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Rushworth CA, Wagner MR, Mitchell-Olds T, Anderson JT. The Boechera model system for evolutionary ecology. AMERICAN JOURNAL OF BOTANY 2022; 109:1939-1961. [PMID: 36371714 DOI: 10.1002/ajb2.16090] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/17/2022] [Revised: 08/27/2022] [Accepted: 08/30/2022] [Indexed: 06/16/2023]
Abstract
Model systems in biology expand the research capacity of individuals and the community. Closely related to Arabidopsis, the genus Boechera has emerged as an important ecological model owing to the ability to integrate across molecular, functional, and eco-evolutionary approaches. Boechera species are broadly distributed in relatively undisturbed habitats predominantly in western North America and provide one of the few experimental systems for identification of ecologically important genes through genome-wide association studies and investigations of selection with plants in their native habitats. The ecologically, evolutionarily, and agriculturally important trait of apomixis (asexual reproduction via seeds) is common in the genus, and field experiments suggest that abiotic and biotic environments shape the evolution of sex. To date, population genetic studies have focused on the widespread species B. stricta, detailing population divergence and demographic history. Molecular and ecological studies show that balancing selection maintains genetic variation in ~10% of the genome, and ecological trade-offs contribute to complex trait variation for herbivore resistance, flowering phenology, and drought tolerance. Microbiome analyses have shown that host genotypes influence leaf and root microbiome composition, and the soil microbiome influences flowering phenology and natural selection. Furthermore, Boechera offers numerous opportunities for investigating biological responses to global change. In B. stricta, climate change has induced a shift of >2 weeks in the timing of first flowering since the 1970s, altered patterns of natural selection, generated maladaptation in previously locally-adapted populations, and disrupted life history trade-offs. Here we review resources and results for this eco-evolutionary model system and discuss future research directions.
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Affiliation(s)
| | - Maggie R Wagner
- Department of Ecology and Evolutionary Biology, Kansas Biological Survey and Center for Ecological Research, University of Kansas, Lawrence, KS, 66045, USA
| | | | - Jill T Anderson
- Department of Genetics and Odum School of Ecology, University of Georgia, Athens, GA, 30602, USA
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2
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Brookes B, Jeon H, Derry AM, Post JR, Rogers SM, Humphries S, Fraser DJ. Neutral and adaptive drivers of genomic change in introduced brook trout ( Salvelinus fontinalis) populations revealed by pooled sequencing. Ecol Evol 2022; 12:e8584. [PMID: 35154655 PMCID: PMC8820109 DOI: 10.1002/ece3.8584] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/28/2021] [Accepted: 01/07/2022] [Indexed: 12/22/2022] Open
Abstract
Understanding the drivers of successful species invasions is important for conserving native biodiversity and for mitigating the economic impacts of introduced species. However, whole-genome resolution investigations of the underlying contributions of neutral and adaptive genetic variation in successful introductions are rare. Increased propagule pressure should result in greater neutral genetic variation, while environmental differences should elicit selective pressures on introduced populations, leading to adaptive differentiation. We investigated neutral and adaptive variation among nine introduced brook trout (Salvelinus fontinalis) populations using whole-genome pooled sequencing. The populations inhabit isolated alpine lakes in western Canada and descend from a common source, with an average of ~19 (range of 7-41) generations since introduction. We found some evidence of bottlenecks without recovery, no strong evidence of purifying selection, and little support that varying propagule pressure or differences in local environments shaped observed neutral genetic variation differences. Putative adaptive loci analysis revealed nonconvergent patterns of adaptive differentiation among lakes with minimal putatively adaptive loci (0.001%-0.15%) that did not correspond with tested environmental variables. Our results suggest that (i) introduction success is not always strongly influenced by genetic load; (ii) observed differentiation among introduced populations can be idiosyncratic, population-specific, or stochastic; and (iii) conservatively, in some introduced species, colonization barriers may be overcome by support through one aspect of propagule pressure or benign environmental conditions.
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Affiliation(s)
- Brent Brookes
- Department of BiologyConcordia UniversityMontréalQCCanada
| | - Hyung‐Bae Jeon
- Department of BiologyConcordia UniversityMontréalQCCanada
| | - Alison M. Derry
- Département des sciences biologiquesUniversité du Québec à MontréalMontréalQCCanada
| | - John R. Post
- Department of BiologyUniversity of CalgaryCalgaryABCanada
| | - Sean M. Rogers
- Department of BiologyUniversity of CalgaryCalgaryABCanada
| | - Shelley Humphries
- Parks CanadaNatural Resource Management BranchRadium Hot SpringsBCCanada
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3
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Weng ML, Ågren J, Imbert E, Nottebrock H, Rutter MT, Fenster CB. Fitness effects of mutation in natural populations of Arabidopsis thaliana reveal a complex influence of local adaptation. Evolution 2020; 75:330-348. [PMID: 33340094 DOI: 10.1111/evo.14152] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2020] [Revised: 08/21/2020] [Accepted: 09/13/2020] [Indexed: 12/22/2022]
Abstract
Little is empirically known about the contribution of mutations to fitness in natural environments. However, Fisher's Geometric Model (FGM) provides a conceptual foundation to consider the influence of the environment on mutational effects. To quantify mutational properties in the field, we established eight sets of MA lines (7-10 generations) derived from eight founders collected from natural populations of Arabidopsis thaliana from French and Swedish sites, representing the range margins of the species in Europe. We reciprocally planted the MA lines and their founders at French and Swedish sites, allowing us to test predictions of FGM under naturally occurring environmental conditions. The performance of the MA lines relative to each other and to their respective founders confirmed some and contradicted other predictions of the FGM: the contribution of mutation to fitness variance increased when the genotype was in an environment where its fitness was low, that is, in the away environment, but mutations were more likely to be beneficial when the genotype was in its home environment. Consequently, environmental context plays a large role in the contribution of mutations to the evolutionary process and local adaptation does not guarantee that a genotype is at or close to its optimum.
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Affiliation(s)
- Mao-Lun Weng
- Department of Biology and Microbiology, South Dakota State University, Brookings, South Dakota, USA.,Current address: Department of Biology, Westfield State University, Westfield, Massachusettes, USA
| | - Jon Ågren
- Plant Ecology and Evolution, Department of Ecology and Genetics, EBC, Uppsala University, Uppsala, Sweden
| | - Eric Imbert
- Institut des Sciences de la Évolution, Centre National de la Recherche Scientifique, University of Montpellier, Montpellier, France
| | - Henning Nottebrock
- Department of Biology and Microbiology, South Dakota State University, Brookings, South Dakota, USA.,Current address: Plant Ecology, Bayreuth Center of Ecology and Environmental Research (BayCEER), University of Bayreuth, Universitätsstrasse 30, Bayreuth, Germany
| | - Matthew T Rutter
- Department of Biology, College of Charleston, South Carolina, USA
| | - Charles B Fenster
- Department of Biology and Microbiology, South Dakota State University, Brookings, South Dakota, USA.,Oak Lake Field Station, South Dakota State University, Brookings, South Dakota, USA
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4
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Different genetic basis for alcohol dehydrogenase activity and plasticity in a novel alcohol environment for Drosophila melanogaster. Heredity (Edinb) 2020; 125:101-109. [PMID: 32483318 DOI: 10.1038/s41437-020-0323-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2019] [Revised: 05/15/2020] [Accepted: 05/18/2020] [Indexed: 11/08/2022] Open
Abstract
Phenotypic plasticity is known to enhance population persistence, facilitate adaptive evolution and initiate novel phenotypes in novel environments. How plasticity can contribute or hinder adaptation to different environments hinges on its genetic architecture. Even though plasticity in many traits is genetically controlled, whether and how plasticity's genetic architecture might change in novel environments is still unclear. Because much of gene expression can be environmentally influenced, each environment may trigger different sets of genes that influence a trait. Using a quantitative trait loci (QTL) approach, we investigated the genetic basis of plasticity in a classic functional trait, alcohol dehydrogenase (ADH) activity in D. melanogaster, across both historical and novel alcohol environments. Previous research in D. melanogaster has also demonstrated that ADH activity is plastic in response to alcohol concentration in substrates used by both adult flies and larvae. We found that across all environments tested, ADH activity was largely influenced by a single QTL encompassing the Adh-coding gene and its known regulatory locus, delta-1. After controlling for the allelic variation of the Adh and delta-1 loci, we found additional but different minor QTLs in the 0 and 14% alcohol environments. In contrast, we discovered no major QTL for plasticity itself, including the Adh locus, regardless of the environmental gradients. This suggests that plasticity in ADH activity is likely influenced by many loci with small effects, and that the Adh locus is not environmentally sensitive to dietary alcohol.
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5
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Räsänen E, Lindström L, Ketola T. Environmental Fluctuations Drive Species' Competitive Success in Experimental Invasions. ANN ZOOL FENN 2020. [DOI: 10.5735/086.057.0109] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
Affiliation(s)
- Emmi Räsänen
- Department of Biological and Environmental Science, P.O. Box 35, FI-40014 University of Jyväskylä, Finland
| | - Leena Lindström
- Department of Biological and Environmental Science, P.O. Box 35, FI-40014 University of Jyväskylä, Finland
| | - Tarmo Ketola
- Department of Biological and Environmental Science, P.O. Box 35, FI-40014 University of Jyväskylä, Finland
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6
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van Boheemen LA, Hodgins KA. Rapid repeatable phenotypic and genomic adaptation following multiple introductions. Mol Ecol 2020; 29:4102-4117. [PMID: 32246535 DOI: 10.1111/mec.15429] [Citation(s) in RCA: 23] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2019] [Revised: 03/19/2020] [Accepted: 03/25/2020] [Indexed: 12/25/2022]
Abstract
Uncovering the genomic basis of repeated adaption can provide important insights into the constraints and biases that limit the diversity of genetic responses. Demographic processes such as admixture or bottlenecks affect genetic variation underlying traits experiencing selection. The impact of these processes on the genetic basis of adaptation remains, however, largely unexamined empirically. We here test repeatability in phenotypes and genotypes along parallel climatic clines within the native North American and introduced European and Australian Ambrosia artemisiifolia ranges. To do this, we combined multiple lines of evidence from phenotype-environment associations, FST -like outlier tests, genotype-environment associations and genotype-phenotype associations. We used 853 individuals grown in common garden from 84 sampling locations, targeting 19 phenotypes, >83 k SNPs and 22 environmental variables. We found that 17%-26% of loci with adaptive signatures were repeated among ranges, despite alternative demographic histories shaping genetic variation and genetic associations. Our results suggest major adaptive changes can occur on short timescales, with seemingly minimum impacts due to demographic changes linked to introduction. These patterns reveal some predictability of evolutionary change during range expansion, key in a world facing ongoing climate change, and rapid invasive spread.
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Affiliation(s)
| | - Kathryn A Hodgins
- School of Biological Sciences, Monash University, Clayton, Vic., Australia
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7
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Harrod SE, Rolland V. Demographic responses of eastern bluebirds to climatic variability in northeastern Arkansas. POPUL ECOL 2020. [DOI: 10.1002/1438-390x.12048] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Affiliation(s)
- Sara E. Harrod
- Department of Biological Sciences Arkansas State University, PO Box 599 State University Arkansas 72467 USA
| | - Virginie Rolland
- Department of Biological Sciences Arkansas State University, PO Box 599 State University Arkansas 72467 USA
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8
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Alzate A, Onstein RE, Etienne RS, Bonte D. The role of preadaptation, propagule pressure and competition in the colonization of new habitats. OIKOS 2020. [DOI: 10.1111/oik.06871] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Affiliation(s)
- Adriana Alzate
- German Centre for Integrative Biodiversity Research (iDiv) Halle‐Jena‐Leipzig Leipzig Germany
- Groningen Inst. for Evolutionary Life Sciences, Univ. of Groningen Groningen the Netherlands
- Terrestrial Ecology Unit, Ghent Univ. Ghent Belgium
| | - Renske E. Onstein
- German Centre for Integrative Biodiversity Research (iDiv) Halle‐Jena‐Leipzig Leipzig Germany
| | - Rampal S. Etienne
- Groningen Inst. for Evolutionary Life Sciences, Univ. of Groningen Groningen the Netherlands
| | - Dries Bonte
- Terrestrial Ecology Unit, Ghent Univ. Ghent Belgium
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9
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Samis KE, Stinchcombe JR, Murren CJ. Population climatic history predicts phenotypic responses in novel environments for Arabidopsis thaliana in North America. AMERICAN JOURNAL OF BOTANY 2019; 106:1068-1080. [PMID: 31364776 DOI: 10.1002/ajb2.1334] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/17/2018] [Accepted: 05/28/2019] [Indexed: 05/28/2023]
Abstract
PREMISE Determining how species perform in novel climatic environments is essential for understanding (1) responses to climate change and (2) evolutionary consequences of biological invasions. For the vast majority of species, the number of population characteristics that will predict performance and patterns of natural selection in novel locations in the wild remains limited. METHODS We evaluated phenological, vegetative, architectural, and fitness-related traits in experimental gardens in contrasting climates (Ontario, Canada, and South Carolina, USA) in the North American non-native distribution of Arabidopsis thaliana. We assessed the effects of climatic distance, geographic distance, and genetic features of history on performance and patterns of natural selection in the novel garden settings. RESULTS We found that plants had greater survivorship, flowered earlier, were larger, and produced more fruit in the south, and that genotype-by-environment interactions were significant between gardens. However, our analyses revealed similar patterns of natural selection between gardens in distinct climate zones. After accounting for genetic ancestry, we also detected that population climatic distance best predicted performance within gardens. CONCLUSIONS These data suggest that colonization success in novel, non-native environments is determined by a combination of climate and genetic history. When performance at novel sites was assessed with seed sources from geographically and genetically disparate, established non-native populations, proximity to the garden alone was insufficient to predict performance. Our study highlights the need to evaluate seed sources from diverse origins to describe comprehensively phenotypic responses to novel environments, particularly for taxa in which many source populations may contribute to colonization.
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Affiliation(s)
- Karen E Samis
- Department of Biology, University of Prince Edward Island, Charlottetown, Prince Edward Island, Canada
| | - John R Stinchcombe
- Department of Ecology and Evolutionary Biology, University of Toronto, Toronto, Ontario, Canada
- Koffler Scientific Reserve at Joker's Hill, University of Toronto, Toronto, Ontario, Canada
| | - Courtney J Murren
- Department of Biology, College of Charleston, Charleston, South Carolina, 29424, USA
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10
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Winkler DE, Chapin KJ, François O, Garmon JD, Gaut BS, Huxman TE. Multiple introductions and population structure during the rapid expansion of the invasive Sahara mustard ( Brassica tournefortii). Ecol Evol 2019; 9:7928-7941. [PMID: 31380061 PMCID: PMC6662425 DOI: 10.1002/ece3.5239] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/03/2019] [Revised: 04/13/2019] [Accepted: 04/14/2019] [Indexed: 12/23/2022] Open
Abstract
The specific mechanisms that result in the success of any species invasion case are difficult to document. Reproductive strategies are often cited as a primary driver of invasive success, with human activities further facilitating invasions by, for example, acting as seed vectors for dispersal via road, train, air, and marine traffic, and by producing efficient corridors for movement including canals, drainages, and roadways. Sahara mustard (Brassica tournefortii) is a facultative autogamous annual native to Eurasia that has rapidly invaded the southwestern United States within the past century, displacing natives, and altering water-limited landscapes in the southwest. We used a genotyping-by-sequencing approach to study the population structure and spatial geography of Sahara mustard from 744 individuals from 52 sites across the range of the species' invasion. We also used herbaria records to model range expansion since its initial introduction in the 1920s. We found that Sahara mustard occurs as three populations in the United States unstructured by geography, identified three introduction sites, and combined herbaria records with genomic analyses to map the spread of the species. Low genetic diversity and linkage disequilibrium are consistent with self-fertilization, which likely promoted rapid invasive spread. Overall, we found that Sahara mustard experienced atypical expansion patterns, with a relatively constant rate of expansion and without the lag phase that is typical of many invasive species.
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Affiliation(s)
- Daniel E. Winkler
- Department of Ecology and Evolutionary BiologyUniversity of California, IrvineIrvineCalifornia
- U.S. Geological SurveySouthwest Biological Science CenterMoabUtah
| | - Kenneth J. Chapin
- Department of Ecology and Evolutionary BiologyUniversity of California, Los AngelesLos AngelesCalifornia
- Department of Ecology and Evolutionary BiologyUniversity of ArizonaTucsonArizona
| | | | | | - Brandon S. Gaut
- Department of Ecology and Evolutionary BiologyUniversity of California, IrvineIrvineCalifornia
| | - Travis E. Huxman
- Department of Ecology and Evolutionary BiologyUniversity of California, IrvineIrvineCalifornia
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11
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Braasch J, Barker BS, Dlugosch KM. Expansion history and environmental suitability shape effective population size in a plant invasion. Mol Ecol 2019; 28:2546-2558. [PMID: 30993767 DOI: 10.1111/mec.15104] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/13/2018] [Revised: 04/02/2019] [Accepted: 04/04/2019] [Indexed: 12/19/2022]
Abstract
The margins of an expanding range are predicted to be challenging environments for adaptation. Marginal populations should often experience low effective population sizes (Ne ) where genetic drift is high due to demographic expansion and/or census population size is low due to unfavourable environmental conditions. Nevertheless, invasive species demonstrate increasing evidence of rapid evolution and potential adaptation to novel environments encountered during colonization, calling into question whether significant reductions in Ne are realized during range expansions in nature. Here we report one of the first empirical tests of the joint effects of expansion dynamics and environment on effective population size variation during invasive range expansion. We estimate contemporary values of Ne using rates of linkage disequilibrium among genome-wide markers within introduced populations of the highly invasive plant Centaurea solstitialis (yellow starthistle) in North America (California, USA), and within native Eurasian populations. As predicted, we find that Ne within the invaded range is positively correlated with both expansion history (time since founding) and habitat quality (abiotic climate). History and climate had independent additive effects with similar effect sizes, indicating an important role for both factors in this invasion. These results support theoretical expectations for the population genetics of range expansion, though whether these processes can ultimately arrest the spread of an invasive species remains an unanswered question.
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Affiliation(s)
- Joseph Braasch
- Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, Arizona
| | - Brittany S Barker
- Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, Arizona.,Integrated Plant Protection Center and Department of Horticulture, Oregon State University, Corvallis, Oregon
| | - Katrina M Dlugosch
- Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, Arizona
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12
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Everingham SE, Hemmings F, Moles AT. Inverted invasions: Native plants can frequently colonise urban and highly disturbed habitats. AUSTRAL ECOL 2019. [DOI: 10.1111/aec.12719] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Susan E. Everingham
- School of Biological, Earth and Environmental Sciences; UNSW Sydney; Sydney NSW 2052 Australia
| | - Frank Hemmings
- School of Biological, Earth and Environmental Sciences; UNSW Sydney; Sydney NSW 2052 Australia
| | - Angela T. Moles
- School of Biological, Earth and Environmental Sciences; UNSW Sydney; Sydney NSW 2052 Australia
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13
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Invasion triple trouble: environmental fluctuations, fluctuation-adapted invaders and fluctuation-mal-adapted communities all govern invasion success. BMC Evol Biol 2019; 19:42. [PMID: 30709335 PMCID: PMC6359858 DOI: 10.1186/s12862-019-1348-9] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/01/2017] [Accepted: 01/02/2019] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND It has been suggested that climate change will lead to increased environmental fluctuations, which will undoubtedly have evolutionary consequences for all biota. For instance, fluctuations can directly increase the risk of invasions of alien species into new areas, as these species have repeatedly been proposed to benefit from disturbances. At the same time increased environmental fluctuations may also select for better invaders. However, selection by fluctuations may also influence the resistance of communities to invasions, which has rarely been tested. We tested eco-evolutionary dynamics of invasion with bacterial clones, evolved either in constant or fluctuating temperatures, and conducted experimental invasions in both conditions. RESULTS We found clear evidence that ecological fluctuations, as well as adaptation to fluctuations by both the invader and community, all affected invasions, but played different roles at different stages of invasion. Ecological fluctuations clearly promoted invasions, especially into fluctuation mal-adapted communities. The evolutionary background of the invader played a smaller role. CONCLUSIONS Our results indicate that climate change associated disturbances can directly increase the risk of invasions by altering ecological conditions during invasions, as well as via the evolution of both the invader and communities. Our experiment provides novel information on the complex consequences of climate change on invasions in general, and also charts risk factors associated with the spread of environmentally growing opportunistic pathogens.
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14
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Duruflé H, Ranocha P, Mbadinga Mbadinga DL, Déjean S, Bonhomme M, San Clemente H, Viudes S, Eljebbawi A, Delorme-Hinoux V, Sáez-Vásquez J, Reichheld JP, Escaravage N, Burrus M, Dunand C. Phenotypic Trait Variation as a Response to Altitude-Related Constraints in Arabidopsis Populations. FRONTIERS IN PLANT SCIENCE 2019; 10:430. [PMID: 31024596 PMCID: PMC6465555 DOI: 10.3389/fpls.2019.00430] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/01/2018] [Accepted: 03/21/2019] [Indexed: 05/12/2023]
Abstract
UNLABELLED Natural variations help in identifying genetic mechanisms of morphologically and developmentally complex traits. Mountainous habitats provide an altitudinal gradient where one species encounters different abiotic conditions. We report the study of 341 individuals of Arabidopsis thaliana derived from 30 natural populations not belonging to the 1001 genomes, collected at increasing altitudes, between 200 and 1800 m in the Pyrenees. Class III peroxidases and ribosomal RNA sequences were used as markers to determine the putative genetic relationships among these populations along their altitudinal gradient. Using Bayesian-based statistics and phylogenetic analyses, these Pyrenean populations appear with significant divergence from the other regional accessions from 1001 genome (i.e., from north Spain or south France). Individuals of these populations exhibited varying phenotypic changes, when grown at sub-optimal temperature (22 vs. 15°C). These phenotypic variations under controlled conditions reflected intraspecific morphological variations. This study could bring new information regarding the west European population structure of A. thaliana and its phenotypic variations at different temperatures. The integrative analysis combining genetic, phenotypic variation and environmental datasets is used to analyze the acclimation of population in response to temperature changes. Regarding their geographical proximity and environmental diversity, these populations represent a tool of choice for studying plant response to temperature variation. HIGHLIGHTS -Studying the natural diversity of A. thaliana in the Pyrenees mountains helps to understand European population structure and to evaluate the phenotypic trait variation in response to climate change.
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Affiliation(s)
- Harold Duruflé
- Laboratoire de Recherche en Sciences Végétales, Université de Toulouse, Centre National de la Recherche Scientifique (CNRS), Université Paul Sabatier (UPS), Castanet Tolosan, France
| | - Philippe Ranocha
- Laboratoire de Recherche en Sciences Végétales, Université de Toulouse, Centre National de la Recherche Scientifique (CNRS), Université Paul Sabatier (UPS), Castanet Tolosan, France
| | - Duchesse Lacour Mbadinga Mbadinga
- Laboratoire de Recherche en Sciences Végétales, Université de Toulouse, Centre National de la Recherche Scientifique (CNRS), Université Paul Sabatier (UPS), Castanet Tolosan, France
| | - Sébastien Déjean
- Institut de Mathématiques de Toulouse, Université de Toulouse, CNRS, UPS, Toulouse, France
| | - Maxime Bonhomme
- Laboratoire de Recherche en Sciences Végétales, Université de Toulouse, Centre National de la Recherche Scientifique (CNRS), Université Paul Sabatier (UPS), Castanet Tolosan, France
| | - Hélène San Clemente
- Laboratoire de Recherche en Sciences Végétales, Université de Toulouse, Centre National de la Recherche Scientifique (CNRS), Université Paul Sabatier (UPS), Castanet Tolosan, France
| | - Sébastien Viudes
- Laboratoire de Recherche en Sciences Végétales, Université de Toulouse, Centre National de la Recherche Scientifique (CNRS), Université Paul Sabatier (UPS), Castanet Tolosan, France
| | - Ali Eljebbawi
- Laboratoire de Recherche en Sciences Végétales, Université de Toulouse, Centre National de la Recherche Scientifique (CNRS), Université Paul Sabatier (UPS), Castanet Tolosan, France
| | - Valerie Delorme-Hinoux
- Laboratoire Génome et Développement des Plantes, Université Perpignan Via Domitia, Perpignan, France
- Laboratoire Génome et Développement des Plantes, CNRS, Perpignan, France
| | - Julio Sáez-Vásquez
- Laboratoire Génome et Développement des Plantes, Université Perpignan Via Domitia, Perpignan, France
- Laboratoire Génome et Développement des Plantes, CNRS, Perpignan, France
| | - Jean-Philippe Reichheld
- Laboratoire Génome et Développement des Plantes, Université Perpignan Via Domitia, Perpignan, France
- Laboratoire Génome et Développement des Plantes, CNRS, Perpignan, France
| | - Nathalie Escaravage
- Université Toulouse 3 Paul Sabatier, CNRS, ENFA, UMR5174 EDB (Laboratoire Évolution & Diversité Biologique), Toulouse, France
| | - Monique Burrus
- Université Toulouse 3 Paul Sabatier, CNRS, ENFA, UMR5174 EDB (Laboratoire Évolution & Diversité Biologique), Toulouse, France
| | - Christophe Dunand
- Laboratoire de Recherche en Sciences Végétales, Université de Toulouse, Centre National de la Recherche Scientifique (CNRS), Université Paul Sabatier (UPS), Castanet Tolosan, France
- *Correspondence: Christophe Dunand,
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Kharouba HM, Lewthwaite JMM, Guralnick R, Kerr JT, Vellend M. Using insect natural history collections to study global change impacts: challenges and opportunities. Philos Trans R Soc Lond B Biol Sci 2018; 374:20170405. [PMID: 30455219 PMCID: PMC6282079 DOI: 10.1098/rstb.2017.0405] [Citation(s) in RCA: 38] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 08/23/2018] [Indexed: 11/12/2022] Open
Abstract
Over the past two decades, natural history collections (NHCs) have played an increasingly prominent role in global change research, but they have still greater potential, especially for the most diverse group of animals on Earth: insects. Here, we review the role of NHCs in advancing our understanding of the ecological and evolutionary responses of insects to recent global changes. Insect NHCs have helped document changes in insects' geographical distributions, phenology, phenotypic and genotypic traits over time periods up to a century. Recent work demonstrates the enormous potential of NHCs data for examining insect responses at multiple temporal, spatial and phylogenetic scales. Moving forward, insect NHCs offer unique opportunities to examine the morphological, chemical and genomic information in each specimen, thus advancing our understanding of the processes underlying species' ecological and evolutionary responses to rapid, widespread global changes.This article is part of the theme issue 'Biological collections for understanding biodiversity in the anthropocene'.
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Affiliation(s)
- Heather M Kharouba
- Department of Biology, University of Ottawa, Ottawa, Ontario, Canada K1N 9B4
| | - Jayme M M Lewthwaite
- Department of Biological Sciences, Simon Fraser University, Burnaby, British Columbia, Canada V5A 1S6
| | - Rob Guralnick
- Department of Natural History and the Florida Museum of Natural History, University of Florida, Gainesville, FL 32611, USA
| | - Jeremy T Kerr
- Department of Biology, University of Ottawa, Ottawa, Ontario, Canada K1N 9B4
| | - Mark Vellend
- Département de Biologie, Université de Sherbrooke, Sherbrooke, Quebec, Canada J1 K 2R1
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Dittberner H, Korte A, Mettler-Altmann T, Weber APM, Monroe G, de Meaux J. Natural variation in stomata size contributes to the local adaptation of water-use efficiency in Arabidopsis thaliana. Mol Ecol 2018; 27:4052-4065. [PMID: 30118161 PMCID: PMC7611081 DOI: 10.1111/mec.14838] [Citation(s) in RCA: 56] [Impact Index Per Article: 9.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2018] [Revised: 07/18/2018] [Accepted: 07/24/2018] [Indexed: 01/01/2023]
Abstract
Stomata control gas exchanges between the plant and the atmosphere. How natural variation in stomata size and density contributes to resolve trade-offs between carbon uptake and water loss in response to local climatic variation is not yet understood. We developed an automated confocal microscopy approach to characterize natural genetic variation in stomatal patterning in 330 fully sequenced Arabidopsis thaliana accessions collected throughout the European range of the species. We compared this to variation in water-use efficiency, measured as carbon isotope discrimination (δ13 C). We detect substantial genetic variation for stomata size and density segregating within Arabidopsis thaliana. A positive correlation between stomata size and δ13 C further suggests that this variation has consequences on water-use efficiency. Genome wide association analyses indicate a complex genetic architecture underlying not only variation in stomatal patterning but also to its covariation with carbon uptake parameters. Yet, we report two novel QTL affecting δ13 C independently of stomatal patterning. This suggests that, in A. thaliana, both morphological and physiological variants contribute to genetic variance in water-use efficiency. Patterns of regional differentiation and covariation with climatic parameters indicate that natural selection has contributed to shape some of this variation, especially in Southern Sweden, where water availability is more limited in spring relative to summer. These conditions are expected to favour the evolution of drought avoidance mechanisms over drought escape strategies.
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Affiliation(s)
| | - Arthur Korte
- Center for Computational and Theoretical Biology, Julius-Maximilians-University Würzburg, Würzburg, Germany
| | - Tabea Mettler-Altmann
- Institute of Plant Biochemistry & CEPLAS Plant Metabolism and Metabolomics Laboratory, Heinrich-Heine-University Düsseldorf, Düsseldorf, Germany
| | - Andreas P. M. Weber
- Institute of Plant Biochemistry & CEPLAS Plant Metabolism and Metabolomics Laboratory, Heinrich-Heine-University Düsseldorf, Düsseldorf, Germany
| | - Grey Monroe
- College of Agricultural Sciences, Colorado State University, Fort Collins, Colorado
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17
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Bourne SD, Hudson J, Holman LE, Rius M. Marine Invasion Genomics: Revealing Ecological and Evolutionary Consequences of Biological Invasions. ACTA ACUST UNITED AC 2018. [DOI: 10.1007/13836_2018_21] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
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18
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Cannizzo ZJ, Dixon SR, Griffen BD. An anthropogenic habitat within a suboptimal colonized ecosystem provides improved conditions for a range-shifting species. Ecol Evol 2018; 8:1521-1533. [PMID: 29435229 PMCID: PMC5792588 DOI: 10.1002/ece3.3739] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2017] [Revised: 11/09/2017] [Accepted: 11/20/2017] [Indexed: 01/18/2023] Open
Abstract
Many species are shifting their ranges in response to the changing climate. In cases where such shifts lead to the colonization of a new ecosystem, it is critical to establish how the shifting species itself is impacted by novel environmental and biological interactions. Anthropogenic habitats that are analogous to the historic habitat of a shifting species may play a crucial role in the ability of that species to expand or persist in suboptimal colonized ecosystems. We tested if the anthropogenic habitat of docks, a likely mangrove analog, provides improved conditions for the range-shifting mangrove tree crab Aratus pisonii within the colonized suboptimal salt marsh ecosystem. To test if docks provided an improved habitat, we compared the impact of the salt marsh and dock habitats on ecological and life history traits that influence the ability of this species to persist and expand into the salt marsh and compared these back to baselines in the historic mangrove ecosystem. Specifically, we examined behavior, physiology, foraging, and the thermal conditions of A. pisonii in each habitat. We found that docks provide a more favorable thermal and foraging habitat than the surrounding salt marsh, while their ability to provide conditions which improved behavior and physiology was mixed. Our study shows that anthropogenic habitats can act as analogs to historic ecosystems and enhance the habitat quality for range-shifting species in colonized suboptimal ecosystems. If the patterns that we document are general across systems, then anthropogenic habitats may play an important facilitative role in the range shifts of species with continued climate change.
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Affiliation(s)
- Zachary J. Cannizzo
- Marine Science ProgramSchool of the Earth, Ocean, and EnvironmentUniversity of South CarolinaColumbiaSCUSA
| | - Sara R. Dixon
- Marine Science ProgramSchool of the Earth, Ocean, and EnvironmentUniversity of South CarolinaColumbiaSCUSA
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19
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20
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Mattila TM, Tyrmi J, Pyhäjärvi T, Savolainen O. Genome-Wide Analysis of Colonization History and Concomitant Selection in Arabidopsis lyrata. Mol Biol Evol 2017; 34:2665-2677. [PMID: 28957505 DOI: 10.1093/molbev/msx193] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022] Open
Abstract
The high climatic variability in the past hundred thousand years has affected the demographic and adaptive processes in many species, especially in boreal and temperate regions undergoing glacial cycles. This has also influenced the patterns of genome-wide nucleotide variation, but the details of these effects are largely unknown. Here we study the patterns of genome-wide variation to infer colonization history and patterns of selection of the perennial herb species Arabidopsis lyrata, in locally adapted populations from different parts of its distribution range (Germany, UK, Norway, Sweden, and USA) representing different environmental conditions. Using site frequency spectra based demographic modeling, we found strong reduction in the effective population size of the species in general within the past 100,000 years, with more pronounced effects in the colonizing populations. We further found that the northwestern European A. lyrata populations (UK and Scandinavian) are more closely related to each other than with the Central European populations, and coalescent based population split modeling suggests that western European and Scandinavian populations became isolated relatively recently after the glacial retreat. We also highlighted loci showing evidence for local selection associated with the Scandinavian colonization. The results presented here give new insights into postglacial Scandinavian colonization history and its genome-wide effects.
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Affiliation(s)
- Tiina M Mattila
- Department of Ecology and Genetics, University of Oulu, Oulu, Finland
| | - Jaakko Tyrmi
- Department of Ecology and Genetics, University of Oulu, Oulu, Finland.,Biocenter Oulu, University of Oulu, Oulu, Finland
| | - Tanja Pyhäjärvi
- Department of Ecology and Genetics, University of Oulu, Oulu, Finland.,Biocenter Oulu, University of Oulu, Oulu, Finland
| | - Outi Savolainen
- Department of Ecology and Genetics, University of Oulu, Oulu, Finland.,Biocenter Oulu, University of Oulu, Oulu, Finland
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21
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Merceron NR, Leroy T, Chancerel E, Romero-Severson J, Borkowski D, Ducousso A, Monty A, Porté AJ, Kremer A. Back to America: tracking the origin of European introduced populations of Quercus rubra L. Genome 2017; 60:778-790. [PMID: 28750176 PMCID: PMC6526120 DOI: 10.1139/gen-2016-0187] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
Quercus rubra has been introduced in Europe since the end of the 17th century. It is widely distributed today across this continent and considered invasive in some countries. Here, we investigated the distribution of genetic diversity of both native and introduced populations with the aim of tracing the origin of introduced populations. A large sampling of 883 individuals from 73 native and 38 European locations were genotyped at 69 SNPs. In the natural range, we found a continuous geographic gradient of variation with a predominant latitudinal component. We explored the existence of ancestral populations by performing Bayesian clustering analysis and found support for two or three ancestral genetic clusters. Approximate Bayesian Computations analyses based on these two or three clusters support recent extensive secondary contacts between them, suggesting that present-day continuous genetic variation resulted from recent admixture. In the introduced range, one main genetic cluster was not recovered in Europe, suggesting that source populations were preferentially located in the northern part of the natural distribution. However, our results cannot refute the introduction of populations from the southern states that did not survive in Europe.
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Affiliation(s)
- Nastasia R. Merceron
- BIOGECO, INRA, Univ. Bordeaux, 33610 Cestas, France
- University of Liège, Gembloux Agro-Bio Tech., Biodiversity and Landscape Unit, 2, Passage des Déportés, B-5030 Gembloux, Belgium
| | | | | | - Jeanne Romero-Severson
- University of Notre Dame, Department of Biological Sciences, 100 Galvin Life Sciences Center Notre Dame 46556. Indiana, USA
| | - Daniel Borkowski
- University of Notre Dame, Department of Biological Sciences, 100 Galvin Life Sciences Center Notre Dame 46556. Indiana, USA
| | | | - Arnaud Monty
- University of Liège, Gembloux Agro-Bio Tech., Biodiversity and Landscape Unit, 2, Passage des Déportés, B-5030 Gembloux, Belgium
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22
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Groot MP, Kubisch A, Ouborg NJ, Pagel J, Schmid KJ, Vergeer P, Lampei C. Transgenerational effects of mild heat in Arabidopsis thaliana show strong genotype specificity that is explained by climate at origin. THE NEW PHYTOLOGIST 2017; 215:1221-1234. [PMID: 28590553 DOI: 10.1111/nph.14642] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/01/2017] [Accepted: 05/01/2017] [Indexed: 05/28/2023]
Abstract
Transgenerational environmental effects can trigger strong phenotypic variation. However, it is unclear how cues from different preceding generations interact. Also, little is known about the genetic variation for these life history traits. Here, we present the effects of grandparental and parental mild heat, and their combination, on four traits of the third-generation phenotype of 14 Arabidopsis thaliana genotypes. We tested for correlations of these effects with climate and constructed a conceptual model to identify the environmental conditions that favour the parental effect on flowering time. We observed strong evidence for genotype-specific transgenerational effects. On average, A. thaliana accustomed to mild heat produced more seeds after two generations. Parental effects overruled grandparental effects in all traits except reproductive biomass. Flowering was generally accelerated by all transgenerational effects. Notably, the parental effect triggered earliest flowering in genotypes adapted to dry summers. Accordingly, this parental effect was favoured in the model when early summer heat terminated the growing season and environments were correlated across generations. Our results suggest that A. thaliana can partly accustom to mild heat over two generations and genotype-specific parental effects show non-random evolutionary divergence across populations that may support climate change adaptation in the Mediterranean.
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Affiliation(s)
- Maartje P Groot
- Experimental Plant Ecology, Institute for Water and Wetland Research, Radboud University Nijmegen, PO Box 9010, 6500 GL, Nijmegen, the Netherlands
| | - Alexander Kubisch
- Landscape and Plant Ecology, University of Hohenheim, August-Hartmann-Str. 3, 70599, Stuttgart, Germany
- Theoretical Ecology Group, Department of Animal Ecology and Tropical Biology, University of Würzburg, Emil-Fischerstr. 32, 97074, Würzburg, Germany
| | - N Joop Ouborg
- Experimental Plant Ecology, Institute for Water and Wetland Research, Radboud University Nijmegen, PO Box 9010, 6500 GL, Nijmegen, the Netherlands
| | - Jörn Pagel
- Landscape and Plant Ecology, University of Hohenheim, August-Hartmann-Str. 3, 70599, Stuttgart, Germany
| | - Karl J Schmid
- Institute of Plant Breeding, Seed Science and Population Genetics, University of Hohenheim, Fruwirthstr. 21, 70599, Stuttgart, Germany
| | - Philippine Vergeer
- Experimental Plant Ecology, Institute for Water and Wetland Research, Radboud University Nijmegen, PO Box 9010, 6500 GL, Nijmegen, the Netherlands
- Plant Ecology and Nature Conservation Group, PO Box 47, 6700 AA, Wageningen, the Netherlands
| | - Christian Lampei
- Institute of Plant Breeding, Seed Science and Population Genetics, University of Hohenheim, Fruwirthstr. 21, 70599, Stuttgart, Germany
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23
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Narum SR, Gallardo P, Correa C, Matala A, Hasselman D, Sutherland BJG, Bernatchez L. Genomic patterns of diversity and divergence of two introduced salmonid species in Patagonia, South America. Evol Appl 2017; 10:402-416. [PMID: 28352299 PMCID: PMC5367078 DOI: 10.1111/eva.12464] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2016] [Accepted: 01/26/2017] [Indexed: 12/25/2022] Open
Abstract
Invasive species have become widespread in aquatic environments throughout the world, yet there are few studies that have examined genomic variation of multiple introduced species in newly colonized environments. In this study, we contrast genomic variation in two salmonid species (anadromous Chinook Salmon, Oncorhynchus tshawytscha, 11,579 SNPs and resident Brook Charr Salvelinus fontinalis, 13,522 SNPs) with differing invasion success after introduction to new environments in South America relative to populations from their native range in North America. Estimates of genetic diversity were not significantly different between introduced and source populations for either species, indicative of propagule pressure that has been shown to maintain diversity in founding populations relative to their native range. Introduced populations also demonstrated higher connectivity and gene flow than those in their native range. Evidence for candidate loci under divergent selection was observed, but was limited to specific introduced populations and was not widely evident. Patterns of genomic variation were consistent with general dispersal potential of each species and therefore also the notion that life history variation may contribute to both invasion success and subsequent genetic structure of these two salmonids in Patagonia.
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Affiliation(s)
- Shawn R. Narum
- Hagerman Fish Culture Experiment StationColumbia River Inter‐Tribal Fish CommissionHagermanIDUSA
| | - Pablo Gallardo
- Centro de Cultivos Marinos Bahía LaredoUniversity of MagallanesPunta ArenasChile
| | - Cristian Correa
- Facultad de Ciencias Forestales y Recursos NaturalesInstituto de Conservación Biodiversidad y TerritorioUniversidad Austral de ChileValdiviaChile
- Facultad de CienciasInstituto de Ciencias Marinas y LimnológicasUniversidad Austral de ChileValdiviaChile
| | - Amanda Matala
- Hagerman Fish Culture Experiment StationColumbia River Inter‐Tribal Fish CommissionHagermanIDUSA
| | - Daniel Hasselman
- Hagerman Fish Culture Experiment StationColumbia River Inter‐Tribal Fish CommissionHagermanIDUSA
| | - Ben J. G. Sutherland
- Institut de Biologie Intégrative et des Systèmes (IBIS)Université LavalQuébecQCCanada
| | - Louis Bernatchez
- Institut de Biologie Intégrative et des Systèmes (IBIS)Université LavalQuébecQCCanada
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24
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Szűcs M, Melbourne BA, Tuff T, Weiss‐Lehman C, Hufbauer RA. Genetic and demographic founder effects have long‐term fitness consequences for colonising populations. Ecol Lett 2017; 20:436-444. [DOI: 10.1111/ele.12743] [Citation(s) in RCA: 46] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2016] [Revised: 12/20/2016] [Accepted: 01/04/2017] [Indexed: 01/15/2023]
Affiliation(s)
- Marianna Szűcs
- Department of Bioagricultural Sciences and Pest Management Colorado State University Fort Collins CO80523‐1177 USA
| | - Brett A. Melbourne
- Department of Ecology and Evolutionary Biology University of Colorado Boulder CO80309‐0334 USA
| | - Ty Tuff
- Department of Biology Washington University in St. Louis St. Louis MO63130‐4899 USA
- Max Planck Institute for the Science of Human History Jena Germany
| | | | - Ruth A. Hufbauer
- Department of Bioagricultural Sciences and Pest Management Colorado State University Fort Collins CO80523‐1177 USA
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25
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Gould BA, Stinchcombe JR. Population genomic scans suggest novel genes underlie convergent flowering time evolution in the introduced range of Arabidopsis thaliana. Mol Ecol 2016; 26:92-106. [PMID: 27064998 DOI: 10.1111/mec.13643] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/15/2016] [Revised: 04/06/2016] [Accepted: 04/08/2016] [Indexed: 01/08/2023]
Abstract
A long-standing question in evolutionary biology is whether the evolution of convergent phenotypes results from selection on the same heritable genetic components. Using whole-genome sequencing and genome scans, we tested whether the evolution of parallel longitudinal flowering time clines in the native and introduced ranges of Arabidopsis thaliana has a similar genetic basis. We found that common variants of large effect on flowering time in the native range do not appear to have been under recent strong selection in the introduced range. We identified a set of 38 new candidate genes that are putatively linked to the evolution of flowering time. A high degree of conditional neutrality of flowering time variants between the native and introduced range may preclude parallel evolution at the level of genes. Overall, neither gene pleiotropy nor available standing genetic variation appears to have restricted the evolution of flowering time to high-frequency variants from the native range or to known flowering time pathway genes.
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Affiliation(s)
- Billie A Gould
- Department of Plant Biology, Michigan State University, 612 Wilson Rd, East Lansing, MI, 48823, USA
| | - John R Stinchcombe
- Department of Plant Biology, Michigan State University, 612 Wilson Rd, East Lansing, MI, 48823, USA
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26
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The invasion of Senecio pterophorus across continents: multiple, independent introductions, admixture and hybridization. Biol Invasions 2016. [DOI: 10.1007/s10530-016-1150-1] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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Marcer A, Méndez-Vigo B, Alonso-Blanco C, Picó FX. Tackling intraspecific genetic structure in distribution models better reflects species geographical range. Ecol Evol 2016; 6:2084-97. [PMID: 27066224 PMCID: PMC4768750 DOI: 10.1002/ece3.2010] [Citation(s) in RCA: 46] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/27/2015] [Revised: 01/15/2016] [Accepted: 01/18/2016] [Indexed: 12/25/2022] Open
Abstract
Genetic diversity provides insight into heterogeneous demographic and adaptive history across organisms' distribution ranges. For this reason, decomposing single species into genetic units may represent a powerful tool to better understand biogeographical patterns as well as improve predictions of the effects of GCC (global climate change) on biodiversity loss. Using 279 georeferenced Iberian accessions, we used classes of three intraspecific genetic units of the annual plant Arabidopsis thaliana obtained from the genetic analyses of nuclear SNPs (single nucleotide polymorphisms), chloroplast SNPs, and the vernalization requirement for flowering. We used SDM (species distribution models), including climate, vegetation, and soil data, at the whole-species and genetic-unit levels. We compared model outputs for present environmental conditions and with a particularly severe GCC scenario. SDM accuracy was high for genetic units with smaller distribution ranges. Kernel density plots identified the environmental variables underpinning potential distribution ranges of genetic units. Combinations of environmental variables accounted for potential distribution ranges of genetic units, which shrank dramatically with GCC at almost all levels. Only two genetic clusters increased their potential distribution ranges with GCC. The application of SDM to intraspecific genetic units provides a detailed picture on the biogeographical patterns of distinct genetic groups based on different genetic criteria. Our approach also allowed us to pinpoint the genetic changes, in terms of genetic background and physiological requirements for flowering, that Iberian A. thaliana may experience with a GCC scenario applying SDM to intraspecific genetic units.
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Affiliation(s)
- Arnald Marcer
- CREAF Cerdanyola del Vallès 08193 Spain; Univ Autònoma de Barcelona Cerdanyola del Vallès 08193 Spain
| | - Belén Méndez-Vigo
- Departamento de Genética Molecular de Plantas Centro Nacional de Biotecnología (CNB) Consejo Superior de Investigaciones Científicas (CSIC) 28049 Madrid Spain
| | - Carlos Alonso-Blanco
- Departamento de Genética Molecular de Plantas Centro Nacional de Biotecnología (CNB) Consejo Superior de Investigaciones Científicas (CSIC) 28049 Madrid Spain
| | - F Xavier Picó
- Departamento de Ecología Integrativa Estación Biológica de Doñana (EBD) Consejo Superior de Investigaciones Científicas (CSIC) 41092 Sevilla Spain
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Li SL, Vasemägi A, Ramula S. Genetic variation facilitates seedling establishment but not population growth rate of a perennial invader. ANNALS OF BOTANY 2016; 117:187-194. [PMID: 26420202 PMCID: PMC4701146 DOI: 10.1093/aob/mcv145] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/29/2015] [Revised: 06/22/2015] [Accepted: 08/17/2015] [Indexed: 06/05/2023]
Abstract
BACKGROUND AND AIMS Assessing the demographic consequences of genetic variation is fundamental to invasion biology. However, genetic and demographic approaches are rarely combined to explore the effects of genetic variation on invasive populations in natural environments. This study combined population genetics, demographic data and a greenhouse experiment to investigate the consequences of genetic variation for the population fitness of the perennial, invasive herb Lupinus polyphyllus. METHODS Genetic and demographic data were collected from 37 L. polyphyllus populations representing different latitudes in Finland, and genetic variation was characterized based on 13 microsatellite loci. Associations between genetic variation and population size, population density, latitude and habitat were investigated. Genetic variation was then explored in relation to four fitness components (establishment, survival, growth, fecundity) measured at the population level, and the long-term population growth rate (λ). For a subset of populations genetic variation was also examined in relation to the temporal variability of λ. A further assessment was made of the role of natural selection in the observed variation of certain fitness components among populations under greenhouse conditions. KEY RESULTS It was found that genetic variation correlated positively with population size, particularly at higher latitudes, and differed among habitat types. Average seedling establishment per population increased with genetic variation in the field, but not under greenhouse conditions. Quantitative genetic divergence (Q(ST)) based on seedling establishment in the greenhouse was smaller than allelic genetic divergence (F'(ST)), indicating that unifying selection has a prominent role in this fitness component. Genetic variation was not associated with average survival, growth or fecundity measured at the population level, λ or its variability. CONCLUSIONS The study suggests that although genetic variation may facilitate plant invasions by increasing seedling establishment, it may not necessarily affect the long-term population growth rate. Therefore, established invasions may be able to grow equally well regardless of their genetic diversity.
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Affiliation(s)
- Shou-Li Li
- Section of Ecology, Department of Biology, University of Turku, 20014 Turku, Finland, Department of Biology and Center for Infectious Disease Dynamics, The Pennsylvania State University, University Park, Pennsylvania, USA,
| | - Anti Vasemägi
- Division of Genetics and Physiology, Department of Biology, University of Turku, 20014 Turku, Finland, Department of Aquaculture, Estonian University of Life Sciences, Tartu, Estonia and
| | - Satu Ramula
- Section of Ecology, Department of Biology, University of Turku, 20014 Turku, Finland, Aronia Coastal Zone Research Team, Åbo Akademi University and Novia University of Applied Sciences, Raseborgsvägen 9, 10600 Ekenäs, Finland
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29
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Rieseberg L, Geraldes A. Editorial 2016. Mol Ecol 2016; 25:433-49. [DOI: 10.1111/mec.13508] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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Godefroid M, Cruaud A, Rossi JP, Rasplus JY. Assessing the Risk of Invasion by Tephritid Fruit Flies: Intraspecific Divergence Matters. PLoS One 2015; 10:e0135209. [PMID: 26274582 PMCID: PMC4537207 DOI: 10.1371/journal.pone.0135209] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2015] [Accepted: 07/19/2015] [Indexed: 11/28/2022] Open
Abstract
Widely distributed species often show strong phylogeographic structure, with lineages potentially adapted to different biotic and abiotic conditions. The success of an invasion process may thus depend on the intraspecific identity of the introduced propagules. However, pest risk analyses are usually performed without accounting for intraspecific diversity. In this study, we developed bioclimatic models using MaxEnt and boosted regression trees approaches, to predict the potential distribution in Europe of six economically important Tephritid pests (Ceratitis fasciventris (Bezzi), Bactrocera oleae (Rossi), Anastrepha obliqua (Macquart), Anastrepha fraterculus (Wiedemann), Rhagoletis pomonella (Walsh) and Bactrocera cucurbitae (Coquillet)). We considered intraspecific diversity in our risk analyses by independently modeling the distributions of conspecific lineages. The six species displayed different potential distributions in Europe. A strong signal of intraspecific climate envelope divergence was observed in most species. In some cases, conspecific lineages differed strongly in potential distributions suggesting that taxonomic resolution should be accounted for in pest risk analyses. No models (lineage- and species-based approaches) predicted high climatic suitability in the entire invaded range of B. oleae—the only species whose intraspecific identity of invading populations has been elucidated—in California. Host availability appears to play the most important role in shaping the geographic range of this specialist pest. However, climatic suitability values predicted by species-based models are correlated with population densities of B. oleae globally reported in California. Our study highlights how classical taxonomic boundaries may lead to under- or overestimation of the potential pest distributions and encourages accounting for intraspecific diversity when assessing the risk of biological invasion.
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Affiliation(s)
- Martin Godefroid
- Centre de Biologie pour la Gestion des Populations, Institut National de la Recherche Agronomique, Montferriez-sur-Lez, France
| | - Astrid Cruaud
- Centre de Biologie pour la Gestion des Populations, Institut National de la Recherche Agronomique, Montferriez-sur-Lez, France
| | - Jean-Pierre Rossi
- Centre de Biologie pour la Gestion des Populations, Institut National de la Recherche Agronomique, Montferriez-sur-Lez, France
| | - Jean-Yves Rasplus
- Centre de Biologie pour la Gestion des Populations, Institut National de la Recherche Agronomique, Montferriez-sur-Lez, France
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Dlugosch KM, Anderson SR, Braasch J, Cang FA, Gillette HD. The devil is in the details: genetic variation in introduced populations and its contributions to invasion. Mol Ecol 2015; 24:2095-111. [PMID: 25846825 DOI: 10.1111/mec.13183] [Citation(s) in RCA: 176] [Impact Index Per Article: 19.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2015] [Revised: 03/26/2015] [Accepted: 03/27/2015] [Indexed: 12/14/2022]
Abstract
The influence of genetic variation on invasion success has captivated researchers since the start of the field of invasion genetics 50 years ago. We review the history of work on this question and conclude that genetic variation-as surveyed with molecular markers-appears to shape invasion rarely. Instead, there is a significant disconnect between marker assays and ecologically relevant genetic variation in introductions. We argue that the potential for adaptation to facilitate invasion will be shaped by the details of genotypes affecting phenotypes, and we highlight three areas in which we see opportunities to make powerful new insights. (i) The genetic architecture of adaptive variation. Traits shaped by large-effect alleles may be strongly impacted by founder events yet more likely to respond to selection when genetic drift is strong. Large-effect loci may be especially relevant for traits involved in biotic interactions. (ii) Cryptic genetic variation exposed during invasion. Introductions have strong potential to uncover masked variation due to alterations in genetic and ecological environments. (iii) Genetic interactions during admixture of multiple source populations. As divergence among sources increases, positive followed by increasingly negative effects of admixture should be expected. Although generally hypothesized to be beneficial during invasion, admixture is most often reported among sources of intermediate divergence, supporting the possibility that incompatibilities among divergent source populations might be limiting their introgression. Finally, we note that these details of invasion genetics can be coupled with comparative demographic analyses to link genetic changes to the evolution of invasiveness itself.
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Affiliation(s)
- Katrina M Dlugosch
- Department of Ecology & Evolutionary Biology, University of Arizona, PO Box 210088, Tucson, AZ, 85721, USA
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