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Waters CD, Clemento A, Aykanat T, Garza JC, Naish KA, Narum S, Primmer CR. Heterogeneous genetic basis of age at maturity in salmonid fishes. Mol Ecol 2021; 30:1435-1456. [PMID: 33527498 DOI: 10.1111/mec.15822] [Citation(s) in RCA: 20] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2020] [Revised: 11/07/2020] [Accepted: 01/11/2021] [Indexed: 12/12/2022]
Abstract
Understanding the genetic basis of repeated evolution of the same phenotype across taxa is a fundamental aim in evolutionary biology and has applications in conservation and management. However, the extent to which interspecific life-history trait polymorphisms share evolutionary pathways remains underexplored. Here, we address this gap by studying the genetic basis of a key life-history trait, age at maturity, in four species of Pacific salmonids (genus Oncorhynchus) that exhibit intra- and interspecific variation in this trait-Chinook Salmon, Coho Salmon, Sockeye Salmon, and Steelhead Trout. We tested for associations in all four species between age at maturity and two genome regions, six6 and vgll3, that are strongly associated with the same trait in Atlantic Salmon (Salmo salar). We also conducted a genome-wide association analysis in Steelhead to assess whether additional regions were associated with this trait. We found the genetic basis of age at maturity to be heterogeneous across salmonid species. Significant associations between six6 and age at maturity were observed in two of the four species, Sockeye and Steelhead, with the association in Steelhead being particularly strong in both sexes (p = 4.46 × 10-9 after adjusting for genomic inflation). However, no significant associations were detected between age at maturity and the vgll3 genome region in any of the species, despite its strong association with the same trait in Atlantic Salmon. We discuss possible explanations for the heterogeneous nature of the genetic architecture of this key life-history trait, as well as the implications of our findings for conservation and management.
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Affiliation(s)
- Charles D Waters
- School of Aquatic and Fishery Sciences, University of Washington, Seattle, WA, USA
| | - Anthony Clemento
- Institute of Marine Sciences, University of California, Santa Cruz, CA, USA.,Santa Cruz Laboratory, Southwest Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration, Santa Cruz, CA, USA
| | - Tutku Aykanat
- Organismal and Evolutionary Biology Research Programme, University of Helsinki, Helsinki, Finland
| | - John Carlos Garza
- Institute of Marine Sciences, University of California, Santa Cruz, CA, USA.,Santa Cruz Laboratory, Southwest Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration, Santa Cruz, CA, USA
| | - Kerry A Naish
- School of Aquatic and Fishery Sciences, University of Washington, Seattle, WA, USA
| | - Shawn Narum
- Hagerman Genetics Laboratory, Columbia River Inter-Tribal Fish Commission, Hagerman, ID, USA
| | - Craig R Primmer
- Organismal and Evolutionary Biology Research Programme, University of Helsinki, Helsinki, Finland.,Institute of Biotechnology, University of Helsinki, Helsinki, Finland
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4
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Stewart KA, Draaijer R, Kolasa MR, Smallegange IM. The role of genetic diversity in the evolution and maintenance of environmentally-cued, male alternative reproductive tactics. BMC Evol Biol 2019; 19:58. [PMID: 30777004 PMCID: PMC6379956 DOI: 10.1186/s12862-019-1385-4] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2018] [Accepted: 02/12/2019] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND Alternative reproductive tactics (ARTs) are taxonomically pervasive strategies adopted by individuals to maximize reproductive success within populations. Even for conditionally-dependent traits, consensus postulates most ARTs involve both genetic and environmental interactions (GEIs), but to date, quantifying genetic variation underlying the threshold disposing an individual to switch phenotypes in response to an environmental cue has been a difficult undertaking. Our study aims to investigate the origins and maintenance of ARTs within environmentally disparate populations of the microscopic bulb mite, Rhizoglyphus robini, that express 'fighter' and 'scrambler' male morphs mediated by a complex combination of environmental and genetic factors. RESULTS Using never-before-published individual genetic profiling, we found all individuals across populations are highly inbred with the exception of scrambler males in stressed environments. In fact within the poor environment, scrambler males and females showed no significant difference in genetic differentiation (Fst) compared to all other comparisons, and although fighters were highly divergent from the rest of the population in both poor or rich environments (e.g., Fst, STRUCTURE), fighters demonstrated approximately three times less genetic divergence from the population in poor environments. AMOVA analyses further corroborated significant genetic differentiation across subpopulations, between morphs and sexes, and among subpopulations within each environment. CONCLUSION Our study provides new insights into the origin of ARTs in the bulb mite, highlighting the importance of GEIs: genetic correlations, epistatic interactions, and sex-specific inbreeding depression across environmental stressors. Asymmetric reproductive output, coupled with the purging of highly inbred individuals during environmental oscillations, also facilitates genetic variation within populations, despite evidence for strong directional selection. This cryptic genetic variation also conceivably facilitates stable population persistence even in the face of spatially or temporally unstable environmental challenges. Ultimately, understanding the genetic context that maintains thresholds, even for conditionally-dependent ARTs, will enhance our understanding of within population variation and our ability to predict responses to selection.
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Affiliation(s)
- K A Stewart
- Department of Evolutionary and Population Biology, Institute for Biodiversity and Ecosystem Dynamics, University of Amsterdam, PO Box 94240, 1090 GE, Amsterdam, The Netherlands.
| | - R Draaijer
- Department of Evolutionary and Population Biology, Institute for Biodiversity and Ecosystem Dynamics, University of Amsterdam, PO Box 94240, 1090 GE, Amsterdam, The Netherlands
| | - M R Kolasa
- Institute of Systematics and Evolution of Animals, Polish Academy of Sciences, Slawkowska 17 St., 31-016, Krakow, Poland
| | - I M Smallegange
- Department of Evolutionary and Population Biology, Institute for Biodiversity and Ecosystem Dynamics, University of Amsterdam, PO Box 94240, 1090 GE, Amsterdam, The Netherlands
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Phillis CC, Moore JW, Buoro M, Hayes SA, Garza JC, Pearse DE. Shifting Thresholds: Rapid Evolution of Migratory Life Histories in Steelhead/Rainbow Trout, Oncorhynchus mykiss. J Hered 2015; 107:51-60. [PMID: 26585381 DOI: 10.1093/jhered/esv085] [Citation(s) in RCA: 41] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2015] [Accepted: 10/07/2015] [Indexed: 11/13/2022] Open
Abstract
Expression of phenotypic plasticity depends on reaction norms adapted to historic selective regimes; anthropogenic changes in these selection regimes necessitate contemporary evolution or declines in productivity and possibly extinction. Adaptation of conditional strategies following a change in the selection regime requires evolution of either the environmentally influenced cue (e.g., size-at-age) or the state (e.g., size threshold) at which an individual switches between alternative tactics. Using a population of steelhead (Oncorhynchus mykiss) introduced above a barrier waterfall in 1910, we evaluate how the conditional strategy to migrate evolves in response to selection against migration. We created 9 families and 917 offspring from 14 parents collected from the above- and below-barrier populations. After 1 year of common garden-rearing above-barrier offspring were 11% smaller and 32% lighter than below-barrier offspring. Using a novel analytical approach, we estimate that the mean size at which above-barrier fish switch between the resident and migrant tactic is 43% larger than below-barrier fish. As a result, above-barrier fish were 26% less likely to express the migratory tactic. Our results demonstrate how rapid and opposing changes in size-at-age and threshold size contribute to the contemporary evolution of a conditional strategy and indicate that migratory barriers may elicit rapid evolution toward the resident life history on timescales relevant for conservation and management of conditionally migratory species.
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Affiliation(s)
- Corey C Phillis
- From the Department of Ecology and Evolutionary Biology, University of California, Santa Cruz, CA 95060 (Phillis, Moore, and Pearse); Earth to Ocean Research Group, Department of Biological Sciences, Simon Fraser University, 8888 University Drive, Burnaby, BC V5A 1S6, Canada (Phillis and Moore); Department of Environmental Science, Policy, & Management, University of California, Berkeley, 130 Mulford Hall, Berkeley, CA 94720 (Buoro); Fisheries Ecology Division, Southwest Fisheries Science Center, National Marine Fisheries Service, 110 Shaffer Rd., Santa Cruz, CA 95060 (Hayes, Garza, and Pearse); Institute of Marine Sciences, University of California, Santa Cruz, CA 95060 (Hayes, Garza, and Pearse); and Fish Ecology Division, Northwest Fisheries Science Center, National Marine Fisheries Service, 2725 Montlake Blvd. East, Seattle, WA 98112 (Phillis).
| | - Jonathan W Moore
- From the Department of Ecology and Evolutionary Biology, University of California, Santa Cruz, CA 95060 (Phillis, Moore, and Pearse); Earth to Ocean Research Group, Department of Biological Sciences, Simon Fraser University, 8888 University Drive, Burnaby, BC V5A 1S6, Canada (Phillis and Moore); Department of Environmental Science, Policy, & Management, University of California, Berkeley, 130 Mulford Hall, Berkeley, CA 94720 (Buoro); Fisheries Ecology Division, Southwest Fisheries Science Center, National Marine Fisheries Service, 110 Shaffer Rd., Santa Cruz, CA 95060 (Hayes, Garza, and Pearse); Institute of Marine Sciences, University of California, Santa Cruz, CA 95060 (Hayes, Garza, and Pearse); and Fish Ecology Division, Northwest Fisheries Science Center, National Marine Fisheries Service, 2725 Montlake Blvd. East, Seattle, WA 98112 (Phillis)
| | - Mathieu Buoro
- From the Department of Ecology and Evolutionary Biology, University of California, Santa Cruz, CA 95060 (Phillis, Moore, and Pearse); Earth to Ocean Research Group, Department of Biological Sciences, Simon Fraser University, 8888 University Drive, Burnaby, BC V5A 1S6, Canada (Phillis and Moore); Department of Environmental Science, Policy, & Management, University of California, Berkeley, 130 Mulford Hall, Berkeley, CA 94720 (Buoro); Fisheries Ecology Division, Southwest Fisheries Science Center, National Marine Fisheries Service, 110 Shaffer Rd., Santa Cruz, CA 95060 (Hayes, Garza, and Pearse); Institute of Marine Sciences, University of California, Santa Cruz, CA 95060 (Hayes, Garza, and Pearse); and Fish Ecology Division, Northwest Fisheries Science Center, National Marine Fisheries Service, 2725 Montlake Blvd. East, Seattle, WA 98112 (Phillis)
| | - Sean A Hayes
- From the Department of Ecology and Evolutionary Biology, University of California, Santa Cruz, CA 95060 (Phillis, Moore, and Pearse); Earth to Ocean Research Group, Department of Biological Sciences, Simon Fraser University, 8888 University Drive, Burnaby, BC V5A 1S6, Canada (Phillis and Moore); Department of Environmental Science, Policy, & Management, University of California, Berkeley, 130 Mulford Hall, Berkeley, CA 94720 (Buoro); Fisheries Ecology Division, Southwest Fisheries Science Center, National Marine Fisheries Service, 110 Shaffer Rd., Santa Cruz, CA 95060 (Hayes, Garza, and Pearse); Institute of Marine Sciences, University of California, Santa Cruz, CA 95060 (Hayes, Garza, and Pearse); and Fish Ecology Division, Northwest Fisheries Science Center, National Marine Fisheries Service, 2725 Montlake Blvd. East, Seattle, WA 98112 (Phillis)
| | - John Carlos Garza
- From the Department of Ecology and Evolutionary Biology, University of California, Santa Cruz, CA 95060 (Phillis, Moore, and Pearse); Earth to Ocean Research Group, Department of Biological Sciences, Simon Fraser University, 8888 University Drive, Burnaby, BC V5A 1S6, Canada (Phillis and Moore); Department of Environmental Science, Policy, & Management, University of California, Berkeley, 130 Mulford Hall, Berkeley, CA 94720 (Buoro); Fisheries Ecology Division, Southwest Fisheries Science Center, National Marine Fisheries Service, 110 Shaffer Rd., Santa Cruz, CA 95060 (Hayes, Garza, and Pearse); Institute of Marine Sciences, University of California, Santa Cruz, CA 95060 (Hayes, Garza, and Pearse); and Fish Ecology Division, Northwest Fisheries Science Center, National Marine Fisheries Service, 2725 Montlake Blvd. East, Seattle, WA 98112 (Phillis)
| | - Devon E Pearse
- From the Department of Ecology and Evolutionary Biology, University of California, Santa Cruz, CA 95060 (Phillis, Moore, and Pearse); Earth to Ocean Research Group, Department of Biological Sciences, Simon Fraser University, 8888 University Drive, Burnaby, BC V5A 1S6, Canada (Phillis and Moore); Department of Environmental Science, Policy, & Management, University of California, Berkeley, 130 Mulford Hall, Berkeley, CA 94720 (Buoro); Fisheries Ecology Division, Southwest Fisheries Science Center, National Marine Fisheries Service, 110 Shaffer Rd., Santa Cruz, CA 95060 (Hayes, Garza, and Pearse); Institute of Marine Sciences, University of California, Santa Cruz, CA 95060 (Hayes, Garza, and Pearse); and Fish Ecology Division, Northwest Fisheries Science Center, National Marine Fisheries Service, 2725 Montlake Blvd. East, Seattle, WA 98112 (Phillis)
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Neff BD, Svensson EI. Polyandry and alternative mating tactics. Philos Trans R Soc Lond B Biol Sci 2013; 368:20120045. [PMID: 23339236 DOI: 10.1098/rstb.2012.0045] [Citation(s) in RCA: 77] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
Many species in the animal kingdom are characterized by alternative mating tactics (AMTs) within a sex. In males, such tactics include mate guarding versus sneaking behaviours, or territorial versus female mimicry. Although AMTs can occur in either sex, they have been most commonly described in males. This sex bias may, in part, reflect the increased opportunity for sexual selection that typically exists in males, which can result in a higher probability that AMTs evolve in that sex. Consequently, females and polyandry can play a pivotal role in governing the reproductive success associated with male AMTs and in the evolutionary dynamics of the tactics. In this review, we discuss polyandry and the evolution of AMTs. First, we define AMTs and review game theoretical and quantitative genetic approaches used to model their evolution. Second, we review several examples of AMTs, highlighting the roles that genes and environment play in phenotype expression and development of the tactics, as well as empirical approaches to differentiating among the mechanisms. Third, ecological and genetic constraints to the evolution of AMTs are discussed. Fourth, we speculate on why female AMTs are less reported on in the literature than male tactics. Fifth, we examine the effects of AMTs on breeding outcomes and female fitness, and as a source, and possibly also a consequence, of sexual conflict. We conclude by suggesting a new model for the evolution of AMTs that incorporates both environmental and genetic effects, and discuss some future avenues of research.
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Affiliation(s)
- Bryan D Neff
- Department of Biology, Western University, 1151 Richmond Street, London, Ontario, Canada.
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