Genome-Wide Linkage Disequilibrium in Nine-Spined Stickleback Populations
Abstract Variation in the extent and magnitude of genome-wide linkage disequilibrium (LD) among populations residing in different habitats has seldom been studied in wild vertebrates. We used a total of 109 microsatellite markers to quantify the level and patterns of genome-wide LD in 13 Fennoscandi...
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croxfordunivpr:10.1534/g3.114.013334 2024-09-15T18:06:06+00:00 Genome-Wide Linkage Disequilibrium in Nine-Spined Stickleback Populations Yang, Ji Shikano, Takahito Li, Meng-Hua Merilä, Juha 2014 http://dx.doi.org/10.1534/g3.114.013334 http://academic.oup.com/g3journal/article-pdf/4/10/1919/37182163/g3journal1919.pdf en eng Oxford University Press (OUP) https://academic.oup.com/journals/pages/open_access/funder_policies/chorus/standard_publication_model G3 Genes|Genomes|Genetics volume 4, issue 10, page 1919-1929 ISSN 2160-1836 journal-article 2014 croxfordunivpr https://doi.org/10.1534/g3.114.013334 2024-08-05T04:30:11Z Abstract Variation in the extent and magnitude of genome-wide linkage disequilibrium (LD) among populations residing in different habitats has seldom been studied in wild vertebrates. We used a total of 109 microsatellite markers to quantify the level and patterns of genome-wide LD in 13 Fennoscandian nine-spined stickleback (Pungitius pungitius) populations from four (viz. marine, lake, pond, and river) different habitat types. In general, high magnitude (D’ > 0.5) of LD was found both in freshwater and marine populations, and the magnitude of LD was significantly greater in inland freshwater than in marine populations. Interestingly, three coastal freshwater populations located in close geographic proximity to the marine populations exhibited similar LD patterns and genetic diversity as their marine neighbors. The greater levels of LD in inland freshwater compared with marine and costal freshwater populations can be explained in terms of their contrasting demographic histories: founder events, long-term isolation, small effective sizes, and population bottlenecks are factors likely to have contributed to the high levels of LD in the inland freshwater populations. In general, these findings shed new light on the patterns and extent of variation in genome-wide LD, as well as the ecological and evolutionary factors driving them. Article in Journal/Newspaper Fennoscandian Oxford University Press G3 Genes|Genomes|Genetics 4 10 1919 1929 |
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Open Polar |
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Oxford University Press |
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croxfordunivpr |
language |
English |
description |
Abstract Variation in the extent and magnitude of genome-wide linkage disequilibrium (LD) among populations residing in different habitats has seldom been studied in wild vertebrates. We used a total of 109 microsatellite markers to quantify the level and patterns of genome-wide LD in 13 Fennoscandian nine-spined stickleback (Pungitius pungitius) populations from four (viz. marine, lake, pond, and river) different habitat types. In general, high magnitude (D’ > 0.5) of LD was found both in freshwater and marine populations, and the magnitude of LD was significantly greater in inland freshwater than in marine populations. Interestingly, three coastal freshwater populations located in close geographic proximity to the marine populations exhibited similar LD patterns and genetic diversity as their marine neighbors. The greater levels of LD in inland freshwater compared with marine and costal freshwater populations can be explained in terms of their contrasting demographic histories: founder events, long-term isolation, small effective sizes, and population bottlenecks are factors likely to have contributed to the high levels of LD in the inland freshwater populations. In general, these findings shed new light on the patterns and extent of variation in genome-wide LD, as well as the ecological and evolutionary factors driving them. |
format |
Article in Journal/Newspaper |
author |
Yang, Ji Shikano, Takahito Li, Meng-Hua Merilä, Juha |
spellingShingle |
Yang, Ji Shikano, Takahito Li, Meng-Hua Merilä, Juha Genome-Wide Linkage Disequilibrium in Nine-Spined Stickleback Populations |
author_facet |
Yang, Ji Shikano, Takahito Li, Meng-Hua Merilä, Juha |
author_sort |
Yang, Ji |
title |
Genome-Wide Linkage Disequilibrium in Nine-Spined Stickleback Populations |
title_short |
Genome-Wide Linkage Disequilibrium in Nine-Spined Stickleback Populations |
title_full |
Genome-Wide Linkage Disequilibrium in Nine-Spined Stickleback Populations |
title_fullStr |
Genome-Wide Linkage Disequilibrium in Nine-Spined Stickleback Populations |
title_full_unstemmed |
Genome-Wide Linkage Disequilibrium in Nine-Spined Stickleback Populations |
title_sort |
genome-wide linkage disequilibrium in nine-spined stickleback populations |
publisher |
Oxford University Press (OUP) |
publishDate |
2014 |
url |
http://dx.doi.org/10.1534/g3.114.013334 http://academic.oup.com/g3journal/article-pdf/4/10/1919/37182163/g3journal1919.pdf |
genre |
Fennoscandian |
genre_facet |
Fennoscandian |
op_source |
G3 Genes|Genomes|Genetics volume 4, issue 10, page 1919-1929 ISSN 2160-1836 |
op_rights |
https://academic.oup.com/journals/pages/open_access/funder_policies/chorus/standard_publication_model |
op_doi |
https://doi.org/10.1534/g3.114.013334 |
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G3 Genes|Genomes|Genetics |
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4 |
container_issue |
10 |
container_start_page |
1919 |
op_container_end_page |
1929 |
_version_ |
1810443604549697536 |