High-throughput DNA sequencing identifies population genetic structure and signatures of local adaptation in invasive populations of Spartina alterniflora in China
Understanding the ecological and evolutionary processes of invasive plants is a major goal in ecology. Invasive plant species often exhibit intraspecific phenotypic clines along geographic and climatic gradients, indicating potential adaptive evolution through spatial variation in selection regimes....
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Veröffentlicht in: | Biological invasions 2024-05, Vol.26 (5), p.1535-1559 |
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creator | Li, Feifei Gao, Kexiao Oduor, Ayub M. O. Zhu, Jinfang Liu, Xiaoyan Li, Junsheng Zhao, Caiyun |
description | Understanding the ecological and evolutionary processes of invasive plants is a major goal in ecology. Invasive plant species often exhibit intraspecific phenotypic clines along geographic and climatic gradients, indicating potential adaptive evolution through spatial variation in selection regimes. However, rarely have genetic studies of biological invasions employed population genomics together with quantitative trait analysis to robustly test the role of adaptive evolution in alien plant invasiveness. We employed Restriction site-associated DNA sequencing (RADSeq) population genomics to analyze 17 populations of the invasive plant
Spartina alterniflora
in China. Our main goals were to test whether:
S. alterniflora
exhibits latitudinal clines in traits and genetic diversity; climatic and soil factors correlate with genetic and trait variation; and natural selection drives trait variation. Significant correlations existed between genetic diversity and quantitative traits of
S. alterniflora
and the three climatic regions (northern, mid-latitude, and southern) where the invader occurred. Basal diameter, spike-like branches, observed heterozygosity and allele frequency exhibited significant latitudinal clines. A total of 3, 310 SNPs showed a clear genetic structure among populations in three climatic regions (northern, mid-latitude, and southern). Positive correlations between genetic differentiation and variation in reproductive traits suggested the heritability of these traits. Outlier loci identified by both principal component analysis (PCAdapt) and latent factor mixed model (LFMM) were significantly correlated to soil nitrogen content and precipitation. These results provide evidence of molecular signatures of local adaptation of
S. alterniflora
and suggest that rapid adaptive evolution may facilitate the invasiveness of
S. alterniflora
in China. |
doi_str_mv | 10.1007/s10530-024-03267-9 |
format | Article |
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Spartina alterniflora
in China. Our main goals were to test whether:
S. alterniflora
exhibits latitudinal clines in traits and genetic diversity; climatic and soil factors correlate with genetic and trait variation; and natural selection drives trait variation. Significant correlations existed between genetic diversity and quantitative traits of
S. alterniflora
and the three climatic regions (northern, mid-latitude, and southern) where the invader occurred. Basal diameter, spike-like branches, observed heterozygosity and allele frequency exhibited significant latitudinal clines. A total of 3, 310 SNPs showed a clear genetic structure among populations in three climatic regions (northern, mid-latitude, and southern). Positive correlations between genetic differentiation and variation in reproductive traits suggested the heritability of these traits. Outlier loci identified by both principal component analysis (PCAdapt) and latent factor mixed model (LFMM) were significantly correlated to soil nitrogen content and precipitation. These results provide evidence of molecular signatures of local adaptation of
S. alterniflora
and suggest that rapid adaptive evolution may facilitate the invasiveness of
S. alterniflora
in China.</description><identifier>ISSN: 1387-3547</identifier><identifier>EISSN: 1573-1464</identifier><identifier>DOI: 10.1007/s10530-024-03267-9</identifier><language>eng</language><publisher>Cham: Springer International Publishing</publisher><subject>Adaptation ; Aquatic plants ; Biological evolution ; Biomedical and Life Sciences ; Clines ; Correlation ; Data analysis ; Deoxyribonucleic acid ; Developmental Biology ; DNA ; DNA sequencing ; Ecology ; Evolution ; Evolution & development ; Freshwater & Marine Ecology ; Gene frequency ; Genetic diversity ; Genetic structure ; Genomics ; Heritability ; Heterozygosity ; Introduced species ; Invasive plants ; Invasive species ; Invasiveness ; Latitude ; Life Sciences ; Natural selection ; Original Paper ; Outliers (statistics) ; Plant Sciences ; Plant species ; Population genetics ; Populations ; Principal components analysis ; Signatures ; Single-nucleotide polymorphism ; Soils ; Spartina alterniflora ; Spatial variations</subject><ispartof>Biological invasions, 2024-05, Vol.26 (5), p.1535-1559</ispartof><rights>The Author(s), under exclusive licence to Springer Nature Switzerland AG 2024. Springer Nature or its licensor (e.g. a society or other partner) holds exclusive rights to this article under a publishing agreement with the author(s) or other rightsholder(s); author self-archiving of the accepted manuscript version of this article is solely governed by the terms of such publishing agreement and applicable law.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><cites>FETCH-LOGICAL-c270t-a941c7acad6648181dcf9a282dee8df84e04c1ff0860a226318e664f6b10c0833</cites><orcidid>0000-0002-7371-6654</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1007/s10530-024-03267-9$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s10530-024-03267-9$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>314,780,784,27924,27925,41488,42557,51319</link.rule.ids></links><search><creatorcontrib>Li, Feifei</creatorcontrib><creatorcontrib>Gao, Kexiao</creatorcontrib><creatorcontrib>Oduor, Ayub M. O.</creatorcontrib><creatorcontrib>Zhu, Jinfang</creatorcontrib><creatorcontrib>Liu, Xiaoyan</creatorcontrib><creatorcontrib>Li, Junsheng</creatorcontrib><creatorcontrib>Zhao, Caiyun</creatorcontrib><title>High-throughput DNA sequencing identifies population genetic structure and signatures of local adaptation in invasive populations of Spartina alterniflora in China</title><title>Biological invasions</title><addtitle>Biol Invasions</addtitle><description>Understanding the ecological and evolutionary processes of invasive plants is a major goal in ecology. Invasive plant species often exhibit intraspecific phenotypic clines along geographic and climatic gradients, indicating potential adaptive evolution through spatial variation in selection regimes. However, rarely have genetic studies of biological invasions employed population genomics together with quantitative trait analysis to robustly test the role of adaptive evolution in alien plant invasiveness. We employed Restriction site-associated DNA sequencing (RADSeq) population genomics to analyze 17 populations of the invasive plant
Spartina alterniflora
in China. Our main goals were to test whether:
S. alterniflora
exhibits latitudinal clines in traits and genetic diversity; climatic and soil factors correlate with genetic and trait variation; and natural selection drives trait variation. Significant correlations existed between genetic diversity and quantitative traits of
S. alterniflora
and the three climatic regions (northern, mid-latitude, and southern) where the invader occurred. Basal diameter, spike-like branches, observed heterozygosity and allele frequency exhibited significant latitudinal clines. A total of 3, 310 SNPs showed a clear genetic structure among populations in three climatic regions (northern, mid-latitude, and southern). Positive correlations between genetic differentiation and variation in reproductive traits suggested the heritability of these traits. Outlier loci identified by both principal component analysis (PCAdapt) and latent factor mixed model (LFMM) were significantly correlated to soil nitrogen content and precipitation. These results provide evidence of molecular signatures of local adaptation of
S. alterniflora
and suggest that rapid adaptive evolution may facilitate the invasiveness of
S. alterniflora
in China.</description><subject>Adaptation</subject><subject>Aquatic plants</subject><subject>Biological evolution</subject><subject>Biomedical and Life Sciences</subject><subject>Clines</subject><subject>Correlation</subject><subject>Data analysis</subject><subject>Deoxyribonucleic acid</subject><subject>Developmental Biology</subject><subject>DNA</subject><subject>DNA sequencing</subject><subject>Ecology</subject><subject>Evolution</subject><subject>Evolution & development</subject><subject>Freshwater & Marine Ecology</subject><subject>Gene frequency</subject><subject>Genetic diversity</subject><subject>Genetic structure</subject><subject>Genomics</subject><subject>Heritability</subject><subject>Heterozygosity</subject><subject>Introduced species</subject><subject>Invasive plants</subject><subject>Invasive species</subject><subject>Invasiveness</subject><subject>Latitude</subject><subject>Life Sciences</subject><subject>Natural selection</subject><subject>Original Paper</subject><subject>Outliers (statistics)</subject><subject>Plant Sciences</subject><subject>Plant species</subject><subject>Population genetics</subject><subject>Populations</subject><subject>Principal components analysis</subject><subject>Signatures</subject><subject>Single-nucleotide polymorphism</subject><subject>Soils</subject><subject>Spartina alterniflora</subject><subject>Spatial variations</subject><issn>1387-3547</issn><issn>1573-1464</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2024</creationdate><recordtype>article</recordtype><recordid>eNp9kU1LHTEUhgdR0F77B7oKuE57MpmZZJZy22pBdKGuwzGTzM1lTKZJRujv8Y-a6xTalRDIB8_zHshbVV8YfGUA4lti0HKgUDcUeN0J2h9VZ6wVnLKma47LmUtBeduI0-pTSnsA6AW0Z9XrtRt3NO9iWMbdvGTy_faSJPN7MV47PxI3GJ-ddSaROczLhNkFT0bjTXaapBwXnZdoCPqBJDd6PNwSCZZMQeNEcMA5r5I7rBdM7sX8l_XO3s8Ys_NIcMomemenEPEgbHfl9bw6sTgl8_nvvqkef_542F7Tm7urX9vLG6prAZli3zAtUOPQdY1kkg3a9ljLejBGDlY2BhrNrAXZAdZ1x5k0hbTdEwMNkvNNdbHmzjGUD0hZ7cMSfRmpOLTAW2CiK1S9UjqGlKKxao7uGeMfxUAdylBrGaqUod7LUH2R-CqlAvvRxH_RH1hv3ACRJQ</recordid><startdate>20240501</startdate><enddate>20240501</enddate><creator>Li, Feifei</creator><creator>Gao, Kexiao</creator><creator>Oduor, Ayub M. O.</creator><creator>Zhu, Jinfang</creator><creator>Liu, Xiaoyan</creator><creator>Li, Junsheng</creator><creator>Zhao, Caiyun</creator><general>Springer International Publishing</general><general>Springer Nature B.V</general><scope>AAYXX</scope><scope>CITATION</scope><scope>7SN</scope><scope>7SS</scope><scope>C1K</scope><orcidid>https://orcid.org/0000-0002-7371-6654</orcidid></search><sort><creationdate>20240501</creationdate><title>High-throughput DNA sequencing identifies population genetic structure and signatures of local adaptation in invasive populations of Spartina alterniflora in China</title><author>Li, Feifei ; Gao, Kexiao ; Oduor, Ayub M. O. ; Zhu, Jinfang ; Liu, Xiaoyan ; Li, Junsheng ; Zhao, Caiyun</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c270t-a941c7acad6648181dcf9a282dee8df84e04c1ff0860a226318e664f6b10c0833</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2024</creationdate><topic>Adaptation</topic><topic>Aquatic plants</topic><topic>Biological evolution</topic><topic>Biomedical and Life Sciences</topic><topic>Clines</topic><topic>Correlation</topic><topic>Data analysis</topic><topic>Deoxyribonucleic acid</topic><topic>Developmental Biology</topic><topic>DNA</topic><topic>DNA sequencing</topic><topic>Ecology</topic><topic>Evolution</topic><topic>Evolution & development</topic><topic>Freshwater & Marine Ecology</topic><topic>Gene frequency</topic><topic>Genetic diversity</topic><topic>Genetic structure</topic><topic>Genomics</topic><topic>Heritability</topic><topic>Heterozygosity</topic><topic>Introduced species</topic><topic>Invasive plants</topic><topic>Invasive species</topic><topic>Invasiveness</topic><topic>Latitude</topic><topic>Life Sciences</topic><topic>Natural selection</topic><topic>Original Paper</topic><topic>Outliers (statistics)</topic><topic>Plant Sciences</topic><topic>Plant species</topic><topic>Population genetics</topic><topic>Populations</topic><topic>Principal components analysis</topic><topic>Signatures</topic><topic>Single-nucleotide polymorphism</topic><topic>Soils</topic><topic>Spartina alterniflora</topic><topic>Spatial variations</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Li, Feifei</creatorcontrib><creatorcontrib>Gao, Kexiao</creatorcontrib><creatorcontrib>Oduor, Ayub M. O.</creatorcontrib><creatorcontrib>Zhu, Jinfang</creatorcontrib><creatorcontrib>Liu, Xiaoyan</creatorcontrib><creatorcontrib>Li, Junsheng</creatorcontrib><creatorcontrib>Zhao, Caiyun</creatorcontrib><collection>CrossRef</collection><collection>Ecology Abstracts</collection><collection>Entomology Abstracts (Full archive)</collection><collection>Environmental Sciences and Pollution Management</collection><jtitle>Biological invasions</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Li, Feifei</au><au>Gao, Kexiao</au><au>Oduor, Ayub M. O.</au><au>Zhu, Jinfang</au><au>Liu, Xiaoyan</au><au>Li, Junsheng</au><au>Zhao, Caiyun</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>High-throughput DNA sequencing identifies population genetic structure and signatures of local adaptation in invasive populations of Spartina alterniflora in China</atitle><jtitle>Biological invasions</jtitle><stitle>Biol Invasions</stitle><date>2024-05-01</date><risdate>2024</risdate><volume>26</volume><issue>5</issue><spage>1535</spage><epage>1559</epage><pages>1535-1559</pages><issn>1387-3547</issn><eissn>1573-1464</eissn><abstract>Understanding the ecological and evolutionary processes of invasive plants is a major goal in ecology. Invasive plant species often exhibit intraspecific phenotypic clines along geographic and climatic gradients, indicating potential adaptive evolution through spatial variation in selection regimes. However, rarely have genetic studies of biological invasions employed population genomics together with quantitative trait analysis to robustly test the role of adaptive evolution in alien plant invasiveness. We employed Restriction site-associated DNA sequencing (RADSeq) population genomics to analyze 17 populations of the invasive plant
Spartina alterniflora
in China. Our main goals were to test whether:
S. alterniflora
exhibits latitudinal clines in traits and genetic diversity; climatic and soil factors correlate with genetic and trait variation; and natural selection drives trait variation. Significant correlations existed between genetic diversity and quantitative traits of
S. alterniflora
and the three climatic regions (northern, mid-latitude, and southern) where the invader occurred. Basal diameter, spike-like branches, observed heterozygosity and allele frequency exhibited significant latitudinal clines. A total of 3, 310 SNPs showed a clear genetic structure among populations in three climatic regions (northern, mid-latitude, and southern). Positive correlations between genetic differentiation and variation in reproductive traits suggested the heritability of these traits. Outlier loci identified by both principal component analysis (PCAdapt) and latent factor mixed model (LFMM) were significantly correlated to soil nitrogen content and precipitation. These results provide evidence of molecular signatures of local adaptation of
S. alterniflora
and suggest that rapid adaptive evolution may facilitate the invasiveness of
S. alterniflora
in China.</abstract><cop>Cham</cop><pub>Springer International Publishing</pub><doi>10.1007/s10530-024-03267-9</doi><tpages>25</tpages><orcidid>https://orcid.org/0000-0002-7371-6654</orcidid></addata></record> |
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subjects | Adaptation Aquatic plants Biological evolution Biomedical and Life Sciences Clines Correlation Data analysis Deoxyribonucleic acid Developmental Biology DNA DNA sequencing Ecology Evolution Evolution & development Freshwater & Marine Ecology Gene frequency Genetic diversity Genetic structure Genomics Heritability Heterozygosity Introduced species Invasive plants Invasive species Invasiveness Latitude Life Sciences Natural selection Original Paper Outliers (statistics) Plant Sciences Plant species Population genetics Populations Principal components analysis Signatures Single-nucleotide polymorphism Soils Spartina alterniflora Spatial variations |
title | High-throughput DNA sequencing identifies population genetic structure and signatures of local adaptation in invasive populations of Spartina alterniflora in China |
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