Genetic signatures of natural selection in a model invasive ascidian

Yaping LIN, Yiyong CHEN, Changho YI, Jonathan FONG, Won KIM, Marc RIUS, Aibin ZHAN

Research output: Journal PublicationsJournal Article (refereed)Researchpeer-review

9 Citations (Scopus)

Abstract

Invasive species represent promising models to study species' responses to rapidly changing environments. Although local adaptation frequently occurs during contemporary range expansion, the associated genetic signatures at both population and genomic levels remain largely unknown. Here, we use genome-wide gene-associated microsatellites to investigate genetic signatures of natural selection in a model invasive ascidian, Ciona robusta. Population genetic analyses of 150 individuals sampled in Korea, New Zealand, South Africa and Spain showed significant genetic differentiation among populations. Based on outlier tests, we found high incidence of signatures of directional selection at 19 loci. Hitchhiking mapping analyses identified 12 directional selective sweep regions, and all selective sweep windows on chromosomes were narrow (∼8.9 kb). Further analyses indentified 132 candidate genes under selection. When we compared our genetic data and six crucial environmental variables, 16 putatively selected loci showed significant correlation with these environmental variables. This suggests that the local environmental conditions have left significant signatures of selection at both population and genomic levels. Finally, we identified "plastic" genomic regions and genes that are promising regions to investigate evolutionary responses to rapid environmental change in C. robusta.
Original languageEnglish
JournalScientific Reports
Volume7
DOIs
Publication statusPublished - 1 Jan 2017

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Ascidiacea
natural selection
genomics
environmental factors
loci
genes
invasive species
Korean Peninsula
population genetics
South Africa
plastics
Spain
microsatellite repeats
chromosomes
incidence
genetic variation
genome
testing

Cite this

LIN, Yaping ; CHEN, Yiyong ; YI, Changho ; FONG, Jonathan ; KIM, Won ; RIUS, Marc ; ZHAN, Aibin. / Genetic signatures of natural selection in a model invasive ascidian. In: Scientific Reports. 2017 ; Vol. 7.
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Genetic signatures of natural selection in a model invasive ascidian. / LIN, Yaping; CHEN, Yiyong; YI, Changho; FONG, Jonathan; KIM, Won; RIUS, Marc; ZHAN, Aibin.

In: Scientific Reports, Vol. 7, 01.01.2017.

Research output: Journal PublicationsJournal Article (refereed)Researchpeer-review

TY - JOUR

T1 - Genetic signatures of natural selection in a model invasive ascidian

AU - LIN, Yaping

AU - CHEN, Yiyong

AU - YI, Changho

AU - FONG, Jonathan

AU - KIM, Won

AU - RIUS, Marc

AU - ZHAN, Aibin

PY - 2017/1/1

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N2 - Invasive species represent promising models to study species' responses to rapidly changing environments. Although local adaptation frequently occurs during contemporary range expansion, the associated genetic signatures at both population and genomic levels remain largely unknown. Here, we use genome-wide gene-associated microsatellites to investigate genetic signatures of natural selection in a model invasive ascidian, Ciona robusta. Population genetic analyses of 150 individuals sampled in Korea, New Zealand, South Africa and Spain showed significant genetic differentiation among populations. Based on outlier tests, we found high incidence of signatures of directional selection at 19 loci. Hitchhiking mapping analyses identified 12 directional selective sweep regions, and all selective sweep windows on chromosomes were narrow (∼8.9 kb). Further analyses indentified 132 candidate genes under selection. When we compared our genetic data and six crucial environmental variables, 16 putatively selected loci showed significant correlation with these environmental variables. This suggests that the local environmental conditions have left significant signatures of selection at both population and genomic levels. Finally, we identified "plastic" genomic regions and genes that are promising regions to investigate evolutionary responses to rapid environmental change in C. robusta.

AB - Invasive species represent promising models to study species' responses to rapidly changing environments. Although local adaptation frequently occurs during contemporary range expansion, the associated genetic signatures at both population and genomic levels remain largely unknown. Here, we use genome-wide gene-associated microsatellites to investigate genetic signatures of natural selection in a model invasive ascidian, Ciona robusta. Population genetic analyses of 150 individuals sampled in Korea, New Zealand, South Africa and Spain showed significant genetic differentiation among populations. Based on outlier tests, we found high incidence of signatures of directional selection at 19 loci. Hitchhiking mapping analyses identified 12 directional selective sweep regions, and all selective sweep windows on chromosomes were narrow (∼8.9 kb). Further analyses indentified 132 candidate genes under selection. When we compared our genetic data and six crucial environmental variables, 16 putatively selected loci showed significant correlation with these environmental variables. This suggests that the local environmental conditions have left significant signatures of selection at both population and genomic levels. Finally, we identified "plastic" genomic regions and genes that are promising regions to investigate evolutionary responses to rapid environmental change in C. robusta.

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