Pronounced genetic differentiation and recent secondary contact in the mangrove tree Lumnitzera racemosa revealed by population genomic analyses

Systematically investigating the impacts of Pleistocene sea-level fluctuations on mangrove plants may provide a better understanding of their demographic history and useful information for their conservation. Therefore, we conducted population genomic analyses of 88 nuclear genes to explore the popu...

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Bibliographic Details
Published in:Scientific reports 2016-07, Vol.6 (1), p.29486-29486, Article 29486
Main Authors: Li, Jianfang, Yang, Yuchen, Chen, Qipian, Fang, Lu, He, Ziwen, Guo, Wuxia, Qiao, Sitan, Wang, Zhengzhen, Guo, Miaomiao, Zhong, Cairong, Zhou, Renchao, Shi, Suhua
Format: Article
Language:English
Subjects:
45/23
631/181/457/649/2157
631/181/757
Bayes Theorem
Coasts
DNA, Mitochondrial - genetics
Evolution, Molecular
Genetic diversity
Genetic Drift
Genetic Linkage
Genetics, Population
Geography
Global Warming
Haplotypes
Humanities and Social Sciences
Ice sheets
Indian Ocean
Magnoliopsida - genetics
multidisciplinary
Ocean currents
Pacific Ocean
Phylogeny
Polymorphism
Polymorphism, Single Nucleotide
Population Dynamics
Sample size
Science
Sea level
Seawater
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Summary:Systematically investigating the impacts of Pleistocene sea-level fluctuations on mangrove plants may provide a better understanding of their demographic history and useful information for their conservation. Therefore, we conducted population genomic analyses of 88 nuclear genes to explore the population dynamics of a mangrove tree Lumnitzera racemosa across the Indo-West Pacific region. Our results revealed pronounced genetic differentiation in this species between the populations from the Indian Ocean and the Pacific Ocean, which may be attributable to the long-term isolation between the western and eastern coasts of the Malay Peninsula during sea-level drops in the Pleistocene glacial periods. The mixing of haplotypes from the two highly divergent groups was identified in a Cambodian population at almost all 88 nuclear genes, suggesting genetic admixture of the two lineages at the boundary region. Similar genetic admixture was also found in other populations from Southeast Asia based on the Bayesian clustering analysis of six nuclear genes, which suggests extensive and recent secondary contact of the two divergent lineages in Southeast Asia. Computer simulations indicated substantial migration from the Indian Ocean towards the South China Sea, which likely results in the genetic admixture in Southeast Asia.
ISSN:2045-2322
2045-2322
DOI:10.1038/srep29486