1
|
Beer MA, Trumbo DR, Rautsaw RM, Kozakiewicz CP, Epstein B, Hohenlohe PA, Alford RA, Schwarzkopf L, Storfer A. Spatial variation in genomic signatures of local adaptation during the cane toad invasion of Australia. Mol Ecol 2024:e17464. [PMID: 38994885 DOI: 10.1111/mec.17464] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2023] [Revised: 06/09/2024] [Accepted: 07/01/2024] [Indexed: 07/13/2024]
Abstract
Adaptive evolution can facilitate species' range expansions across environmentally heterogeneous landscapes. However, serial founder effects can limit the efficacy of selection, and the evolution of increased dispersal during range expansions may result in gene flow swamping local adaptation. Here, we study how genetic drift, gene flow and selection interact during the cane toad's (Rhinella marina) invasion across the heterogeneous landscape of Australia. Following its introduction in 1935, the cane toad colonised eastern Australia and established several stable range edges. The ongoing, more rapid range expansion in north-central Australia has occurred concomitant with an evolved increase in dispersal capacity. Using reduced representation genomic data of Australian cane toads from the expansion front and from two areas of their established range, we test the hypothesis that high gene flow constrains local adaptation at the expansion front relative to established areas. Genetic analyses indicate the three study areas are genetically distinct but show similar levels of allelic richness, heterozygosity and inbreeding. Markedly higher gene flow or recency of colonisation at the expansion front have likely hindered local adaptation at the time of sampling, as indicated by reduced slopes of genetic-environment associations (GEAs) estimated using a novel application of geographically weighted regression that accounts for allele surfing; GEA slopes are significantly steeper in established parts of the range. Our work bolsters evidence supporting adaptation of invasive species post-introduction and adds novel evidence for differing strengths of evolutionary forces among geographic areas with different invasion histories.
Collapse
Affiliation(s)
- Marc A Beer
- School of Biological Sciences, Washington State University, Pullman, Washington, USA
| | - Daryl R Trumbo
- Department of Biology, Colorado State University Pueblo, Pueblo, Colorado, USA
| | - Rhett M Rautsaw
- School of Biological Sciences, Washington State University, Pullman, Washington, USA
- Department of Integrative Biology, University of South Florida, Tampa, Florida, USA
| | - Christopher P Kozakiewicz
- W.K. Kellogg Biological Station, Department of Integrative Biology, Michigan State University, Hickory Corners, Michigan, USA
| | - Brendan Epstein
- Department of Plant and Microbial Biology, University of Minnesota, St Paul, Minnesota, USA
| | - Paul A Hohenlohe
- Department of Biological Sciences, University of Idaho, Moscow, Idaho, USA
| | - Ross A Alford
- College of Science and Engineering, James Cook University, Townsville, Queensland, Australia
| | - Lin Schwarzkopf
- College of Science and Engineering, James Cook University, Townsville, Queensland, Australia
| | - Andrew Storfer
- School of Biological Sciences, Washington State University, Pullman, Washington, USA
| |
Collapse
|
2
|
Yuan W, Pigliucci M, Richards CL. Rapid phenotypic differentiation in the iconic Japanese knotweed s.l. invading novel habitats. Sci Rep 2024; 14:14640. [PMID: 38918411 PMCID: PMC11199593 DOI: 10.1038/s41598-024-64109-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2023] [Accepted: 06/05/2024] [Indexed: 06/27/2024] Open
Abstract
Understanding the mechanisms that underlie plant invasions is critical for management and conservation of biodiversity. At the same time, invasive species also provide a unique opportunity to study rapid adaptation to complex environmental conditions. Using four replicate reciprocal transplant experiments across three habitats, we described patterns of phenotypic response and assessed the degree of local adaptation in knotweed populations. We found plants from beach habitats were generally smaller than plants from marsh and roadside habitats when grown in their home habitat. In the marsh habitat, marsh plants were generally larger than beach plants, but not different from roadside plants. There were no differences among plants grown in the roadside habitat. We found mixed evidence for local adaptation: plants from the marsh habitat had greater biomass in their "home" sites, while plants from beaches and roadsides had greater survival in their "home" sites compared to other plants. In sum, we found phenotypic differentiation and some support for the hypothesis of rapid local adaptation of plants from beach, marsh and roadside habitats. Identifying whether these patterns of differentiation result from genetic or heritable non-genetic mechanisms will require further work.
Collapse
Affiliation(s)
- Wei Yuan
- Department of Molecular Biology, Max Planck Institute for Biology, Tübingen, Germany
| | - Massimo Pigliucci
- Department of Philosophy, City College of New York, New York, NY, USA
| | - Christina L Richards
- Plant Evolutionary Ecology Group, University of Tübingen, Tübingen, Germany.
- Department of Integrative Biology, University of South Florida, Tampa, FL, USA.
| |
Collapse
|
3
|
Camus L, Gautier M, Boitard S. Predicting species invasiveness with genomic data: Is genomic offset related to establishment probability? Evol Appl 2024; 17:e13709. [PMID: 38884022 PMCID: PMC11178484 DOI: 10.1111/eva.13709] [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: 02/19/2024] [Revised: 04/30/2024] [Accepted: 05/04/2024] [Indexed: 06/18/2024] Open
Abstract
Predicting the risk of establishment and spread of populations outside their native range represents a major challenge in evolutionary biology. Various methods have recently been developed to estimate population (mal)adaptation to a new environment with genomic data via so-called Genomic Offset (GO) statistics. These approaches are particularly promising for studying invasive species but have still rarely been used in this context. Here, we evaluated the relationship between GO and the establishment probability of a population in a new environment using both in silico and empirical data. First, we designed invasion simulations to evaluate the ability to predict establishment probability of two GO computation methods (Geometric GO and Gradient Forest) under several conditions. Additionally, we aimed to evaluate the interpretability of absolute Geometric GO values, which theoretically represent the adaptive genetic distance between populations from distinct environments. Second, utilizing public empirical data from the crop pest species Bactrocera tryoni, a fruit fly native from Northern Australia, we computed GO between "source" populations and a diverse range of locations within invaded areas. This practical application of GO within the context of a biological invasion underscores its potential in providing insights and guiding recommendations for future invasion risk assessment. Overall, our results suggest that GO statistics represent good predictors of the establishment probability and may thus inform invasion risk, although the influence of several factors on prediction performance (e.g., propagule pressure or admixture) will need further investigation.
Collapse
Affiliation(s)
- Louise Camus
- CBGP, INRAE, CIRAD, IRD, L'institut Agro, Université de Montpellier Montpellier France
| | - Mathieu Gautier
- CBGP, INRAE, CIRAD, IRD, L'institut Agro, Université de Montpellier Montpellier France
| | - Simon Boitard
- CBGP, INRAE, CIRAD, IRD, L'institut Agro, Université de Montpellier Montpellier France
| |
Collapse
|
4
|
Dai JX, Cao LJ, Chen JC, Yang F, Shen XJ, Ma LJ, Hoffmann AA, Chen M, Wei SJ. Testing for adaptive changes linked to range expansion following a single introduction of the fall webworm. Mol Ecol 2024; 33:e17038. [PMID: 37277936 DOI: 10.1111/mec.17038] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2022] [Accepted: 05/24/2023] [Indexed: 06/07/2023]
Abstract
Adaptive evolution following colonization can affect the impact of invasive species. The fall webworm (FWW) invaded China 40 years ago through a single introduction event involving a severe bottleneck and subsequently diverged into two genetic groups. The well-recorded invasion history of FWW, coupled with a clear pattern of genetic divergence, provides an opportunity to investigate whether there is any sign of adaptive evolution following the invasion. Based on genome-wide SNPs, we identified genetically separated western and eastern groups of FWW and correlated spatial variation in SNPs with geographical and climatic factors. Geographical factors explained a similar proportion of the genetic variation across all populations compared with climatic factors. However, when the two population groups were analysed separately, environmental factors explained more variation than geographical factors. SNP outliers in populations of the western group had relatively stronger response to precipitation than temperature-related variables. Functional annotation of SNP outliers identified genes associated with insect cuticle protein potentially related to desiccation adaptation in the western group and genes associated with lipase biosynthesis potentially related to temperature adaptation in the eastern group. Our study suggests that invasive species may maintain the evolutionary potential to adapt to heterogeneous environments despite a single invasion event. The molecular data suggest that quantitative trait comparisons across environments would be worthwhile.
Collapse
Affiliation(s)
- Jin-Xu Dai
- Beijing Key Laboratory for Forest Pests Control, Beijing Forestry University, Beijing, China
- Institute of Plant Protection, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China
| | - Li-Jun Cao
- Institute of Plant Protection, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China
| | - Jin-Cui Chen
- Institute of Plant Protection, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China
| | - Fangyuan Yang
- Institute of Plant Protection, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China
| | - Xiu-Jing Shen
- Institute of Plant Protection, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China
| | - Li-Jun Ma
- Institute of Plant Protection, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China
| | - Ary Anthony Hoffmann
- School of BioSciences, Bio21 Institute, University of Melbourne, Parkville, Victoria, Australia
| | - Min Chen
- Beijing Key Laboratory for Forest Pests Control, Beijing Forestry University, Beijing, China
| | - Shu-Jun Wei
- Institute of Plant Protection, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China
| |
Collapse
|
5
|
Bock DG, Baeckens S, Kolbe JJ, Losos JB. When adaptation is slowed down: Genomic analysis of evolutionary stasis in thermal tolerance during biological invasion in a novel climate. Mol Ecol 2024; 33:e17075. [PMID: 37489260 DOI: 10.1111/mec.17075] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2023] [Revised: 06/25/2023] [Accepted: 07/04/2023] [Indexed: 07/26/2023]
Abstract
Research conducted during the past two decades has demonstrated that biological invasions are excellent models of rapid evolution. Even so, characteristics of invasive populations such as a short time for recombination to assemble optimal combinations of alleles may occasionally limit adaptation to new environments. Here, we investigated such genetic constraints to adaptation in the invasive brown anole (Anolis sagrei)-a tropical ectotherm that was introduced to the southeastern United States, a region with a much colder climate than in its native Caribbean range. We examined thermal physiology for 30 invasive populations and tested for a climatic cline in cold tolerance. Also, we used genomics to identify mechanisms that may limit adaptation. We found no support for a climatic cline, indicating that thermal tolerance did not shift adaptively. Concomitantly, population genomic results were consistent with the occurrence of recombination cold spots that comprise more than half of the genome and maintain long-range associations among alleles in invasive populations. These genomic regions overlap with both candidate thermal tolerance loci that we identified using a standard genome-wide association test. Moreover, we found that recombination cold spots do not have a large contribution to population differentiation in the invasive range, contrary to observations in the native range. We suggest that limited recombination is constraining the contribution of large swaths of the genome to adaptation in invasive brown anoles. Our study provides an example of evolutionary stasis during invasion and highlights the possibility that reduced recombination occasionally slows down adaptation in invasive populations.
Collapse
Affiliation(s)
- Dan G Bock
- Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, Massachusetts, USA
- Department of Biology, Washington University, St. Louis, Missouri, USA
| | - Simon Baeckens
- Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, Massachusetts, USA
- Evolution and Optics of Nanostructures Lab, Department of Biology, Ghent University, Ghent, Belgium
- Functional Morphology Lab, Department of Biology, University of Antwerp, Antwerp, Belgium
| | - Jason J Kolbe
- Department of Biological Sciences, University of Rhode Island, Kingston, Rhode Island, USA
| | - Jonathan B Losos
- Department of Biology, Washington University, St. Louis, Missouri, USA
| |
Collapse
|
6
|
Zhang J, Xu C, Wang S, Wang S, Li Y. Variations in Genetic Diversity of Invasive Species Lithobates catesbeianus in China. Animals (Basel) 2024; 14:1287. [PMID: 38731291 PMCID: PMC11083970 DOI: 10.3390/ani14091287] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2024] [Revised: 04/17/2024] [Accepted: 04/19/2024] [Indexed: 05/13/2024] Open
Abstract
The introduction and subsequent range expansion of the American bullfrog (Lithobates catesbeianus) is part of a rising trend of troublesome biological invasions happening in China. This detrimental amphibious invasive species has strong adaptability. After its introduction and spread, it established its own ecological niche in many provinces of China, and its range has continued to expand to more areas. Previous studies recorded the introduction time of bullfrogs and calculated the changes in their genetic diversity in China using mitochondria, but the specific introduction route in China is still unknown. Expanding upon previous research, we employed whole-genome scans (utilizing 2b-RAD genomic sequencing) to examine single nucleotide polymorphisms (SNPs) and microsatellites within Lithobates catesbeianus to screen the genomes of these invasive amphibian species from eight Chinese provinces and two U.S. states, including Kansas, where bullfrogs originate. A total of 1,336,475 single nucleotide polymorphic loci and 17 microsatellite loci were used to calculate the genetic diversity of bullfrogs and their migration pathways. Our results suggest that the population in Hunan was the first to be introduced and to spread, and there may have been multiple introductions of subpopulations. Additionally, the genetic diversity of both the SNP and microsatellite loci in the Chinese bullfrog population was lower than that of the US population due to bottleneck effects, but the bullfrogs can adapt and spread rapidly. This study will offer crucial insights for preventing and controlling future introductions into the natural habitats in China. Additionally, it will assist in devising more precise strategies to manage the existing populations and curtail their continued expansion, as well as aim to improve clarity and originality while mitigating plagiarism risk.
Collapse
Affiliation(s)
- Jiaqi Zhang
- Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences, 1 Beichen West Road, Chaoyang, Beijing 100101, China; (J.Z.); (C.X.); (S.W.); (S.W.)
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Chunxia Xu
- Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences, 1 Beichen West Road, Chaoyang, Beijing 100101, China; (J.Z.); (C.X.); (S.W.); (S.W.)
| | - Supen Wang
- Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences, 1 Beichen West Road, Chaoyang, Beijing 100101, China; (J.Z.); (C.X.); (S.W.); (S.W.)
| | - Siqi Wang
- Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences, 1 Beichen West Road, Chaoyang, Beijing 100101, China; (J.Z.); (C.X.); (S.W.); (S.W.)
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Yiming Li
- Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences, 1 Beichen West Road, Chaoyang, Beijing 100101, China; (J.Z.); (C.X.); (S.W.); (S.W.)
- University of Chinese Academy of Sciences, Beijing 100049, China
- School of Life Sciences, Institute of Life Sciences and Green Development, Hebei University, Baoding 071002, China
| |
Collapse
|
7
|
Hao Y, Wang XF, Guo Y, Li TY, Yang J, Ainouche ML, Salmon A, Ju RT, Wu JH, Li LF, Li B. Genomic and phenotypic signatures provide insights into the wide adaptation of a global plant invader. PLANT COMMUNICATIONS 2024; 5:100820. [PMID: 38221758 PMCID: PMC11009367 DOI: 10.1016/j.xplc.2024.100820] [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: 09/08/2023] [Revised: 12/18/2023] [Accepted: 01/10/2024] [Indexed: 01/16/2024]
Abstract
Invasive alien species are primary drivers of biodiversity loss and species extinction. Smooth cordgrass (Spartina alterniflora) is one of the most aggressive invasive plants in coastal ecosystems around the world. However, the genomic bases and evolutionary mechanisms underlying its invasion success have remained largely unknown. Here, we assembled a chromosome-level reference genome and performed phenotypic and population genomic analyses between native US and introduced Chinese populations. Our phenotypic comparisons showed that introduced Chinese populations have evolved competitive traits, such as early flowering time and greater plant biomass, during secondary introductions along China's coast. Population genomic and transcriptomic inferences revealed distinct evolutionary trajectories of low- and high-latitude Chinese populations. In particular, genetic mixture among different source populations, together with independent natural selection acting on distinct target genes, may have resulted in high genome dynamics of the introduced Chinese populations. Our study provides novel phenotypic and genomic evidence showing how smooth cordgrass rapidly adapts to variable environmental conditions in its introduced ranges. Moreover, candidate genes related to flowering time, fast growth, and stress tolerance (i.e., salinity and submergence) provide valuable genetic resources for future improvement of cereal crops.
Collapse
Affiliation(s)
- Yan Hao
- National Observations and Research Station for Wetland Ecosystems of the Yangtze Estuary and Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, Institute of Biodiversity Science and Institute of Eco-Chongming, School of Life Sciences, Fudan University, Shanghai 200438, China
| | - Xin-Feng Wang
- State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou 510275, China
| | - Yaolin Guo
- National Observations and Research Station for Wetland Ecosystems of the Yangtze Estuary and Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, Institute of Biodiversity Science and Institute of Eco-Chongming, School of Life Sciences, Fudan University, Shanghai 200438, China
| | - Tian-Yang Li
- National Observations and Research Station for Wetland Ecosystems of the Yangtze Estuary and Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, Institute of Biodiversity Science and Institute of Eco-Chongming, School of Life Sciences, Fudan University, Shanghai 200438, China
| | - Ji Yang
- National Observations and Research Station for Wetland Ecosystems of the Yangtze Estuary and Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, Institute of Biodiversity Science and Institute of Eco-Chongming, School of Life Sciences, Fudan University, Shanghai 200438, China
| | - Malika L Ainouche
- UMR CNRS 6553, Université of Rennes, Campus de Beaulieu, 35042 Rennes Cedex Paris, France
| | - Armel Salmon
- UMR CNRS 6553, Université of Rennes, Campus de Beaulieu, 35042 Rennes Cedex Paris, France
| | - Rui-Ting Ju
- National Observations and Research Station for Wetland Ecosystems of the Yangtze Estuary and Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, Institute of Biodiversity Science and Institute of Eco-Chongming, School of Life Sciences, Fudan University, Shanghai 200438, China
| | - Ji-Hua Wu
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou 730000, China.
| | - Lin-Feng Li
- National Observations and Research Station for Wetland Ecosystems of the Yangtze Estuary and Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, Institute of Biodiversity Science and Institute of Eco-Chongming, School of Life Sciences, Fudan University, Shanghai 200438, China; State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou 510275, China.
| | - Bo Li
- National Observations and Research Station for Wetland Ecosystems of the Yangtze Estuary and Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, Institute of Biodiversity Science and Institute of Eco-Chongming, School of Life Sciences, Fudan University, Shanghai 200438, China; Ministry of Education Key Laboratory for Transboundary Ecosecurity of Southwest China, Yunnan Key Laboratory of Plant Reproductive Adaptation and Evolutionary Ecology and Centre for Invasion Biology, Institute of Biodiversity, School of Ecology and Environmental Science, Yunnan University, Kunming, Yunnan 650504, China.
| |
Collapse
|
8
|
Kvach Y, Kutsokon Y, Bakuma A, Chebotar S, Demchenko V, Didenko A, Snigirov S, Yuryshynets V. Parasite and genetic diversity of big-scale sand smelt (Atherina boyeri Risso, 1810) populations in their natural and expansion ranges in Ukraine. Parasitol Res 2024; 123:154. [PMID: 38446231 DOI: 10.1007/s00436-024-08174-5] [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: 09/27/2023] [Accepted: 02/27/2024] [Indexed: 03/07/2024]
Abstract
The big-scale sand smelt (Atherina boyeri) is an Atlanto-Mediterranean amphidromous fish species found within the Black Sea. Here, we assess differences in the parasite fauna of big-scale sand smelt populations from their natural range in the northwestern Black Sea and from their expansion range in the Lower and Middle River Dnipro. In addition, we undertook a microsatellite analysis to assess the genetic similarity of fish from the different locations. We found that the parasite community of fish in their natural range was wider than that from their expansion range. While the Gulf of Odesa was most distant from all other localities by parasite community composition and the Dnipro Reservoir was characterised by an absence of parasites (newest and most distant expansion locality), only fish from the Danube Delta showed a significant genetic difference. Our results suggest that the parasite community of big-scale sand smelt is primarily influenced by environmental factors, such as habitat type, water salinity and/or prey composition. Both microsatellite analysis and parasite community species composition (e.g. the presence of the marine Telosentis exiguus in the Kakhovka Reservoir and freshwater Raphidascaris sp. in the Gulf of Odesa) confirmed that populations in the River Dnipro reservoirs had, at some time, been connected with native marine populations, thus also confirming the species' amphidromous nature.
Collapse
Affiliation(s)
- Yuriy Kvach
- Institute of Marine Biology, National Academy of Science of Ukraine, Pushkinska St., 37, Odesa, 65048, Ukraine.
- Odesa I. I. Mechnikov National University, Dvoryanska St., 2, Odesa, 65002, Ukraine.
| | - Yuliya Kutsokon
- Schmalhausen Institute of Zoology, National Academy of Science of Ukraine, B. Khmelnytskoho St., 15, Kyiv, 01054, Ukraine
| | - Alla Bakuma
- Institute of Marine Biology, National Academy of Science of Ukraine, Pushkinska St., 37, Odesa, 65048, Ukraine
| | - Sabina Chebotar
- Odesa I. I. Mechnikov National University, Dvoryanska St., 2, Odesa, 65002, Ukraine
| | - Viktor Demchenko
- Institute of Marine Biology, National Academy of Science of Ukraine, Pushkinska St., 37, Odesa, 65048, Ukraine
| | - Alexander Didenko
- Schmalhausen Institute of Zoology, National Academy of Science of Ukraine, B. Khmelnytskoho St., 15, Kyiv, 01054, Ukraine
- Institute of Fisheries, National Academy of Agrarian Science of Ukraine, Obukhivska St., 135, Kyiv, 03164, Ukraine
| | - Sergii Snigirov
- Institute of Marine Biology, National Academy of Science of Ukraine, Pushkinska St., 37, Odesa, 65048, Ukraine
- Odesa I. I. Mechnikov National University, Dvoryanska St., 2, Odesa, 65002, Ukraine
| | - Volodymyr Yuryshynets
- Institute of Hydrobiology, National Academy of Science of Ukraine, Volodymyra Ivasyuka Av., 12, Kyiv, 04210, Ukraine
| |
Collapse
|
9
|
Ma LJ, Cao LJ, Chen JC, Tang MQ, Song W, Yang FY, Shen XJ, Ren YJ, Yang Q, Li H, Hoffmann AA, Wei SJ. Rapid and Repeated Climate Adaptation Involving Chromosome Inversions following Invasion of an Insect. Mol Biol Evol 2024; 41:msae044. [PMID: 38401527 PMCID: PMC10924284 DOI: 10.1093/molbev/msae044] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2023] [Revised: 01/23/2024] [Accepted: 02/20/2024] [Indexed: 02/26/2024] Open
Abstract
Following invasion, insects can become adapted to conditions experienced in their invasive range, but there are few studies on the speed of adaptation and its genomic basis. Here, we examine a small insect pest, Thrips palmi, following its contemporary range expansion across a sharp climate gradient from the subtropics to temperate areas. We first found a geographically associated population genetic structure and inferred a stepping-stone dispersal pattern in this pest from the open fields of southern China to greenhouse environments of northern regions, with limited gene flow after colonization. In common garden experiments, both the field and greenhouse groups exhibited clinal patterns in thermal tolerance as measured by critical thermal maximum (CTmax) closely linked with latitude and temperature variables. A selection experiment reinforced the evolutionary potential of CTmax with an estimated h2 of 6.8% for the trait. We identified 3 inversions in the genome that were closely associated with CTmax, accounting for 49.9%, 19.6%, and 8.6% of the variance in CTmax among populations. Other genomic variations in CTmax outside the inversion region were specific to certain populations but functionally conserved. These findings highlight rapid adaptation to CTmax in both open field and greenhouse populations and reiterate the importance of inversions behaving as large-effect alleles in climate adaptation.
Collapse
Affiliation(s)
- Li-Jun Ma
- Institute of Plant Protection, Beijing Academy of Agriculture and Forestry Sciences, Beijing 100097, China
| | - Li-Jun Cao
- Institute of Plant Protection, Beijing Academy of Agriculture and Forestry Sciences, Beijing 100097, China
| | - Jin-Cui Chen
- Institute of Plant Protection, Beijing Academy of Agriculture and Forestry Sciences, Beijing 100097, China
| | - Meng-Qing Tang
- Institute of Plant Protection, Beijing Academy of Agriculture and Forestry Sciences, Beijing 100097, China
- Department of Entomology and MOA Key Lab of Pest Monitoring and Green Management, College of Plant Protection, China Agricultural University, Beijing 100193, China
| | - Wei Song
- Institute of Plant Protection, Beijing Academy of Agriculture and Forestry Sciences, Beijing 100097, China
| | - Fang-Yuan Yang
- Institute of Plant Protection, Beijing Academy of Agriculture and Forestry Sciences, Beijing 100097, China
| | - Xiu-Jing Shen
- Institute of Plant Protection, Beijing Academy of Agriculture and Forestry Sciences, Beijing 100097, China
| | - Ya-Jing Ren
- Institute of Plant Protection, Beijing Academy of Agriculture and Forestry Sciences, Beijing 100097, China
- Department of Entomology and MOA Key Lab of Pest Monitoring and Green Management, College of Plant Protection, China Agricultural University, Beijing 100193, China
| | - Qiong Yang
- Bio21 Institute, School of BioSciences, University of Melbourne, Parkville, Victoria 3010, Australia
| | - Hu Li
- Department of Entomology and MOA Key Lab of Pest Monitoring and Green Management, College of Plant Protection, China Agricultural University, Beijing 100193, China
| | - Ary Anthony Hoffmann
- Bio21 Institute, School of BioSciences, University of Melbourne, Parkville, Victoria 3010, Australia
| | - Shu-Jun Wei
- Institute of Plant Protection, Beijing Academy of Agriculture and Forestry Sciences, Beijing 100097, China
| |
Collapse
|
10
|
Haeussermann I, Hasselmann M. Complex European invasion history of Anoplophora glabripennis (Motschulsky): new insights in its population genomic differentiation using genotype-by-sequencing. Sci Rep 2024; 14:4263. [PMID: 38383537 PMCID: PMC10881967 DOI: 10.1038/s41598-024-54567-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/15/2023] [Accepted: 02/14/2024] [Indexed: 02/23/2024] Open
Abstract
Anthropogenic activities like trade facilitate increasing rates of biological invasions. Asian long-horned beetle (ALB), which is naturally distributed in eastern Asia (China, Korean peninsula), was introduced via wood packing materials (WPM) used in trade to North America (1996) and Europe (2001). We used 7810 single nucleotide polymorphisms (SNPs) derived by a genotype-by-sequencing (GBS) approach to decipher the introduction patterns into Europe. This is applied for the first time on European ALB outbreaks from Germany, Switzerland, and Italy, both from still active and already eradicated infestations. The genome-wide SNPs detected signs of small and highly structured populations within Europe, showing clear founder effects. The very high population differentiation is presumably derived from multiple independent introductions to Europe, which are spatially restricted in mating. By admixture and phylogenetic analyses, some cases of secondary dispersal were observed. Furthermore, some populations suggest admixture, which might have been originated by either multiple introductions from different sources into the new sites or recurrent introductions from an admixed source population. Our results confirmed a complex invasion history of the ALB into Europe and the usability of GBS obtained SNPs in invasion science even without source populations.
Collapse
Affiliation(s)
- Iris Haeussermann
- Institute of Animal Science, Department of Livestock Population Genomics, Centre for Biodiversity and Integrative Taxonomy (KomBioTa), University of Hohenheim, Stuttgart, Germany.
| | - Martin Hasselmann
- Institute of Animal Science, Department of Livestock Population Genomics, Centre for Biodiversity and Integrative Taxonomy (KomBioTa), University of Hohenheim, Stuttgart, Germany
| |
Collapse
|
11
|
Cheek RG, McLaughlin JF, Gamboa MP, Marshall CA, Johnson BM, Silver DB, Mauro AA, Ghalambor CK. A lack of genetic diversity and minimal adaptive evolutionary divergence in introduced Mysis shrimp after 50 years. Evol Appl 2024; 17:e13637. [PMID: 38283609 PMCID: PMC10818135 DOI: 10.1111/eva.13637] [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: 06/28/2023] [Revised: 11/17/2023] [Accepted: 12/07/2023] [Indexed: 01/30/2024] Open
Abstract
The successes of introduced populations in novel habitats often provide powerful examples of evolution and adaptation. In the 1950s, opossum shrimp (Mysis diluviana) individuals from Clearwater Lake in Minnesota, USA were transported and introduced to Twin Lakes in Colorado, USA by fisheries managers to supplement food sources for trout. Mysis were subsequently introduced from Twin Lakes into numerous lakes throughout Colorado. Because managers kept detailed records of the timing of the introductions, we had the opportunity to test for evolutionary divergence within a known time interval. Here, we used reduced representation genomic data to investigate patterns of genetic diversity, test for genetic divergence between populations, and for evidence of adaptive evolution within the introduced populations in Colorado. We found very low levels of genetic diversity across all populations, with evidence for some genetic divergence between the Minnesota source population and the introduced populations in Colorado. There was little differentiation among the Colorado populations, consistent with the known provenance of a single founding population, with the exception of the population from Gross Reservoir, Colorado. Demographic modeling suggests that at least one undocumented introduction from an unknown source population hybridized with the population in Gross Reservoir. Despite the overall low genetic diversity we observed, F ST outlier and environmental association analyses identified multiple loci exhibiting signatures of selection and adaptive variation related to elevation and lake depth. The success of introduced species is thought to be limited by genetic variation, but our results imply that populations with limited genetic variation can become established in a wide range of novel environments. From an applied perspective, the observed patterns of divergence between populations suggest that genetic analysis can be a useful forensic tool to determine likely sources of invasive species.
Collapse
Affiliation(s)
- Rebecca G. Cheek
- Department of BiologyColorado State UniversityFort CollinsColoradoUSA
- Graduate Degree Program in EcologyColorado State UniversityFort CollinsColoradoUSA
| | - Jessica F. McLaughlin
- Department of Environmental Science, Policy, and ManagementUniversity of California BerkeleyBerkeleyCaliforniaUSA
| | - Maybellene P. Gamboa
- Department of Organismal Biology and EcologyColorado CollegeColorado SpringsColoradoUSA
| | - Craig A. Marshall
- Department of BiologyColorado State UniversityFort CollinsColoradoUSA
- Council on Science and TechnologyPrinceton UniversityPrincetonNew JerseyUSA
| | - Brett M. Johnson
- Department of Fish, Wildlife and Conservation BiologyColorado State UniversityFort CollinsColoradoUSA
| | - Douglas B. Silver
- Department of Fish, Wildlife and Conservation BiologyColorado State UniversityFort CollinsColoradoUSA
| | - Alexander A. Mauro
- Department of BiologyColorado State UniversityFort CollinsColoradoUSA
- Graduate Degree Program in EcologyColorado State UniversityFort CollinsColoradoUSA
- Department of Biology, Centre for Biodiversity Dynamics (CBD)Norwegian University of Science and Technology (NTNU)TrondheimNorway
| | - Cameron K. Ghalambor
- Department of BiologyColorado State UniversityFort CollinsColoradoUSA
- Graduate Degree Program in EcologyColorado State UniversityFort CollinsColoradoUSA
- Department of Biology, Centre for Biodiversity Dynamics (CBD)Norwegian University of Science and Technology (NTNU)TrondheimNorway
| |
Collapse
|
12
|
Chen Y, Ni P, Fu R, Murphy KJ, Wyeth RC, Bishop CD, Huang X, Li S, Zhan A. (Epi)genomic adaptation driven by fine geographical scale environmental heterogeneity after recent biological invasions. ECOLOGICAL APPLICATIONS : A PUBLICATION OF THE ECOLOGICAL SOCIETY OF AMERICA 2024; 34:e2772. [PMID: 36316814 DOI: 10.1002/eap.2772] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/27/2022] [Revised: 09/07/2022] [Accepted: 09/13/2022] [Indexed: 06/16/2023]
Abstract
Elucidating processes and mechanisms involved in rapid local adaptation to varied environments is a poorly understood but crucial component in management of invasive species. Recent studies have proposed that genetic and epigenetic variation could both contribute to ecological adaptation, yet it remains unclear on the interplay between these two components underpinning rapid adaptation in wild animal populations. To assess their respective contributions to local adaptation, we explored epigenomic and genomic responses to environmental heterogeneity in eight recently colonized ascidian (Ciona intestinalis) populations at a relatively fine geographical scale. Based on MethylRADseq data, we detected strong patterns of local environment-driven DNA methylation divergence among populations, significant epigenetic isolation by environment (IBE), and a large number of local environment-associated epigenetic loci. Meanwhile, multiple genetic analyses based on single nucleotide polymorphisms (SNPs) showed genomic footprints of divergent selection. In addition, for five genetically similar populations, we detected significant methylation divergence and local environment-driven methylation patterns, indicating the strong effects of local environments on epigenetic variation. From a functional perspective, a majority of functional genes, Gene Ontology (GO) terms, and biological pathways were largely specific to one of these two types of variation, suggesting partial independence between epigenetic and genetic adaptation. The methylation quantitative trait loci (mQTL) analysis showed that the genetic variation explained only 18.67% of methylation variation, further confirming the autonomous relationship between these two types of variation. Altogether, we highlight the complementary interplay of genetic and epigenetic variation involved in local adaptation, which may jointly promote populations' rapid adaptive capacity and successful invasions in different environments. The findings here provide valuable insights into interactions between invaders and local environments to allow invasive species to rapidly spread, thus contributing to better prediction of invasion success and development of management strategies.
Collapse
Affiliation(s)
- Yiyong Chen
- Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Chinese Academy of Sciences, Beijing, China
| | - Ping Ni
- Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Chinese Academy of Sciences, Beijing, China
| | - Ruiying Fu
- Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Chinese Academy of Sciences, Beijing, China
| | - Kieran J Murphy
- Department of Biology, St. Francis Xavier University, Antigonish, Nova Scotia, Canada
- Institute for Marine and Antarctic Studies, University of Tasmania, Hobart, Australia
| | - Russell C Wyeth
- Department of Biology, St. Francis Xavier University, Antigonish, Nova Scotia, Canada
| | - Cory D Bishop
- Department of Biology, St. Francis Xavier University, Antigonish, Nova Scotia, Canada
| | - Xuena Huang
- Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China
| | - Shiguo Li
- Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Chinese Academy of Sciences, Beijing, China
| | - Aibin Zhan
- Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Chinese Academy of Sciences, Beijing, China
| |
Collapse
|
13
|
Zhao M, Ran X, Xing D, Liu W, Ma Z, Liao Y, Zhang Q, Bai Y, Liu L, Chen K, Wu M, Gao J, Zhang H, Zhao T. Population genetics of Aedes albopictus in the port cities of Hainan Island and Leizhou Peninsula, China. INFECTION, GENETICS AND EVOLUTION : JOURNAL OF MOLECULAR EPIDEMIOLOGY AND EVOLUTIONARY GENETICS IN INFECTIOUS DISEASES 2024; 117:105539. [PMID: 38104852 DOI: 10.1016/j.meegid.2023.105539] [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: 08/30/2023] [Revised: 12/06/2023] [Accepted: 12/12/2023] [Indexed: 12/19/2023]
Abstract
BACKGROUND Aedes albopictus is an important vector of arboviral diseases, transmitting yellow fever, dengue fever, chikungunya and Zika. Monitoring its population genetic diversity and genetic differentiation has become essential for the control of infectious disease epidemics, especially in the functional areas of ports of entry. Population genetic monitoring of Ae. albopictus in the port area can help in the monitoring of port mosquito invasions and establishing port sanitary and quarantine measures to prevent the introduction and transmission of vector-borne diseases. METHODS Seventeen populations of Ae. albopictus were collected from five port cities on Hainan Island and the Leizhou Peninsula, 8 populations were collected from port areas, 4 from urban areas and 5 from rural areas. Nine microsatellite loci and the mitochondrial COI gene were used to study the population genetic diversity, population genetic structure and interpopulation gene flow of Ae. albopictus. RESULTS The nine microsatellite loci used were highly polymorphic, with an average PIC value of 0.768. The UPGMA genetic tree, STRUCTURE barplot and PCoA analyses showed that the 17 Ae. albopictus populations could be divided into three genetic groups. All 17 populations showed high haplotype diversity (Hd = 0.8069-0.9678) and formed 133 distinct haplotypes. These haplotypes can be divided into four genetic clades, but they are not associated with the geographical distribution of Ae. albopictus. Fst and Nm showed strong gene flow and little differentiation among populations. CONCLUSION Ae. albopictus in port areas are not significantly different from urban and rural populations due to strong gene flow, which prevents differentiation and increases the genetic diversity of the populations. High genetic diversity facilitates mosquito adaptation to complex environmental changes, which is a challenge for vector-borne disease control in port areas.
Collapse
Affiliation(s)
- Minghui Zhao
- State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing 100071, China; Jiangxi International Travel Healthcare Center, Nanchang 330002, China
| | - Xin Ran
- Jiangxi Provincial Center for Disease Control and Prevention, Nanchang 330002, China
| | - Dan Xing
- State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing 100071, China
| | - Wei Liu
- Jiangxi International Travel Healthcare Center, Nanchang 330002, China
| | - Zu Ma
- State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing 100071, China
| | - Yun Liao
- Jiangxi International Travel Healthcare Center, Nanchang 330002, China
| | - Qiang Zhang
- Jiangxi International Travel Healthcare Center, Nanchang 330002, China
| | - Yu Bai
- Jiangxi International Travel Healthcare Center, Nanchang 330002, China
| | - Lan Liu
- Jiangxi International Travel Healthcare Center, Nanchang 330002, China
| | - Kan Chen
- Jiangxi International Travel Healthcare Center, Nanchang 330002, China
| | - Mingyu Wu
- State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing 100071, China
| | - Jian Gao
- Jiangsu Provincial Center for Disease Control and Prevention, Nanjing 210000, China
| | - Hengduan Zhang
- State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing 100071, China.
| | - Tongyan Zhao
- State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing 100071, China.
| |
Collapse
|
14
|
Kim AS, Kreiner JM, Hernández F, Bock DG, Hodgins KA, Rieseberg LH. Temporal collections to study invasion biology. Mol Ecol 2023; 32:6729-6742. [PMID: 37873879 DOI: 10.1111/mec.17176] [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: 08/22/2023] [Revised: 10/07/2023] [Accepted: 10/11/2023] [Indexed: 10/25/2023]
Abstract
Biological invasions represent an extraordinary opportunity to study evolution. This is because accidental or deliberate species introductions have taken place for centuries across large geographical scales, frequently prompting rapid evolutionary transitions in invasive populations. Until recently, however, the utility of invasions as evolutionary experiments has been hampered by limited information on the makeup of populations that were part of earlier invasion stages. Now, developments in ancient and historical DNA technologies, as well as the quickening pace of digitization for millions of specimens that are housed in herbaria and museums globally, promise to help overcome this obstacle. In this review, we first introduce the types of temporal data that can be used to study invasions, highlighting the timescale captured by each approach and their respective limitations. We then discuss how ancient and historical specimens as well as data available from prior invasion studies can be used to answer questions on mechanisms of (mal)adaptation, rates of evolution, or community-level changes during invasions. By bridging the gap between contemporary and historical invasive populations, temporal data can help us connect pattern to process in invasion science. These data will become increasingly important if invasions are to achieve their full potential as experiments of evolution in nature.
Collapse
Affiliation(s)
- Amy S Kim
- Department of Botany and Biodiversity Research Centre, University of British Columbia, Vancouver, British Columbia, Canada
| | - Julia M Kreiner
- Department of Botany and Biodiversity Research Centre, University of British Columbia, Vancouver, British Columbia, Canada
| | - Fernando Hernández
- Department of Botany and Biodiversity Research Centre, University of British Columbia, Vancouver, British Columbia, Canada
| | - Dan G Bock
- Department of Botany and Biodiversity Research Centre, University of British Columbia, Vancouver, British Columbia, Canada
| | - Kathryn A Hodgins
- School of Biological Sciences, Monash University, Melbourne, Victoria, Australia
| | - Loren H Rieseberg
- Department of Botany and Biodiversity Research Centre, University of British Columbia, Vancouver, British Columbia, Canada
| |
Collapse
|
15
|
Wang Y, Wang Y, Yang Y, Ni G, Li Y, Chen M. Chromosome-level genome assembly of the northern Pacific seastar Asterias amurensis. Sci Data 2023; 10:767. [PMID: 37925473 PMCID: PMC10625585 DOI: 10.1038/s41597-023-02688-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2023] [Accepted: 10/25/2023] [Indexed: 11/06/2023] Open
Abstract
Asterias amurensis has attracted widespread concern because of its population outbreaks, which has impacted fisheries and aquaculture, as well as disrupting local ecosystems. A high-quality reference genome is necessary to better investigate mechanisms of outbreak and adaptive changes. Combining PacBio HiFi and Hi-C sequencing data, we generated a chromosome-level A. amurensis genome with a size of 491.53 Mb. The contig N50 and scaffold N50 were 8.05 and 23.75 Mb, respectively. The result of BUSCO analysis revealed a completeness score of 98.85%. A total of 16,531 protein-coding genes were predicted in the genome, of which 94.63% were functionally annotated. The high-quality genome assembly resulting from this study will provide a valuable genetic resource for future research on the mechanism of population outbreaks and invasion ecology.
Collapse
Affiliation(s)
- Yanlin Wang
- The Key Laboratory of Mariculture, Ministry of Education, Ocean University of China, Qingdao, 266003, China
| | - Yixin Wang
- The Key Laboratory of Mariculture, Ministry of Education, Ocean University of China, Qingdao, 266003, China
| | - Yujia Yang
- The Key Laboratory of Mariculture, Ministry of Education, Ocean University of China, Qingdao, 266003, China
| | - Gang Ni
- The Key Laboratory of Mariculture, Ministry of Education, Ocean University of China, Qingdao, 266003, China
| | - Yulong Li
- CAS Key Laboratory of Marine Ecology and Environmental Sciences, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, 266071, China.
| | - Muyan Chen
- The Key Laboratory of Mariculture, Ministry of Education, Ocean University of China, Qingdao, 266003, China.
| |
Collapse
|
16
|
Pita-Aquino JN, Bock DG, Baeckens S, Losos JB, Kolbe JJ. Stronger evidence for genetic ancestry than environmental conditions in shaping the evolution of a complex signalling trait during biological invasion. Mol Ecol 2023; 32:5558-5574. [PMID: 37698063 DOI: 10.1111/mec.17123] [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: 07/25/2022] [Accepted: 08/17/2023] [Indexed: 09/13/2023]
Abstract
Introductions of invasive species to new environments often result in rapid rates of trait evolution. While in some cases these evolutionary transitions are adaptive and driven by natural selection, they can also result from patterns of genetic and phenotypic variation associated with the invasion history. Here, we examined the brown anole (Anolis sagrei), a widespread invasive lizard for which genetic data have helped trace the sources of non-native populations. We focused on the dewlap, a complex signalling trait known to be subject to multiple selective pressures. We measured dewlap reflectance, pattern and size in 30 non-native populations across the southeastern United States. As well, we quantified environmental variables known to influence dewlap signal effectiveness, such as canopy openness. Further, we used genome-wide data to estimate genetic ancestry, perform association mapping and test for signatures of selection. We found that among-population variation in dewlap characteristics was best explained by genetic ancestry. This result was supported by genome-wide association mapping, which identified several ancestry-specific loci associated with dewlap traits. Despite the strong imprint of this aspect of the invasion history on dewlap variation, we also detected significant relationships between dewlap traits and local environmental conditions. However, we found limited evidence that dewlap-associated genetic variants have been subject to selection. Our study emphasizes the importance of genetic ancestry and admixture in shaping phenotypes during biological invasion, while leaving the role of selection unresolved, likely due to the polygenic genetic architecture of dewlaps and selection acting on many genes of small effect.
Collapse
Affiliation(s)
- Jessica N Pita-Aquino
- Department of Biological Sciences, University of Rhode Island, Kingston, Rhode Island, USA
| | - Dan G Bock
- Department of Biology, Washington University in St. Louis, St. Louis, Missouri, USA
| | - Simon Baeckens
- Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, Massachusetts, USA
| | - Jonathan B Losos
- Department of Biology, Washington University in St. Louis, St. Louis, Missouri, USA
| | - Jason J Kolbe
- Department of Biological Sciences, University of Rhode Island, Kingston, Rhode Island, USA
| |
Collapse
|
17
|
Levri EP, Hutchinson S, Luft R, Berkheimer C, Wilson K. Population influences desiccation tolerance in an invasive aquatic snail, Potamopyrgus antipodarum (Tateidae, Mollusca). PeerJ 2023; 11:e15732. [PMID: 37461406 PMCID: PMC10350299 DOI: 10.7717/peerj.15732] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2023] [Accepted: 06/18/2023] [Indexed: 07/20/2023] Open
Abstract
Traits in species that influence invasion success may vary in populations across its invaded range. The aquatic New Zealand mud snail, Potamopyrgus antipodarum, reproduces parthenogenetically in its invaded range, and a few distinct clonal genotypes have been identified in North America. Much of the spread of the snail in North America has been the result of unintentional overland transport by recreational water users. Thus, desiccation tolerance may play an important role in the invasion success of this species. The primary goal of these experiments is to determine if variation in desiccation tolerance exists between populations of this species. Here we compared multiple multi-locus genotypes (MLGs) and populations within those genotypes with regard to their desiccation tolerance. We conducted three experiments. The first compared the survival rate over time of snails from three populations and two MLGs with regard to their ability to survive being completely removed from water. The second experiment examined different size classes of snails from the same population, and the third experiment compared four different populations and two MLGs genotypes with respect to their survival rate over time when removed from water but being kept in moist conditions. We found larger snails tolerate desiccation longer than smaller snails with snails between 4 and 4.6 mm surviving at a rate of more than 50% after 12 h while smaller snails survived at a less than 5% rate after 12 h. We also found significant variation both between and within MLGs in their survival rate when completely removed from water and dried with the MLG from the western US having a more than 50% greater survival probability than the eastern MLGs at both 18 and 24 h out of water. When removed from water and kept moist all MLGs had a near 100% survival rate at 60 days at 7 °C, and most survived at a greater than 90% rate at 60 days at 17 °C, while no MLG's survived past 30 days at 27 °C. The results demonstrate that variation for desiccation tolerance exists between populations of this invader which could influence the invasiveness of different populations.
Collapse
|
18
|
Jin M, North HL, Peng Y, Liu H, Liu B, Pan R, Zhou Y, Zheng W, Liu K, Yang B, Zhang L, Xu Q, Elfekih S, Valencia-Montoya WA, Walsh T, Cui P, Zhou Y, Wilson K, Jiggins C, Wu K, Xiao Y. Adaptive evolution to the natural and anthropogenic environment in a global invasive crop pest, the cotton bollworm. Innovation (N Y) 2023; 4:100454. [PMID: 37388193 PMCID: PMC10300404 DOI: 10.1016/j.xinn.2023.100454] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2023] [Accepted: 05/27/2023] [Indexed: 07/01/2023] Open
Abstract
The cotton bollworm, Helicoverpa armigera, is set to become the most economically devastating crop pest in the world, threatening food security and biosafety as its range expands across the globe. Key to understanding the eco-evolutionary dynamics of H. armigera, and thus its management, is an understanding of population connectivity and the adaptations that allow the pest to establish in unique environments. We assembled a chromosome-scale reference genome and re-sequenced 503 individuals spanning the species range to delineate global patterns of connectivity, uncovering a previously cryptic population structure. Using a genome-wide association study (GWAS) and cell line expression of major effect loci, we show that adaptive changes in a temperature- and light-sensitive developmental pathway enable facultative diapause and that adaptation of trehalose synthesis and transport underlies cold tolerance in extreme environments. Incorporating extensive pesticide resistance monitoring, we also characterize a suite of novel pesticide and Bt resistance alleles under selection in East China. These findings offer avenues for more effective management strategies and provide insight into how insects adapt to variable climatic conditions and newly colonized environments.
Collapse
Affiliation(s)
- Minghui Jin
- Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Gene Editing Technologies (Hainan), Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518116, China
- The State Key Laboratory for Biology of Plant Disease and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, West Yuanmingyuan Road, Beijing 100193, China
| | - Henry L. North
- Department of Zoology, University of Cambridge, Cambridge CB2 1SZ, UK
| | - Yan Peng
- Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Gene Editing Technologies (Hainan), Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518116, China
- College of Plant Science and Technology, Huazhong Agricultural University, Wuhan 430070, China
| | - Hangwei Liu
- Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Gene Editing Technologies (Hainan), Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518116, China
| | - Bo Liu
- Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Gene Editing Technologies (Hainan), Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518116, China
| | - Ruiqing Pan
- Berry Genomics Corporation, Beijing 102200, China
| | - Yan Zhou
- The State Key Laboratory for Biology of Plant Disease and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, West Yuanmingyuan Road, Beijing 100193, China
| | - Weigang Zheng
- Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Gene Editing Technologies (Hainan), Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518116, China
| | - Kaiyu Liu
- Institute of Entomology, School of Life Sciences, Central China Normal University, Wuhan 430079, China
| | - Bo Yang
- Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Gene Editing Technologies (Hainan), Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518116, China
| | - Lei Zhang
- Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Gene Editing Technologies (Hainan), Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518116, China
| | - Qi Xu
- Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Gene Editing Technologies (Hainan), Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518116, China
| | - Samia Elfekih
- Australian Centre for Disease Preparedness (ACDP), CSIRO Health & Biosecurity, East Geelong, VIC 3169, Australia
- Bio21 Institute and the School of Biosciences, The University of Melbourne, Melbourne, VIC 3010, Australia
| | - Wendy A. Valencia-Montoya
- Department of Organismic and Evolutionary Biology and Museum of Comparative Zoology, Harvard University, Cambridge, MA 02138, USA
| | - Tom Walsh
- CSIRO Land and Water, Black Mountain Laboratories, Canberra, ACT 2601, Australia
| | - Peng Cui
- Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Gene Editing Technologies (Hainan), Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518116, China
| | - Yongfeng Zhou
- Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Gene Editing Technologies (Hainan), Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518116, China
| | - Kenneth Wilson
- Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Gene Editing Technologies (Hainan), Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518116, China
- Lancaster Environment Centre, Lancaster University, Lancaster LA1 4YW, UK
| | - Chris Jiggins
- Department of Zoology, University of Cambridge, Cambridge CB2 1SZ, UK
| | - Kongming Wu
- The State Key Laboratory for Biology of Plant Disease and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, West Yuanmingyuan Road, Beijing 100193, China
| | - Yutao Xiao
- Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Gene Editing Technologies (Hainan), Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518116, China
| |
Collapse
|
19
|
Li H, Peng Y, Wang Y, Summerhays B, Shu X, Vasquez Y, Vansant H, Grenier C, Gonzalez N, Kansagra K, Cartmill R, Sujii ER, Meng L, Zhou X, Lövei GL, Obrycki JJ, Sethuraman A, Li B. Global patterns of genomic and phenotypic variation in the invasive harlequin ladybird. BMC Biol 2023; 21:141. [PMID: 37337183 DOI: 10.1186/s12915-023-01638-7] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2022] [Accepted: 05/30/2023] [Indexed: 06/21/2023] Open
Abstract
BACKGROUND The harlequin ladybird Harmonia axyridis (Coleoptera: Coccinellidae), native to Asia, has been introduced to other major continents where it has caused serious negative impacts on local biodiversity. Though notable advances to understand its invasion success have been made during the past decade, especially with then newer molecular tools, the conclusions reached remain to be confirmed with more advanced genomic analyses and especially using more samples from larger geographical regions across the native range. Furthermore, although H. axyridis is one of the best studied invasive insect species with respect to life history traits (often comparing invasive and native populations), the traits responsible for its colonization success in non-native areas warrant more research. RESULTS Our analyses of genome-wide nuclear population structure indicated that an eastern Chinese population could be the source of all non-native populations and revealed several putatively adaptive candidate genomic loci involved in body color variation, visual perception, and hemolymph synthesis. Our estimates of evolutionary history indicate (1) asymmetric migration with varying population sizes across its native and non-native range, (2) a recent admixture between eastern Chinese and American populations in Europe, (3) signatures of a large progressive, historical bottleneck in the common ancestors of both populations and smaller effective sizes of the non-native population, and (4) the southwest origin and subsequent dispersal routes within its native range in China. In addition, we found that while two mitochondrial haplotypes-Hap1 and Hap2 were dominant in the native range, Hap1 was the only dominant haplotype in the non-native range. Our laboratory observations in both China and USA found statistical yet slight differences between Hap1 and Hap2 in some of life history traits. CONCLUSIONS Our study on H. axyridis provides new insights into its invasion processes into other major continents from its native Asian range, reconstructs a geographic range evolution across its native region China, and tentatively suggests that its invasiveness may differ between mitochondrial haplotypes.
Collapse
Affiliation(s)
- Hongran Li
- Department of Entomology, College of Plant Protection, Nanjing Agricultural University, Nanjing, People's Republic of China
- Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, People's Republic of China
| | - Yan Peng
- Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, People's Republic of China
| | - Yansong Wang
- Department of Entomology, College of Plant Protection, Nanjing Agricultural University, Nanjing, People's Republic of China
| | - Bryce Summerhays
- Department of Biological Sciences, California State University, San Marcos, CA, USA
| | - Xiaohan Shu
- Department of Entomology, College of Plant Protection, Nanjing Agricultural University, Nanjing, People's Republic of China
| | - Yumary Vasquez
- Department of Biological Sciences, California State University, San Marcos, CA, USA
- Department of Life and Environmental Sciences, University of California, Merced, CA, USA
| | - Hannah Vansant
- Department of Biological Sciences, California State University, San Marcos, CA, USA
| | - Christy Grenier
- Department of Biological Sciences, California State University, San Marcos, CA, USA
| | - Nicolette Gonzalez
- Department of Biological Sciences, California State University, San Marcos, CA, USA
| | - Khyati Kansagra
- Department of Biological Sciences, California State University, San Marcos, CA, USA
| | - Ryan Cartmill
- Department of Biological Sciences, California State University, San Marcos, CA, USA
| | | | - Ling Meng
- Department of Entomology, College of Plant Protection, Nanjing Agricultural University, Nanjing, People's Republic of China
| | - Xuguo Zhou
- Department of Entomology, University of Kentucky, Lexington, KY, USA
| | - Gábor L Lövei
- Department of Agroecology, Flakkebjerg Research Centre, Aarhus University, Aarhus, Denmark
- ELKH-DE Anthropocene Ecology Research Group, University of Debrecen, Debrecen, Hungary
- Department of Zoology & Ecology, Hungarian University of Agriculture & Life Sciences, Godollo, Hungary
| | - John J Obrycki
- Department of Entomology, University of Kentucky, Lexington, KY, USA
| | - Arun Sethuraman
- Department of Biological Sciences, California State University, San Marcos, CA, USA.
- Department of Biology, San Diego State University, San Diego, CA, USA.
| | - Baoping Li
- Department of Entomology, College of Plant Protection, Nanjing Agricultural University, Nanjing, People's Republic of China.
| |
Collapse
|
20
|
Qi J, Pan H, Wang X, Xuan Z, Pan X, Li X, Shen Y, Yang J, Zhang J, Li M. Genomic insights into the postintroduction failure of the Asian icefish Protosalanx chinensis in China. Mol Ecol 2023. [PMID: 37160724 DOI: 10.1111/mec.16979] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/10/2022] [Revised: 04/12/2023] [Accepted: 04/26/2023] [Indexed: 05/11/2023]
Abstract
Biological introductions provide a natural ecological experiment unfolding in a recent historical timeframe to elucidate how evolutionary processes (such as founder effects, genetic diversity and adaptation) shape the genomic landscape of populations postintroduction. The Asian icefish, Protosalanx chinensis, is an economically important fishery resource, deliberately introduced into dozens of provinces across China for decades. However, while invading and disturbing the local ecosystem, many introduced populations declined, disappearing mysteriously in a very short time. The way in which various evolutionary forces integrate to result in invasion failure of an introduced population remains unknown. Here, we performed whole-genome sequencing of 10 species from the Salangidae family and 70 Asian icefish (Protosalanx chinensis) individuals from 7 geographic populations in China, aiming to characterize the evolutionary fate of introduced populations. Our results show that compared to other Salangidae species, P. chinensis has low genetic diversity, potentially due to the long-lasting decline in population size. In a recently introducted population, Lugu lake, severe sampling effects and a strong bottleneck further deteriorated the genomic landscape. Although the introduced population showed signs of reduced genetic load, the purging selection efficiency was low. Our selective sweep analysis revealed site frequency changes in candidate genes, including gata1a and hoxd4b, which could be associated with a decrease in dissolved oxygen in the deep-water plateau lake. These findings caution against the widespread introduction of P. chinensis in China and lay the groundwork for future use of this economically species.
Collapse
Affiliation(s)
- Jiwei Qi
- CAS Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Beijing, China
| | - Huijuan Pan
- School of Ecology and Nature Conservation, Beijing Forestry University, Beijing, China
| | - Xiaochen Wang
- CAS Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Beijing, China
- College of Life Sciences, University of Chinese Academy of Sciences, Beijing, China
| | - Zhongya Xuan
- Wuxi Fisheries College, Nanjing Agricultural University, Wuxi, China
| | - Xiaofu Pan
- State key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China
| | - Xuanzhao Li
- CAS Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Beijing, China
- College of Life Sciences, Hebei University, Baoding, China
| | - Ying Shen
- CAS Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Beijing, China
| | - Jian Yang
- Wuxi Fisheries College, Nanjing Agricultural University, Wuxi, China
- Key Laboratory of Fishery Ecological Environment Assessment and Resource Conservation in Middle and Lower Reaches of the Yangtze River, Freshwater Fisheries Research Center, Chinese Academy of Fishery Sciences, Wuxi, China
| | - Jie Zhang
- CAS Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Beijing, China
| | - Ming Li
- CAS Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Beijing, China
- Center for Excellence in Animal Evolution and Genetics, Chinese Academy of Sciences, Kunming, China
| |
Collapse
|
21
|
Otis GW, Taylor BA, Mattila HR. Invasion potential of hornets (Hymenoptera: Vespidae: Vespa spp.). FRONTIERS IN INSECT SCIENCE 2023; 3:1145158. [PMID: 38469472 PMCID: PMC10926419 DOI: 10.3389/finsc.2023.1145158] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/15/2023] [Accepted: 03/30/2023] [Indexed: 03/13/2024]
Abstract
Hornets are large, predatory wasps that have the potential to alter biotic communities and harm honey bee colonies once established in non-native locations. Mated, diapausing females (gynes) can easily be transported to new habitats, where their behavioral flexibility allows them to found colonies using local food and nest materials. Of the 22 species in the genus Vespa, five species are now naturalized far from their endemic populations and another four have been detected either in nature or during inspections at borders of other countries. By far the most likely pathway of long-distance dispersal is the transport of gynes in transoceanic shipments of goods. Thereafter, natural dispersal of gynes in spring and accidental local transport by humans cause shorter-range expansions and contribute to the invasion process. Propagule pressure of hornets is unquantified, although it is likely low but unrelenting. The success of introduced populations is limited by low propagule size and the consequences of genetic founder effects, including the extinction vortex linked to single-locus, complementary sex determination of most hymenopterans. Invasion success is enhanced by climatic similarity between source locality and introduction site, as well as genetic diversity conferred by polyandry in some species. These and other factors that may have influenced the successful establishment of invasive populations of V. velutina, V. tropica, V. bicolor, V. orientalis, and V. crabro are discussed. The highly publicized detections of V. mandarinia in North America and research into its status provide a real-time example of an unfolding hornet invasion.
Collapse
Affiliation(s)
- Gard W. Otis
- School of Environmental Sciences, University of Guelph, Guelph, ON, Canada
- Institute of Bee Health, Vetsuisse Faculty, University of Bern and Agroscope, Bern, Switzerland
| | - Benjamin A. Taylor
- Department of Entomology, Purdue University, West Lafayette, IN, United States
| | - Heather R. Mattila
- Department of Biological Sciences, Wellesley College, Wellesley, MA, United States
| |
Collapse
|
22
|
Irimia RE, Montesinos D, Chaturvedi A, Sanders I, Hierro JL, Sotes G, Cavieres LA, Eren Ö, Lortie CJ, French K, Brennan AC. Trait evolution during a rapid global weed invasion despite little genetic differentiation. Evol Appl 2023; 16:997-1011. [PMID: 37216028 PMCID: PMC10197227 DOI: 10.1111/eva.13548] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2022] [Revised: 03/12/2023] [Accepted: 03/23/2023] [Indexed: 05/24/2023] Open
Abstract
Invasive species often possess a great capacity to adapt to novel environments in the form of spatial trait variation, as a result of varying selection regimes, genetic drift, or plasticity. We explored the geographic differentiation in several phenotypic traits related to plant growth, reproduction, and defense in the highly invasive Centaurea solstitialis by measuring neutral genetic differentiation (F ST), and comparing it with phenotypic differentiation (P ST), in a common garden experiment in individuals originating from regions representing the species distribution across five continents. Native plants were more fecund than non-native plants, but the latter displayed considerably larger seed mass. We found indication of divergent selection for these two reproductive traits but little overall genetic differentiation between native and non-native ranges. The native versus invasive P ST-F ST comparisons demonstrated that, in several invasive regions, seed mass had increased proportionally more than the genetic differentiation. Traits displayed different associations with climate variables in different regions. Both capitula numbers and seed mass were associated with winter temperature and precipitation and summer aridity in some regions. Overall, our study suggests that rapid evolution has accompanied invasive success of C. solstitialis and provides new insights into traits and their genetic bases that can contribute to fitness advantages in non-native populations.
Collapse
Affiliation(s)
- Ramona E. Irimia
- Centre for Functional Ecology, Department of Life SciencesUniversity of CoimbraCoimbraPortugal
- Plant Evolutionary Ecology, Institute of Evolution and EcologyUniversity of TübingenTübingenGermany
| | - Daniel Montesinos
- Centre for Functional Ecology, Department of Life SciencesUniversity of CoimbraCoimbraPortugal
- Australian Tropical HerbariumJames Cook UniversityQueenslandCairnsAustralia
| | - Anurag Chaturvedi
- Department of Ecology and EvolutionUniversity of LausanneLausanneSwitzerland
- Environmental Genomics Group, School of BiosciencesUniversity of BirminghamBirminghamUK
| | - Ian Sanders
- Department of Ecology and EvolutionUniversity of LausanneLausanneSwitzerland
| | - José L. Hierro
- Laboratorio de Ecología, Biogeografía y Evolución Vegetal (LEByEV), Instituto de Ciencias de la Tierra y Ambientales de La Pampa (INCITAP), Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET)Universidad Nacional de La Pampa (UNLPam)Santa RosaArgentina
- Departamento de Biología, Facultad de Ciencias Exactas y Naturales, UNLPamSanta RosaArgentina
| | - Gastón Sotes
- Laboratorio de Ecología, Biogeografía y Evolución Vegetal (LEByEV), Instituto de Ciencias de la Tierra y Ambientales de La Pampa (INCITAP), Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET)Universidad Nacional de La Pampa (UNLPam)Santa RosaArgentina
| | - Lohengrin A. Cavieres
- Departamento de Botánica, Facultad de Ciencias Naturales y OceanográficasUniversidad de ConcepciónConcepciónChile
- Instituto de Ecología y Biodiversidad (IEB)SantiagoChile
| | - Özkan Eren
- Aydın Adnan Menderes Üniversitesi, Biyoloji Bölümü, Fen‐Edebiyat FakültesiAydınTurkey
| | - Christopher J. Lortie
- Department of BiologyYork UniversityOntarioTorontoCanada
- The National Center for Ecological Analysis and Synthesis (NCEAS), UCSBCaliforniaUSA
| | - Kristine French
- School of Earth, Atmospheric and Life SciencesUniversity of WollongongNew South WalesWollongongAustralia
| | | |
Collapse
|
23
|
Lin H, Chen L, Li J. Multiple Introductions and Distinct Genetic Groups of Canada Goldenrod ( Solidago canadensis) in China Revealed by Genomic Single-Nucleotide Polymorphisms. PLANTS (BASEL, SWITZERLAND) 2023; 12:plants12091734. [PMID: 37176791 PMCID: PMC10180931 DOI: 10.3390/plants12091734] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/29/2023] [Revised: 04/17/2023] [Accepted: 04/19/2023] [Indexed: 05/15/2023]
Abstract
Despite numerous studies reported in the context of ecology, the introduction history of the infamous invasive plant Canada goldenrod (Solidago canadensis L.) remains elusive. In the present study, we explored the sources and the number of introduction events of this species from its native areas into China. Using the genotyping-by-sequencing approach, we identified 34,035 selectively neutral single-nucleotide polymorphism (SNP) markers to infer the evolutionary trajectories of 77 S. canadensis individuals. Both the principal component analysis and the ADMIXTURE analysis revealed two genetic groups that are sympatric to each other in China and suggested the absence of genetic admixtures. The phylogenetic analysis indicated three feasible introduction routes and multiple introduction events of Canada goldenrod into China. Specifically, the one from the USA directly into China, the other from the USA into China through Japan, and the third from the USA into China through Europe. Based on the site frequency spectrum of these identified SNPs, we inferred strong bottleneck events for both genetic groups, and that the multiple introductions did not rescue the decline of genetic diversity. To conclude, multiple introduction events, genetic bottlenecks, and potential human-mediated spread characterize the introduction history of Canada goldenrod in China. The present study harnesses the power of SNP data in deciphering the evolutionary trajectory of invasive plants and paves the way for future studies concerning the invasion mechanism of Canada goldenrod.
Collapse
Affiliation(s)
- Hanyang Lin
- School of Advanced Study, Taizhou University, Taizhou 318000, China
- Zhejiang Provincial Key Laboratory of Plant Evolutionary Ecology and Conservation, School of Life Sciences, Taizhou University, Taizhou 318000, China
| | - Luxi Chen
- Zhejiang Provincial Key Laboratory of Plant Evolutionary Ecology and Conservation, School of Life Sciences, Taizhou University, Taizhou 318000, China
| | - Junmin Li
- School of Advanced Study, Taizhou University, Taizhou 318000, China
- Zhejiang Provincial Key Laboratory of Plant Evolutionary Ecology and Conservation, School of Life Sciences, Taizhou University, Taizhou 318000, China
| |
Collapse
|
24
|
Gaskin JF, Cortat G, West NM. Vegetative versus sexual reproduction varies widely in Convolvulus arvensis across western North America. Biol Invasions 2023. [DOI: 10.1007/s10530-023-03035-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/22/2023]
|
25
|
Temporal decline of genetic differentiation among populations of western flower thrips across an invaded range. Biol Invasions 2023. [DOI: 10.1007/s10530-023-03024-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/16/2023]
|
26
|
Touchard F, Simon A, Bierne N, Viard F. Urban rendezvous along the seashore: Ports as Darwinian field labs for studying marine evolution in the Anthropocene. Evol Appl 2023; 16:560-579. [PMID: 36793678 PMCID: PMC9923491 DOI: 10.1111/eva.13443] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/10/2022] [Revised: 06/16/2022] [Accepted: 06/19/2022] [Indexed: 11/30/2022] Open
Abstract
Humans have built ports on all the coasts of the world, allowing people to travel, exploit the sea, and develop trade. The proliferation of these artificial habitats and the associated maritime traffic is not predicted to fade in the coming decades. Ports share common characteristics: Species find themselves in novel singular environments, with particular abiotic properties-e.g., pollutants, shading, protection from wave action-within novel communities in a melting pot of invasive and native taxa. Here, we discuss how this drives evolution, including setting up of new connectivity hubs and gateways, adaptive responses to exposure to new chemicals or new biotic communities, and hybridization between lineages that would have never come into contact naturally. There are still important knowledge gaps, however, such as the lack of experimental tests to distinguish adaptation from acclimation processes, the lack of studies to understand the putative threats of port lineages to natural populations or to better understand the outcomes and fitness effects of anthropogenic hybridization. We thus call for further research examining "biological portuarization," defined as the repeated evolution of marine species in port ecosystems under human-altered selective pressures. Furthermore, we argue that ports act as giant mesocosms often isolated from the open sea by seawalls and locks and so provide replicated life-size evolutionary experiments essential to support predictive evolutionary sciences.
Collapse
Affiliation(s)
| | - Alexis Simon
- ISEM, EPHE, IRDUniversité MontpellierMontpellierFrance
- Center of Population Biology and Department of Evolution and EcologyUniversity of California DavisDavisCaliforniaUSA
| | | | | |
Collapse
|
27
|
Xiang JX, Saha M, Zhong KL, Zhang QS, Zhang D, Jueterbock A, Krueger-Hadfield SA, Wang GG, Weinberger F, Hu ZM. Genome-scale signatures of adaptive gene expression changes in an invasive seaweed Gracilaria vermiculophylla. Mol Ecol 2023; 32:613-627. [PMID: 36355347 DOI: 10.1111/mec.16776] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2022] [Revised: 11/02/2022] [Accepted: 11/08/2022] [Indexed: 11/12/2022]
Abstract
Invasive species can successfully and rapidly colonize new niches and expand ranges via founder effects and enhanced tolerance towards environmental stresses. However, the underpinning molecular mechanisms (i.e., gene expression changes) facilitating rapid adaptation to harsh environments are still poorly understood. The red seaweed Gracilaria vermiculophylla, which is native to the northwest Pacific but invaded North American and European coastal habitats over the last 100 years, provides an excellent model to examine whether enhanced tolerance at the level of gene expression contributed to its invasion success. We collected G. vermiculophylla from its native range in Japan and from two non-native regions along the Delmarva Peninsula (Eastern United States) and in Germany. Thalli were reared in a common garden for 4 months at which time we performed comparative transcriptome (mRNA) and microRNA (miRNA) sequencing. MRNA-expression profiling identified 59 genes that were differently expressed between native and non-native thalli. Of these genes, most were involved in metabolic pathways, including photosynthesis, abiotic stress, and biosynthesis of products and hormones in all four non-native sites. MiRNA-based target-gene correlation analysis in native/non-native pairs revealed that some target genes are positively or negatively regulated via epigenetic mechanisms. Importantly, these genes are mostly associated with metabolism and defence capability (e.g., metal transporter Nramp5, senescence-associated protein, cell wall-associated hydrolase, ycf68 protein and cytochrome P450-like TBP). Thus, our gene expression results indicate that resource reallocation to metabolic processes is most likely a predominant mechanism contributing to the range-wide persistence and adaptation of G. vermiculophylla in the invaded range. This study, therefore, provides molecular insight into the speed and nature of invasion-mediated rapid adaption.
Collapse
Affiliation(s)
| | - Mahasweta Saha
- Marine Ecology Division, GEOMAR Helmholtz-Zentrum für Ozeanforschung Kiel, Kiel, Germany
- Marine Ecology and Biodiversity, Plymouth Marine Laboratory, Plymouth, UK
| | - Kai-Le Zhong
- Key Laboratory of Experimental Marine Biology, Center for Ocean Mega-Science, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, China
| | | | - Di Zhang
- Ocean School, YanTai University, Yantai, China
| | - Alexander Jueterbock
- Algal and Microbial Biotechnology Division, Faculty of Biosciences and Aquaculture, Nord University, Bodø, Norway
| | | | - Gao-Ge Wang
- Institute of Evolution and Marine Biodiversity, College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Florian Weinberger
- Marine Ecology Division, GEOMAR Helmholtz-Zentrum für Ozeanforschung Kiel, Kiel, Germany
| | - Zi-Min Hu
- Ocean School, YanTai University, Yantai, China
| |
Collapse
|
28
|
Daly EZ, Chabrerie O, Massol F, Facon B, Hess MC, Tasiemski A, Grandjean F, Chauvat M, Viard F, Forey E, Folcher L, Buisson E, Boivin T, Baltora‐Rosset S, Ulmer R, Gibert P, Thiébaut G, Pantel JH, Heger T, Richardson DM, Renault D. A synthesis of biological invasion hypotheses associated with the introduction–naturalisation–invasion continuum. OIKOS 2023. [DOI: 10.1111/oik.09645] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
Affiliation(s)
- Ella Z. Daly
- Univ. of Rennes, CNRS, ECOBIO (Ecosystèmes, Biodiversité, Evolution), UMR 6553 Rennes France
| | - Olivier Chabrerie
- Univ. de Picardie Jules Verne, UMR 7058 CNRS EDYSAN Amiens Cedex 1 France
| | - Francois Massol
- Univ. Lille, CNRS, Inserm, CHU Lille, Inst. Pasteur de Lille, U1019 – UMR 9017 – CIIL – Center for Infection and Immunity of Lille Lille France
| | - Benoit Facon
- CBGP, INRAE, CIRAD, IRD, Montpellier Institut Agro, Univ. Montpellier Montpellier France
| | - Manon C.M. Hess
- Inst. Méditerranéen de Biodiversité et d'Ecologie Marine et Continentale (IMBE), UMR: Aix Marseille Univ., Avignon Université, CNRS, IRD France
- Inst. de Recherche pour la Conservation des zones Humides Méditerranéennes Tour du Valat, Le Sambuc Arles France
| | - Aurélie Tasiemski
- Univ. Lille, CNRS, Inserm, CHU Lille, Inst. Pasteur de Lille, U1019 – UMR 9017 – CIIL – Center for Infection and Immunity of Lille Lille France
| | - Frédéric Grandjean
- Univ. de Poitiers, UMR CNRS 7267 EBI‐Ecologie et Biologie des Interactions, équipe EES Poitiers Cedex 09 France
| | | | | | - Estelle Forey
- Normandie Univ., UNIROUEN, INRAE, USC ECODIV Rouen France
| | - Laurent Folcher
- ANSES – Agence Nationale de Sécurité Sanitaire de l'Alimentation, de l'Environnement et du Travail, Laboratoire de la Santé des Végétaux – Unité de Nématologie Le Rheu France
| | - Elise Buisson
- Inst. Méditerranéen de Biodiversité et d'Ecologie Marine et Continentale (IMBE), UMR: Aix Marseille Univ., Avignon Université, CNRS, IRD France
| | - Thomas Boivin
- INRAE, UR629 Écologie des Forêts Méditerranéennes, Centre de Recherche Provence‐Alpes‐Côte d'Azur Avignon France
| | | | - Romain Ulmer
- Univ. de Picardie Jules Verne, UMR 7058 CNRS EDYSAN Amiens Cedex 1 France
| | - Patricia Gibert
- UMR 5558 CNRS – Univ. Claude Bernard Lyon 1, Biométrie et Biologie Evolutive, Bât. Gregor Mendel Villeurbanne Cedex France
| | - Gabrielle Thiébaut
- Univ. of Rennes, CNRS, ECOBIO (Ecosystèmes, Biodiversité, Evolution), UMR 6553 Rennes France
| | - Jelena H. Pantel
- Ecological Modelling, Faculty of Biology, Univ. of Duisburg‐Essen Essen Germany
| | - Tina Heger
- Leibniz Inst. of Freshwater Ecology and Inland Fisheries (IGB) Berlin Germany
- Technical Univ. of Munich, Restoration Ecology Freising Germany
| | - David M. Richardson
- Centre for Invasion Biology, Dept. Botany & Zoology, Stellenbosch University Stellenbosch South Africa
- Inst. of Botany, Czech Academy of Sciences Průhonice Czech Republic
| | - David Renault
- Univ. of Rennes, CNRS, ECOBIO (Ecosystèmes, Biodiversité, Evolution), UMR 6553 Rennes France
- Inst. Universitaire de France Paris Cedex 05 France
| |
Collapse
|
29
|
Another Chapter in the History of the European Invasion by the Western Conifer Seed Bug, Leptoglossus occidentalis: The Iberian Peninsula. DIVERSITY 2023. [DOI: 10.3390/d15010064] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Abstract
The Western conifer seed bug, Leptoglossus occidentalis, is native to North America and has already been considered a significant pest in several European countries since its first observation in Italy in 1999. In Spain and Portugal, it was recorded for the first time in 2003 and 2010, respectively, and its impact on Stone Pine (Pinus pinea) is of major concern. Before developing control measures for this insect pest, it is paramount to clarify its spatiotemporal dynamics of invasion. Therefore, in this study, we aimed to (a) characterise the genetic structure and diversity and (b) invasion pathways of L. occidentalis populations in the Iberian Peninsula. To do so, specimens of L. occidentalis were collected at fourteen sites widely distributed within the Iberian Peninsula. We used mtDNA sequences of Cytochrome b and eleven microsatellite markers to characterise the genetic diversity and the population structure in the Iberian Peninsula. Our genetic results combined with the observational dates strongly support a stratified expansion of L. occidentalis invasion in the Iberian Peninsula proceeding from multiple introductions, including at least one in Barcelona, one in Valencia, and one in the west coast or in the Southeastern region.
Collapse
|
30
|
Jessop A, Deacon A, Barbosa M. The effect of phenotypic heterogeneity on behaviours linked to invasive success. Ethology 2023. [DOI: 10.1111/eth.13356] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Affiliation(s)
- Aaron Jessop
- Centre for Biological Diversity, School of Biology University of St Andrews St Andrews UK
| | - Amy Deacon
- Department of Life Sciences The University of West Indies St Augustine Trinidad and Tobago
| | - Miguel Barbosa
- Centre for Biological Diversity, School of Biology University of St Andrews St Andrews UK
- Department of Biology & CESAM University of Aveiro Aveiro Portugal
| |
Collapse
|
31
|
Leonhardt F, Arranz Aveces C, Müller A, Angin B, Jegu M, Haynes P, Ernst R. Low genetic diversity in a widespread whistling alien: A comparison of Eleutherodactylus johnstonei Barbour, 1914 (Eleutherodactylidae) and congeners in native and introduced ranges. NEOBIOTA 2022. [DOI: 10.3897/neobiota.79.86778] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Abstract
There is no clear empirical evidence to support the general assumption that genetic diversity favours successful invasions. Many invading species disperse and establish successfully despite low genetic diversity, a phenomenon known as the genetic paradox of biological invasion. Model systems that allow comparison of genetic patterns between exotic and native source populations are still scarce. This is particularly true for amphibians. Here we compare genetic patterns of the widely introduced Johnstone’s Whistling Frog, Eleutherodactylus johnstonei, with its successful alien congener E. antillensis and the single island endemic E. portoricensis. Genetic diversity and population differentiation in native and introduced populations of the three taxa were inferred from mitochondrial D-loop sequences (235 bp). Our results reveal that exotic populations of the two alien taxa, E. johnstonei and E. antillensis, are not only genetically impoverished due to founder effects, but that, moreover, their native range source-populations exhibit low genetic diversity and inter-population differentiation in the first place. Populations of the endemic E. portoricensis, on the other hand, are genetically more diverse and show marked inter-population differentiation. These observed genetic patterns are consistent with geological processes and invasion histories. We argue that the establishment success of the alien taxa in our model system is better explained by ecological factors and anthropogenic drivers than by genetic diversity. As these factors provide more parsimonious explanations, they should be given priority in management decisions. However, molecular studies with higher resolution are needed to fully test possible genetic and epigenetic components that could promote the invasion process.
Collapse
|
32
|
Konopiński MK, Fijarczyk AM, Biedrzycka A. Complex patterns shape immune genes diversity during invasion of common raccoon in Europe - Selection in action despite genetic drift. Evol Appl 2022; 16:134-151. [PMID: 36699132 PMCID: PMC9850017 DOI: 10.1111/eva.13517] [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: 06/23/2022] [Revised: 11/24/2022] [Accepted: 11/28/2022] [Indexed: 12/14/2022] Open
Abstract
Rapid adaptation is common in invasive populations and is crucial to their long-term success. The primary target of selection in the invasive species' new range is standing genetic variation. Therefore, genetic drift and natural selection acting on existing variation are key evolutionary processes through which invaders will evolve over a short timescale. In this study, we used the case of the raccoon Procyon lotor invasion in Europe to identify the forces shaping the diversity of immune genes during invasion. The genes involved in the defence against infection should be under intense selection pressure in the invasive range where novel pathogens are expected to occur. To disentangle the selective and demographic processes shaping the adaptive immune diversity of its invasive and expanding populations, we have developed species-specific single-nucleotide polymorphism markers located in the coding regions of targeted immune-related genes. We characterised the genetic diversity of 110 functionally important immune genes in two invasive and one native raccoon genetic clusters, each presenting a different demographic history. Despite the strong effect of demographic processes in the invasive clusters, we detected a subset of genes exhibiting the diversity pattern suggestive of selection. The most likely process shaping the variation in those genes was balancing selection. The selected genes belong to toll-like receptors and cytokine-related genes. Our results suggest that the prevalence of selection depends on the level of diversity, that is - less genetically diverse invasive population from the Czech Republic displayed fewer signs of selection. Our results highlight the role of standing genetic variation in adapting to new environment. Understanding the evolutionary mechanisms behind invasion success would enable predicting how populations may respond to environmental change.
Collapse
Affiliation(s)
| | - Anna M. Fijarczyk
- Laval University Département de BiologieUniversité LavalQuébecQuébecCanada
| | | |
Collapse
|
33
|
Gloria-Soria A, Shragai T, Ciota AT, Duval TB, Alto BW, Martins AJ, Westby KM, Medley KA, Unlu I, Campbell SR, Kawalkowski M, Tsuda Y, Higa Y, Indelicato N, Leisnham PT, Caccone A, Armstrong PM. Population genetics of an invasive mosquito vector, Aedes albopictus in the Northeastern USA. NEOBIOTA 2022. [DOI: 10.3897/neobiota.78.84986] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
Abstract
The Asian tiger mosquito (Aedes albopictus) arrived in the USA in the 1980’s and rapidly spread throughout eastern USA within a decade. The predicted northern edge of its overwintering distribution on the East Coast of the USA roughly falls across New York, Connecticut, and Massachusetts, where the species has been recorded as early as 2000. It is unclear whether Ae. albopictus populations have become established and survive the cold winters in these areas or are recolonized every year. We genotyped and analyzed populations of Ae. albopictus from the northeast USA using 15 microsatellite markers and compared them with other populations across the country and to representatives of the major global genetic clades to investigate their connectivity and stability. Founder effects or bottlenecks were rare at the northern range of the Ae. albopictus distribution in the northeastern USA, with populations displaying high levels of genetic diversity and connectivity along the East Coast. There is no evidence of population turnover in Connecticut during the course of three consecutive years, with consistent genetic structure throughout this period. Overall, these results support the presence of established populations of Ae. albopictus in New York, Connecticut, and Massachusetts, successfully overwintering and migrating in large numbers. Given the stability and interconnectedness of these populations, Ae. albopictus has the potential to continue to proliferate and expand its range northward under mean warming conditions of climate change. Efforts to control Ae. albopictus in these areas should thus focus on vector suppression rather than eradication strategies, as local populations have become firmly established and are expected to reemerge every summer.
Collapse
|
34
|
Vargas-Rivas AG, Barba-Macias E, Sánchez AJ, Castellanos-Morales G. Lack of mtDNA genetic diversity despite phenotypic variation and environmental heterogeneity in the exotic suckermouth armored catfish (Pterygoplichthys pardalis). Biol Invasions 2022. [DOI: 10.1007/s10530-022-02961-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
|
35
|
Introduced, Mixed, and Peripheral: Conservation of Mitochondrial-DNA Lineages in the Wild Boar (Sus scrofa L.) Population in the Urals. DIVERSITY 2022. [DOI: 10.3390/d14110916] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Abstract
Translocations and introductions are important events that allow organisms to overcome natural barriers. The genetic background of colonization success and genetic consequences of the establishment of populations in new environments are of great interest for predicting species’ colonization success. The wild boar has been introduced into many parts of the world. We analyzed sequences of the mitochondrial-DNA control region in the wild boars introduced into the Ural region and compared them with sequences from founder populations (from Europe, the Caucasus, Central Asia, and the Far East). We found that the introduced population has high genetic diversity. Haplotypes from all the major phylogenetic clades were detected in the analyzed group of the animals from the Urals. In this group, no haplotypes identical to Far Eastern sequences were detectable despite a large number of founders from that region. The contribution of lineages originating from Eastern Europe was greater than expected from the proportions (%) of European and Asian animals in the founder populations. This is the first study on the genetic diversity and structure of a wild boar population of mixed origin at the northern periphery of this species’ geographical range.
Collapse
|
36
|
Zhang S, Lin M, Liu J, Chen J, Liu D, Zhao J, Yao M. A centenary tale: population genetic insights into the introduction history of the oriental fire-bellied toad (Bombina orientalis) in Beijing. BMC Ecol Evol 2022; 22:117. [PMID: 36241967 PMCID: PMC9569074 DOI: 10.1186/s12862-022-02072-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2022] [Accepted: 09/02/2022] [Indexed: 11/06/2022] Open
Abstract
Background The successful establishment of a species population following a single introduction of a few individuals to a non-native area has been limited. Nevertheless, the oriental fire-bellied toad (Bombina orientalis) population in Beijing is purportedly descended from a single introduction of about 200 individuals translocated from Yantai, Shandong Province, China, in 1927. Results To resolve the introduction process and to understand the genetic consequences since that introduction approximately 90 years ago, we investigated the population’s genetic diversity and structure using 261 toads from Beijing and two native Shandong populations and inferred the species’ introduction history using simulation-based approaches. Analysis of mitochondrial DNA (mtDNA) sequences showed the two haplotypes found in Beijing nested within Yantai haplotypes, thus corroborating the historical record of the translocation source. The mtDNA and 11 nuclear microsatellite markers revealed both considerably lower genetic diversity in Beijing than in the source population and strong genetic differentiation between them. Although the current census population in Beijing may be in the range of a few thousand, the effective population size was estimated at only 20–57. Simulations also suggest that this population may have descended from 40–60 founders. Conclusions The Beijing population’s genetic patterns were consistent with the consequences of a severe bottleneck during introduction followed by genetic drift. The introduction trajectory constructed for this B. orientalis population reveals the genetic footprints of a small population sustained in isolation for nearly a century. Our results provide an intriguing example of establishment success from limited founders and may inform ex situ conservation efforts as well as the management of biological invasions. Supplementary Information The online version contains supplementary material available at 10.1186/s12862-022-02072-z.
Collapse
Affiliation(s)
- Shan Zhang
- grid.11135.370000 0001 2256 9319School of Life Sciences, Peking University, R312, School of Life Sciences Bldg., 100871 Beijing, China ,grid.11135.370000 0001 2256 9319Institute of Ecology, College of Urban and Environmental Sciences, Peking University, Beijing, 100871 China
| | - Meixi Lin
- grid.11135.370000 0001 2256 9319School of Life Sciences, Peking University, R312, School of Life Sciences Bldg., 100871 Beijing, China ,grid.19006.3e0000 0000 9632 6718Department of Ecology and Evolutionary Biology, University of California-Los Angeles, Los Angeles, CA 90095 USA
| | - Jiawei Liu
- grid.11135.370000 0001 2256 9319School of Life Sciences, Peking University, R312, School of Life Sciences Bldg., 100871 Beijing, China ,grid.170205.10000 0004 1936 7822Department of Ecology and Evolution, University of Chicago, Chicago, IL 60637 USA
| | - Jiangce Chen
- grid.63054.340000 0001 0860 4915Mechanical Engineering Department, University of Connecticut, Storrs, CT 06269 USA
| | - Dong Liu
- grid.263817.90000 0004 1773 1790Department of Biology, School of Life Sciences, Southern University of Science and Technology, Shenzhen, 518055 China
| | - Jindong Zhao
- grid.11135.370000 0001 2256 9319School of Life Sciences, Peking University, R312, School of Life Sciences Bldg., 100871 Beijing, China ,grid.11135.370000 0001 2256 9319Institute of Ecology, College of Urban and Environmental Sciences, Peking University, Beijing, 100871 China
| | - Meng Yao
- grid.11135.370000 0001 2256 9319School of Life Sciences, Peking University, R312, School of Life Sciences Bldg., 100871 Beijing, China ,grid.11135.370000 0001 2256 9319Institute of Ecology, College of Urban and Environmental Sciences, Peking University, Beijing, 100871 China
| |
Collapse
|
37
|
Biedrzycka A, Fijarczyk A, Kloch A, Porth IM. Editorial: Genomic basis of adaptations to new environments in expansive and invasive species. Front Ecol Evol 2022. [DOI: 10.3389/fevo.2022.974649] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
|
38
|
A single introduction of wild rabbits triggered the biological invasion of Australia. Proc Natl Acad Sci U S A 2022; 119:e2122734119. [PMID: 35994668 PMCID: PMC9436340 DOI: 10.1073/pnas.2122734119] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Biological invasions are a major cause of environmental and economic disruption. While ecological factors are key determinants of their success, the role of genetics has been more challenging to demonstrate. The colonization of Australia by the European rabbit is one of the most iconic and devastating biological invasions in recorded history. Here, we show that despite numerous introductions over a 70-y period, this invasion was triggered by a single release of a few animals that spread thousands of kilometers across the continent. We found genetic support for historical accounts that these were English rabbits imported in 1859 by a settler named Thomas Austin and traced the origin of the invasive population back to his birthplace in England. We also find evidence of additional introductions that established local populations but have not spread geographically. Combining genomic and historical data we show that, contrary to the earlier introductions, which consisted mostly of domestic animals, the invasive rabbits had wild ancestry. In New Zealand and Tasmania, rabbits also became a pest several decades after being introduced. We argue that the common denominator of these invasions was the arrival of a new genotype that was better adapted to the natural environment. These findings demonstrate how the genetic composition of invasive individuals can determine the success of an introduction and provide a mechanism by which multiple introductions can be required for a biological invasion.
Collapse
|
39
|
Bieker VC, Battlay P, Petersen B, Sun X, Wilson J, Brealey JC, Bretagnolle F, Nurkowski K, Lee C, Barreiro FS, Owens GL, Lee JY, Kellner FL, van Boheeman L, Gopalakrishnan S, Gaudeul M, Mueller-Schaerer H, Lommen S, Karrer G, Chauvel B, Sun Y, Kostantinovic B, Dalén L, Poczai P, Rieseberg LH, Gilbert MTP, Hodgins KA, Martin MD. Uncovering the genomic basis of an extraordinary plant invasion. SCIENCE ADVANCES 2022; 8:eabo5115. [PMID: 36001672 PMCID: PMC9401624 DOI: 10.1126/sciadv.abo5115] [Citation(s) in RCA: 14] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/08/2022] [Accepted: 07/11/2022] [Indexed: 05/31/2023]
Abstract
Invasive species are a key driver of the global biodiversity crisis, but the drivers of invasiveness, including the role of pathogens, remain debated. We investigated the genomic basis of invasiveness in Ambrosia artemisiifolia (common ragweed), introduced to Europe in the late 19th century, by resequencing 655 ragweed genomes, including 308 herbarium specimens collected up to 190 years ago. In invasive European populations, we found selection signatures in defense genes and lower prevalence of disease-inducing plant pathogens. Together with temporal changes in population structure associated with introgression from closely related Ambrosia species, escape from specific microbial enemies likely favored the plant's remarkable success as an invasive species.
Collapse
Affiliation(s)
- Vanessa C. Bieker
- Department of Natural History, NTNU University Museum, Norwegian University of Science and Technology (NTNU), Trondheim, Norway
| | - Paul Battlay
- School of Biological Sciences, Monash University, Melbourne, Australia
| | - Bent Petersen
- Center for Evolutionary Hologenomics, GLOBE Institute, University of Copenhagen, Copenhagen, Denmark
- Centre of Excellence for Omics-Driven Computational Biodiscovery (COMBio), AIMST University, 08100 Kedah, Malaysia
| | - Xin Sun
- Department of Natural History, NTNU University Museum, Norwegian University of Science and Technology (NTNU), Trondheim, Norway
| | - Jonathan Wilson
- School of Biological Sciences, Monash University, Melbourne, Australia
| | - Jaelle C. Brealey
- Department of Natural History, NTNU University Museum, Norwegian University of Science and Technology (NTNU), Trondheim, Norway
| | - François Bretagnolle
- UMR CNRS/uB 6282 Biogéosciences, Université de Bourgogne-Franche-Comté, Dijon, France
| | - Kristin Nurkowski
- School of Biological Sciences, Monash University, Melbourne, Australia
| | - Chris Lee
- School of Biological Sciences, Monash University, Melbourne, Australia
| | - Fátima Sánchez Barreiro
- Center for Evolutionary Hologenomics, GLOBE Institute, University of Copenhagen, Copenhagen, Denmark
| | | | - Jacqueline Y. Lee
- School of Biological Sciences, Monash University, Melbourne, Australia
| | - Fabian L. Kellner
- Department of Natural History, NTNU University Museum, Norwegian University of Science and Technology (NTNU), Trondheim, Norway
| | | | - Shyam Gopalakrishnan
- Center for Evolutionary Hologenomics, GLOBE Institute, University of Copenhagen, Copenhagen, Denmark
| | - Myriam Gaudeul
- Institut de Systématique Evolution Biodiversité (ISYEB), Muséum National d’Histoire Naturelle, CNRS, SU, EPHE, UA, National Herbarium (P), 57 rue Cuvier, CP39, 75005 Paris, France
| | | | - Suzanne Lommen
- Department of Biology, University of Fribourg, Fribourg, Switzerland
- Institute of Biology, Section Plant Ecology and Phytochemistry, Leiden University, P.O. Box 9505, 2300 RA Leiden, Netherlands
- Koppert Biological Systems, Department R&D Macrobiology, Veilingweg 14, 2651 BE Berkel en Rodenrijs, Netherlands
| | - Gerhard Karrer
- Department of Integrative Biology and Biodiversity Research, University of Natural Resources and Life Sciences Vienna, Vienna, Austria
| | - Bruno Chauvel
- UMR Agroécologie, Institut Agro, INRAE, Univ. Bourgogne, Univ. Bourgogne-Franche-Comté, F-21000 Dijon, France
| | - Yan Sun
- College of Resources and Environment, Huazhong Agricultural University, Wuhan, China
| | - Bojan Kostantinovic
- Department of Environmental and Plant Protection, Faculty of Agriculture, University of Novi Sad, Novi Sad, Serbia
| | - Love Dalén
- Centre for Palaeogenetics, Stockholm, Sweden
- Department of Bioinformatics and Genetics, Swedish Museum of Natural History, Stockholm, Sweden
| | - Péter Poczai
- Botany Unit, Finnish Museum of Natural History, University of Helsinki, Helsinki, Finland
- Faculty of Biological and Environmental Sciences, University of Helsinki, Helsinki, Finland
- Institute of Advanced Studies Kőszeg (iASK), Kőszeg, Hungary
| | - Loren H. Rieseberg
- Department of Botany and Biodiversity Research Centre, University of British Columbia, Vancouver, Canada
| | - M. Thomas P. Gilbert
- Department of Natural History, NTNU University Museum, Norwegian University of Science and Technology (NTNU), Trondheim, Norway
- Center for Evolutionary Hologenomics, GLOBE Institute, University of Copenhagen, Copenhagen, Denmark
| | | | - Michael D. Martin
- Department of Natural History, NTNU University Museum, Norwegian University of Science and Technology (NTNU), Trondheim, Norway
| |
Collapse
|
40
|
The fast invasion of Europe by the box tree moth: an additional example coupling multiple introduction events, bridgehead effects and admixture events. Biol Invasions 2022. [DOI: 10.1007/s10530-022-02887-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
AbstractIdentifying the invasion routes of non-native species is crucial to understanding invasions and customizing management strategies. The box tree moth, Cydalima perspectalis, is native to Asia and was recently accidentally introduced into Europe as a result of the ornamental plant trade. Over the last 15 years, it has spread across the continent and has reached the Caucasus and Iran. It is threatening Buxus trees in both urban areas and forests. To investigate the species’ invasion routes, native and invasive box tree moth populations were sampled, and moth’s genetic diversity and structure were compared using microsatellite markers. Our approximate Bayesian computation analyses strongly suggest that invasion pathways were complex. Primary introductions originating from eastern China probably occurred independently twice in Germany and once in the Netherlands. There were also possibly bridgehead effects, where at least three invasive populations may have served as sources for other invasive populations within Europe, with indication of admixture between the two primary invasive populations. The bridgehead populations were likely those in the countries that play a major role in the ornamental plant trade in Europe, notably Germany, the Netherlands, and Italy. All these invasion processes likely facilitated its fast expansion across Europe and illustrate the role played by the ornamental plant trade not only in the moth’s introduction from China but also in the species’ spread across Europe, leading to an invasion with a complex pattern.
Collapse
|
41
|
Genomic data is missing for many highly invasive species, restricting our preparedness for escalating incursion rates. Sci Rep 2022; 12:13987. [PMID: 35977991 PMCID: PMC9385848 DOI: 10.1038/s41598-022-17937-y] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/13/2022] [Accepted: 08/03/2022] [Indexed: 11/14/2022] Open
Abstract
Biological invasions drive environmental change, potentially threatening native biodiversity, human health, and global economies. Population genomics is an increasingly popular tool in invasion biology, improving accuracy and providing new insights into the genetic factors that underpin invasion success compared to research based on a small number of genetic loci. We examine the extent to which population genomic resources, including reference genomes, have been used or are available for invasive species research. We find that 82% of species on the International Union for Conservation of Nature “100 Worst Invasive Alien Species” list have been studied using some form of population genetic data, but just 32% of these species have been studied using population genomic data. Further, 55% of the list’s species lack a reference genome. With incursion rates escalating globally, understanding how genome-driven processes facilitate invasion is critical, but despite a promising trend of increasing uptake, “invasion genomics” is still in its infancy. We discuss how population genomic data can enhance our understanding of biological invasion and inform proactive detection and management of invasive species, and we call for more research that specifically targets this area.
Collapse
|
42
|
Prapas D, Scalone R, Lee J, Nurkowski KA, Bou‐assi S, Rieseberg L, Battlay P, Hodgins KA. Quantitative trait loci mapping reveals an oligogenic architecture of a rapidly adapting trait during the European invasion of common ragweed. Evol Appl 2022; 15:1249-1263. [PMID: 36051461 PMCID: PMC9423086 DOI: 10.1111/eva.13453] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2022] [Revised: 06/05/2022] [Accepted: 06/30/2022] [Indexed: 01/09/2023] Open
Abstract
Biological invasions offer a unique opportunity to investigate evolution over contemporary timescales. Rapid adaptation to local climates during range expansion can be a major determinant of invasion success, yet fundamental questions remain about its genetic basis. This study sought to investigate the genetic basis of climate adaptation in invasive common ragweed (Ambrosia artemisiifolia). Flowering time adaptation is key to this annual species' invasion success, so much so that it has evolved repeated latitudinal clines in size and phenology across its native and introduced ranges despite high gene flow among populations. Here, we produced a high-density linkage map (4493 SNPs) and paired this with phenotypic data from an F2 mapping population (n = 336) to identify one major and two minor quantitative trait loci (QTL) underlying flowering time and height differentiation in this species. Within each QTL interval, several candidate flowering time genes were also identified. Notably, the major flowering time QTL detected in this study was found to overlap with a previously identified haploblock (putative inversion). Multiple genetic maps of this region identified evidence of suppressed recombination in specific genotypes, consistent with inversions. These discoveries support the expectation that a concentrated genetic architecture with fewer, larger, and more tightly linked alleles should underlie rapid local adaptation during invasion, particularly when divergently adapting populations experience high levels of gene flow.
Collapse
Affiliation(s)
- Diana Prapas
- School of Biological SciencesMonash UniversityMelbourneVictoriaAustralia
| | - Romain Scalone
- Department of Crop Production Ecology, Uppsala Ecology CenterSwedish University of Agricultural SciencesUppsalaSweden,Department of Grapevine BreedingHochschule Geisenheim UniversityGeisenheimGermany
| | - Jacqueline Lee
- School of Biological SciencesMonash UniversityMelbourneVictoriaAustralia
| | - Kristin A. Nurkowski
- School of Biological SciencesMonash UniversityMelbourneVictoriaAustralia,Department of Botany and Biodiversity Research CentreUniversity of British ColumbiaVancouverCanada
| | - Sarah Bou‐assi
- School of Biological SciencesMonash UniversityMelbourneVictoriaAustralia
| | - Loren Rieseberg
- Department of Botany and Biodiversity Research CentreUniversity of British ColumbiaVancouverCanada
| | - Paul Battlay
- School of Biological SciencesMonash UniversityMelbourneVictoriaAustralia
| | - Kathryn A. Hodgins
- School of Biological SciencesMonash UniversityMelbourneVictoriaAustralia
| |
Collapse
|
43
|
Bisschop K, Blankers T, Mariën J, Wortel MT, Egas M, Groot AT, Visser ME, Ellers J. Population bottleneck has only marginal effect on fitness evolution and its repeatability in dioecious Caenorhabditis elegans. Evolution 2022; 76:1896-1904. [PMID: 35795889 PMCID: PMC9545033 DOI: 10.1111/evo.14556] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/19/2021] [Revised: 06/16/2022] [Accepted: 06/22/2022] [Indexed: 01/22/2023]
Abstract
The predictability of evolution is expected to depend on the relative contribution of deterministic and stochastic processes. This ratio is modulated by effective population size. Smaller effective populations harbor less genetic diversity and stochastic processes are generally expected to play a larger role, leading to less repeatable evolutionary trajectories. Empirical insight into the relationship between effective population size and repeatability is limited and focused mostly on asexual organisms. Here, we tested whether fitness evolution was less repeatable after a population bottleneck in obligately outcrossing populations of Caenorhabditis elegans. Replicated populations founded by 500, 50, or five individuals (no/moderate/strong bottleneck) were exposed to a novel environment with a different bacterial prey. As a proxy for fitness, population size was measured after one week of growth before and after 15 weeks of evolution. Surprisingly, we found no significant differences among treatments in their fitness evolution. Even though the strong bottleneck reduced the relative contribution of selection to fitness variation, this did not translate to a significant reduction in the repeatability of fitness evolution. Thus, although a bottleneck reduced the contribution of deterministic processes, we conclude that the predictability of evolution may not universally depend on effective population size, especially in sexual organisms.
Collapse
Affiliation(s)
- Karen Bisschop
- Institute for Biodiversity and Ecosystem DynamicsUniversity of AmsterdamAmsterdam1090 GEThe Netherlands,Origins CenterGroningenThe Netherlands,Terrestrial Ecology UnitGhent UniversityGhent9000Belgium,Laboratory of Aquatic BiologyKU Leuven KulakKortrijk8500Belgium
| | - Thomas Blankers
- Institute for Biodiversity and Ecosystem DynamicsUniversity of AmsterdamAmsterdam1090 GEThe Netherlands,Origins CenterGroningenThe Netherlands
| | - Janine Mariën
- Animal EcologyVU AmsterdamAmsterdam1081 HVThe Netherlands
| | - Meike T. Wortel
- Swammerdam Institute for Life SciencesUniversity of AmsterdamAmsterdam1090 GEThe Netherlands
| | - Martijn Egas
- Institute for Biodiversity and Ecosystem DynamicsUniversity of AmsterdamAmsterdam1090 GEThe Netherlands
| | - Astrid T. Groot
- Institute for Biodiversity and Ecosystem DynamicsUniversity of AmsterdamAmsterdam1090 GEThe Netherlands
| | - Marcel E. Visser
- Department of Animal EcologyNetherlands Institute of Ecology (NIOO‐KNAW)Wageningen6700 ABThe Netherlands
| | | |
Collapse
|
44
|
Byrne D, Scheben A, Scott JK, Webber BL, Batchelor KL, Severn-Ellis AA, Gooden B, Bell KL. Genomics reveals the history of a complex plant invasion and improves the management of a biological invasion from the South African-Australian biotic exchange. Ecol Evol 2022; 12:e9179. [PMID: 36016815 PMCID: PMC9396708 DOI: 10.1002/ece3.9179] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/10/2022] [Accepted: 07/12/2022] [Indexed: 11/10/2022] Open
Abstract
Many plants exchanged in the global redistribution of species in the last 200 years, particularly between South Africa and Australia, have become threatening invasive species in their introduced range. Refining our understanding of the genetic diversity and population structure of native and alien populations, introduction pathways, propagule pressure, naturalization, and initial spread, can transform the effectiveness of management and prevention of further introductions. We used 20,221 single nucleotide polymorphisms to reconstruct the invasion of a coastal shrub, Chrysanthemoides monilifera ssp. rotundata (bitou bush) from South Africa, into eastern Australia (EAU), and Western Australia (WAU). We determined genetic diversity and population structure across the native and introduced ranges and compared hypothesized invasion scenarios using Bayesian modeling. We detected considerable genetic structure in the native range, as well as differentiation between populations in the native and introduced range. Phylogenetic analysis showed the introduced samples to be most closely related to the southern‐most native populations, although Bayesian analysis inferred introduction from a ghost population. We detected strong genetic bottlenecks during the founding of both the EAU and WAU populations. It is likely that the WAU population was introduced from EAU, possibly involving an unsampled ghost population. The number of private alleles and polymorphic SNPs successively decreased from South Africa to EAU to WAU, although heterozygosity remained high. That bitou bush remains an invasion threat in EAU, despite reduced genetic diversity, provides a cautionary biosecurity message regarding the risk of introduction of potentially invasive species via shipping routes.
Collapse
Affiliation(s)
- Dennis Byrne
- CSIRO Health & Biosecurity Floreat Western Australia Australia.,School of Biological Sciences University of Western Australia Crawley Western Australia Australia
| | - Armin Scheben
- School of Biological Sciences University of Western Australia Crawley Western Australia Australia.,Simons Center for Quantitative Biology, Cold Spring Harbor Laboratory Cold Spring, Harbor New York USA
| | - John K Scott
- CSIRO Health & Biosecurity Floreat Western Australia Australia.,School of Biological Sciences University of Western Australia Crawley Western Australia Australia
| | - Bruce L Webber
- CSIRO Health & Biosecurity Floreat Western Australia Australia.,School of Biological Sciences University of Western Australia Crawley Western Australia Australia.,Western Australian Biodiversity Science Institute Perth Western Australia Australia
| | | | - Anita A Severn-Ellis
- School of Biological Sciences University of Western Australia Crawley Western Australia Australia
| | - Ben Gooden
- CSIRO Health and Biosecurity Canberra Australian Capital Territory Australia.,Centre for Sustainable Ecosystem Solutions School of Earth, Atmospheric and Life Sciences, University of Wollongong Wollongong New South Wales Australia
| | - Karen L Bell
- CSIRO Health & Biosecurity Floreat Western Australia Australia.,School of Biological Sciences University of Western Australia Crawley Western Australia Australia
| |
Collapse
|
45
|
Wang J, Cheng ZY, Dong YW. Demographic, physiological, and genetic factors linked to the poleward range expansion of the snail Nerita yoldii along the shoreline of China. Mol Ecol 2022; 31:4510-4526. [PMID: 35822322 DOI: 10.1111/mec.16610] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2021] [Revised: 05/23/2022] [Accepted: 07/04/2022] [Indexed: 12/01/2022]
Abstract
Species range shift is one of the most significant consequences of climate change in the Anthropocene. A comprehensive study, including demographic, physiological, and genetic factors linked to poleward range expansion, is crucial for understanding how the expanding population occupies the new habitat. In the present study, we investigated the demographic, physiological, and genetic features of the intertidal gastropod Nerita yoldii, which has extended its northern limit by ~200 km over the former biogeographic break of the Yangtze River Estuary during recent decades. The neutral SNPs data showed that the new marginal populations formed a distinct cluster established by a few founders. Demographic modelling analysis revealed that the new marginal populations experienced a strong genetic bottleneck followed by recent demographic expansion. Successful expansion that overcame the founder effect might be attributed to its high capacity of rapid population growth and multiple introductions. According to the non-neutral SNPs under diversifying selection, there were high levels of heterozygosity in the new marginal populations, which might be beneficial for adapting to the novel thermal conditions. The common garden experiment showed that the new marginal populations have evolved divergent transcriptomic and physiological responses to heat stress, allowing them to occupy and survive in the novel environment. Lower transcriptional plasticity was observed in the new marginal populations. These results suggest a new biogeographic pattern of N. yoldii has formed with the occurrence of demographic, physiologic, and genetic changes, and emphasize the roles of adaptation of marginal populations during range expansion.
Collapse
Affiliation(s)
- Jie Wang
- The Key Laboratory of Mariculture, Ministry of Education, Fisheries College, Ocean University of China, Qingdao, PR China.,Function Laboratory for Marine Fisheries Science and Food Production Processes, Pilot National Laboratory for Marine Science and Technology, Qingdao, PR China
| | - Zhi-Yuan Cheng
- State Key Laboratory of Marine Environmental Science, College of Marine and Earth Sciences, Xiamen University, Xiamen, PR China
| | - Yun-Wei Dong
- The Key Laboratory of Mariculture, Ministry of Education, Fisheries College, Ocean University of China, Qingdao, PR China.,Function Laboratory for Marine Fisheries Science and Food Production Processes, Pilot National Laboratory for Marine Science and Technology, Qingdao, PR China
| |
Collapse
|
46
|
Woods EC, Sultan SE. Post-introduction evolution of a rapid life-history strategy in a newly invasive plant. Ecology 2022; 103:e3803. [PMID: 35796712 DOI: 10.1002/ecy.3803] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 03/24/2022] [Revised: 05/20/2022] [Accepted: 05/27/2022] [Indexed: 11/09/2022]
Abstract
A central question in invasion biology is whether adaptive trait evolution following species introduction promotes invasiveness. A growing number of common-garden experiments document phenotypic differences between native- and introduced-range plants, suggesting that adaptive evolution in the new range may indeed contribute to the success of invasive plants. Yet these studies are often subject to methodological pitfalls, resulting in weak evidence for post-introduction adaptive trait evolution and leaving uncertain its role in the invasion process. In a common-garden glasshouse study, we compared the growth, life-history, and reproductive traits of 35 native- and introduced-range Polygonum cespitosum populations. We used complementary approaches including climate-matching, standardizing parental conditions, selection analysis, and testing for trait-environment relationships to determine whether traits that increase invasiveness adaptively evolved in the species' new range. We found that the majority of introduced-range populations exhibited a novel trait syndrome consisting of a fast-paced life history and concomitant sparse, reduced growth form. Selection analysis confirmed that this trait syndrome led to markedly higher fitness (propagule production) over a limited growing season characteristic of regions within the introduced range. Additionally, several growth and reproductive traits showed temperature-based clines consistent with adaptive evolution in the new range. Combined, these results indicate that, subsequent to its introduction to North America over 100 generations ago, P. cespitosum has evolved key traits that maximize propagule production. These changes may in part explain the species' recent transition to invasiveness, illustrating how post-introduction evolution may contribute to the invasion process.
Collapse
Affiliation(s)
- Ellen C Woods
- Biology Dept., Wesleyan University, Middletown, Connecticut, USA
| | - Sonia E Sultan
- Biology Dept., Wesleyan University, Middletown, Connecticut, USA
| |
Collapse
|
47
|
Gao Y, Chen Y, Li S, Huang X, Hu J, Bock DG, MacIsaac HJ, Zhan A. Complementary genomic and epigenomic adaptation to environmental heterogeneity. Mol Ecol 2022; 31:3598-3612. [PMID: 35560847 DOI: 10.1111/mec.16500] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2021] [Revised: 04/18/2022] [Accepted: 05/05/2022] [Indexed: 12/01/2022]
Abstract
While adaptation is commonly thought to result from selection on DNA sequence-based variation, recent studies have highlighted an analogous epigenetic component as well. However, the relative roles of these mechanisms in facilitating population persistence under environmental heterogeneity remain unclear. To address the underlying genetic and epigenetic mechanisms and their relationship during environmental adaptation, we screened the genomes and epigenomes of nine global populations of a predominately sessile marine invasive tunicate, Botryllus schlosseri, using reduced-representation methods. We detected clear population differentiation at the genetic and epigenetic levels. Patterns of genetic and epigenetic structure were significantly influenced by local environmental variables. Among these variables, minimum annual sea surface temperature was identified as the top explanatory variable for both genetic and epigenetic variation. However, patterns of population structure driven by genetic and epigenetic variation were somewhat distinct, suggesting possible autonomy of epigenetic variation. We found both shared and specific genes and biological pathways among genetic and epigenetic loci associated with environmental factors, consistent with complementary and independent contributions of genetic and epigenetic variation to environmental adaptation in this system. Collectively, these mechanisms may facilitate population persistence under environmental change and sustain successful invasions across novel environments.
Collapse
Affiliation(s)
- Yangchun Gao
- Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China.,University of Chinese Academy of Sciences, Chinese Academy of Sciences, Beijing, 100049, China.,Guangdong Key Laboratory of Animal Conservation and Resource Utilization, Guangdong Public Laboratory of Wild Animal Conservation and Utilization, Institute of Zoology, Guangdong Academy of Science, Guangzhou, 510260, China
| | - Yiyong Chen
- Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China.,University of Chinese Academy of Sciences, Chinese Academy of Sciences, Beijing, 100049, China
| | - Shiguo Li
- Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China.,University of Chinese Academy of Sciences, Chinese Academy of Sciences, Beijing, 100049, China
| | - Xuena Huang
- Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China
| | - Juntao Hu
- Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, Institute of Biodiversity Science, Center of Evolutionary Biology, School of Life Sciences, Fudan University, Shanghai, 200438, China
| | - Dan G Bock
- Department of Biology, Washington University in St. Louis, St. Louis, Missouri, 63130, USA
| | - Hugh J MacIsaac
- School of Ecology and Environmental Science, Yunnan University, Yunnan, 650091, China.,Great Lakes Institute for Environmental Research, University of Windsor, Windsor, Ontario, N9B 3P4, Canada
| | - Aibin Zhan
- Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China.,University of Chinese Academy of Sciences, Chinese Academy of Sciences, Beijing, 100049, China
| |
Collapse
|
48
|
Mounger JM, van Riemsdijk I, Boquete MT, Wagemaker CAM, Fatma S, Robertson MH, Voors SA, Oberstaller J, Gawehns F, Hanley TC, Grosse I, Verhoeven KJF, Sotka EE, Gehring CA, Hughes AR, Lewis DB, Schmid MW, Richards CL. Genetic and Epigenetic Differentiation Across Intertidal Gradients in the Foundation Plant Spartina alterniflora. Front Ecol Evol 2022. [DOI: 10.3389/fevo.2022.868826] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
Ecological genomics approaches have informed us about the structure of genetic diversity in natural populations that might underlie patterns in trait variation. However, we still know surprisingly little about the mechanisms that permit organisms to adapt to variable environmental conditions. The salt marsh foundation plant Spartina alterniflora exhibits a dramatic range in phenotype that is associated with a pronounced intertidal environmental gradient across a narrow spatial scale. Both genetic and non-genetic molecular mechanisms might underlie this phenotypic variation. To investigate both, we used epigenotyping-by-sequencing (epiGBS) to evaluate the make-up of natural populations across the intertidal environmental gradient. Based on recent findings, we expected that both DNA sequence and DNA methylation diversity would be explained by source population and habitat within populations. However, we predicted that epigenetic variation might be more strongly associated with habitat since similar epigenetic modifications could be rapidly elicited across different genetic backgrounds by similar environmental conditions. Overall, with PERMANOVA we found that population of origin explained a significant amount of the genetic (8.6%) and epigenetic (3.2%) variance. In addition, we found that a small but significant amount of genetic and epigenetic variance (<1%) was explained by habitat within populations. The interaction of population and habitat explained an additional 2.9% of the genetic variance and 1.4% of the epigenetic variance. By examining genetic and epigenetic variation within the same fragments (variation in close-cis), we found that population explained epigenetic variation in 9.2% of 8,960 tested loci, even after accounting for differences in the DNA sequence of the fragment. Habitat alone explained very little (<0.1%) of the variation in these close-cis comparisons, but the interaction of population and habitat explained 2.1% of the epigenetic variation in these loci. Using multiple matrix regression with randomization (MMRR) we found that phenotypic differences in natural populations were correlated with epigenetic and environmental differences even when accounting for genetic differences. Our results support the contention that sequence variation explains most of the variation in DNA methylation, but we have provided evidence that DNA methylation distinctly contributes to plant responses in natural populations.
Collapse
|
49
|
Montiel EE, Mora P, Rico-Porras JM, Palomeque T, Lorite P. Satellitome of the Red Palm Weevil, Rhynchophorus ferrugineus (Coleoptera: Curculionidae), the Most Diverse Among Insects. Front Ecol Evol 2022. [DOI: 10.3389/fevo.2022.826808] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022] Open
Abstract
The red palm weevil, Rhynchophorus ferrugineus, is the most harmful species among those pests affecting palm trees. Its impact causes important economic losses around the World. Nevertheless, the genetic information of Rh. ferrugineus is very scarce. Last year, the first genome assembly was published including a rough description of its repeatome. However, no information has been added about one of the main components of repeated DNA, the satellite DNA. Herein, we presented the characterization of the satellitome of this important species that includes 112 satellite DNA families, the largest number in an insect genome. These satellite DNA families made up around 25% of the genome while the most abundant family, RferSat01-169, alone represented 20.4%. Chromosomal location of most abundant satellite DNA families performed by fluorescence in situ hybridization showed that all of them are dispersed in the euchromatin on all chromosomes but some of them are also specifically accumulated either on the pericentromeric heterochromatic regions of all chromosomes or on specific chromosomes. Finally, the transcription of satellitome families was analyzed through Rh. ferrugineus development. It was found that 55 out of 112 satellite DNA families showed transcription, some families seemed to be transcribed across all stages while a few appeared to be stage-specific, indicating a possible role of those satellite DNA sequences in the development of this species.
Collapse
|
50
|
Hübner S, Sisou D, Mandel T, Todesco M, Matzrafi M, Eizenberg H. Wild sunflower goes viral: citizen science and comparative genomics allow tracking the origin and establishment of invasive sunflower in the Levant. Mol Ecol 2022; 31:2061-2072. [PMID: 35106854 PMCID: PMC9542508 DOI: 10.1111/mec.16380] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/15/2021] [Revised: 01/14/2022] [Accepted: 01/25/2022] [Indexed: 11/28/2022]
Abstract
Globalization and intensified volume of trade and transport around the world are accelerating the rate of biological invasions. It is therefore increasingly important to understand the processes through which invasive species colonize new habitats, often to the detriment of native flora. The initial steps of an invasion are particularly critical, as the introduced species relies on limited genetic diversity to adapt to a new environment. However, our understanding of this critical stage of the invasion is currently limited. We used a citizen science approach and social media to survey the distribution of invasive sunflower in Israel. We then sampled and sequenced a representative collection and compared it with available genomic data sets of North American wild sunflower, landraces and cultivars. We show that invasive wild sunflower is rapidly establishing throughout Israel, probably from a single, recent introduction from Texas, while maintaining high genetic diversity through ongoing gene flow. Since its introduction, invasive sunflower has spread quickly to most regions, and differentiation was detected despite extensive gene flow between clusters. Our findings suggest that rapid spread followed by continuous gene flow between diverging populations can serve as an efficient mechanism for maintaining sufficient genetic diversity at the early stages of invasion, promoting rapid adaptation and establishment in the new territory.
Collapse
Affiliation(s)
- Sariel Hübner
- Galilee Research Institute (MIGAL), Tel-Hai Academic College, Upper Galilee, 11016, Israel
| | - Dana Sisou
- Galilee Research Institute (MIGAL), Tel-Hai Academic College, Upper Galilee, 11016, Israel.,Department of Phytopathology and Weed Research, Agricultural Research Organization, Newe Ya'ar Research Center, Ramat Yishay, Israel.,The Robert H. Smith Institute of Plant Sciences and Genetics, The Robert H. Smith Faculty of Agriculture, Food and Environment, The Hebrew University of Jerusalem, Rehovot, Israel
| | - Tali Mandel
- Galilee Research Institute (MIGAL), Tel-Hai Academic College, Upper Galilee, 11016, Israel
| | - Marco Todesco
- Department of Botany and Biodiversity Research Centre, University of British Columbia, Vancouver, BC, V6T 1Z4, Canada
| | - Maor Matzrafi
- Department of Phytopathology and Weed Research, Agricultural Research Organization, Newe Ya'ar Research Center, Ramat Yishay, Israel
| | - Hanan Eizenberg
- Department of Phytopathology and Weed Research, Agricultural Research Organization, Newe Ya'ar Research Center, Ramat Yishay, Israel
| |
Collapse
|