monk JD, Moore CM, Morales-Morales PA, Moyers BT, Muñoz-Rojas M, Munshi-South J, Murphy SM, Murúa MM, Neila M, Nikolaidis O, Njunjić I, Nosko P, Núñez-Farfán J, Ohgushi T, Olsen KM, Opedal ØH, Ornelas C, Parachnowitsch AL, Paratore AS, Parody-Merino AM, Paule J, Paulo OS, Pena JC, Pfeiffer VW, Pinho P, Piot A, Porth IM, Poulos N, Puentes A, Qu J, Quintero-Vallejo E, Raciti SM, Raeymaekers JAM, Raveala KM, Rennison DJ, Ribeiro MC, Richardson JL, Rivas-Torres G, Rivera BJ, Roddy AB, Rodriguez-Muñoz E, Román JR, Rossi LS, Rowntree JK, Ryan TJ, Salinas S, Sanders NJ, Santiago-Rosario LY, Savage AM, Scheepens JF, Schilthuizen M, Schneider AC, Scholier T, Scott JL, Shaheed SA, Shefferson RP, Shepard CA, Shykoff JA, Silveira G, Smith AD, Solis-Gabriel L, Soro A, Spellman KV, Whitney KS, Starke-Ottich I, Stephan JG, Stephens JD, Szulc J, Szulkin M, Tack AJM, Tamburrino Í, Tate TD, Tergemina E, Theodorou P, Thompson KA, Threlfall CG, Tinghitella RM, Toledo-Chelala L, Tong X, Uroy L, Utsumi S, Vandegehuchte ML, VanWallendael A, Vidal PM, Wadgymar SM, Wang AY, Wang N, Warbrick ML, Whitney KD, Wiesmeier M, Wiles JT, Wu J, Xirocostas ZA, Yan Z, Yao J, Yoder JB, Yoshida O, Zhang J, Zhao Z, Ziter CD, Zuellig MP, Zufall RA, Zurita JE, Zytynska SE, Johnson MTJ. Global urban environmental change drives adaptation in white clover. Science 2022; 375:1275-1281. [PMID: 35298255 DOI: 10.1126/science.abk0989] [Citation(s) in RCA: 36] [Impact Index Per Article: 18.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Abstract
Urbanization transforms environments in ways that alter biological evolution. We examined whether urban environmental change drives parallel evolution by sampling 110,019 white clover plants from 6169 populations in 160 cities globally. Plants were assayed for a Mendelian antiherbivore defense that also affects tolerance to abiotic stressors. Urban-rural gradients were associated with the evolution of clines in defense in 47% of cities throughout the world. Variation in the strength of clines was explained by environmental changes in drought stress and vegetation cover that varied among cities. Sequencing 2074 genomes from 26 cities revealed that the evolution of urban-rural clines was best explained by adaptive evolution, but the degree of parallel adaptation varied among cities. Our results demonstrate that urbanization leads to adaptation at a global scale.
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Affiliation(s)
- James S Santangelo
- Department of Biology, University of Toronto Mississauga, Mississauga, ON, Canada.,Centre for Urban Environments, University of Toronto Mississauga, Mississauga, ON, Canada
| | - Rob W Ness
- Department of Biology, University of Toronto Mississauga, Mississauga, ON, Canada.,Centre for Urban Environments, University of Toronto Mississauga, Mississauga, ON, Canada
| | - Beata Cohan
- Department of Biology, University of Toronto Mississauga, Mississauga, ON, Canada
| | | | - Simon G Innes
- Department of Biology, University of Toronto Mississauga, Mississauga, ON, Canada.,Department of Biology, University of Louisiana, Lafayette, LA, USA
| | - Sophie Koch
- Department of Biology, University of Toronto Mississauga, Mississauga, ON, Canada
| | - Lindsay S Miles
- Department of Biology, University of Toronto Mississauga, Mississauga, ON, Canada.,Centre for Urban Environments, University of Toronto Mississauga, Mississauga, ON, Canada
| | - Samreen Munim
- Department of Biology, University of Toronto Mississauga, Mississauga, ON, Canada.,Department of Biology, Queen's University, Kingston, ON, Canada
| | | | - Cindy Prashad
- Department of Biology, University of Toronto Mississauga, Mississauga, ON, Canada
| | - Alex T Tong
- Department of Biology, University of Toronto Mississauga, Mississauga, ON, Canada
| | - Windsor E Aguirre
- Department of Biological Sciences, DePaul University, Chicago, IL, USA
| | | | - Marina Alberti
- Department of Urban Design and Planning, University of Washington, Seattle, WA, USA
| | - Jackie Álvarez
- Colegio de Ciencias Biológicas y Ambientales, Universidad San Francisco de Quito USFQ, Quito, Ecuador
| | - Jill T Anderson
- Department of Genetics, University of Georgia, Athens, GA, USA
| | - Joseph J Anderson
- Department of Ecology and Genetics, Evolutionary Biology Centre, Uppsala University, Uppsala, Sweden
| | - Yoshino Ando
- Field Science Center for Northern Biosphere, Hokkaido University, Sapporo, Hokkaido, Japan
| | - Nigel R Andrew
- Natural History Museum, Zoology, University of New England, Armidale, NSW, Australia
| | - Fabio Angeoletto
- Programa de Pós-Graduação em Geografia da UFMT, campus de Rondonópolis, Cuiabá, Brazil
| | - Daniel N Anstett
- Department of Botany and Biodiversity Research Centre, University of British Columbia, Vancouver, BC, Canada
| | - Julia Anstett
- Graduate Program in Genome Sciences and Technology, Genome Sciences Centre, University of British Columbia, Vancouver, British Columbia, Canada.,Department of Microbiology and Immunology, University of British Columbia, Vancouver, British Columbia, Canada
| | | | | | - Mary T K Arroyo
- Departamento de Ciencias Ecológicas, Facultad de Ciencias, Universidad de Chile, Santiago, Chile.,Instituto de Ecología y Biodiversidad, Universidad de Chile, Santiago, Chile
| | - Emily J Austen
- Department of Biology, Mount Allison University, Sackville, NB, Canada
| | | | - Cory A Barker
- Department of Biology, University of Ottawa, Ottawa, ON, Canada
| | - Howard A Baylis
- Department of Zoology, University of Cambridge, Cambridge, UK
| | - Julia M Beliz
- Department of Biology, Washington University in St. Louis, St. Louis, MO, USA.,Department of Biology, University of Miami, Miami, FL, USA
| | - Alfonso Benitez-Mora
- Centro de Investigación en Recursos Naturales y Sustentabilidad (CIRENYS), Universidad Bernardo O'Higgins, Santiago, Chile
| | - David Bickford
- Department of Biology, University of La Verne, La Verne, CA, USA
| | | | - Gwylim S Blackburn
- Département des sciences du bois et de la forêt, Université Laval, Quebec, QC, Canada
| | - Mannfred M A Boehm
- Department of Botany and Biodiversity Research Centre, University of British Columbia, Vancouver, BC, Canada
| | - Stephen P Bonser
- Evolution & Ecology Research Centre, School of Biological, Earth and Environmental Sciences, UNSW Sydney, Sydney, NSW, Australia
| | - Dries Bonte
- Department of Biology, Ghent University, Ghent, Belgium
| | - Jesse R Bragger
- Department of Biology, Monmouth University, West Long Branch, NJ, USA
| | - Cristina Branquinho
- Centre for Ecology, Evolution and Environmental Changes, Faculdade de Ciências, Universidade de Lisboa, Campo Grande, Lisboa, Portugal
| | | | - Jorge C Bresciano
- School of Agriculture and Environment, Wildlife and Ecology group, Massey University, Palmerston North, Manawatu, New Zealand
| | - Peta D Brom
- Department of Biological Sciences, University of Cape Town, Cape Town, South Africa
| | - Anna Bucharova
- Institute of Landscape Ecology, University of Münster, Münster, Germany
| | - Briana Burt
- Gosnell School of Life Sciences, Rochester Institute of Technology, Rochester, NY, USA
| | - James F Cahill
- Department of Biological Sciences, University of Alberta, Edmonton, AB, Canada
| | | | - Elizabeth J Carlen
- Louis Calder Center and Department of Biological Sciences, Fordham University, Armonk, NY, USA
| | - Diego Carmona
- Departamento de Ecología Tropical, Universidad Autónoma de Yucatán, Mérida, Yucatán, México
| | | | - Giada Centenaro
- Department of Ecology, Environment and Plant Sciences, Stockholm University, Stockholm, Sweden
| | - Izan Chalen
- Colegio de Ciencias Biológicas y Ambientales, Universidad San Francisco de Quito USFQ, Quito, Ecuador.,iBIOTROP Instituto de Biodiversidad Tropical, Universidad San Francisco de Quito, Quito, Ecuador
| | - Jaime A Chaves
- Colegio de Ciencias Biológicas y Ambientales, Universidad San Francisco de Quito USFQ, Quito, Ecuador.,Department of Biology, San Francisco State University, San Francisco, CA, USA
| | - Mariana Chávez-Pesqueira
- Unidad de Recursos Naturales, Centro de Investigación Científica de Yucatán AC, Mérida, Yucatán, México
| | - Xiao-Yong Chen
- School of Ecological and Environmental Sciences, East China Normal University, Shanghai, China.,Shanghai Engineering Research Center of Sustainable Plant Innovation, Shanghai 200231, China
| | - Angela M Chilton
- Centre for Ecosystem Science, School of Biological, Earth and Environmental Sciences, UNSW Sydney, Sydney, NSW, Australia
| | - Kristina M Chomiak
- Gosnell School of Life Sciences, Rochester Institute of Technology, Rochester, NY, USA
| | - Diego F Cisneros-Heredia
- Colegio de Ciencias Biológicas y Ambientales, Universidad San Francisco de Quito USFQ, Quito, Ecuador.,iBIOTROP Instituto de Biodiversidad Tropical, Universidad San Francisco de Quito, Quito, Ecuador
| | - Ibrahim K Cisse
- Gosnell School of Life Sciences, Rochester Institute of Technology, Rochester, NY, USA
| | - Aimée T Classen
- Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI, USA
| | | | | | - Hannah Corney
- Biology Department, Saint Mary's University, Halifax, NS, Canada
| | - Andrew J Crawford
- Department of Biological Sciences, Universidad de los Andes, Bogotá, Colombia
| | - Kerri M Crawford
- Department of Biology and Biochemistry, University of Houston, Houston, TX, USA
| | - Maxime Dahirel
- ECOBIO (Ecosystèmes, biodiversité, évolution), Université de Rennes, Rennes, France
| | - Santiago David
- Department of Zoology and Biodiversity Research Centre, University of British Columbia, Vancouver, BC, Canada
| | - Robert De Haan
- Department of Environmental Studies, Dordt University, Sioux Center, IA, USA
| | - Nicholas J Deacon
- Department of Biology, Minneapolis Community and Technical College, Minneapolis, MN, USA
| | - Clare Dean
- Department of Natural Sciences, Ecology and Environment Research Centre, Manchester Metropolitan University, Manchester, UK
| | - Ek Del-Val
- Instituto de Investigaciones en Ecosistemas y Sustentabilidad, UNAM, Morelia, Mexico
| | | | - Derek Denney
- Department of Genetics, University of Georgia, Athens, GA, USA
| | | | - Michelle F DiLeo
- Faculty of Biological and Environmental Science, Organismal & Evolutionary Biology Research Programme, University of Helsinki, Helsinki, Finland
| | - Yuan-Yuan Ding
- School of Ecological and Environmental Sciences, East China Normal University, Shanghai, China
| | - Moisés E Domínguez-López
- Corporación Científica Ingeobosque, Medellín, Antioquia, Colombia.,GTA Colombia S.A.S. Envigado, Antioquia, Colombia
| | - Davide M Dominoni
- Institute of Biodiversity, Animal Health and Comparative Medicine, University of Glasgow, Glasgow, Scotland, UK
| | | | - Karen Dyson
- Department of Urban Design and Planning, University of Washington, Seattle, WA, USA
| | - Jacintha Ellers
- Department of Ecological Science, Vrije Universiteit Amsterdam, Amsterdam, Netherlands
| | - Carlos I Espinosa
- Departamento de Ciencias Biológicas y Agropecuarias, Universidad Técnica Particular de Loja, Loja, Ecuador
| | - Liliana Essi
- Departamento de Biologia, Universidade Federal de Santa Maria (UFSM), Santa Maria, Rio Grande do Sul, Brazil
| | - Mohsen Falahati-Anbaran
- Department of Plant Sciences, School of Biology, College of Science, University of Tehran, Tehran, Iran.,NTNU University Museum, Norwegian University of Science and Technology, 7491 Trondheim, Norway
| | - Jéssica C F Falcão
- Red de Estudios Moleculares Avanzados, Instituto de Ecología A. C., Xalapa, Mexico
| | - Hayden T Fargo
- Department of Biology, University of Toronto Mississauga, Mississauga, ON, Canada
| | - Mark D E Fellowes
- School of Biological Sciences, University of Reading, Whiteknights Park, Reading, Berkshire, UK
| | | | - Leah E Flaherty
- Department of Biological Sciences, MacEwan University, Edmonton, AB, Canada
| | - Pádraic J Flood
- Max Planck Institute for Plant Breeding Research, Cologne, Germany
| | - María F Flores
- Instituto de Ecología y Biodiversidad, Universidad de Chile, Santiago, Chile
| | - Juan Fornoni
- Departamento de Ecología Evolutiva, Instituto de Ecología, Universidad Nacional Autónoma de México, Ciudad de México, México
| | - Amy G Foster
- Max Planck Institute of Molecular Plant Physiology, Potsdam-Golm, Germany
| | | | - Tracy L Fuentes
- Department of Urban Design and Planning, University of Washington, Seattle, WA, USA
| | - Justin R Fulkerson
- Alaska Center for Conservation Science, University of Alaska Anchorage, Anchorage, AK, USA
| | - Edeline Gagnon
- Tropical Diversity, Royal Botanical Garden of Edinburgh, Edinburgh, UK.,Département de biologie, Université de Moncton, Moncton, New Brunswick, Canada
| | - Frauke Garbsch
- Max Planck Institute of Molecular Plant Physiology, Potsdam-Golm, Germany
| | - Colin J Garroway
- Department of Biological Sciences, University of Manitoba, Winnipeg, MB, Canada
| | - Aleeza C Gerstein
- Departments of Microbiology & Statistics, University of Manitoba, Winnipeg, MB, Canada
| | - Mischa M Giasson
- Department of Biology, University of New Brunswick, Fredericton, NB, Canada
| | | | - Spyros Gkelis
- Department of Botany, School of Biology, Aristotle University of Thessaloniki, Thessaloniki, Greece
| | - William Godsoe
- BioProtection Research Centre, Lincoln University, Lincoln, Canterbury, New Zealand
| | | | - Mireille Golemiec
- Department of Biology, University of Toronto Mississauga, Mississauga, ON, Canada
| | - César González-Lagos
- Centro de Investigación en Recursos Naturales y Sustentabilidad (CIRENYS), Universidad Bernardo O'Higgins, Santiago, Chile.,Departamento de Ciencias, Facultad de Artes Liberales, Universidad Adolfo Ibáñez, Santiago, Chile
| | - Amanda J Gorton
- Department of Ecology, Evolution, and Behaviour University of Minnesota, Minneapolis, MN, USA
| | - Kiyoko M Gotanda
- Department of Zoology, University of Cambridge, Cambridge, UK.,Department of Biological Sciences, Brock University, St. Catharines, Ontario, Canada
| | - Gustaf Granath
- Department of Ecology and Genetics, Evolutionary Biology Centre, Uppsala University, Uppsala, Sweden
| | - Stephan Greiner
- Max Planck Institute of Molecular Plant Physiology, Potsdam-Golm, Germany
| | - Joanna S Griffiths
- Department of Environmental Toxicology, University of California, Davis, CA, USA
| | - Filipa Grilo
- Centre for Ecology, Evolution and Environmental Changes, Faculdade de Ciências, Universidade de Lisboa, Campo Grande, Lisboa, Portugal
| | - Pedro E Gundel
- IFEVA, Universidad de Buenos Aires, CONICET, Facultad de Agronomía, Buenos Aires, Argentina.,ICB - University of Talca, Chile
| | - Benjamin Hamilton
- Gosnell School of Life Sciences, Rochester Institute of Technology, Rochester, NY, USA
| | | | - Tianhua He
- School of Molecular and Life Science, Curtin University, Perth, Australia.,College of Science, Health, Engineering and Education, Murdoch University, Murdoch, WA, Australia
| | - Stephen B Heard
- Department of Biology, University of New Brunswick, Fredericton, NB, Canada
| | - André F Henriques
- Centre for Ecology, Evolution and Environmental Changes, Faculdade de Ciências, Universidade de Lisboa, Campo Grande, Lisboa, Portugal
| | | | | | - Sarah J Hill
- Natural History Museum, Zoology, University of New England, Armidale, NSW, Australia
| | - Dieter F Hochuli
- School of Life and Environmental Sciences, The University of Sydney, Sydney, NSW, Australia
| | - Kathryn A Hodgins
- School of Biological Sciences, Monash University, Melbourne, VIC, Australia
| | - Glen R Hood
- Department of Biological Sciences, Wayne State University, Detroit, MI, USA
| | - Gareth R Hopkins
- Department of Biology, Western Oregon University, Monmouth, OR, USA
| | - Katherine A Hovanes
- School of Natural Resources and the Environment, University of Arizona, Tucson, AZ, USA
| | - Ava R Howard
- Department of Biology, Western Oregon University, Monmouth, OR, USA
| | | | | | - Carlos Iñiguez-Armijos
- Departamento de Ciencias Biológicas y Agropecuarias, Universidad Técnica Particular de Loja, Loja, Ecuador
| | - Paola Jara-Arancio
- Departamento de Ciencias Biológicas y Departamento de Ecología y Biodiversidad, Facultad de Ciencias de la Vida, Universidad Andrés Bello, Santiago, Chile.,Institute of Ecology and Biodiversity (IEB), Chile
| | - Benjamin J M Jarrett
- Department of Zoology, University of Cambridge, Cambridge, UK.,Department of Biology, Lund University, Lund, Sweden
| | - Manon Jeannot
- Department of Biology, Norwegian University of Science and Technology, Trondheim, Norway
| | - Vania Jiménez-Lobato
- Escuela Superiro de Desarrollo Sustentable, Universidad Autónoma de Guerrero -CONACYT, Las Tunas, Mexico
| | - Mae Johnson
- Clarkson Secondary School, Peel District School Board, Mississauga, ON, Canada
| | - Oscar Johnson
- Homelands Sr. Public School, Peel District School Board, Mississauga, ON, Canada
| | - Philip P Johnson
- Department of Biological Sciences, University of Illinois at Chicago, Chicago, IL, USA
| | - Reagan Johnson
- St. James Catholic Global Learning Centre, Dufferin-Peel Catholic District School Board, Mississauga ON, Canada
| | | | - Meen Chel Jung
- Department of Urban Design and Planning, University of Washington, Seattle, WA, USA
| | - Michael G Just
- Ecological Processes Branch, U.S. Army ERDC-CERL, Champaign, IL, USA
| | - Aapo Kahilainen
- Faculty of Biological and Environmental Science, Organismal & Evolutionary Biology Research Programme, University of Helsinki, Helsinki, Finland
| | - Otto S Kailing
- Department of Biology, Oberlin College, Oberlin, OH, USA
| | | | - Regina Karousou
- Department of Botany, School of Biology, Aristotle University of Thessaloniki, Thessaloniki, Greece
| | - Lauren A Kirn
- School of Biological Sciences, Monash University, Melbourne, VIC, Australia
| | - Anna Kirschbaum
- Institute of Evolution and Ecology, University of Tübingen, Tübingen, Germany
| | - Anna-Liisa Laine
- Faculty of Biological and Environmental Science, Organismal & Evolutionary Biology Research Programme, University of Helsinki, Helsinki, Finland.,Department of Evolutionary Biology and Environmental Studies, University of Zurich, Winterthurerstrasse, Zurich, Switzerland
| | - Jalene M LaMontagne
- Department of Biological Sciences, DePaul University, Chicago, IL, USA.,Urban Wildlife Institute, Department of Conservation and Science, Lincoln Park Zoo, Chicago, IL, USA
| | - Christian Lampei
- Institute of Landscape Ecology, University of Münster, Münster, Germany
| | - Carlos Lara
- Departamento de Ecología, Universidad Católica de la Santísima Concepción, Concepción, Chile
| | - Erica L Larson
- Department of Biological Sciences, University of Denver, Denver, CO, USA
| | - Adrián Lázaro-Lobo
- Department of Biological Sciences, Mississippi State University, Starkville, MS, USA
| | - Jennifer H Le
- Department of Biology, Center for Computational & Integrative Biology, Rutgers University-Camden, Camden, NJ, USA
| | - Deleon S Leandro
- Programa de Pós-Graduação em Geografia da UFMT, campus de Rondonópolis, Brasil
| | - Christopher Lee
- School of Biological Sciences, Monash University, Melbourne, VIC, Australia
| | - Yunting Lei
- Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan, China
| | - Carolina A León
- Centro de Investigación en Recursos Naturales y Sustentabilidad (CIRENYS), Universidad Bernardo O'Higgins, Santiago, Chile
| | | | - Danica C Levesque
- Department of Chemistry & Biochemistry, Laurentian University, Sudbury, ON, Canada
| | - Wan-Jin Liao
- Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, College of Life Sciences, Beijing Normal University, Beijing, China
| | - Megan Ljubotina
- Department of Biological Sciences, University of Alberta, Edmonton, AB, Canada
| | - Hannah Locke
- Department of Biology and Biochemistry, University of Houston, Houston, TX, USA
| | - Martin T Lockett
- School of BioSciences, University of Melbourne, Melbourne, VIC, Australia
| | - Tiffany C Longo
- Department of Biology, Monmouth University, West Long Branch, NJ, USA
| | | | - Thomas MacGillavry
- Institute of Biodiversity, Animal Health and Comparative Medicine, University of Glasgow, Glasgow, Scotland, UK
| | | | - Alex R Mahmoud
- Department of Biology, Washington University in St. Louis, St. Louis, MO, USA
| | - Isaac A Manju
- Department of Biology, Western Oregon University, Monmouth, OR, USA
| | - Janine Mariën
- Department of Ecological Science, Vrije Universiteit Amsterdam, Amsterdam, Netherlands
| | - D Nayeli Martínez
- Instituto de Investigaciones en Ecosistemas y Sustentabilidad, UNAM, Morelia, Mexico.,Posgrado en Ciencias Biológicas, Universidad Nacional Autónoma de México, Coyoacán, Mexico City, 04510, Mexico
| | - Marina Martínez-Bartolomé
- Department of Biological Sciences, Mississippi State University, Starkville, MS, USA.,Department of Biological Sciences, Auburn University, Auburn, AL, USA
| | - Emily K Meineke
- Department of Entomology and Nematology, University of California, Davis, CA, USA
| | | | - Thomas J S Merritt
- Department of Chemistry & Biochemistry, Laurentian University, Sudbury, ON, Canada
| | | | - Giuditta Migiani
- Institute of Biodiversity, Animal Health and Comparative Medicine, University of Glasgow, Glasgow, Scotland, UK
| | - Emily S Minor
- Department of Biological Sciences, University of Illinois at Chicago, Chicago, IL, USA
| | - Nora Mitchell
- Department of Biology, University of New Mexico, Albuquerque, NM, USA.,Department of Biology, University of Wisconsin - Eau Claire, Eau Claire, WI 54701
| | - Mitra Mohammadi Bazargani
- Agriculture Institute, Iranian Research Organization for Science and Technology (IROST), Tehran, Iran
| | - Angela T Moles
- Evolution & Ecology Research Centre, School of Biological, Earth and Environmental Sciences, UNSW Sydney, Sydney, NSW, Australia
| | - Julia D Monk
- School of the Environment, Yale University, New Haven, CT, USA
| | | | | | - Brook T Moyers
- Department of Biology, University of Massachusetts Boston, Boston, MA, USA.,Agricultural Biology, Colorado State University, Fort Collins, CO, USA
| | - Miriam Muñoz-Rojas
- Centre for Ecosystem Science, School of Biological, Earth and Environmental Sciences, UNSW Sydney, Sydney, NSW, Australia.,Departamento de Biología Vegetal y Ecología, Facultad de Biología, Universidad de Sevilla, Av. Reina Mercedes s/n, 41012 Sevilla, Spain
| | - Jason Munshi-South
- Louis Calder Center and Department of Biological Sciences, Fordham University, Armonk, NY, USA
| | - Shannon M Murphy
- Department of Biological Sciences, University of Denver, Denver, CO, USA
| | - Maureen M Murúa
- Facultad de Estudios Interdisciplinarios, Centro GEMA- Genómica, Ecología y Medio Ambiente, Universidad Mayor, Santiago, Chile
| | - Melisa Neila
- Centro de Investigación en Recursos Naturales y Sustentabilidad (CIRENYS), Universidad Bernardo O'Higgins, Santiago, Chile
| | - Ourania Nikolaidis
- Department of Biology, Center for Computational & Integrative Biology, Rutgers University-Camden, Camden, NJ, USA
| | - Iva Njunjić
- Evolutionary Ecology Group, Naturalis Biodiversity Center, Leiden, Netherlands
| | - Peter Nosko
- Department of Biology and Chemistry, Nipissing University, North Bay, ON, Canada
| | - Juan Núñez-Farfán
- Departamento de Ecología Evolutiva, Instituto de Ecología, Universidad Nacional Autónoma de México, Ciudad de México, México
| | - Takayuki Ohgushi
- Center for Ecological Research, Kyoto University, Otsu, Shiga, Japan
| | - Kenneth M Olsen
- Department of Biology, Washington University in St. Louis, St. Louis, MO, USA
| | | | - Cristina Ornelas
- Bonanza Creek Long Term Ecological Research Program, University of Alaska Fairbanks, Fairbanks, AK, USA
| | - Amy L Parachnowitsch
- Department of Ecology and Genetics, Evolutionary Biology Centre, Uppsala University, Uppsala, Sweden.,Department of Biology, University of New Brunswick, Fredericton, NB, Canada
| | - Aaron S Paratore
- Gosnell School of Life Sciences, Rochester Institute of Technology, Rochester, NY, USA
| | - Angela M Parody-Merino
- School of Agriculture and Environment, Wildlife and Ecology group, Massey University, Palmerston North, Manawatu, New Zealand
| | - Juraj Paule
- Department of Botany and Molecular Evolution, Senckenberg Research Institute and Natural History Museum Frankfurt, Frankfurt am Main, Germany
| | - Octávio S Paulo
- Centre for Ecology, Evolution and Environmental Changes, Faculdade de Ciências, Universidade de Lisboa, Campo Grande, Lisboa, Portugal
| | - João Carlos Pena
- Departamento de Biodiversidade, Instituto de Biociências, Univ Estadual Paulista - UNESP, Rio Claro, São Paulo, Brazil
| | - Vera W Pfeiffer
- Nelson Institute for Environmental Studies, University of Wisconsin-Madison, Madison, WI, USA
| | - Pedro Pinho
- Centre for Ecology, Evolution and Environmental Changes, Faculdade de Ciências, Universidade de Lisboa, Campo Grande, Lisboa, Portugal
| | - Anthony Piot
- Département des sciences du bois et de la forêt, Université Laval, Quebec, QC, Canada
| | - Ilga M Porth
- Département des sciences du bois et de la forêt, Université Laval, Quebec, QC, Canada
| | - Nicholas Poulos
- Department of Biology, California State University, Northridge, Los Angeles, CA, USA
| | - Adriana Puentes
- Department of Ecology, Swedish University of Agricultural Sciences, Uppsala, Sweden
| | - Jiao Qu
- Department of Biology, Ghent University, Ghent, Belgium
| | | | - Steve M Raciti
- Department of Biology, Hofstra University, Long Island, NY, USA
| | | | - Krista M Raveala
- Faculty of Biological and Environmental Science, Organismal & Evolutionary Biology Research Programme, University of Helsinki, Helsinki, Finland
| | - Diana J Rennison
- Division of Biological Sciences, University of California San Diego, San Diego, CA, USA
| | - Milton C Ribeiro
- Departamento de Biodiversidade, Instituto de Biociências, Univ Estadual Paulista - UNESP, Rio Claro, São Paulo, Brazil
| | | | - Gonzalo Rivas-Torres
- Colegio de Ciencias Biológicas y Ambientales, Universidad San Francisco de Quito USFQ, Quito, Ecuador.,Estación de Biodiversidad Tiputini, Colegio de Ciencias Biológicas y Ambientales, Universidad San Francisco de Quito USFQ, Quito, Ecuador
| | | | - Adam B Roddy
- Department of Biological Sciences, Institute of Environment, Florida International University, Miami, FL, USA
| | | | | | - Laura S Rossi
- Department of Biology and Chemistry, Nipissing University, North Bay, ON, Canada
| | - Jennifer K Rowntree
- Department of Natural Sciences, Ecology and Environment Research Centre, Manchester Metropolitan University, Manchester, UK
| | - Travis J Ryan
- Department of Biological Sciences and Center for Urban Ecology and Sustainability, Butler University, Indianapolis, IN, USA
| | | | - Nathan J Sanders
- Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI, USA
| | | | - Amy M Savage
- Department of Biology, Center for Computational & Integrative Biology, Rutgers University-Camden, Camden, NJ, USA
| | - J F Scheepens
- Institute of Evolution and Ecology, University of Tübingen, Tübingen, Germany.,Faculty of Biological Sciences, Goethe University Frankfurt, Frankfurt am Main, Germany
| | | | - Adam C Schneider
- Department of Biology, University of Toronto Mississauga, Mississauga, ON, Canada.,Department of Biology, Hendrix College, Conway, AR, USA
| | - Tiffany Scholier
- Department of Ecology, Swedish University of Agricultural Sciences, Uppsala, Sweden.,Department of Biological and Environmental Science, University of Jyväskylä, Jyväskylä, Finland
| | - Jared L Scott
- Department of Biology, University of Louisville, Louisville, KY, USA
| | - Summer A Shaheed
- Department of Biology, Monmouth University, West Long Branch, NJ, USA
| | - Richard P Shefferson
- Organization for Programs on Environmental Science, University of Tokyo, Tokyo, Japan
| | | | - Jacqui A Shykoff
- Université Paris-Saclay, CNRS, AgroParisTech, Ecologie Systématique et Evolution, 91405, Orsay, France
| | | | - Alexis D Smith
- Department of Biological Sciences, University of Illinois at Chicago, Chicago, IL, USA
| | - Lizet Solis-Gabriel
- Instituto de Investigaciones en Ecosistemas y Sustentabilidad, UNAM, Morelia, Mexico
| | - Antonella Soro
- General Zoology, Institute for Biology, Martin Luther University Halle-Wittenberg, Halle, Germany
| | - Katie V Spellman
- Bonanza Creek Long Term Ecological Research Program, University of Alaska Fairbanks, Fairbanks, AK, USA.,International Arctic Research Center, University of Alaska Fairbanks, Fairbanks, AK, USA
| | - Kaitlin Stack Whitney
- Science, Technology and Society Department, Rochester Institute of Technology, Rochester, NY, USA
| | - Indra Starke-Ottich
- Department of Botany and Molecular Evolution, Senckenberg Research Institute and Natural History Museum Frankfurt, Frankfurt am Main, Germany
| | - Jörg G Stephan
- Department of Ecology, Swedish University of Agricultural Sciences, Uppsala, Sweden.,SLU Swedish Species Information Centre, Swedish University of Agricultural Sciences, Uppsala, Sweden
| | | | - Justyna Szulc
- Centre of New Technologies, University of Warsaw, Warsaw, Poland
| | - Marta Szulkin
- Centre of New Technologies, University of Warsaw, Warsaw, Poland
| | - Ayco J M Tack
- Department of Ecology, Environment and Plant Sciences, Stockholm University, Stockholm, Sweden
| | - Ítalo Tamburrino
- Instituto de Ecología y Biodiversidad, Universidad de Chile, Santiago, Chile
| | - Tayler D Tate
- Department of Biology, Western Oregon University, Monmouth, OR, USA
| | | | - Panagiotis Theodorou
- General Zoology, Institute for Biology, Martin Luther University Halle-Wittenberg, Halle, Germany
| | - Ken A Thompson
- Department of Zoology and Biodiversity Research Centre, University of British Columbia, Vancouver, BC, Canada.,Department of Biology, Stanford University, Stanford, CA, USA
| | - Caragh G Threlfall
- School of Life and Environmental Sciences, The University of Sydney, Sydney, NSW, Australia
| | | | | | - Xin Tong
- School of Ecological and Environmental Sciences, East China Normal University, Shanghai, China
| | - Léa Uroy
- ECOBIO (Ecosystèmes, biodiversité, évolution), Université de Rennes, Rennes, France.,UMR 0980 BAGAP, Agrocampus Ouest-ESA-INRA, Rennes, France
| | - Shunsuke Utsumi
- Field Science Center for Northern Biosphere, Hokkaido University, Sapporo, Hokkaido, Japan
| | - Martijn L Vandegehuchte
- Department of Biology, Ghent University, Ghent, Belgium.,Department of Biology, Norwegian University of Science and Technology, Trondheim, Norway
| | - Acer VanWallendael
- Plant Biology Department, Michigan State University, East Lansing, MI, USA
| | - Paula M Vidal
- Instituto de Ecología y Biodiversidad, Universidad de Chile, Santiago, Chile
| | | | - Ai-Ying Wang
- Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, College of Life Sciences, Beijing Normal University, Beijing, China
| | - Nian Wang
- College of Horticulture and Forestry Sciences/ Hubei Engineering Technology Research Center for Forestry Information, Huazhong Agricultural University, Wuhan, China, Hubei, China
| | - Montana L Warbrick
- Department of Biology and Chemistry, Nipissing University, North Bay, ON, Canada
| | - Kenneth D Whitney
- Department of Biology, University of New Mexico, Albuquerque, NM, USA
| | - Miriam Wiesmeier
- School of Life Sciences, Technical University of Munich, Munich, Germany
| | | | - Jianqiang Wu
- Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan, China
| | - Zoe A Xirocostas
- Evolution & Ecology Research Centre, School of Biological, Earth and Environmental Sciences, UNSW Sydney, Sydney, NSW, Australia
| | - Zhaogui Yan
- College of Horticulture and Forestry Sciences/ Hubei Engineering Technology Research Center for Forestry Information, Huazhong Agricultural University, Wuhan, China, Hubei, China
| | - Jiahe Yao
- School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Jeremy B Yoder
- Department of Biology, California State University, Northridge, Los Angeles, CA, USA
| | - Owen Yoshida
- Biology Department, Saint Mary's University, Halifax, NS, Canada
| | - Jingxiong Zhang
- Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan, China
| | - Zhigang Zhao
- School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Carly D Ziter
- Department of Biology, Concordia University, Montreal, QC, Canada
| | - Matthew P Zuellig
- Institute of Ecology and Evolution, University of Bern, Bern, Switzerland
| | - Rebecca A Zufall
- Department of Biology and Biochemistry, University of Houston, Houston, TX, USA
| | - Juan E Zurita
- Colegio de Ciencias Biológicas y Ambientales, Universidad San Francisco de Quito USFQ, Quito, Ecuador
| | - Sharon E Zytynska
- School of Life Sciences, Technical University of Munich, Munich, Germany.,Department of Evolution, Ecology and Behaviour, University of Liverpool, Liverpool, UK
| | - Marc T J Johnson
- Department of Biology, University of Toronto Mississauga, Mississauga, ON, Canada.,Centre for Urban Environments, University of Toronto Mississauga, Mississauga, ON, Canada
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Romine MG, Knutie SA, Crow CM, Vaziri GJ, Chaves JA, Koop JAH, Lamichhaney S. The genome sequence of the avian vampire fly ( Philornis downsi), an invasive nest parasite of Darwin’s finches in Galápagos. G3 Genes|Genomes|Genetics 2022; 12:6456303. [PMID: 34878103 PMCID: PMC9210292 DOI: 10.1093/g3journal/jkab414] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/06/2021] [Accepted: 11/15/2021] [Indexed: 11/14/2022]
Abstract
The invasive avian vampire fly (Philornis downsi, Diptera: Muscidae) is considered one of the greatest threats to the endemic avifauna of the Galápagos Islands. The fly larvae parasitize nearly every passerine species, including Darwin’s finches. Most P. downsi research to date has focused on the effects of the fly on avian host fitness and mitigation methods. A lag in research related to the genetics of this invasion demonstrates, in part, the need to develop full-scale genomic resources with which to address further questions within this system. In this study, an adult female P. downsi was sequenced to generate a high-quality genome assembly. We examined various features of the genome (e.g., coding regions and noncoding transposable elements) and carried out comparative genomics analysis against other dipteran genomes. We identified lists of gene families that are significantly expanding or contracting in P. downsi that are related to insecticide resistance, detoxification, and counter defense against host immune responses. The P. downsi genome assembly provides an important resource for studying the molecular basis of successful invasion in the Galápagos and the dynamics of its population across multiple islands. The findings of significantly changing gene families associated with insecticide resistance and immune responses highlight the need for further investigations into the role of different gene families in aiding the fly’s successful invasion. Furthermore, this genomic resource provides a necessary tool to better inform future research studies and mitigation strategies aimed at minimizing the fly’s impact on Galápagos birds.
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Affiliation(s)
- Melia G Romine
- School of Biomedical Sciences, Kent State University, Kent, OH 44240, USA
| | - Sarah A Knutie
- Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, CT 06269, USA
- Institute for Systems Genomics, University of Connecticut, Storrs, CT 06269, USA
| | - Carly M Crow
- Department of Biological Sciences, Northern Illinois University, DeKalb, IL 60115, USA
| | - Grace J Vaziri
- Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, CT 06269, USA
| | - Jaime A Chaves
- Department of Biology, San Francisco State University, San Francisco, CA 94132, USA
- Colegio de Ciencias Biológicas y Ambientales, Universidad San Francisco de Quito, Quito 170901, Ecuador
| | - Jennifer A H Koop
- Department of Biological Sciences, Northern Illinois University, DeKalb, IL 60115, USA
| | - Sangeet Lamichhaney
- School of Biomedical Sciences, Kent State University, Kent, OH 44240, USA
- Department of Biological Sciences, Kent State University, Kent, OH 44240, USA
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14
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Rivkin LR, Johnson RA, Chaves JA, Johnson MTJ. Urbanization alters interactions between Darwin's finches and Tribulus cistoides on the Galápagos Islands. Ecol Evol 2021; 11:15754-15765. [PMID: 34824787 PMCID: PMC8601916 DOI: 10.1002/ece3.8236] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/09/2021] [Revised: 09/21/2021] [Accepted: 09/29/2021] [Indexed: 12/31/2022] Open
Abstract
Emerging evidence suggests that humans shape the ecology and evolution of species interactions. Islands are particularly susceptible to anthropogenic disturbance due to the fragility of their ecosystems; however, we know little about the susceptibility of species interactions to urbanization on islands. To address this gap, we studied how the earliest stages of urban development affect interactions between Darwin's finches and its key food resource, Tribulus cistoides, in three towns on the Galápagos Islands. We measured variation in mericarp predation rates, mericarp morphology, and finch community composition using population surveys, experimental manipulations, and finch observations conducted in habitats within and outside of each town. We found that both seed and mericarp removal rates were higher in towns than natural habitats. We also found that selection on mericarp size and defense differed between habitats in the survey and experimental populations and that towns supported smaller and less diverse finch communities than natural habitats. Together, our results suggest that even moderate levels of urbanization can alter ecological interactions between Darwin's finches and T. cistoides, leading to modified natural selection on T. cistoides populations. Our study demonstrates that trophic interactions on islands may be susceptible to the anthropogenic disturbance associated with urbanization. Despite containing the highest diversity in the world, studies of urbanization are lacking from the tropics. Our study identified signatures of urbanization on species interactions in a tropical island ecosystem and suggests that changes to the ecology of species interactions has the potential to alter evolution in urban environments.
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Affiliation(s)
- L. Ruth Rivkin
- Department of Ecology and Evolutionary BiologyUniversity of TorontoTorontoOntarioCanada
- Department of BiologyUniversity of Toronto MississaugaOntarioCanada
- Centre for Urban EnvironmentsUniversity of Toronto MississaugaOntarioCanada
| | | | - Jaime A. Chaves
- Colegio de Ciencias Biológicas y AmbientalesUniversidad San Francisco de QuitoQuitoEcuador
- Department of BiologySan Francisco State UniversitySan FranciscoCaliforniaUSA
| | - Marc T. J. Johnson
- Department of BiologyUniversity of Toronto MississaugaOntarioCanada
- Centre for Urban EnvironmentsUniversity of Toronto MississaugaOntarioCanada
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15
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Bonaccorso E, Ordóñez-Garza N, Pazmiño DA, Hearn A, Páez-Rosas D, Cruz S, Muñoz-Pérez JP, Espinoza E, Suárez J, Muñoz-Rosado LD, Vizuete A, Chaves JA, Torres MDL, Bustos W, Rueda D, Hirschfeld M, Guayasamin JM. International fisheries threaten globally endangered sharks in the Eastern Tropical Pacific Ocean: the case of the Fu Yuan Yu Leng 999 reefer vessel seized within the Galápagos Marine Reserve. Sci Rep 2021; 11:14959. [PMID: 34294756 PMCID: PMC8298506 DOI: 10.1038/s41598-021-94126-3] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2021] [Accepted: 06/30/2021] [Indexed: 11/09/2022] Open
Abstract
Shark fishing, driven by the fin trade, is the primary cause of global shark population declines. Here, we present a case study that exemplifies how industrial fisheries are likely depleting shark populations in the Eastern Tropical Pacific Ocean. In August 2017, the vessel Fu Yuan Yu Leng 999, of Chinese flag, was detained while crossing through the Galápagos Marine Reserve without authorization. This vessel contained 7639 sharks, representing one of the largest seizures recorded to date. Based on a sample of 929 individuals (12%), we found 12 shark species: 9 considered as Vulnerable or higher risk by the IUCN and 8 listed in CITES. Four species showed a higher proportion of immature than mature individuals, whereas size-distribution hints that at least some of the fishing ships associated with the operation may have been using purse-seine gear fishing equipment, which, for some species, goes against international conventions. Our data expose the magnitude of the threat that fishing industries and illegal trade represent to sharks in the Eastern Tropical Pacific Ocean.
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Affiliation(s)
- Elisa Bonaccorso
- Universidad San Francisco de Quito USFQ, Colegio de Ciencias Biológicas y Ambientales, Quito, Ecuador. .,Laboratorio de Biología Evolutiva, Instituto Biósfera, Universidad San Francisco de Quito, Quito, Ecuador.
| | - Nicté Ordóñez-Garza
- Laboratorio de Biología Evolutiva, Instituto Biósfera, Universidad San Francisco de Quito, Quito, Ecuador
| | - Diana A Pazmiño
- Universidad San Francisco de Quito USFQ, Colegio de Ciencias Biológicas y Ambientales, Quito, Ecuador.,Laboratorio de Biología Evolutiva, Instituto Biósfera, Universidad San Francisco de Quito, Quito, Ecuador.,Universidad San Francisco de Quito (USFQ) and UNC-Chapel Hill Galapagos Science Center (GSC) Av. Alsacio Northia, Isla San Cristóbal, Galápagos, Ecuador
| | - Alex Hearn
- Universidad San Francisco de Quito USFQ, Colegio de Ciencias Biológicas y Ambientales, Quito, Ecuador.,Universidad San Francisco de Quito (USFQ) and UNC-Chapel Hill Galapagos Science Center (GSC) Av. Alsacio Northia, Isla San Cristóbal, Galápagos, Ecuador
| | - Diego Páez-Rosas
- Universidad San Francisco de Quito USFQ, Colegio de Ciencias Biológicas y Ambientales, Quito, Ecuador.,Universidad San Francisco de Quito (USFQ) and UNC-Chapel Hill Galapagos Science Center (GSC) Av. Alsacio Northia, Isla San Cristóbal, Galápagos, Ecuador
| | - Sebastián Cruz
- Independent Researcher, Puerto Ayora, Santa Cruz, Galápagos, Ecuador
| | - Juan Pablo Muñoz-Pérez
- Universidad San Francisco de Quito (USFQ) and UNC-Chapel Hill Galapagos Science Center (GSC) Av. Alsacio Northia, Isla San Cristóbal, Galápagos, Ecuador.,Faculty of Science and Engineering, University of the Sunshine Coast, Sunshine Coast, QLD, Australia
| | - Eduardo Espinoza
- Dirección del Parque Nacional Galápagos, Puerto Ayora, Galápagos, Ecuador
| | - Jenifer Suárez
- Dirección del Parque Nacional Galápagos, Puerto Ayora, Galápagos, Ecuador
| | - Lauren D Muñoz-Rosado
- Pontificia Universidad Católica del Ecuador Sede Manabí, Bahía de Caráquez, Manabí, Ecuador
| | - Andrea Vizuete
- Pontificia Universidad Católica del Ecuador Sede Manabí, Bahía de Caráquez, Manabí, Ecuador
| | - Jaime A Chaves
- Laboratorio de Biología Evolutiva, Instituto Biósfera, Universidad San Francisco de Quito, Quito, Ecuador.,Universidad San Francisco de Quito (USFQ) and UNC-Chapel Hill Galapagos Science Center (GSC) Av. Alsacio Northia, Isla San Cristóbal, Galápagos, Ecuador.,Department of Biology, San Francisco State University, 1600 Holloway Ave, San Francisco, CA, USA
| | - Maria de Lourde Torres
- Universidad San Francisco de Quito USFQ, Colegio de Ciencias Biológicas y Ambientales, Quito, Ecuador.,Universidad San Francisco de Quito (USFQ) and UNC-Chapel Hill Galapagos Science Center (GSC) Av. Alsacio Northia, Isla San Cristóbal, Galápagos, Ecuador
| | - Walter Bustos
- Dirección del Parque Nacional Galápagos, Puerto Ayora, Galápagos, Ecuador
| | - Danny Rueda
- Dirección del Parque Nacional Galápagos, Puerto Ayora, Galápagos, Ecuador
| | - Maximilian Hirschfeld
- Universidad San Francisco de Quito (USFQ) and UNC-Chapel Hill Galapagos Science Center (GSC) Av. Alsacio Northia, Isla San Cristóbal, Galápagos, Ecuador.,James Cook University, Townsville, QLD, Australia
| | - Juan M Guayasamin
- Universidad San Francisco de Quito USFQ, Colegio de Ciencias Biológicas y Ambientales, Quito, Ecuador.,Laboratorio de Biología Evolutiva, Instituto Biósfera, Universidad San Francisco de Quito, Quito, Ecuador.,Universidad San Francisco de Quito (USFQ) and UNC-Chapel Hill Galapagos Science Center (GSC) Av. Alsacio Northia, Isla San Cristóbal, Galápagos, Ecuador
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16
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Harvey JA, Chernicky K, Simons SR, Verrett TB, Chaves JA, Knutie SA. Urban living influences the nesting success of Darwin's finches in the Galápagos Islands. Ecol Evol 2021; 11:5038-5048. [PMID: 34025990 PMCID: PMC8131787 DOI: 10.1002/ece3.7360] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2020] [Revised: 01/27/2021] [Accepted: 01/29/2021] [Indexed: 11/23/2022] Open
Abstract
Urbanization is expanding worldwide with major consequences for organisms. Anthropogenic factors can reduce the fitness of animals but may have benefits, such as consistent human food availability. Understanding anthropogenic trade-offs is critical in environments with variable levels of natural food availability, such as the Galápagos Islands, an area of rapid urbanization. For example, during dry years, the reproductive success of bird species, such as Darwin's finches, is low because reduced precipitation impacts food availability. Urban areas provide supplemental human food to finches, which could improve their reproductive success during years with low natural food availability. However, urban finches might face trade-offs, such as the incorporation of anthropogenic debris (e.g., string, plastic) into their nests, which may increase mortality. In our study, we determined the effect of urbanization on the nesting success of small ground finches (Geospiza fuliginosa; a species of Darwin's finch) during a dry year on San Cristóbal Island. We quantified nest building, egg laying and hatching, and fledging in an urban and nonurban area and characterized the anthropogenic debris in nests. We also documented mortalities including nest trash-related deaths and whether anthropogenic materials directly led to entanglement- or ingestion-related nest mortalities. Overall, urban finches built more nests, laid more eggs, and produced more fledglings than nonurban finches. However, every nest in the urban area contained anthropogenic material, which resulted in 18% nestling mortality while nonurban nests had no anthropogenic debris. Our study showed that urban living has trade-offs: urban birds have overall higher nesting success during a dry year than nonurban birds, but urban birds can suffer mortality from anthropogenic-related nest-materials. These results suggest that despite potential costs, finches benefit overall from urban living and urbanization may buffer the effects of limited resource availability in the Galápagos Islands.
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Affiliation(s)
- Johanna A. Harvey
- Department of Ecology and Evolutionary BiologyUniversity of ConnecticutStorrsCTUSA
- Present address:
Division of Invertebrate ZoologyAmerican Museum of Natural HistoryNew YorkNYUSA
| | - Kiley Chernicky
- Department of Ecology and Evolutionary BiologyUniversity of ConnecticutStorrsCTUSA
| | - Shelby R. Simons
- Department of Ecology and Evolutionary BiologyUniversity of ConnecticutStorrsCTUSA
| | - Taylor B. Verrett
- Department of Ecology and Evolutionary BiologyUniversity of ConnecticutStorrsCTUSA
| | - Jaime A. Chaves
- Department of BiologySan Francisco State UniversitySan FranciscoCAUSA
- Colegio de Ciencias Biológicas y AmbientalesUniversidad San Francisco de QuitoLaboratorio de Biología EvolutivaDiego de Robles y PampiteQuitoEcuador
| | - Sarah A. Knutie
- Department of Ecology and Evolutionary BiologyUniversity of ConnecticutStorrsCTUSA
- Institute for Systems GenomicsUniversity of ConnecticutStorrsCTUSA
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17
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Dobreva MP, Lynton-Jenkins JG, Chaves JA, Tokita M, Bonneaud C, Abzhanov A. Sex identification in embryos and adults of Darwin's finches. PLoS One 2021; 16:e0237687. [PMID: 33667220 PMCID: PMC7935298 DOI: 10.1371/journal.pone.0237687] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2020] [Accepted: 02/16/2021] [Indexed: 11/25/2022] Open
Abstract
Darwin’s finches are an iconic example of adaptive radiation and evolution under natural selection. Comparative genetic studies using embryos of Darwin’s finches have shed light on the possible evolutionary processes underlying the speciation of this clade. Molecular identification of the sex of embryonic samples is important for such studies, where this information often cannot be inferred otherwise. We tested a fast and simple chicken embryo protocol to extract DNA from Darwin’s finch embryos. In addition, we applied minor modifications to two of the previously reported PCR primer sets for CHD1, a gene used for sexing adult passerine birds. The sex of all 29 tested embryos of six species of Darwin’s finches was determined successfully by PCR, using both primer sets. Next to embryos, hatchlings and fledglings are also impossible to distinguish visually. This extends to juveniles of sexually dimorphic species which are yet to moult in adult-like plumage and beak colouration. Furthermore, four species of Darwin’s finches are monomorphic, males and females looking alike. Therefore, sex assessment in the field can be a source of error, especially with respect to juveniles and mature monomorphic birds outside of the mating season. We caught 567 juveniles and adults belonging to six species of Darwin’s finches and only 44% had unambiguous sex-specific morphology. We sexed 363 birds by PCR: individuals sexed based on marginal sex specific morphological traits; and birds which were impossible to classify in the field. PCR revealed that for birds with marginal sex specific traits, sexing in the field produced a 13% error rate. This demonstrates that PCR based sexing can improve field studies on Darwin’s finches, especially when individuals with unclear sex-related morphology are involved. The protocols used here provide an easy and reliable way to sex Darwin’s finches throughout ontogeny, from embryos to adults.
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Affiliation(s)
- Mariya P. Dobreva
- Department of Life Sciences (Silwood Park), Imperial College London, Ascot, United Kingdom
- * E-mail: (MPD); (JGLJ)
| | - Joshua G. Lynton-Jenkins
- Centre for Ecology and Conservation, University of Exeter, Penryn, United Kingdom
- * E-mail: (MPD); (JGLJ)
| | - Jaime A. Chaves
- Department of Biology, San Francisco State University, San Francisco, California, United States of America
- Colegio de Ciencias Biológicas y Ambientales, Campus Cumbayá, Universidad San Francisco de Quito, Cumbayá, Quito, Ecuador
| | - Masayoshi Tokita
- Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, Massachusetts, United States of America
| | - Camille Bonneaud
- Centre for Ecology and Conservation, University of Exeter, Penryn, United Kingdom
| | - Arkhat Abzhanov
- Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, Massachusetts, United States of America
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18
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Fernández-Mazuecos M, Vargas P, McCauley RA, Monjas D, Otero A, Chaves JA, Guevara Andino JE, Rivas-Torres G. The Radiation of Darwin’s Giant Daisies in the Galápagos Islands. Curr Biol 2020; 30:4989-4998.e7. [DOI: 10.1016/j.cub.2020.09.019] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2020] [Revised: 08/04/2020] [Accepted: 09/07/2020] [Indexed: 12/13/2022]
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19
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Tattersall GJ, Danner RM, Chaves JA, Levesque DL. Activity analysis of thermal imaging videos using a difference imaging approach. J Therm Biol 2020; 91:102611. [PMID: 32716861 DOI: 10.1016/j.jtherbio.2020.102611] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2020] [Revised: 04/16/2020] [Accepted: 04/26/2020] [Indexed: 01/02/2023]
Abstract
Infrared thermal imaging is a passive imaging technique that captures the emitted radiation from an object to estimate surface temperature, often for inference of heat transfer. Infrared thermal imaging offers the potential to detect movement without the challenges of glare, shadows, or changes in lighting associated with visual digital imaging or active infrared imaging. In this paper, we employ a frame subtraction algorithm for extracting the pixel-by-pixel relative change in signal from a fixed focus video file, tailored for use with thermal imaging videos. By summing the absolute differences across an entire video, we are able to assign quantitative activity assessments to thermal imaging data for comparison with simultaneous recordings of metabolic rates. We tested the accuracy and limits of this approach by analyzing movement of a metronome and provide an example application of the approach to a study of Darwin's finches. In principle, this "Difference Imaging Thermography" (DIT) would allow for activity data to be standardized to energetic measurements and could be applied to any radiometric imaging system.
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Affiliation(s)
- Glenn J Tattersall
- Department of Biological Sciences, Brock University, St. Catharines, ON, L2S3A1, Canada.
| | - Raymond M Danner
- Department of Biology and Marine Biology, University of North Carolina Wilmington, 601 S. College Rd, Wilmington, NC, 28403, USA
| | - Jaime A Chaves
- Colegio de Ciencias Biológicas y Ambientales, Campus Cumbayá, Universidad San Francisco de Quito, Diego de Robles y Av. Interoceánica, Cumbayá, Quito, Ecuador; Department of Biology, San Francisco State University, 1600 Holloway Ave, San Francisco, CA, 94132, USA
| | - Danielle L Levesque
- Institute of Biodiversity and Environmental Conservation, Universiti Malaysia Sarawak, Kota Samarahan, Sarawak, Malaysia; School of Biology and Ecology, University of Maine, Orono, ME, USA
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20
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Beausoleil MO, Frishkoff LO, M'Gonigle LK, Raeymaekers JAM, Knutie SA, De León LF, Huber SK, Chaves JA, Clayton DH, Koop JAH, Podos J, Sharpe DMT, Hendry AP, Barrett RDH. Temporally varying disruptive selection in the medium ground finch ( Geospiza fortis). Proc Biol Sci 2019; 286:20192290. [PMID: 31795872 DOI: 10.1098/rspb.2019.2290] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
Disruptive natural selection within populations exploiting different resources is considered to be a major driver of adaptive radiation and the production of biodiversity. Fitness functions, which describe the relationships between trait variation and fitness, can help to illuminate how this disruptive selection leads to population differentiation. However, a single fitness function represents only a particular selection regime over a single specified time period (often a single season or a year), and therefore might not capture longer-term dynamics. Here, we build a series of annual fitness functions that quantify the relationships between phenotype and apparent survival. These functions are based on a 9-year mark-recapture dataset of over 600 medium ground finches (Geospiza fortis) within a population bimodal for beak size. We then relate changes in the shape of these functions to climate variables. We find that disruptive selection between small and large beak morphotypes, as reported previously for 2 years, is present throughout the study period, but that the intensity of this selection varies in association with the harshness of environment. In particular, we find that disruptive selection was strongest when precipitation was high during the dry season of the previous year. Our results shed light on climatic factors associated with disruptive selection in Darwin's finches, and highlight the role of temporally varying fitness functions in modulating the extent of population differentiation.
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Affiliation(s)
- Marc-Olivier Beausoleil
- Department of Biology and Redpath Museum, McGill University, 859 Rue Sherbrooke Ouest, Montréal, Québec, Canada H3A 0C4
| | - Luke O Frishkoff
- Department of Biology, University of Texas at Arlington, Arlington, TX, USA
| | - Leithen K M'Gonigle
- Department of Biological Sciences, Simon Fraser University, Burnaby BC V5A 1S6, Canada
| | | | - Sarah A Knutie
- Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, CT, USA
| | - Luis F De León
- Department of Biology, University of Massachusetts Boston, Boston, MA, USA.,Centro de Biodiversidad y Descubrimiento de Drogas, Instituto de Investigaciones Científicas y Servicios de Alta Tecnología, Panama
| | - Sarah K Huber
- Virginia Institute of Marine Science, College of William and Mary, Gloucester Point, VA, USA
| | - Jaime A Chaves
- Colegio de Ciencias Biológicas y Ambientales, Universidad San Francisco de Quito, Quito, Pichincha, Ecuador.,Galápagos Science Center, Puerto Baquerizo Moreno, Galápagos, Ecuador
| | - Dale H Clayton
- School of Biological Sciences, University of Utah, 257 South 1400 East, Salt Lake City, 84112 UT, USA
| | - Jennifer A H Koop
- Department of Biological Sciences, Northern Illinois University, 1425 W. Lincoln Hwy., DeKalb, IL 60115, USA
| | - Jeffrey Podos
- Department of Biology, University of Massachusetts, 221 Morrill Science Center, Amherst, MA, USA
| | - Diana M T Sharpe
- Department of Biology, University of Massachusetts Boston, Boston, MA, USA
| | - Andrew P Hendry
- Department of Biology and Redpath Museum, McGill University, 859 Rue Sherbrooke Ouest, Montréal, Québec, Canada H3A 0C4
| | - Rowan D H Barrett
- Department of Biology and Redpath Museum, McGill University, 859 Rue Sherbrooke Ouest, Montréal, Québec, Canada H3A 0C4
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21
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Carvajal‐Endara S, Hendry AP, Emery NC, Neu CP, Carmona D, Gotanda KM, Davies TJ, Chaves JA, Johnson MTJ. The ecology and evolution of seed predation by Darwin's finches onTribulus cistoideson the Galápagos Islands. ECOL MONOGR 2019. [DOI: 10.1002/ecm.1392] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Sofía Carvajal‐Endara
- Department of Biology McGill University 1205 Avenue Docteur Penfield Montréal H3A 1B1 Quebec Canada
| | - Andrew P. Hendry
- Department of Biology McGill University 1205 Avenue Docteur Penfield Montréal H3A 1B1 Quebec Canada
- Redpath Museum McGill University 859 Sherbrooke Street West Montréal H3A 0C4 Quebec Canada
| | - Nancy C. Emery
- Department of Ecology and Evolutionary Biology University of Colorado Boulder Boulder Colorado 80309‐0334 USA
| | - Corey P. Neu
- Department of Mechanical Engineering University of Colorado Boulder Boulder Colorado 80309‐0427 USA
| | - Diego Carmona
- Departamento de Ecología Tropical Campus de Ciencias Biológicas y Agropecuarias Universidad Autónoma de Yucatán Mérida Yucatán México
| | - Kiyoko M. Gotanda
- Department of Zoology University of Cambridge Cambridge CB2 3EJ United Kingdom
| | - T. Jonathan Davies
- Department of Biology McGill University 1205 Avenue Docteur Penfield Montréal H3A 1B1 Quebec Canada
- Biodiversity Research Centre Departments of Botany, Forest and Conservation Sciences University of British Columbia 2212 Main Mall Vancouver V6T 1Z4 British Columbia Canada
| | - Jaime A. Chaves
- Colegio de Ciencias Biológicas y Ambientales ‐ Extensión Galápagos Universidad San Francisco de Quito Campus Cumbayá, Casilla Postal 17‐1200‐841 Quito Ecuador
| | - Marc T. J. Johnson
- Department of Biology University of Toronto Mississauga Mississauga Ontario L5L 1C6 Canada
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22
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De León LF, Sharpe DMT, Gotanda KM, Raeymaekers JAM, Chaves JA, Hendry AP, Podos J. Urbanization erodes niche segregation in Darwin's finches. Evol Appl 2019; 12:1329-1343. [PMID: 31417618 PMCID: PMC6691225 DOI: 10.1111/eva.12721] [Citation(s) in RCA: 25] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2018] [Revised: 10/01/2018] [Accepted: 10/02/2018] [Indexed: 01/04/2023] Open
Abstract
Urbanization is influencing patterns of biological evolution in ways that are only beginning to be explored. One potential effect of urbanization is in modifying ecological resource distributions that underlie niche differences and that thus promote and maintain species diversification. Few studies have assessed such modifications, or their potential evolutionary consequences, in the context of ongoing adaptive radiation. We study this effect in Darwin's finches on the Galápagos Islands, by quantifying feeding preferences and diet niche partitioning across sites with different degrees of urbanization. We found higher finch density in urban sites and that feeding preferences and diets at urban sites skew heavily toward human food items. Furthermore, we show that finches at urban sites appear to be accustomed to the presence of people, compared with birds at sites with few people. In addition, we found that human behavior via the tendency to feed birds at non-urban but tourist sites is likely an important driver of finch preferences for human foods. Site differences in diet and feeding behavior have resulted in larger niche breadth within finch species and wider niche overlap between species at the urban sites. Both factors effectively minimize niche differences that would otherwise facilitate interspecies coexistence. These findings suggest that both human behavior and ongoing urbanization in Galápagos are starting to erode ecological differences that promote and maintain adaptive radiation in Darwin's finches. Smoothing of adaptive landscapes underlying diversification represents a potentially important yet underappreciated consequence of urbanization. Overall, our findings accentuate the fragility of the initial stages of adaptive radiation in Darwin's finches and raise concerns about the fate of the Galápagos ecosystems in the face of increasing urbanization.
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Affiliation(s)
- Luis F. De León
- Department of BiologyUniversity of Massachusetts BostonBostonMassachusetts
- Centro de Biodiversidad y Descubrimiento de DrogasInstituto de Investigaciones Científicas y Servicios de Alta Tecnología (INDICASAT‐AIP)Panamá CityPanamá
| | - Diana M. T. Sharpe
- Redpath Museum, Department of BiologyMcGill UniversityMontréalQuebecCanada
| | - Kiyoko M. Gotanda
- Redpath Museum, Department of BiologyMcGill UniversityMontréalQuebecCanada
- Department of ZoologyUniversity of CambridgeCambridgeUK
| | - Joost A. M. Raeymaekers
- Centre for Biodiversity Dynamics, Department of BiologyNorwegian University of Science and TechnologyTrondheimNorway
- Laboratory of Biodiversity and Evolutionary GenomicsUniversity of LeuvenLeuvenBelgium
| | - Jaime A. Chaves
- Colegio de Ciencias Biológicas y AmbientalesUniversidad San Francisco de Quito, Diego de Robles y PampiteQuitoEcuador
- Galápagos Science CenterPuerto Baquerizo MorenoGalápagosEcuador
| | - Andrew P. Hendry
- Redpath Museum, Department of BiologyMcGill UniversityMontréalQuebecCanada
| | - Jeffrey Podos
- Department of BiologyUniversity of Massachusetts AmherstAmherstMassachusetts
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23
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Song SJ, Sanders JG, Baldassarre DT, Chaves JA, Johnson NS, Piaggio AJ, Stuckey MJ, Nováková E, Metcalf JL, Chomel BB, Aguilar-Setién A, Knight R, McKenzie VJ. Is there convergence of gut microbes in blood-feeding vertebrates? Philos Trans R Soc Lond B Biol Sci 2019; 374:20180249. [PMID: 31154984 DOI: 10.1098/rstb.2018.0249] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022] Open
Abstract
Animal microbiomes play an important role in dietary adaptation, yet the extent to which microbiome changes exhibit parallel evolution is unclear. Of particular interest is an adaptation to extreme diets, such as blood, which poses special challenges in its content of proteins and lack of essential nutrients. In this study, we assessed taxonomic signatures (by 16S rRNA amplicon profiling) and potential functional signatures (inferred by Phylogenetic Investigation of Communities by Reconstruction of Unobserved States (PICRUSt)) of haematophagy in birds and bats. Our goal was to test three alternative hypotheses: no convergence of microbiomes, convergence in taxonomy and convergence in function. We find a statistically significant effect of haematophagy in terms of microbial taxonomic convergence across the blood-feeding bats and birds, although this effect is small compared to the differences found between haematophagous and non-haematophagous species within the two host clades. We also find some evidence of convergence at the predicted functional level, although it is possible that the lack of metagenomic data and the poor representation of microbial lineages adapted to haematophagy in genome databases limit the power of this approach. The results provide a paradigm for exploring convergent microbiome evolution replicated with independent contrasts in different host lineages. This article is part of the theme issue 'Convergent evolution in the genomics era: new insights and directions'.
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Affiliation(s)
- Se Jin Song
- 1 Department of Pediatrics, University of California San Diego , La Jolla, CA 92093 , USA
| | - Jon G Sanders
- 1 Department of Pediatrics, University of California San Diego , La Jolla, CA 92093 , USA.,2 Cornell Institute for Host-Microbe Interactions and Disease, Cornell University , Ithaca, NY 14853 , USA
| | | | - Jaime A Chaves
- 4 Colegio de Ciencias Biológicas y Ambientales, Universidad San Francisco de Quito, Quito, Ecuador.,5 Galápagos Science Center, Puerto Baquerizo Moreno, Galápagos, Ecuador
| | - Nicholas S Johnson
- 6 United States Geological Survey, Great Lakes Science Center , Hammond Bay Biological Station, Millersburg, MI 49759 , USA
| | - Antoinette J Piaggio
- 7 National Wildlife Research Center, U.S. Department of Agriculture , Fort Collins, CO 80521 , USA
| | - Matthew J Stuckey
- 8 Department of Population Health and Reproduction, School of Veterinary Medicine, University of California Davis , Davis CA 95616 , USA
| | - Eva Nováková
- 9 Faculty of Science, University of South Bohemia , České Budějovice , Czech Republic.,10 Biology Centre of ASCR, Institute of Parasitology , České Budějovice , Czech Republic
| | - Jessica L Metcalf
- 11 Department of Animal Sciences, Colorado State University , Fort Collins CO 80523 , USA
| | - Bruno B Chomel
- 8 Department of Population Health and Reproduction, School of Veterinary Medicine, University of California Davis , Davis CA 95616 , USA
| | - Alvaro Aguilar-Setién
- 12 Unidad de Investigación Médica en Inmunología, Coordinación de Investigación, Instituto Mexicano del Seguro Social, Centro Médico Nacional Siglo XXI, Hospital de Pediatría 3er piso , Mexico City , Mexico
| | - Rob Knight
- 1 Department of Pediatrics, University of California San Diego , La Jolla, CA 92093 , USA.,13 Center for Microbiome Research, University of California San Diego , San Diego, CA 92093 , USA.,14 Department of Computer Science and Engineering, University of California San Diego , San Diego, CA 92093 , USA
| | - Valerie J McKenzie
- 15 Department of Ecology and Evolutionary Biology, University of Colorado Boulder , Boulder, CO 80309 , USA
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24
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Knutie SA, Chaves JA, Gotanda KM. Human activity can influence the gut microbiota of Darwin's finches in the Galapagos Islands. Mol Ecol 2019; 28:2441-2450. [DOI: 10.1111/mec.15088] [Citation(s) in RCA: 31] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/02/2019] [Revised: 03/21/2019] [Accepted: 03/22/2019] [Indexed: 12/25/2022]
Affiliation(s)
- Sarah A. Knutie
- Department of Ecology and Evolutionary Biology University of Connecticut Storrs Connecticut
| | - Jaime A. Chaves
- Colegio de Ciencias Biológicas y Ambientales Universidad San Francisco de Quito Cumbayá Quito Ecuador
- Galápagos Science Center Puerto Baquerizo Moreno Ecuador
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25
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Michel AJ, Ward LM, Goffredi SK, Dawson KS, Baldassarre DT, Brenner A, Gotanda KM, McCormack JE, Mullin SW, O'Neill A, Tender GS, Uy JAC, Yu K, Orphan VJ, Chaves JA. The gut of the finch: uniqueness of the gut microbiome of the Galápagos vampire finch. Microbiome 2018; 6:167. [PMID: 30231937 PMCID: PMC6146768 DOI: 10.1186/s40168-018-0555-8] [Citation(s) in RCA: 41] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/29/2018] [Accepted: 09/05/2018] [Indexed: 05/13/2023]
Abstract
BACKGROUND Darwin's finches are a clade of 19 species of passerine birds native to the Galápagos Islands, whose biogeography, specialized beak morphologies, and dietary choices-ranging from seeds to blood-make them a classic example of adaptive radiation. While these iconic birds have been intensely studied, the composition of their gut microbiome and the factors influencing it, including host species, diet, and biogeography, has not yet been explored. RESULTS We characterized the microbial community associated with 12 species of Darwin's finches using high-throughput 16S rRNA sequencing of fecal samples from 114 individuals across nine islands, including the unusual blood-feeding vampire finch (Geospiza septentrionalis) from Darwin and Wolf Islands. The phylum-level core gut microbiome for Darwin's finches included the Firmicutes, Gammaproteobacteria, and Actinobacteria, with members of the Bacteroidetes at conspicuously low abundance. The gut microbiome was surprisingly well conserved across the diversity of finch species, with one exception-the vampire finch-which harbored bacteria that were either absent or extremely rare in other finches, including Fusobacterium, Cetobacterium, Ureaplasma, Mucispirillum, Campylobacter, and various members of the Clostridia-bacteria known from the guts of carnivorous birds and reptiles. Complementary stable isotope analysis of feathers revealed exceptionally high δ15N isotope values in the vampire finch, resembling top marine predators. The Galápagos archipelago is also known for extreme wet and dry seasons, and we observed a significant seasonal shift in the gut microbial community of five additional finch species sampled during both seasons. CONCLUSIONS This study demonstrates the overall conservatism of the finch gut microbiome over short (< 1 Ma) divergence timescales, except in the most extreme case of dietary specialization, and elevates the evolutionary importance of seasonal shifts in driving not only species adaptation, but also gut microbiome composition.
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Affiliation(s)
- Alice J Michel
- Division of Geological and Planetary Sciences, California Institute of Technology, Pasadena, CA, 91125, USA
| | - Lewis M Ward
- Division of Geological and Planetary Sciences, California Institute of Technology, Pasadena, CA, 91125, USA
| | - Shana K Goffredi
- Department of Biology, Occidental College, Los Angeles, CA, 90041, USA
| | - Katherine S Dawson
- Division of Geological and Planetary Sciences, California Institute of Technology, Pasadena, CA, 91125, USA
- School of Environmental and Biological Sciences, Rutgers University, New Brunswick, NJ, 08901, USA
| | - Daniel T Baldassarre
- Department of Ecology and Evolutionary Biology, Princeton University, Princeton, NJ, 08544, USA
| | - Alec Brenner
- Division of Geological and Planetary Sciences, California Institute of Technology, Pasadena, CA, 91125, USA
| | - Kiyoko M Gotanda
- Department of Zoology, University of Cambridge, Cambridge, CB2 3EJ, England
| | - John E McCormack
- Department of Biology, Occidental College, Los Angeles, CA, 90041, USA
| | - Sean W Mullin
- Division of Geological and Planetary Sciences, California Institute of Technology, Pasadena, CA, 91125, USA
| | - Ariel O'Neill
- Division of Geological and Planetary Sciences, California Institute of Technology, Pasadena, CA, 91125, USA
| | - Gabrielle S Tender
- Division of Geological and Planetary Sciences, California Institute of Technology, Pasadena, CA, 91125, USA
| | - J Albert C Uy
- Department of Biology, University of Miami, Coral Gables, FL, 33146, USA
| | - Kristie Yu
- Division of Geological and Planetary Sciences, California Institute of Technology, Pasadena, CA, 91125, USA
| | - Victoria J Orphan
- Division of Geological and Planetary Sciences, California Institute of Technology, Pasadena, CA, 91125, USA.
| | - Jaime A Chaves
- Colegio de Ciencias Biológicas y Ambientales, Universidad San Francisco de Quito, Diego de Robles y Pampite, Quito, Ecuador.
- Galápagos Science Center, Puerto Baquerizo Moreno, Galápagos, Ecuador.
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26
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Freile J, Bonaccorso E, Amigo X, Cadena-Ortiz HÉ, Navarrete R, Amigo Z, Piedrahita P, Chaves JA. Taxonomic Status of the Streaked Saltator, Saltator striatipectus (Passeriformes: Thraupidae), from Puná Island, Ecuador. Zootaxa 2018; 4420:445-450. [PMID: 30313539 DOI: 10.11646/zootaxa.4420.3.10] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2018] [Indexed: 11/04/2022]
Abstract
The Streaked Saltator, Saltator striatipectus, is an uncommon to common resident of open areas, cultivated land, gardens, and forest edges, with ten subspecies recognized from west Costa Rica through west Peru (Brewer 2016). Patterns of plumage variation, especially mantle color and streaking pattern below, are complex across subspecies and age classes (Chapman 1926; Ridgely Tudor 2009; Brewer 2016). Until recently, S. striatipectus was considered conspecific with the Lesser Antillean Saltator S. albicollis, but separated on the basis of genetic differentiation despite overall plumage similarities (Seutin et al. 1993). Actually, S. striatipectus and S. albicollis are not each other's closest relatives (Chaves et al. 2013).
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Affiliation(s)
- Juan Freile
- Comité Ecuatoriano de Registros Ornitológicos, Pasaje El Moro E4-216 y Norberto Salazar, Tumbaco, Ecuador.
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27
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Affiliation(s)
| | - Jaime A. Chaves
- Colegio de Ciencias Biológicas y AmbientalesUniversidad San Francisco de Quito Quito Cumbayá Ecuador
- Galápagos Science CenterPuerto Baquerizo Moreno Galápagos Ecuador
| | - Raymond M. Danner
- Department of Biology and Marine BiologyUniversity of North Carolina Wilmington Wilmington NC USA
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28
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Gaos AR, Lewison RL, Jensen MP, Liles MJ, Henriquez A, Chavarria S, Pacheco CM, Valle M, Melero D, Gadea V, Altamirano E, Torres P, Vallejo F, Miranda C, LeMarie C, Lucero J, Oceguera K, Chácon D, Fonseca L, Abrego M, Seminoff JA, Flores EE, Llamas I, Donadi R, Peña B, Muñoz JP, Ruales DA, Chaves JA, Otterstrom S, Zavala A, Hart CE, Brittain R, Alfaro-Shigueto J, Mangel J, Yañez IL, Dutton PH. Natal foraging philopatry in eastern Pacific hawksbill turtles. R Soc Open Sci 2017; 4:170153. [PMID: 28878969 PMCID: PMC5579084 DOI: 10.1098/rsos.170153] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/22/2017] [Accepted: 07/26/2017] [Indexed: 06/07/2023]
Abstract
The complex processes involved with animal migration have long been a subject of biological interest, and broad-scale movement patterns of many marine turtle populations still remain unresolved. While it is widely accepted that once marine turtles reach sexual maturity they home to natal areas for nesting or reproduction, the role of philopatry to natal areas during other life stages has received less scrutiny, despite widespread evidence across the taxa. Here we report on genetic research that indicates that juvenile hawksbill turtles (Eretmochelys imbricata) in the eastern Pacific Ocean use foraging grounds in the region of their natal beaches, a pattern we term natal foraging philopatry. Our findings confirm that traditional views of natal homing solely for reproduction are incomplete and that many marine turtle species exhibit philopatry to natal areas to forage. Our results have important implications for life-history research and conservation of marine turtles and may extend to other wide-ranging marine vertebrates that demonstrate natal philopatry.
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Affiliation(s)
- Alexander R. Gaos
- Department of Biology, San Diego State University, San Diego, CA, USA
- Graduate Group in Ecology, University of California Davis, Davis, CA, USA
- Marine Mammal and Turtle Division, Ocean Associates Inc., under contract to the Southwest Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration, La Jolla, CA, USA
- Eastern Pacific Hawksbill Initiative, San Diego, CA, USA
| | | | - Michael P. Jensen
- Marine Mammal and Turtle Division, Ocean Associates Inc., under contract to the Southwest Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration, La Jolla, CA, USA
| | - Michael J. Liles
- Department of Biology, University of Texas at El Paso, El Paso, TX, USA
- ProCosta, San Salvador, El Salvador
- Eastern Pacific Hawksbill Initiative, San Diego, CA, USA
| | - Ana Henriquez
- ProCosta, San Salvador, El Salvador
- Eastern Pacific Hawksbill Initiative, San Diego, CA, USA
| | - Sofia Chavarria
- ProCosta, San Salvador, El Salvador
- Eastern Pacific Hawksbill Initiative, San Diego, CA, USA
| | - Carlos Mario Pacheco
- ProCosta, San Salvador, El Salvador
- Eastern Pacific Hawksbill Initiative, San Diego, CA, USA
| | - Melissa Valle
- ProCosta, San Salvador, El Salvador
- Eastern Pacific Hawksbill Initiative, San Diego, CA, USA
| | - David Melero
- Eastern Pacific Hawksbill Initiative, San Diego, CA, USA
| | - Velkiss Gadea
- Marine Turtles Department, Fauna & Flora International, Managua, Nicaragua
- Eastern Pacific Hawksbill Initiative, San Diego, CA, USA
| | - Eduardo Altamirano
- Marine Turtles Department, Fauna & Flora International, Managua, Nicaragua
- Eastern Pacific Hawksbill Initiative, San Diego, CA, USA
| | - Perla Torres
- Instituto de Ciencias del Mar y Limnología, Unidad Académica Mazatlán, Universidad Nacional de Mexico, Mazatlán, Mexico
- Eastern Pacific Hawksbill Initiative, San Diego, CA, USA
| | - Felipe Vallejo
- Equilibrio Azul, Quito, Ecuador
- Eastern Pacific Hawksbill Initiative, San Diego, CA, USA
| | - Cristina Miranda
- Equilibrio Azul, Quito, Ecuador
- Eastern Pacific Hawksbill Initiative, San Diego, CA, USA
| | - Carolina LeMarie
- Equilibrio Azul, Quito, Ecuador
- Eastern Pacific Hawksbill Initiative, San Diego, CA, USA
| | - Jesus Lucero
- Grupo Tortuguero de las Californias, A.C, La Paz, Mexico
- Eastern Pacific Hawksbill Initiative, San Diego, CA, USA
| | - Karen Oceguera
- Grupo Tortuguero de las Californias, A.C, La Paz, Mexico
- Eastern Pacific Hawksbill Initiative, San Diego, CA, USA
| | - Didiher Chácon
- Latin American Sea Turtles, Tibás, Costa Rica
- Eastern Pacific Hawksbill Initiative, San Diego, CA, USA
| | - Luis Fonseca
- Latin American Sea Turtles, Tibás, Costa Rica
- Eastern Pacific Hawksbill Initiative, San Diego, CA, USA
| | - Marino Abrego
- Conservación de Recursos Costeros y Marinos, Ministerio del Ambiente de Panamá, Panama City, Panama
- Eastern Pacific Hawksbill Initiative, San Diego, CA, USA
| | - Jeffrey A. Seminoff
- Marine Mammal and Turtle Division, Southwest Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration, La Jolla, CA, USA
- Eastern Pacific Hawksbill Initiative, San Diego, CA, USA
| | - Eric E. Flores
- Sistema Nacional de Investigación, Panama City, Panama
- Instituto de Investigaciones Científicas y Servicios de Alta Tecnología, Panama City, Panama
| | - Israel Llamas
- Campamento Tortuguero Mayto, A.C., Mayto, Mexico
- Eastern Pacific Hawksbill Initiative, San Diego, CA, USA
| | | | - Bernardo Peña
- Conservación de Recursos Costeros y Marinos, Ministerio del Ambiente de Panamá, Panama City, Panama
| | - Juan Pablo Muñoz
- Marine Ecology Department, Universidad San Francisco de Quito/Galapagos Science Center, San Cristóbal, Galapagos Archipelago, Ecuador
- Eastern Pacific Hawksbill Initiative, San Diego, CA, USA
| | - Daniela Alarcòn Ruales
- Marine Ecology Department, Universidad San Francisco de Quito/Galapagos Science Center, San Cristóbal, Galapagos Archipelago, Ecuador
- Eastern Pacific Hawksbill Initiative, San Diego, CA, USA
| | - Jaime A. Chaves
- Marine Ecology Department, Universidad San Francisco de Quito/Galapagos Science Center, San Cristóbal, Galapagos Archipelago, Ecuador
| | - Sarah Otterstrom
- Paso Pacifico, Managua, Nicaragua
- Eastern Pacific Hawksbill Initiative, San Diego, CA, USA
| | - Alan Zavala
- Unidad Sinaloa, Centro Interdisciplinario de Investigación para el Desarrollo Integral Regional, Sinaloa, Mexico
- Instituto Politécnico Nacional, Sinaloa, Mexico
- Eastern Pacific Hawksbill Initiative, San Diego, CA, USA
| | - Catherine E. Hart
- Red Tortuguera, A.C, Guayabitos, Mexico
- Eastern Pacific Hawksbill Initiative, San Diego, CA, USA
| | - Rachel Brittain
- Akazul, La Barrona, Guatemala
- Eastern Pacific Hawksbill Initiative, San Diego, CA, USA
| | - Joanna Alfaro-Shigueto
- Marine Turtle Research Group, School of Biosciences, University of Exeter, Penryn, UK
- Marine Biology Department, Universidad Cientifica del Sur, Lima, Peru
- ProDelphinus, Lima, Peru
- Eastern Pacific Hawksbill Initiative, San Diego, CA, USA
| | - Jeffrey Mangel
- Marine Turtle Research Group, School of Biosciences, University of Exeter, Penryn, UK
- Eastern Pacific Hawksbill Initiative, San Diego, CA, USA
| | | | - Peter H. Dutton
- Marine Mammal and Turtle Division, Southwest Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration, La Jolla, CA, USA
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29
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Chaves JA, Peña M, Valdés-Uribe JA, Muñoz-Pérez JP, Vallejo F, Heidemeyer M, Torres-Carvajal O. Connectivity, population structure, and conservation of Ecuadorian green sea turtles. ENDANGER SPECIES RES 2017. [DOI: 10.3354/esr00809] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022] Open
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Chaves JA, Cooper EA, Hendry AP, Podos J, De León LF, Raeymaekers JAM, MacMillan W, Uy JAC. Genomic variation at the tips of the adaptive radiation of Darwin's finches. Mol Ecol 2016; 25:5282-5295. [DOI: 10.1111/mec.13743] [Citation(s) in RCA: 77] [Impact Index Per Article: 9.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/23/2015] [Revised: 06/27/2016] [Accepted: 06/28/2016] [Indexed: 01/22/2023]
Affiliation(s)
- Jaime A. Chaves
- Department of Biology; University of Miami; Coral Gables FL 33146 USA
- Universidad San Francisco de Quito, USFQ; Colegio de Ciencias Biológicas y Ambientales; y Extensión Galápagos Campus Cumbayá Quito Ecuador
| | - Elizabeth A. Cooper
- Department of Biology; University of Miami; Coral Gables FL 33146 USA
- Department of Genetics and Biochemistry; Clemson University; Clemson SC 29634 USA
| | - Andrew P. Hendry
- Redpath Museum; Department of Biology; McGill University; Montréal QC Canada
| | - Jeffrey Podos
- Department of Biology; University of Massachusetts Amherst; Amherst MA 01003 USA
| | - Luis F. De León
- Centro de Biodiversidad y Descubrimiento de Drogas; Instituto de Investigaciones Científicas y Servicios de Alta Tecnología (INDICASAT-AIP); Ciudad del Saber Panama Panama
- Department of Biology; University of Massachusetts Boston; 100 Morrissey Blvd Boston MA 02125 USA
| | - Joost A. M. Raeymaekers
- Laboratory of Biodiversity and Evolutionary Genomics; University of Leuven; B-3000 Leuven Belgium
- Center for Biodiversity Dynamics; Department of Biology; Norwegian University of Science and Technology; N-7491 Trondheim Norway
| | | | - J. Albert C. Uy
- Department of Biology; University of Miami; Coral Gables FL 33146 USA
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31
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Torres-Carvajal O, Rodríguez-Guerra A, Chaves JA. Present diversity of Galápagos leaf-toed geckos (Phyllodactylidae: Phyllodactylus) stems from three independent colonization events. Mol Phylogenet Evol 2016; 103:1-5. [PMID: 27400628 DOI: 10.1016/j.ympev.2016.07.006] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/11/2016] [Revised: 05/23/2016] [Accepted: 07/07/2016] [Indexed: 10/21/2022]
Abstract
We re-examined the biogeography of the leaf-toed geckos (Phyllodactylus) endemic to the Galápagos Islands by analyzing for the first time samples of P. gilberti, a species endemic to Wolf island, in a phylogenetic framework. Our aim was to test the three-colonizations scenario previously proposed for these lizards and estimate the age of each colonization event. To achieve this we estimated simultaneously a species tree and divergence times with Bayesian methods. Our results supported the three-colonizations scenario. Similar to a previous hypothesis, the species tree obtained here showed that most species of Phyllodactylus are nested in a single clade with an age between 5.49 and 13.8Ma, whereas a second independent colonization corresponding to P. darwini from San Cristóbal island occurred 3.03Ma ago. The species from Wolf island, P. gilberti, stems from a more recent colonization event (0.69Ma). Thus, present diversity of Galápagos leaf-toed geckos stems from three independent, asynchronous colonization events. As with other Galápagos organisms, the Pacific coast of South America seems to be the source for the founders of P. gilberti.
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Affiliation(s)
- Omar Torres-Carvajal
- Museo de Zoología, Escuela de Biología, Pontificia Universidad Católica del Ecuador, Avenida 12 de Octubre y Roca, Apartado 17-01-2184, Quito, Ecuador.
| | - Andrea Rodríguez-Guerra
- Museo de Zoología, Escuela de Biología, Pontificia Universidad Católica del Ecuador, Avenida 12 de Octubre y Roca, Apartado 17-01-2184, Quito, Ecuador
| | - Jaime A Chaves
- Universidad San Francisco de Quito, Colegio de Ciencias Biológicas y Ambientales - Extensión Galápagos, Campus Cumbayá, Casilla Postal 17-1200-841, Quito, Ecuador
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32
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Gaos AR, Lewison RL, Liles MJ, Gadea V, Altamirano E, Henríquez AV, Torres P, Urteaga J, Vallejo F, Baquero A, LeMarie C, Muñoz JP, Chaves JA, Hart CE, Peña de Niz A, Chácon D, Fonseca L, Otterstrom S, Yañez IL, LaCasella EL, Frey A, Jensen MP, Dutton PH. Hawksbill turtle terra incognita: conservation genetics of eastern Pacific rookeries. Ecol Evol 2016; 6:1251-64. [PMID: 26941950 PMCID: PMC4761781 DOI: 10.1002/ece3.1897] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/21/2015] [Revised: 11/21/2015] [Accepted: 11/26/2015] [Indexed: 11/05/2022] Open
Abstract
Prior to 2008 and the discovery of several important hawksbill turtle (Eretmochelys imbricata) nesting colonies in the EP (Eastern Pacific), the species was considered virtually absent from the region. Research since that time has yielded new insights into EP hawksbills, salient among them being the use of mangrove estuaries for nesting. These recent revelations have raised interest in the genetic characterization of hawksbills in the EP, studies of which have remained lacking to date. Between 2008 and 2014, we collected tissue samples from 269 nesting hawksbills at nine rookeries across the EP and used mitochondrial DNA sequences (766 bp) to generate the first genetic characterization of rookeries in the region. Our results inform genetic diversity, population differentiation, and phylogeography of the species. Hawksbills in the EP demonstrate low genetic diversity: We identified a total of only seven haplotypes across the region, including five new and two previously identified nesting haplotypes (pooled frequencies of 58.4% and 41.6%, respectively), the former only evident in Central American rookeries. Despite low genetic diversity, we found strong stock structure between the four principal rookeries, suggesting the existence of multiple populations and warranting their recognition as distinct management units. Furthermore, haplotypes EiIP106 and EiIP108 are unique to hawksbills that nest in mangrove estuaries, a behavior found only in hawksbills along Pacific Central America. The detected genetic differentiation supports the existence of a novel mangrove estuary "reproductive ecotype" that may warrant additional conservation attention. From a phylogeographic perspective, our research indicates hawksbills colonized the EP via the Indo-Pacific, and do not represent relict populations isolated from the Atlantic by the rising of the Panama Isthmus. Low overall genetic diversity in the EP is likely the combined result of few rookeries, extremely small reproductive populations and evolutionarily recent colonization events. Additional research with larger sample sizes and variable markers will help further genetic understanding of hawksbill turtles in the EP.
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Klicka J, Keith Barker F, Burns KJ, Lanyon SM, Lovette IJ, Chaves JA, Bryson RW. A comprehensive multilocus assessment of sparrow (Aves: Passerellidae) relationships. Mol Phylogenet Evol 2014; 77:177-82. [DOI: 10.1016/j.ympev.2014.04.025] [Citation(s) in RCA: 37] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/06/2013] [Revised: 04/16/2014] [Accepted: 04/21/2014] [Indexed: 11/30/2022]
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Harrigan RJ, Sedano R, Chasar AC, Chaves JA, Nguyen JT, Whitaker A, Smith TB. New host and lineage diversity of avian haemosporidia in the northern Andes. Evol Appl 2014; 7:799-811. [PMID: 25469161 PMCID: PMC4227860 DOI: 10.1111/eva.12176] [Citation(s) in RCA: 45] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2013] [Accepted: 03/25/2014] [Indexed: 12/22/2022] Open
Abstract
The northern Andes, with their steep elevational and climate gradients, are home to an exceptional diversity of flora and fauna, particularly rich in avian species that have adapted to divergent ecological conditions. With this diversity comes the opportunity for parasites to exploit a wide breadth of avian hosts. However, little research has focused on examining the patterns of prevalence and lineage diversity of avian parasites in the Andes. Here, we screened a total of 428 birds from 19 species (representing nine families) and identified 133 infections of avian haemosporidia (31%), including lineages of Plasmodium, Haemoproteus, and Leucocytozoon. We document a higher prevalence of haemosporidia at higher elevations and lower temperatures, as well as an overall high diversity of lineages in the northern Andes, including the first sequences of haemosporidians reported in hummingbirds (31 sequences found in 11 species within the family Trochilidae). Double infections were distinguished using PHASE, which enables the separation of distinct parasite lineages. Results suggest that the ecological heterogeneity of the northern Andes that has given rise to a rich diversity of avian hosts may also be particularly conducive to parasite diversification and specialization.
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Affiliation(s)
- Ryan J Harrigan
- Center for Tropical Research, Institute of the
Environment and Sustainability, University of CaliforniaLos Angeles, CA, USA
| | - Raul Sedano
- Escuela de Biología, Universidad Industrial de
SantanderBucaramanga, Colombia
| | - Anthony C Chasar
- Center for Tropical Research, Institute of the
Environment and Sustainability, University of CaliforniaLos Angeles, CA, USA
| | - Jaime A Chaves
- Department of Biology, University of MiamiCoral Gables, FL, USA
- Universidad San Francisco de Quito, USFQ, Colegio de
Ciencias Biológicas y Ambientales, y Extensión Galápagos, Campus
CumbayáCasilla, Ecuador
| | - Jennifer T Nguyen
- Department of Ecology and Evolutionary Biology,
University of CaliforniaLos Angeles, CA, USA
| | - Alexis Whitaker
- Department of Ecology and Evolutionary Biology,
University of CaliforniaLos Angeles, CA, USA
| | - Thomas B Smith
- Center for Tropical Research, Institute of the
Environment and Sustainability, University of CaliforniaLos Angeles, CA, USA
- Department of Ecology and Evolutionary Biology,
University of CaliforniaLos Angeles, CA, USA
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Abstract
The faunas associated with oceanic islands provide exceptional examples with which to examine the dispersal abilities of different taxa and test the relative contribution of selective and neutral processes in evolution. We examine the patterns of recent differentiation and the relative roles of gene flow and selection in genetic and morphological variation in the yellow warbler (Dendroica petechia aureola) from the Galápagos and Cocos Islands. Our analyses suggest aureola diverged from Central American lineages colonizing the Galápagos and Cocos Islands recently, likely less than 300 000 years ago. Within the Galápagos, patterns of genetic variation in microsatellite and mitochondrial markers suggest early stages of diversification. No intra-island patterns of morphological variation were found, even across steep ecological gradients, suggesting that either (i) high levels of gene flow may be homogenizing the effects of selection, (ii) populations may not have had enough time to accumulate the differences in morphological traits, or (iii) yellow warblers show lower levels of 'evolvability' than some other Galápagos species. By examining genetic data and morphological variation, our results provide new insight into the microevolutionary processes driving the patterns of variation.
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Affiliation(s)
- J A Chaves
- Center for Tropical Research, Institute of the Environment, University of California, Los Angeles, CA 90095-1496, USA.
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Affiliation(s)
- Jaime A Chaves
- Center for Tropical Research, Institute of the Environment, University of California, Los Angeles, 619 Charles E. Young Dr. South, La Kretz Hall, Suite 300, Los Angeles, CA 90095-1496, USA.
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Chaves JA, Smith TB. Evolutionary patterns of diversification in the Andean hummingbird genus Adelomyia. Mol Phylogenet Evol 2011; 60:207-18. [PMID: 21558009 DOI: 10.1016/j.ympev.2011.04.007] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2010] [Revised: 04/08/2011] [Accepted: 04/11/2011] [Indexed: 10/18/2022]
Abstract
The patterns of genetic diversity and morphological variation are of central importance in understanding the evolutionary process that drive diversification. We use molecular, morphological, and ecological data to explore the influence of geography and ecology in promoting speciation in the widespread Andean hummingbird genus Adelomyia. Six monophyletic clades were recovered which show distributional limits at well-defined geographic barriers. Percentage sequence divergence ranged between 5.8% and 8.2% between phylogroups separated by large (>4000 km) and small (<50 km) distances respectively, suggesting that geographic isolation may be influential at very different scales. We show that morphological traits in independent phylogroups are more related to environmental heterogeneity than to geographic barriers. We provide a molecular reconstruction of relationships within Adelomyia and recommend its use in future comparative studies of historical biogeography and diversification in the Andes.
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Affiliation(s)
- Jaime A Chaves
- Center for Tropical Research, Institute of Environment, University of California, Los Angeles, 619 Charles E. Young Dr. South, La Kretz Hall, Suite 300, Los Angeles, CA 90095-1496, USA.
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Chaves JA, Pollinger JP, Smith TB, LeBuhn G. The role of geography and ecology in shaping the phylogeography of the speckled hummingbird (Adelomyia melanogenys) in Ecuador. Mol Phylogenet Evol 2006; 43:795-807. [PMID: 17208464 DOI: 10.1016/j.ympev.2006.11.006] [Citation(s) in RCA: 45] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/16/2006] [Revised: 10/31/2006] [Accepted: 11/03/2006] [Indexed: 10/23/2022]
Abstract
The Andes of South America contain one of the richest avifaunas in the world, but little is known about how this diversity arises and is maintained. Variation in mitochondrial DNA and morphology within the speckled hummingbird (Adelomyia melanogenys) was used to elucidate the phylogeographic pattern along an Ecuadorian elevational gradient, from the coastal cordillera to the inland Andean montane region. We examined sequence, climatic/remote sensing and morphological data to understand the effects of topography and ecology on patterns of variation. Populations on either side of the Andes are genetically divergent and were separated during a period that corresponds to the final stages of Andean uplift during the Pliocene. Despite isolation, these two populations were found to be morphologically similar suggesting a strong effect of stabilizing selection across ecologically similar Andean cloud forests, as assessed using climatic and remote sensing data. In contrast, little genetic divergence was found between coastal and west-Andean individuals, suggesting recent interruption of gene flow between these localities. However, coastal populations were found to inhabit different habitats compared to Andean populations as shown by climatic and remote sensing variables. Furthermore, coastal individuals had significantly longer bills compared to their montane relatives, indicative of differential directional selection and the influence of habitat differences in shaping phenotypic variation. Results highlight the role of both isolation and ecology in diversification in Ecuadorian montane regions, while suggesting the two may not always act in concert to produce divergence in adaptive traits.
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Affiliation(s)
- Jaime A Chaves
- Department of Biology, San Francisco State University, San Francisco, CA 94132, USA.
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Chaves JF, Chaves JA, Lantz MS. The PBL-Evaluator: a web-based tool for assessment in tutorials. J Dent Educ 1998; 62:671-4. [PMID: 9789492] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/09/2023]
Affiliation(s)
- J F Chaves
- Department of Oral Biology, Indiana University of School Dentistry, Indianapolis 46202, USA.
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