1
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Graham BA, Hipfner JM, Wellband KW, Ito M, Burg TM. Genetic-environment associations explain genetic differentiation and variation between western and eastern North Pacific rhinoceros auklet ( Cerorhinca monocerata) breeding colonies. Ecol Evol 2024; 14:e11534. [PMID: 38994218 PMCID: PMC11237344 DOI: 10.1002/ece3.11534] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/23/2023] [Revised: 05/03/2024] [Accepted: 05/13/2024] [Indexed: 07/13/2024] Open
Abstract
Animals are strongly connected to the environments they live in and may become adapted to local environments. Examining genetic-environment associations of key indicator species, like seabirds, provides greater insights into the forces that drive evolution in marine systems. Here we examined a RADseq dataset of 19,213 SNPs for 99 rhinoceros auklets (Cerorhinca monocerata) from five western Pacific and 10 eastern Pacific breeding colonies. We used partial redundancy analyses to identify candidate adaptive loci and to quantify the effects of environmental variation on population genetic structure. We identified 262 candidate adaptive loci, which accounted for 3.0% of the observed genetic variation among western Pacific and eastern Pacific breeding colonies. Genetic variation was more strongly associated with pH and maximum current velocity, than maximum sea surface temperature. Genetic-environment associations explain genetic differences between western and eastern Pacific populations; however, genetic variation within the western and eastern Pacific Ocean populations appears to follow a pattern of isolation-by-distance. This study represents a first to quantify the relationship between environmental and genetic variation for this widely distributed marine species and provides greater insights into the evolutionary forces that act on marine species.
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Affiliation(s)
- Brendan A Graham
- Department of Biological Sciences University of Lethbridge Lethbridge Alberta Canada
- Institute of Arctic Biology University of Alaska Fairbanks Fairbanks Alaska USA
| | - J Mark Hipfner
- Wildlife Research Division Environment and Climate Change Canada Delta British Columbia Canada
| | - Kyle W Wellband
- Fisheries and Oceans Canada West Vancouver British Columbia Canada
| | - Motohiro Ito
- Faculty of Life Sciences Toyo University Bunkyō-ku Japan
| | - Theresa M Burg
- Department of Biological Sciences University of Lethbridge Lethbridge Alberta Canada
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2
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Roast MJ, Martins S, Fernández-Peralta L, Báez JC, Diame A, March D, Ouled-Cheikh J, Marco A, González-Solís J, Cardona L. Hidden demographic impacts of fishing and environmental drivers of fecundity in a sea turtle population. CONSERVATION BIOLOGY : THE JOURNAL OF THE SOCIETY FOR CONSERVATION BIOLOGY 2023; 37:e14110. [PMID: 37144486 DOI: 10.1111/cobi.14110] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/05/2022] [Revised: 02/22/2023] [Accepted: 04/23/2023] [Indexed: 05/06/2023]
Abstract
Fisheries bycatch is a critical threat to sea turtle populations worldwide, particularly because turtles are vulnerable to multiple gear types. The Canary Current is an intensely fished region, yet there has been no demographic assessment integrating bycatch and population management information of the globally significant Cabo Verde loggerhead turtle (Caretta caretta) population. Using Boa Vista island (Eastern Cabo Verde) subpopulation data from capture-recapture and nest monitoring (2013-2019), we evaluated population viability and estimated regional bycatch rates (2016-2020) in longline, trawl, purse-seine, and artisanal fisheries. We further evaluated current nesting trends in the context of bycatch estimates, existing hatchery conservation measures, and environmental (net primary productivity) variability in turtle foraging grounds. We projected that current bycatch mortality rates would lead to the near extinction of the Boa Vista subpopulation. Bycatch reduction in longline fisheries and all fisheries combined would increase finite population growth rate by 1.76% and 1.95%, respectively. Hatchery conservation increased hatchling production and reduced extinction risk, but alone it could not achieve population growth. Short-term increases in nest counts (2013-2021), putatively driven by temporary increases in net primary productivity, may be masking ongoing long-term population declines. When fecundity was linked to net primary productivity, our hindcast models simultaneously predicted these opposing long-term and short-term trends. Consequently, our results showed conservation management must diversify from land-based management. The masking effect we found has broad-reaching implications for monitoring sea turtle populations worldwide, demonstrating the importance of directly estimating adult survival and that nest counts might inadequately reflect underlying population trends.
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Affiliation(s)
- Michael J Roast
- Departament de Biologia Evolutiva, Ecologia i Ciències Ambientals (BEECA), Facultat de Biologia, Universitat de Barcelona, Barcelona, Spain
| | - Samir Martins
- BIOS.CV, Environmental Conservation and Sustainable Development, Sal Rei, Cabo Verde
| | | | - José Carlos Báez
- Centro Oceanográfico de Málaga, IEO (CSIC), Fuengirola, Spain
- Instituto Iberoamericano de Desarrollo Sostenible (IIDS), Universidad Autónoma de Chile, Temuco, Chile
| | - Ahmed Diame
- BirdLife Africa, West Africa Sub-Regional Office, Dakar, Senegal
| | - David March
- Departament de Biologia Evolutiva, Ecologia i Ciències Ambientals (BEECA), Facultat de Biologia, Universitat de Barcelona, Barcelona, Spain
- Institut de Recerca de la Biodiversitat (IRBio), Barcelona, Spain
- Centre for Ecology and Conservation, College of Life and Environmental Science, University of Exeter, Penryn, UK
| | - Jazel Ouled-Cheikh
- Departament de Biologia Evolutiva, Ecologia i Ciències Ambientals (BEECA), Facultat de Biologia, Universitat de Barcelona, Barcelona, Spain
- Institut de Recerca de la Biodiversitat (IRBio), Barcelona, Spain
| | - Adolfo Marco
- Estación Biológica de Doñana, CSIC, Sevilla, Spain
| | - Jacob González-Solís
- Departament de Biologia Evolutiva, Ecologia i Ciències Ambientals (BEECA), Facultat de Biologia, Universitat de Barcelona, Barcelona, Spain
- Institut de Recerca de la Biodiversitat (IRBio), Barcelona, Spain
| | - Luis Cardona
- Departament de Biologia Evolutiva, Ecologia i Ciències Ambientals (BEECA), Facultat de Biologia, Universitat de Barcelona, Barcelona, Spain
- Institut de Recerca de la Biodiversitat (IRBio), Barcelona, Spain
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3
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Swift DG, O'Leary SJ, Grubbs RD, Frazier BS, Fields AT, Gardiner JM, Drymon JM, Bethea DM, Wiley TR, Portnoy DS. Philopatry influences the genetic population structure of the blacktip shark (Carcharhinus limbatus) at multiple spatial scales. Mol Ecol 2023; 32:4953-4970. [PMID: 37566208 DOI: 10.1111/mec.17096] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2022] [Revised: 07/22/2023] [Accepted: 07/28/2023] [Indexed: 08/12/2023]
Abstract
Understanding how interactions among microevolutionary forces generate genetic population structure of exploited species is vital to the implementation of management policies that facilitate persistence. Philopatry displayed by many coastal shark species can impact gene flow and facilitate selection, and has direct implications for the spatial scales of management. Here, genetic structure of the blacktip shark (Carcharhinus limbatus) was examined using a mixed-marker approach employing mitochondrial control region sequences and 4339 SNP-containing loci generated using ddRAD-Seq. Genetic variation was assessed among young-of-the-year sampled in 11 sites in waters of the United States in the western North Atlantic Ocean, including the Gulf of Mexico. Spatial and environmental analyses detected 68 nuclear loci putatively under selection, enabling separate assessments of neutral and adaptive genetic structure. Both mitochondrial and neutral SNP data indicated three genetically distinct units-the Atlantic, eastern Gulf, and western Gulf-that align with regional stocks and suggest regional philopatry by males and females. Heterogeneity at loci putatively under selection, associated with temperature and salinity, was observed among sites within Gulf units, suggesting local adaptation. Furthermore, five pairs of siblings were identified in the same site across timescales corresponding with female reproductive cycles. This indicates that females re-used a site for parturition, which has the potential to facilitate the sorting of adaptive variation among neighbouring sites. The results demonstrate differential impacts of microevolutionary forces at varying spatial scales and highlight the importance of conserving essential habitats to maintain sources of adaptive variation that may buffer species against environmental change.
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Affiliation(s)
- Dominic G Swift
- Marine Genomics Laboratory, Department of Life Sciences, Texas A&M University-Corpus Christi, Corpus Christi, Texas, USA
| | - Shannon J O'Leary
- Marine Genomics Laboratory, Department of Life Sciences, Texas A&M University-Corpus Christi, Corpus Christi, Texas, USA
- Department of Biology, Saint Anselm College, Manchester, New Hampshire, USA
| | - R Dean Grubbs
- Florida State University Coastal and Marine Laboratory, St. Teresa, Florida, USA
| | - Bryan S Frazier
- South Carolina Department of Natural Resources, Marine Resources Research Institute, Charleston, South Carolina, USA
| | - Andrew T Fields
- Marine Genomics Laboratory, Department of Life Sciences, Texas A&M University-Corpus Christi, Corpus Christi, Texas, USA
| | - Jayne M Gardiner
- Division of Natural Sciences, New College of Florida, Sarasota, Florida, USA
| | - J Marcus Drymon
- Coastal Research and Extension Center, Mississippi State University, Biloxi, Mississippi, USA
- Mississippi-Alabama Sea Grant Consortium, Ocean Springs, Mississippi, USA
| | - Dana M Bethea
- NOAA Fisheries, U.S. Department of Commerce, Southeast Regional Office, Interagency Cooperation Branch, Protected Resources Division, St. Petersburg, Florida, USA
| | - Tonya R Wiley
- Havenworth Coastal Conservation, Palmetto, Florida, USA
| | - David S Portnoy
- Marine Genomics Laboratory, Department of Life Sciences, Texas A&M University-Corpus Christi, Corpus Christi, Texas, USA
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4
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Deem SL, Rivera S, Nieto‐Claudin A, Emmel E, Cabrera F, Blake S. Temperature along an elevation gradient determines Galapagos tortoise sex ratios. Ecol Evol 2023; 13:e10008. [PMID: 37091568 PMCID: PMC10116026 DOI: 10.1002/ece3.10008] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2022] [Revised: 03/27/2023] [Accepted: 03/31/2023] [Indexed: 04/25/2023] Open
Abstract
Climate change threatens endemic island ectothermic reptiles that display small population sizes and temperature-dependent sex determination (TSD). Studies of captive Galapagos tortoises demonstrate type A TSD with warmer incubation temperatures producing females. However, there are few published data from free-living Galapagos tortoises on incubation temperature regimes, and none on hatchling sex ratios in the wild or the potential impacts of climate change on future sex ratios. We sought to address these deficits by quantifying incubation temperatures of nests and sex ratios of juvenile tortoises along an elevation gradient on Santa Cruz Island. We focused on three geographically separated nesting zones with mean elevations of 14 m (lower), 57 m (middle), and 107 m (upper) above sea level. Nest temperatures in 54 nests distributed across the three nesting zones were measured every 4 h throughout the incubation period using iButton thermochrons. We used coelioscopy to conduct visual exams of gonads to determine the sex of 40 juvenile tortoises from the three nesting zones. During the middle trimester of incubation, the period during which sex is determined in turtles, mean nest temperatures were 25.75°C (SD = 1.08) in the upper zone, and 27.02°C (SD = 1.09), and 27.09°C (SD = 0.85) in the middle and lower zones, respectively. The proportion of juveniles that was male increased from 11.1% in the lower zone and 9.5% in the middle zone, to 80% in the upper zone. A ca. 50 m increase in elevation induced a decrease of >1.25°C in mean nest temperature during the second trimester of incubation. Over the same elevation change, the proportion of males in the juvenile tortoise population increased by ca. 70%. Temperatures on Galapagos are predicted to increase by 1-4°C over the next 50 years, which is likely to increase the frequency of female tortoises across the archipelago.
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Affiliation(s)
- Sharon L. Deem
- One Government DriveSaint Louis Zoo Institute for Conservation MedicineSt. LouisMissouriUSA
- Charles Darwin FoundationSanta CruzGalapagos IslandsEcuador
| | - Sam Rivera
- Department of Animal HealthZoo AtlantaAtlantaGeorgiaUSA
| | - Ainoa Nieto‐Claudin
- One Government DriveSaint Louis Zoo Institute for Conservation MedicineSt. LouisMissouriUSA
- Charles Darwin FoundationSanta CruzGalapagos IslandsEcuador
| | - Evan Emmel
- The Maritime Aquarium at NorwalkNorwalkConnecticutUSA
| | - Freddy Cabrera
- Charles Darwin FoundationSanta CruzGalapagos IslandsEcuador
| | - Stephen Blake
- Charles Darwin FoundationSanta CruzGalapagos IslandsEcuador
- Department of BiologySaint Louis UniversitySt. LouisMissouriUSA
- Max Planck Institute of Animal BehaviorRadolfzellGermany
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5
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Patino-Martinez J, Veiga J, Afonso IO, Yeoman K, Mangas-Viñuela J, Charles G. Light Sandy Beaches Favour Hatching Success and Best Hatchling Phenotype of Loggerhead Turtles. Front Ecol Evol 2022. [DOI: 10.3389/fevo.2022.823118] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
We conducted a 5-year field (2017–2021) and laboratory study of the relationship between type of substrate and hatching success, embryonic development, and the quality of hatchlings in loggerhead turtle nests. Our study site, the island of Maio in the archipelago of Cabo Verde, one of the world’s largest loggerhead turtle nesting colonies, displays marked heterogeneity of sand colouration, with dark, mixed, and light sandy beaches. We experimentally incubated eggs, comparing different nesting substrates under standard temperature and humidity conditions. Females nest in all sand types without preference. However, both the field and experimental study revealed a significant difference in hatching success depending on the type of substrate. Substrate of volcanic origin, dark in colour, with a lower amount of calcium carbonate, had a lower hatching success (HS; 30.3 ± 20.2%) compared to substrates of mixed (HS = 46.1 ± 26.5%) or light (HS = 78.1 ± 18.2%) colour. Eggs experimentally incubated in substrate that was light-coloured, with a larger grain size and higher calcium carbonate concentration, produced significantly more and larger offspring. Incubation temperatures were significantly higher in dark substrate, which partially explains the lower hatching success in this type of sand. However, experimental incubation with controlled temperatures consistently showed lower hatching success in dark sand. Thus, we found that not only the temperature, but also the specific characteristics of each substrate determine hatching success. The main predator of eggs and hatchlings (the ghost crab Ocypode cursor) showed no significant differences in abundance or size between different substrate types. Our results indicate that nest site selection between beaches or even within the same beach with different substrate conditions affects hatching success, hatchling physical condition, and subsequently the reproductive success of each female. The results of this study can inform conservation programmes with nest management and controlled incubation in the field and optimise adaptive nest management under future scenarios of rising global temperatures.
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6
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Martin KR, Mansfield KL, Savage AE. Adaptive evolution of major histocompatibility complex class I immune genes and disease associations in coastal juvenile sea turtles. ROYAL SOCIETY OPEN SCIENCE 2022; 9:211190. [PMID: 35154791 PMCID: PMC8825991 DOI: 10.1098/rsos.211190] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/15/2021] [Accepted: 01/06/2022] [Indexed: 05/12/2023]
Abstract
Characterizing polymorphism at the major histocompatibility complex (MHC) genes is key to understanding the vertebrate immune response to disease. Despite being globally afflicted by the infectious tumour disease fibropapillomatosis (FP), immunogenetic variation in sea turtles is minimally explored. We sequenced the α 1 peptide-binding region of MHC class I genes (162 bp) from 268 juvenile green (Chelonia mydas) and 88 loggerhead (Caretta caretta) sea turtles in Florida, USA. We recovered extensive variation (116 alleles) and trans-species polymorphism. Supertyping analysis uncovered three functional MHC supertypes corresponding to the three well-supported clades in the phylogeny. We found significant evidence of positive selection at seven amino acid sites in the class I exon. Random forest modelling and risk ratio analysis of Ch. mydas alleles uncovered one allele weakly associated with smooth FP tumour texture, which may be associated with disease outcome. Our study represents the first characterization of MHC class I diversity in Ch. mydas and the largest sample of sea turtles used to date in any study of adaptive genetic variation, revealing tremendous genetic variation and high adaptive potential to viral pathogen threats. The novel associations we identified between MHC diversity and FP outcomes in sea turtles further highlight the importance of evaluating genetic predictors of disease, including MHC and other functional markers.
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Affiliation(s)
- Katherine R. Martin
- Department of Biology, University of Central Florida, 4110 Libra Drive, Orlando, FL 32816, USA
| | - Katherine L. Mansfield
- Department of Biology, University of Central Florida, 4110 Libra Drive, Orlando, FL 32816, USA
| | - Anna E. Savage
- Department of Biology, University of Central Florida, 4110 Libra Drive, Orlando, FL 32816, USA
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7
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Lockley EC, Eizaguirre C. Effects of global warming on species with temperature-dependent sex determination: Bridging the gap between empirical research and management. Evol Appl 2021; 14:2361-2377. [PMID: 34745331 PMCID: PMC8549623 DOI: 10.1111/eva.13226] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2020] [Revised: 03/05/2021] [Accepted: 03/11/2021] [Indexed: 12/31/2022] Open
Abstract
Global warming could threaten over 400 species with temperature-dependent sex determination (TSD) worldwide, including all species of sea turtle. During embryonic development, rising temperatures might lead to the overproduction of one sex and, in turn, could bias populations' sex ratios to an extent that threatens their persistence. If climate change predictions are correct, and biased sex ratios reduce population viability, species with TSD may go rapidly extinct unless adaptive mechanisms, whether behavioural, physiological or molecular, exist to buffer these temperature-driven effects. Here, we summarize the discovery of the TSD phenomenon and its still elusive evolutionary significance. We then review the molecular pathways underpinning TSD in model species, along with the hormonal mechanisms that interact with temperatures to determine an individual's sex. To illustrate evolutionary mechanisms that can affect sex determination, we focus on sea turtle biology, discussing both the adaptive potential of this threatened TSD taxon, and the risks associated with conservation mismanagement.
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Affiliation(s)
- Emma C. Lockley
- School of Biological and Chemical SciencesQueen Mary University LondonLondonUK
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8
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Critical In-Water Habitats for Post-Nesting Sea Turtles from the Southern Gulf of Mexico. JOURNAL OF MARINE SCIENCE AND ENGINEERING 2021. [DOI: 10.3390/jmse9080793] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Abstract
Marine turtles are globally endangered species that spend more than 95% of their life cycle in in-water habitats. Nevertheless, most of the conservation, recovery and research efforts have targeted the on-land habitats, due to their easier access, where adult females lay their eggs. Targeting the large knowledge gaps on the in-water critical habitats of turtles, particularly in the Large Marine Ecosystem Gulf of Mexico, is crucial for their conservation and recovery in the long term. We used satellite telemetry to track 85 nesting females from their beaches after they nested to identify their feeding and residency habitats, their migratory corridors and to describe the context for those areas. We delimited major migratory corridors in the southern Gulf of Mexico and West Caribbean and described physical features of internesting and feeding home ranges located mainly around the Yucatan Peninsula and Veracruz, Mexico. We also contributed by describing general aggregation and movement patterns for the four marine turtle species in the Atlantic, expanding the knowledge of the studied species. Several tracked individuals emigrated from the Gulf of Mexico to as far as Nicaragua, Honduras, and the Bahamas. This information is critical for identifying gaps in marine protection and for deciphering the spatial connectivity in large ocean basins, and it provides an opportunity to assess potential impacts on marine turtle populations and their habitats.
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9
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Byer NW, Holding ML, Crowell MM, Pierson TW, Dilts TE, Larrucea ES, Shoemaker KT, Matocq MD. Adaptive divergence despite low effective population size in a peripherally isolated population of the pygmy rabbit, Brachylagus idahoensis. Mol Ecol 2021; 30:4173-4188. [PMID: 34166550 DOI: 10.1111/mec.16040] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2020] [Revised: 06/01/2021] [Accepted: 06/18/2021] [Indexed: 11/30/2022]
Abstract
Local adaptation can occur when spatially separated populations are subjected to contrasting environmental conditions. Historically, understanding the genetic basis of adaptation has been difficult, but increased availability of genome-wide markers facilitates studies of local adaptation in non-model organisms of conservation concern. The pygmy rabbit (Brachylagus idahoensis) is an imperiled lagomorph that relies on sagebrush for forage and cover. This reliance has led to widespread population declines following reductions in the distribution of sagebrush, leading to geographic separation between populations. In this study, we used >20,000 single nucleotide polymorphisms, genotype-environment association methods, and demographic modeling to examine neutral genetic variation and local adaptation in the pygmy rabbit in Nevada and California. We identified 308 loci as outliers, many of which had functional annotations related to metabolism of plant secondary compounds. Likewise, patterns of spatial variation in outlier loci were correlated with landscape and climatic variables including proximity to streams, sagebrush cover, and precipitation. We found that populations in the Mono Basin of California probably diverged from other Great Basin populations during late Pleistocene climate oscillations, and that this region is adaptively differentiated from other regions in the southern Great Basin despite limited gene flow and low effective population size. Our results demonstrate that peripherally isolated populations can maintain adaptive divergence.
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Affiliation(s)
- Nathan W Byer
- Department of Natural Resources and Environmental Science, University of Nevada-Reno, Reno, Nevada, USA
| | - Matthew L Holding
- Department of Natural Resources and Environmental Science, University of Nevada-Reno, Reno, Nevada, USA
| | - Miranda M Crowell
- Department of Natural Resources and Environmental Science, University of Nevada-Reno, Reno, Nevada, USA
| | - Todd W Pierson
- Department of Ecology, Evolution, and Organismal Biology, Kennesaw State University, Kennesaw, Georgia, USA
| | - Thomas E Dilts
- Department of Natural Resources and Environmental Science, University of Nevada-Reno, Reno, Nevada, USA
| | | | - Kevin T Shoemaker
- Department of Natural Resources and Environmental Science, University of Nevada-Reno, Reno, Nevada, USA
| | - Marjorie D Matocq
- Department of Natural Resources and Environmental Science, University of Nevada-Reno, Reno, Nevada, USA
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Seaborn T, Griffith D, Kliskey A, Caudill CC. Building a bridge between adaptive capacity and adaptive potential to understand responses to environmental change. GLOBAL CHANGE BIOLOGY 2021; 27:2656-2668. [PMID: 33666302 DOI: 10.1111/gcb.15579] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/10/2020] [Accepted: 02/16/2021] [Indexed: 06/12/2023]
Abstract
Adaptive capacity is a topic at the forefront of environmental change research with roots in both social, ecological, and evolutionary science. It is closely related to the evolutionary biology concept of adaptive potential. In this systematic literature review, we: (1) summarize the history of these topics and related fields; (2) assess relationship(s) between the concepts among disciplines and the use of the terms in climate change research, and evaluate methodologies, metrics, taxa biases, and the geographic scale of studies; and (3) provide a synthetic conceptual framework to clarify concepts. Bibliometric analyses revealed the terms have been used most frequently in conservation and evolutionary biology journals, respectively. There has been a greater growth in studies of adaptive potential than adaptive capacity since 2001, but a greater geographical extent of adaptive capacity studies. Few studies include both, and use is often superficial. Our synthesis considers adaptive potential as one process contributing to adaptive capacity of complex systems, notes "sociological" adaptive capacity definitions include actions aimed at desired outcome (i.e., policies) as a system driver whereas "biological" definitions exclude such drivers, and suggests models of adaptive capacity require integration of evolutionary and social-ecological system components.
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Affiliation(s)
- Travis Seaborn
- Department of Fish and Wildlife Sciences, University of Idaho, Moscow, ID, USA
| | - David Griffith
- Center for Resilient Communities, University of Idaho, Moscow, ID, USA
| | - Andrew Kliskey
- Center for Resilient Communities, University of Idaho, Moscow, ID, USA
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11
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Lockley EC, Fouda L, Correia SM, Taxonera A, Nash LN, Fairweather K, Reischig T, Durão J, Dinis H, Roque SM, Lomba JP, Dos Passos L, Cameron SJK, Stiebens VA, Eizaguirre C. Long-term survey of sea turtles (Caretta caretta) reveals correlations between parasite infection, feeding ecology, reproductive success and population dynamics. Sci Rep 2020; 10:18569. [PMID: 33122760 PMCID: PMC7596700 DOI: 10.1038/s41598-020-75498-4] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2020] [Accepted: 10/12/2020] [Indexed: 11/11/2022] Open
Abstract
Long-term monitoring of host-parasite interactions is important for understanding the consequences of infection on host fitness and population dynamics. In an eight-year survey of the loggerhead sea turtle (Caretta caretta) population nesting in Cabo Verde, we determined the spatiotemporal variation of Ozobranchus margoi, a sanguivorous leech best known as a vector for sea turtle fibropapilloma virus. We quantified O. margoi association with turtles’ δ15N and δ13C stable isotopes to identify where infection occurs. We then measured the influence of infection on reproduction and offspring fitness. We found that parasite prevalence has increased from 10% of the population in 2010, to 33% in 2017. Stable isotope analysis of host skin samples suggests transmission occurs within the host’s feeding grounds. Interestingly, we found a significant interaction between individual size and infection on the reproductive success of turtles. Specifically, small, infected females produced fewer offspring of poorer condition, while in contrast, large, infected turtles produced greater clutch sizes and larger offspring. We interpret this interaction as evidence, upon infection, for a size-dependent shift in reproductive strategy from bet hedging to terminal investment, altering population dynamics. This link between infection and reproduction underscores the importance of using long-term monitoring to quantify the impact of disease dynamics over time.
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Affiliation(s)
- Emma C Lockley
- School of Biological and Chemical Sciences, Queen Mary University of London, Mile End Road, London, E14NS, UK.
| | - Leila Fouda
- School of Biological and Chemical Sciences, Queen Mary University of London, Mile End Road, London, E14NS, UK
| | - Sandra M Correia
- Instituto Do Mar I.P. (IMar), Cova de Inglesa, C.P 132, Mindelo, Ilha do São Vicente, Cabo Verde
| | - Albert Taxonera
- School of Biological and Chemical Sciences, Queen Mary University of London, Mile End Road, London, E14NS, UK.,Associação Projeto Biodiversidade, Mercado Municipal 22, Santa Maria 4111, Ilha do Sal, Cabo Verde
| | - Liam N Nash
- School of Biological and Chemical Sciences, Queen Mary University of London, Mile End Road, London, E14NS, UK
| | - Kirsten Fairweather
- Associação Projeto Biodiversidade, Mercado Municipal 22, Santa Maria 4111, Ilha do Sal, Cabo Verde
| | | | - Jandira Durão
- Biosfera I, Rua de Moçambique 28, Mindelo, Ilha do São Vicente, Cabo Verde
| | - Herculano Dinis
- Associação Projecto Vitó, Xaguate, São Felipe, Ilha do Fogo, Cabo Verde
| | | | - João Pina Lomba
- Associação Ambiental Caretta Caretta, Achada Igreja, Pedra Badejo, Santa Cruz, Ilha do Santiago, Cabo Verde
| | - Leno Dos Passos
- Fundação Maio Biodiversidade, Cidade de Porto Inglês, Ilha do Maio, Cabo Verde
| | - Sahmorie J K Cameron
- School of Biological and Chemical Sciences, Queen Mary University of London, Mile End Road, London, E14NS, UK
| | - Victor A Stiebens
- School of Biological and Chemical Sciences, Queen Mary University of London, Mile End Road, London, E14NS, UK
| | - Christophe Eizaguirre
- School of Biological and Chemical Sciences, Queen Mary University of London, Mile End Road, London, E14NS, UK
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12
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Distribution of genetic diversity reveals colonization patterns and philopatry of the loggerhead sea turtles across geographic scales. Sci Rep 2020; 10:18001. [PMID: 33093463 PMCID: PMC7583243 DOI: 10.1038/s41598-020-74141-6] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2020] [Accepted: 09/21/2020] [Indexed: 12/23/2022] Open
Abstract
Understanding the processes that underlie the current distribution of genetic diversity in endangered species is a goal of modern conservation biology. Specifically, the role of colonization and dispersal events throughout a species' evolutionary history often remains elusive. The loggerhead sea turtle (Caretta caretta) faces multiple conservation challenges due to its migratory nature and philopatric behaviour. Here, using 4207 mtDNA sequences, we analysed the colonisation patterns and distribution of genetic diversity within a major ocean basin (the Atlantic), a regional rookery (Cabo Verde Archipelago) and a local island (Island of Boa Vista, Cabo Verde). Data analysis using hypothesis-driven population genetic models suggests the colonization of the Atlantic has occurred in two distinct waves, each corresponding to a major mtDNA lineage. We propose the oldest lineage entered the basin via the isthmus of Panama and sequentially established aggregations in Brazil, Cabo Verde and in the area of USA and Mexico. The second lineage entered the Atlantic via the Cape of Good Hope, establishing colonies in the Mediterranean Sea, and from then on, re-colonized the already existing rookeries of the Atlantic. At the Cabo Verde level, we reveal an asymmetric gene flow maintaining links across island-specific nesting groups, despite significant genetic structure. This structure stems from female philopatric behaviours, which could further be detected by weak but significant differentiation amongst beaches separated by only a few kilometres on the island of Boa Vista. Exploring biogeographic processes at diverse geographic scales improves our understanding of the complex evolutionary history of highly migratory philopatric species. Unveiling the past facilitates the design of conservation programmes targeting the right management scale to maintain a species' evolutionary potential.
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13
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Assessment of the key evolutionary traits that prevent extinctions in human-altered habitats using a spatially explicit individual-based model. Ecol Modell 2020. [DOI: 10.1016/j.ecolmodel.2019.108823] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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14
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Cuevas E, Liceaga-Correa MA, Uribe-Martínez A. Ecological vulnerability of two sea turtle species in the Gulf of Mexico: an integrated spatial approach. ENDANGER SPECIES RES 2019. [DOI: 10.3354/esr00984] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022] Open
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15
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Abstract
The geographic distribution of migratory species can span thousands of kilometers. Yet, traits that enable large-scale migrations are poorly understood. A recent study demonstrates that juvenile eels use the Earth's magnetism for their dispersal, with possible implications for their evolution.
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Affiliation(s)
- Miguel Baltazar-Soares
- Faculty of Science and Technology, Bournemouth University, Christchurch House, Talbot Campus, Poole, Dorset BH12 5BB, UK.
| | - Christophe Eizaguirre
- Queen Mary University of London, School of Biological and Chemical Sciences, Mile End Road, E14NS, London, UK
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16
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Kundu S, Tyagi K, Mohanty SR, Roy S, Mohapatra A, Kumar V, Chandra K. DNA barcoding inferred maternal philopatric affinity of ocean maskray ( Neotrygon indica) in the Bay of Bengal. Mitochondrial DNA B Resour 2019. [DOI: 10.1080/23802359.2019.1616622] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022] Open
Affiliation(s)
- Shantanu Kundu
- Centre for DNA Taxonomy, Molecular Systematics Division, Zoological Survey of India, Kolkata, India
| | - Kaomud Tyagi
- Centre for DNA Taxonomy, Molecular Systematics Division, Zoological Survey of India, Kolkata, India
| | | | - Sanmitra Roy
- Estuarine Biology Regional Centre, Zoological Survey of India, Gopalpur, India
| | - Anil Mohapatra
- Estuarine Biology Regional Centre, Zoological Survey of India, Gopalpur, India
| | - Vikas Kumar
- Centre for DNA Taxonomy, Molecular Systematics Division, Zoological Survey of India, Kolkata, India
| | - Kailash Chandra
- Centre for DNA Taxonomy, Molecular Systematics Division, Zoological Survey of India, Kolkata, India
- Estuarine Biology Regional Centre, Zoological Survey of India, Gopalpur, India
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17
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Incorporating non-equilibrium dynamics into demographic history inferences of a migratory marine species. Heredity (Edinb) 2018; 122:53-68. [PMID: 29720718 DOI: 10.1038/s41437-018-0077-y] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2018] [Revised: 03/08/2018] [Accepted: 03/17/2018] [Indexed: 01/26/2023] Open
Abstract
Understanding how dispersal and gene flow link geographically separated the populations over evolutionary history is challenging, particularly in migratory marine species. In southern right whales (SRWs, Eubalaena australis), patterns of genetic diversity are likely influenced by the glacial climate cycle and recent history of whaling. Here we use a dataset of mitochondrial DNA (mtDNA) sequences (n = 1327) and nuclear markers (17 microsatellite loci, n = 222) from major wintering grounds to investigate circumpolar population structure, historical demography and effective population size. Analyses of nuclear genetic variation identify two population clusters that correspond to the South Atlantic and Indo-Pacific ocean basins that have similar effective breeder estimates. In contrast, all wintering grounds show significant differentiation for mtDNA, but no sex-biased dispersal was detected using the microsatellite genotypes. An approximate Bayesian computation (ABC) approach with microsatellite markers compared the scenarios with gene flow through time, or isolation and secondary contact between ocean basins, while modelling declines in abundance linked to whaling. Secondary-contact scenarios yield the highest posterior probabilities, implying that populations in different ocean basins were largely isolated and came into secondary contact within the last 25,000 years, but the role of whaling in changes in genetic diversity and gene flow over recent generations could not be resolved. We hypothesise that these findings are driven by factors that promote isolation, such as female philopatry, and factors that could promote dispersal, such as oceanographic changes. These findings highlight the application of ABC approaches to infer the connectivity in mobile species with complex population histories and, currently, low levels of differentiation.
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18
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Carreras C, Pascual M, Tomás J, Marco A, Hochscheid S, Castillo JJ, Gozalbes P, Parga M, Piovano S, Cardona L. Sporadic nesting reveals long distance colonisation in the philopatric loggerhead sea turtle (Caretta caretta). Sci Rep 2018; 8:1435. [PMID: 29362421 PMCID: PMC5780500 DOI: 10.1038/s41598-018-19887-w] [Citation(s) in RCA: 20] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2017] [Accepted: 01/10/2018] [Indexed: 11/08/2022] Open
Abstract
The colonisation of new suitable habitats is crucial for species survival at evolutionary scale under changing environmental conditions. However, colonisation potential may be limited by philopatry that facilitates exploiting successful habitats across generations. We examine the mechanisms of long distance dispersal of the philopatric loggerhead sea turtle (Caretta caretta) by analysing 40 sporadic nesting events in the western Mediterranean. The analysis of a fragment of the mitochondrial DNA and 7 microsatellites of 121 samples from 18 of these nesting events revealed that these nests were colonising events associated with juveniles from distant populations feeding in nearby foraging grounds. Considering the temperature-dependent sex determination of the species, we simulated the effect of the incubation temperature and propagule pressure on a potential colonisation scenario. Our results indicated that colonisation will succeed if warm temperature conditions, already existing in some of the beaches in the area, extend to the whole western Mediterranean. We hypothesize that the sporadic nesting events in developmental foraging grounds may be a mechanism to overcome philopatry limitations thus increasing the dispersal capabilities of the species and the adaptability to changing environments. Sporadic nesting in the western Mediterranean can be viewed as potential new populations in a scenario of rising temperatures.
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Affiliation(s)
- Carlos Carreras
- Department of Genetics, Microbiology and Statistics and IRBio, University of Barcelona, Av.Diagonal 643, E-08028, Barcelona, Spain.
- Centre for Ecology and Conservation, University of Exeter, Cornwall Campus, Penryn, TR10 9EZ, UK.
| | - Marta Pascual
- Department of Genetics, Microbiology and Statistics and IRBio, University of Barcelona, Av.Diagonal 643, E-08028, Barcelona, Spain
| | - Jesús Tomás
- Cavanilles Institute of Biodiversity and Evolutionary Biology, University of Valencia, Apdo. 22085, E-46071, Valencia, Spain
| | - Adolfo Marco
- Estación Biológica de Doñana, CSIC, c/ Américo Vespucio s/n, E-41092, Sevilla, Spain
| | - Sandra Hochscheid
- Marine Turtle Research Centre, Department RIMAR, Stazione Zoologica Anton Dohrn, Via Nuova Macello, 80055, Portici, Italy
| | - Juan José Castillo
- CREMA (Centro de Recuperación de Especies Marinas Amenazadas), Aula del Mar de Málaga-Consejería de Medio Ambiente de la Junta de Andalucía, c/Pacífico 80, E-29004, Málaga, Spain
| | - Patricia Gozalbes
- Cavanilles Institute of Biodiversity and Evolutionary Biology, University of Valencia, Apdo. 22085, E-46071, Valencia, Spain
| | - Mariluz Parga
- Submon Marine Conservation, Rabassa 49, E-08024, Barcelona, Spain
- Marine Animal Rescue Center (CRAM), Passeig de la Platja 28-30, E-08820, El Prat de Llobregat, Spain
| | - Susanna Piovano
- Dipartimento di Biologia Animale e dell'Uomo, University of Torino, Via Accademia Albertina 13, 10123, Turin, Italy
- School of Marine Studies, The University of the South Pacific, Laucala Campus, Prive Mail Bag, Suva, Fiji
| | - Luis Cardona
- Department of Evolutionary Biology, Ecology and Environmental Sciences and IRBIo, University of Barcelona, Avda. Diagonal 643, E-08028, Barcelona, Spain
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Huguin M, Arechiga-Ceballos N, Delaval M, Guidez A, de Castro IJ, Lacoste V, Salmier A, Setién AA, Silva CR, Lavergne A, de Thoisy B. How Social Structure Drives the Population Dynamics of the Common Vampire Bat (Desmodus rotundus, Phyllostomidae). J Hered 2017; 109:393-404. [DOI: 10.1093/jhered/esx111] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2017] [Accepted: 12/01/2017] [Indexed: 01/25/2023] Open
Affiliation(s)
- Maïlis Huguin
- Kwata NGO, Cayenne, French Guiana
- Laboratoire des Interactions Virus Hôtes, Institut Pasteur de la Guyane, Cayenne, French Guiana
| | - Nidia Arechiga-Ceballos
- Laboratorio de Rabia, Instituto de Diagnóstico y Referencia Epidemiológicos. Mexico DF, Mexico
| | | | - Amandine Guidez
- Laboratoire des Interactions Virus Hôtes, Institut Pasteur de la Guyane, Cayenne, French Guiana
| | - Isaï Jorge de Castro
- Laboratório de Mamíferos, Instituto de Pesquisas Científicas e Tecnológicas do Estado do Amapá, Macapá, Amapá, Brazil
| | - Vincent Lacoste
- Laboratoire des Interactions Virus Hôtes, Institut Pasteur de la Guyane, Cayenne, French Guiana
| | - Arielle Salmier
- Laboratoire des Interactions Virus Hôtes, Institut Pasteur de la Guyane, Cayenne, French Guiana
| | - Alvaro Aguilar Setién
- Unidad de Investigación Médica en Inmunología, Coordinación de Investigación, Instituto Mexicano del Seguro Social, México DF, Mexico
| | - Claudia Regina Silva
- Laboratório de Mamíferos, Instituto de Pesquisas Científicas e Tecnológicas do Estado do Amapá, Macapá, Amapá, Brazil
| | - Anne Lavergne
- Laboratoire des Interactions Virus Hôtes, Institut Pasteur de la Guyane, Cayenne, French Guiana
| | - Benoit de Thoisy
- Kwata NGO, Cayenne, French Guiana
- Laboratoire des Interactions Virus Hôtes, Institut Pasteur de la Guyane, Cayenne, French Guiana
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20
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Ng CKY, Dutton PH, Gu HX, Li TH, Ye MB, Xia ZR, Zhang FY, Duan JX, Hsu CK, Balazs GH, Murphy MB. Regional Conservation Implications of Green Turtle (Chelonia mydas) Genetic Stock Composition in China. CHELONIAN CONSERVATION AND BIOLOGY 2017. [DOI: 10.2744/ccb-1253.1] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Affiliation(s)
- Connie Ka Yan Ng
- Department of Biology and Chemistry and State Key Laboratory in Marine Pollution, City University of Hong Kong, Kowloon Tong, Hong Kong Special Administrative Region, People's Republic of China [ ; ];
| | - Peter H. Dutton
- Southwest Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration, 8901 La Jolla Shores Drive, La Jolla, California 92037 USA [ ];
| | - He Xiang Gu
- Guangdong Huidong Sea Turtle National Nature Reserve Bureau. China Sea Turtle Base. Sea Turtle Bay, Gangkou Town, Huidong County, Guangdong Province, 516359, People's Republic of China [ ; ; ; ; ];
| | - Tsung Hsien Li
- National Museum of Marine Biology and Aquarium, Checheng, Pingtung, 94450, Taiwan [ ];
| | - Ming Bin Ye
- Guangdong Huidong Sea Turtle National Nature Reserve Bureau. China Sea Turtle Base. Sea Turtle Bay, Gangkou Town, Huidong County, Guangdong Province, 516359, People's Republic of China [ ; ; ; ; ];
| | - Zhong Rong Xia
- Guangdong Huidong Sea Turtle National Nature Reserve Bureau. China Sea Turtle Base. Sea Turtle Bay, Gangkou Town, Huidong County, Guangdong Province, 516359, People's Republic of China [ ; ; ; ; ];
| | - Fei Yan Zhang
- Guangdong Huidong Sea Turtle National Nature Reserve Bureau. China Sea Turtle Base. Sea Turtle Bay, Gangkou Town, Huidong County, Guangdong Province, 516359, People's Republic of China [ ; ; ; ; ];
| | - Jin Xia Duan
- Guangdong Huidong Sea Turtle National Nature Reserve Bureau. China Sea Turtle Base. Sea Turtle Bay, Gangkou Town, Huidong County, Guangdong Province, 516359, People's Republic of China [ ; ; ; ; ];
| | - Chung Kang Hsu
- Penghu Marine Biology Research Center, Fisheries Research Institute, 266, Shihli, Magong, Penghu, Taiwan [ ];
| | - George H. Balazs
- NOAA Pacific Islands Fisheries Science Center, National Oceanic and Atmospheric Administration, 1845 Wasp Boulevard. Honolulu, Hawaii 96818 USA [ ; ]
| | - Margaret B. Murphy
- Department of Biology and Chemistry and State Key Laboratory in Marine Pollution, City University of Hong Kong, Kowloon Tong, Hong Kong Special Administrative Region, People's Republic of China [ ; ];
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21
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Population genomics of an endemic Mediterranean fish: differentiation by fine scale dispersal and adaptation. Sci Rep 2017; 7:43417. [PMID: 28262802 PMCID: PMC5338269 DOI: 10.1038/srep43417] [Citation(s) in RCA: 57] [Impact Index Per Article: 8.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2016] [Accepted: 01/24/2017] [Indexed: 12/04/2022] Open
Abstract
The assessment of the genetic structuring of biodiversity is crucial for management and conservation. For species with large effective population sizes a low number of markers may fail to identify population structure. A solution of this shortcoming can be high-throughput sequencing that allows genotyping thousands of markers on a genome-wide approach while facilitating the detection of genetic structuring shaped by selection. We used Genotyping-by-Sequencing (GBS) on 176 individuals of the endemic East Atlantic peacock wrasse (Symphodus tinca), from 6 locations in the Adriatic and Ionian seas. We obtained a total of 4,155 polymorphic SNPs and we observed two strong barriers to gene flow. The first one differentiated Tremiti Islands, in the northwest, from all the other locations while the second one separated east and south-west localities. Outlier SNPs potentially under positive selection and neutral SNPs both showed similar patterns of structuring, although finer scale differentiation was unveiled with outlier loci. Our results reflect the complexity of population genetic structure and demonstrate that both habitat fragmentation and positive selection are on play. This complexity should be considered in biodiversity assessments of different taxa, including non-model yet ecologically relevant organisms.
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22
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Gillingham MAF, Béchet A, Courtiol A, Rendón-Martos M, Amat JA, Samraoui B, Onmuş O, Sommer S, Cézilly F. Very high MHC Class IIB diversity without spatial differentiation in the mediterranean population of greater Flamingos. BMC Evol Biol 2017; 17:56. [PMID: 28219340 PMCID: PMC5319168 DOI: 10.1186/s12862-017-0905-3] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2016] [Accepted: 02/06/2017] [Indexed: 02/07/2023] Open
Abstract
Background Selective pressure from pathogens is thought to shape the allelic diversity of major histocompatibility complex (MHC) genes in vertebrates. In particular, both local adaptation to pathogens and gene flow are thought to explain a large part of the intraspecific variation observed in MHC allelic diversity. To date, however, evidence that adaptation to locally prevalent pathogens maintains MHC variation is limited to species with limited dispersal and, hence, reduced gene flow. On the one hand high gene flow can disrupt local adaptation in species with high dispersal rates, on the other hand such species are much more likely to experience spatial variation in pathogen pressure, suggesting that there may be intense pathogen mediated selection pressure operating across breeding sites in panmictic species. Such pathogen mediated selection pressure operating across breeding sites should therefore be sufficient to maintain high MHC diversity in high dispersing species in the absence of local adaptation mechanisms. We used the Greater Flamingo, Phoenicopterus roseus, a long-lived colonial bird showing a homogeneous genetic structure of neutral markers at the scale of the Mediterranean region, to test the prediction that higher MHC allelic diversity with no population structure should occur in large panmictic populations of long-distance dispersing birds than in other resident species. Results We assessed the level of allelic diversity at the MHC Class IIB exon 2 from 116 individuals born in four different breeding colonies of Greater Flamingo in the Mediterranean region. We found one of the highest allelic diversity (109 alleles, 2 loci) of any non-passerine avian species investigated so far relative to the number of individuals and loci genotyped. There was no evidence of population structure between the four major Mediterranean breeding colonies. Conclusion Our results suggest that local adaptation at MHC Class IIB in Greater Flamingos is constrained by high gene flow and high MHC diversity appears to be maintained by population wide pathogen-mediated selection rather than local pathogen-mediated selection. Further understanding of how pathogens vary across space and time will be crucial to further elucidate the mechanisms maintaining MHC diversity in species with large panmictic populations and high dispersal rates. Electronic supplementary material The online version of this article (doi:10.1186/s12862-017-0905-3) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Mark A F Gillingham
- University of Ulm, Institute of Evolutionary Ecology and Conservation Genomics, Albert-Einstein Allee 11, D-89069, Ulm, Germany. .,Université de Bourgogne, Equipe Ecologie Evolutive, UMR CNRS 6282 Biogéosciences, 6 bd. Gabriel, 21000, Dijon, France. .,Centre de Recherche de la Tour du Valat, Le Sambuc, 13200, Arles, France. .,Leibniz Institute for Zoo and Wildlife Research, Evolutionary Genetics, Alfred-Kowalke-Str. 17, D-10315, Berlin, Germany.
| | - Arnaud Béchet
- Centre de Recherche de la Tour du Valat, Le Sambuc, 13200, Arles, France
| | - Alexandre Courtiol
- Leibniz Institute for Zoo and Wildlife Research, Evolutionary Genetics, Alfred-Kowalke-Str. 17, D-10315, Berlin, Germany.,Berlin Center for Genomics in Biodiversity Research (BeGenDiv), D-14195, Berlin, Germany
| | - Manuel Rendón-Martos
- R.N. Laguna de Fuente de Piedra, Consejería de Medio Ambiente y Ordenación del Territorio, Junta de Andalucía, Apartado 1, E-29520 Fuente de Piedra, (Málaga), Spain
| | - Juan A Amat
- Department of Wetland Ecology, Estación Biológica de Doñana, (EBD-CSIC), calle Américo Vespucio s/n, E-41092, Sevilla, Spain
| | - Boudjéma Samraoui
- Center of Excellence for Research in Biodiversity, King Saud University, Riyadh, Saudi Arabia.,Laboratoire de recherche et de conservation des zones humides, University of Guelma, Guelma, Algeria
| | - Ortaç Onmuş
- Natural History Museum, Faculty of Sciences, Department of Biology, Ege University, Bornova, İzmir, Turkey
| | - Simone Sommer
- University of Ulm, Institute of Evolutionary Ecology and Conservation Genomics, Albert-Einstein Allee 11, D-89069, Ulm, Germany
| | - Frank Cézilly
- Université de Bourgogne, Equipe Ecologie Evolutive, UMR CNRS 6282 Biogéosciences, 6 bd. Gabriel, 21000, Dijon, France.,Institut Universitaire de France, Paris, France
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23
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Novelletto A, Testa L, Iacovelli F, Blasi P, Garofalo L, Mingozzi T, Falconi M. Polymorphism in Mitochondrial Coding Regions of Mediterranean Loggerhead Turtles: Evolutionary Relevance and Structural Effects. Physiol Biochem Zool 2016; 89:473-486. [DOI: 10.1086/688679] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
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24
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Hoover B, Nevitt G. Modeling the Importance of Sample Size in Relation to Error in MHC-Based Mate-Choice Studies on Natural Populations. Integr Comp Biol 2016; 56:925-933. [DOI: 10.1093/icb/icw105] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
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25
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Baltazar-Soares M, Eizaguirre C. Does asymmetric gene flow among matrilines maintain the evolutionary potential of the European eel? Ecol Evol 2016; 6:5305-20. [PMID: 27551384 PMCID: PMC4984505 DOI: 10.1002/ece3.2098] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/05/2016] [Revised: 03/02/2016] [Accepted: 03/03/2016] [Indexed: 01/14/2023] Open
Abstract
Using evolutionary theory to predict the dynamics of populations is one of the aims of evolutionary conservation. In endangered species, with geographic range extending over continuous areas, the predictive capacity of evolutionary-based conservation measures greatly depends on the accurate identification of reproductive units. The endangered European eel (Anguilla anguilla) is a highly migratory fish species with declining population due to a steep recruitment collapse in the beginning of the 1980s. Despite punctual observations of genetic structure, the population is viewed as a single panmictic reproductive unit. To understand the possible origin of the detected structure in this species, we used a combination of mitochondrial and nuclear loci to indirectly evaluate the possible existence of cryptic demes. For that, 403 glass eels from three successive cohorts arriving at a single location were screened for phenotypic and genetic diversity, while controlling for possible geographic variation. Over the 3 years of sampling, we consistently identified three major matrilines which we hypothesized to represent demes. Interestingly, not only we found that population genetic models support the existence of those matriline-driven demes over a completely panmictic mode of reproduction, but also we found evidence for asymmetric gene flow amongst those demes. We uphold the suggestion that the detection of demes related to those matrilines reflect a fragmented spawning ground, a conceptually plausible consequence of the low abundance that the European eel has been experiencing for three decades. Furthermore, we suggest that this cryptic organization may contribute to the maintenance of the adaptive potential of the species.
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Affiliation(s)
- Miguel Baltazar-Soares
- GEOMAR Helmholtz Centre for Ocean Research Kiel Düsternbrooker Weg 20 24105 Kiel Germany
| | - Christophe Eizaguirre
- GEOMAR Helmholtz Centre for Ocean Research Kiel Düsternbrooker Weg 20 24105 Kiel Germany; School of Biological and Chemical Sciences Queen Mary University of London Mile End Road LondonE1 4NS UK
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26
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Baltazar-Soares M, Bracamonte SE, Bayer T, Chain FJ, Hanel R, Harrod C, Eizaguirre C. Evaluating the adaptive potential of the European eel: is the immunogenetic status recovering? PeerJ 2016; 4:e1868. [PMID: 27077000 PMCID: PMC4830236 DOI: 10.7717/peerj.1868] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2015] [Accepted: 03/09/2016] [Indexed: 02/03/2023] Open
Abstract
The recent increased integration of evolutionary theory into conservation programs has greatly improved our ability to protect endangered species. A common application of such theory links population dynamics and indices of genetic diversity, usually estimated from neutrally evolving markers. However, some studies have suggested that highly polymorphic adaptive genes, such as the immune genes of the Major Histocompatibility Complex (MHC), might be more sensitive to fluctuations in population dynamics. As such, the combination of neutrally- and adaptively-evolving genes may be informative in populations where reductions in abundance have been documented. The European eel (Anguilla anguilla) underwent a drastic and well-reported decline in abundance in the late 20th century and still displays low recruitment. Here we compared genetic diversity indices estimated from neutral (mitochondrial DNA and microsatellites) and adaptive markers (MHC) between two distinct generations of European eels. Our results revealed a clear discrepancy between signatures obtained for each class of markers. Although mtDNA and microsatellites showed no changes in diversity between the older and the younger generations, MHC diversity revealed a contemporary drop followed by a recent increase. Our results suggest ongoing gain of MHC genetic diversity resulting from the interplay between drift and selection and ultimately increasing the adaptive potential of the species.
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Affiliation(s)
- Miguel Baltazar-Soares
- Evolutionary Ecology of Marine Fishes, GEOMAR Helmholtz Centre for Ocean Research Kiel, Kiel, Germany
| | - Seraina E. Bracamonte
- Evolutionary Ecology of Marine Fishes, GEOMAR Helmholtz Centre for Ocean Research Kiel, Kiel, Germany
- Leibniz-Institute of Freshwater Ecology and Inland Fisheries, Berlin, Germany
| | - Till Bayer
- Evolutionary Ecology of Marine Fishes, GEOMAR Helmholtz Centre for Ocean Research Kiel, Kiel, Germany
| | | | | | - Chris Harrod
- Universidad de Antofagasta, Instituto de Ciencias Naturales Alexander von Humboldt, Antofagasta, Chile
| | - Christophe Eizaguirre
- School of Biological and Chemical Sciences, Queen Mary University of London, London, United Kingdom
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27
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Northrup JM, Anderson CR, Wittemyer G. Environmental dynamics and anthropogenic development alter philopatry and space‐use in a North American cervid. DIVERS DISTRIB 2016. [DOI: 10.1111/ddi.12417] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023] Open
Affiliation(s)
- Joseph M. Northrup
- Department of Fish, Wildlife and Conservation Biology Colorado State University Fort Collins CO USA
| | | | - George Wittemyer
- Department of Fish, Wildlife and Conservation Biology Colorado State University Fort Collins CO USA
- Graduate Degree Program in Ecology Colorado State University Fort Collins CO USA
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28
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Portnoy DS, Puritz JB, Hollenbeck CM, Gelsleichter J, Chapman D, Gold JR. Selection and sex-biased dispersal in a coastal shark: the influence of philopatry on adaptive variation. Mol Ecol 2015; 24:5877-85. [DOI: 10.1111/mec.13441] [Citation(s) in RCA: 76] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2015] [Revised: 10/27/2015] [Accepted: 10/27/2015] [Indexed: 01/18/2023]
Affiliation(s)
- D. S. Portnoy
- Department of Life Sciences; Marine Genomics Laboratory; Harte Research Institute; Texas A&M University-Corpus Christi; 6300 Ocean Drive Corpus Christi TX 78412 USA
| | - J. B. Puritz
- Department of Life Sciences; Marine Genomics Laboratory; Harte Research Institute; Texas A&M University-Corpus Christi; 6300 Ocean Drive Corpus Christi TX 78412 USA
| | - C. M. Hollenbeck
- Department of Life Sciences; Marine Genomics Laboratory; Harte Research Institute; Texas A&M University-Corpus Christi; 6300 Ocean Drive Corpus Christi TX 78412 USA
| | - J. Gelsleichter
- University of North Florida; 1 UNF Drive Jacksonville FL 32224 USA
| | - D. Chapman
- Stony Brook University; Stony Brook NY 11776 USA
| | - J. R. Gold
- Department of Life Sciences; Marine Genomics Laboratory; Harte Research Institute; Texas A&M University-Corpus Christi; 6300 Ocean Drive Corpus Christi TX 78412 USA
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Scott R, Biastoch A, Roder C, Stiebens VA, Eizaguirre C. Nano-tags for neonates and ocean-mediated swimming behaviours linked to rapid dispersal of hatchling sea turtles. Proc Biol Sci 2015; 281:20141209. [PMID: 25339720 DOI: 10.1098/rspb.2014.1209] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
Dispersal during juvenile life stages drives the life-history evolution and dynamics of many marine vertebrate populations. However, the movements of juvenile organisms, too small to track using conventional satellite telemetry devices, remain enigmatic. For sea turtles, this led to the paradigm of the 'lost years' since hatchlings disperse widely with ocean currents. Recently, advances in the miniaturization of tracking technology have permitted the application of nano-tags to track cryptic organisms. Here, the novel use of acoustic nano-tags on neonate loggerhead turtle hatchlings enabled us to witness first-hand their dispersal and behaviour during their first day at sea. We tracked hatchlings distances of up to 15 km and documented their rapid transport (up to 60 m min(-1)) with surface current flows passing their natal areas. Tracking was complemented with laboratory observations to monitor swimming behaviours over longer periods which highlighted (i) a positive correlation between swimming activity levels and body size and (ii) population-specific swimming behaviours (e.g. nocturnal inactivity) suggesting local oceanic conditions drive the evolution of innate swimming behaviours. Knowledge of the swimming behaviours of small organisms is crucial to improve the accuracy of ocean model simulations used to predict the fate of these organisms and determine resultant population-level implications into adulthood.
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Affiliation(s)
- Rebecca Scott
- GEOMAR, Helmholtz Centre for Ocean Research, Düsternbrookerweg 20, Kiel 24105, Germany
| | - Arne Biastoch
- GEOMAR, Helmholtz Centre for Ocean Research, Düsternbrookerweg 20, Kiel 24105, Germany
| | | | - Victor A Stiebens
- GEOMAR, Helmholtz Centre for Ocean Research, Düsternbrookerweg 20, Kiel 24105, Germany
| | - Christophe Eizaguirre
- GEOMAR, Helmholtz Centre for Ocean Research, Düsternbrookerweg 20, Kiel 24105, Germany School of Biological and Chemical Sciences, Queen Mary University of London, Mile End Road, London E14NS, UK
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Eizaguirre C, Baltazar-Soares M. Evolutionary conservation-evaluating the adaptive potential of species. Evol Appl 2014. [PMCID: PMC4231588 DOI: 10.1111/eva.12227] [Citation(s) in RCA: 87] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022] Open
Abstract
Despite intense efforts, biodiversity around the globe continues to decrease. To cease this phenomenon, we urgently need a better knowledge not only of the true extent of biodiversity, but also of the evolutionary potential of species to respond to environmental change. These aims are the heart of the developing field of Evolutionary conservation. Here, after describing problems associated with implementing evolutionary perspectives into management, we outline how evolutionary principles can contribute to efficient conservation programmes. We then introduce articles from this special issue on Evolutionary conservation, outlining how each study or review provides tools and concepts to contribute to efficient management of species or populations. Ultimately, we highlight what we believe can be future research avenues for evolutionary conservation.
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Affiliation(s)
- Christophe Eizaguirre
- School of Biological and Chemical Sciences; Queen Mary University of London; London UK
| | - Miguel Baltazar-Soares
- Department of Evolutionary Ecology of Marine Fishes; GEOMAR Helmholtz Centre for Ocean Research; Kiel Germany
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Dal Grande F, Alors D, Divakar PK, Bálint M, Crespo A, Schmitt I. Insights into intrathalline genetic diversity of the cosmopolitan lichen symbiotic green alga Trebouxia decolorans Ahmadjian using microsatellite markers. Mol Phylogenet Evol 2014; 72:54-60. [DOI: 10.1016/j.ympev.2013.12.010] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2013] [Revised: 12/20/2013] [Accepted: 12/30/2013] [Indexed: 11/28/2022]
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Stiebens VA, Merino SE, Chain FJJ, Eizaguirre C. Evolution of MHC class I genes in the endangered loggerhead sea turtle (Caretta caretta) revealed by 454 amplicon sequencing. BMC Evol Biol 2013; 13:95. [PMID: 23627726 PMCID: PMC3655109 DOI: 10.1186/1471-2148-13-95] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2013] [Accepted: 04/17/2013] [Indexed: 11/17/2022] Open
Abstract
Background In evolutionary and conservation biology, parasitism is often highlighted as a major selective pressure. To fight against parasites and pathogens, genetic diversity of the immune genes of the major histocompatibility complex (MHC) are particularly important. However, the extensive degree of polymorphism observed in these genes makes it difficult to conduct thorough population screenings. Methods We utilized a genotyping protocol that uses 454 amplicon sequencing to characterize the MHC class I in the endangered loggerhead sea turtle (Caretta caretta) and to investigate their evolution at multiple relevant levels of organization. Results MHC class I genes revealed signatures of trans-species polymorphism across several reptile species. In the studied loggerhead turtle individuals, it results in the maintenance of two ancient allelic lineages. We also found that individuals carrying an intermediate number of MHC class I alleles are larger than those with either a low or high number of alleles. Conclusions Multiple modes of evolution seem to maintain MHC diversity in the loggerhead turtles, with relatively high polymorphism for an endangered species.
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Affiliation(s)
- Victor A Stiebens
- Department of Evolutionary Ecology of Marine Fishes, GEOMAR
- Helmholtz Center for Ocean Research, Kiel, 24105, Germany
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