Inferring Genetic Variation and Demographic History of Michelia yunnanensis Franch. (Magnoliaceae) from Chloroplast DNA Sequences and Microsatellite Markers

Quercus gilva (Blume) is an evergreen oak species that is native to Japan, China, and Taiwan. Because of a long history of human impact, this species is threatened with extinction in several regions of Japan. The objective of this study was to identify the genetic structure of Q. gilva based on chloroplast DNA (cpDNA) sequencing analysis. We collected 123 samples from 25 populations in Japan, 8 samples from 1 population in China, and 46 samples from 5 populations in Taiwan. Approximately 1815 bp of cpDNA was sequenced for each of the 177 samples. Thirteen haplotypes were detected, with no cross-region distribution of haplotypes among the three geographically separated countries. There were large genetic differences among populations (GST = 0.824, [Formula: see text] = 0.937). Six haplotypes (haplotypes 1, 2, 3, 4a, 4b, and 5) were detected in Japan; haplotype 4a was the most common, detected from 20 populations, and the other rare haplotypes, except for haplotype 4b, occurred at the edge of the species’ distribution. In addition, four haplotypes (haplotypes 1, 2, 3, and 5) were quite different from the predominant haplotype (haplotype 4a), with more than four cpDNA mutations except for a mononucleotide repeat, suggesting that populations with these rare haplotypes should be conserved separately.

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Phylogeographical history of the widespread meadow fescue (Festuca pratensis Huds.) inferred from chloroplast DNA sequences

Journal of Biogeography ◽

10.1111/j.1365-2699.2006.01521.x ◽

2006 ◽

Vol 33 (8) ◽

pp. 1470-1478 ◽

Cited By ~ 39

Author(s):

Siri Fjellheim ◽

Odd Arne Rognli ◽

Kjetil Fosnes ◽

Christian Brochmann

Keyword(s):

Chloroplast Dna ◽

Dna Sequences ◽

Festuca Pratensis ◽

Meadow Fescue ◽

History Of ◽

Chloroplast Dna Sequences

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Genetic Diversity and Population Structure of Rhododendron rex Subsp. rex Inferred from Microsatellite Markers and Chloroplast DNA Sequences

Plants ◽

10.3390/plants9030338 ◽

2020 ◽

Vol 9 (3) ◽

pp. 338 ◽

Cited By ~ 1

Author(s):

Xue Zhang ◽

Yuan-Huan Liu ◽

Yue-Hua Wang ◽

Shi-Kang Shen

Keyword(s):

Genetic Diversity ◽

Population Structure ◽

Microsatellite Markers ◽

Chloroplast Dna ◽

Dna Sequences ◽

Demographic History ◽

Population Decline ◽

Population Expansion ◽

Distribution Models ◽

Recent Population Expansion

Genetic diversity is vital to the sustainable utilization and conservation of plant species. Rhododendron rex subsp. rex Lévl. is an endangered species endemic to the southwest of China. Although the natural populations of this species are facing continuous decline due to the high frequency of anthropogenic disturbance, the genetic information of R. rex subsp. rex is not yet elucidated. In the present study, 10 pairs of microsatellite markers (nSSRs) and three pairs of chloroplast DNA (cpDNAs) were used in the elucidation of the genetic diversity, population structure, and demographic history of 11 R. rex subsp. rex populations. A total of 236 alleles and 12 haplotypes were found. A moderate genetic diversity within populations (HE = 0.540 for nSSRs, Hd = 0.788 for cpDNA markers), high historical and low contemporary gene flows, and moderate genetic differentiation (nSSR: FST = 0.165***; cpDNA: FST = 0.841***) were detected among the R. rex subsp. rex populations. Genetic and geographic distances showed significant correlation (p < 0.05) determined by the Mantel test. The species exhibited a conspicuous phylogeographical structure among the populations. Using the Bayesian skyline plot and species distribution models, we found that R. rex subsp. rex underwent a population demography contraction approximately 50,000–100,000 years ago. However, the species did not experience a recent population expansion event. Thus, habitat loss and destruction, which result in a population decline and species inbreeding depression, should be considered in the management and conservation of R. rex subsp. rex.

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Population Differentiation and Demographic History of the Cycas taiwaniana Complex (Cycadaceae) Endemic to South China as Indicated by DNA Sequences and Microsatellite Markers

Frontiers in Genetics ◽

10.3389/fgene.2019.01238 ◽

2019 ◽

Vol 10 ◽

Author(s):

Xin-Hui Wang ◽

Jie Li ◽

Li-Min Zhang ◽

Zi-Wen He ◽

Qi-Ming Mei ◽

...

Keyword(s):

Microsatellite Markers ◽

South China ◽

Dna Sequences ◽

Population Differentiation ◽

Demographic History ◽

History Of

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Changes in Genetic Diversity and Demographic History of Jankowski’s Bunting (Emberiza Jankowskii), as Revealed by Mitochondrial DNA and Microsatellite Markers

10.21203/rs.3.rs-265651/v1 ◽

2021 ◽

Author(s):

Long Huang ◽

Guochen Feng ◽

Dan Li ◽

Weiping Shang ◽

Lishi Zhang ◽

...

Keyword(s):

Genetic Diversity ◽

Mitochondrial Dna ◽

Genetic Variation ◽

Microsatellite Markers ◽

Population Size ◽

Demographic History ◽

Effective Population ◽

High Genetic Diversity ◽

History Of ◽

Eastern Inner Mongolia

Abstract The genetic variation and distribution of a population depend largely on the demographic history. For instance, populations that have recently experienced shrinkage usually have a lower genetic diversity. However, some endangered species with a narrow distribution have a high genetic diversity resulting from large historical population sizes and long generation times. In addition, very recent population bottlenecks may not be reflected in the population’s genetic information. In this study, we used a mitochondrial DNA marker and 15 microsatellite markers to reveal the genetic diversity, recent changes, inbreeding, and demographic history of a Jankowski’s bunting (Emberiza jankowskii) population in eastern Inner Mongolia. The results show that the genetic diversity of the population remained at a relatively stable and high level until recently. Severe population shrinkage did not result in a considerable lack of genetic variation because of the large historical population size and relatively short periods of human disturbance. In addition, introgression and gene flow among populations compensate for the loss of genetic variation to some extent. Considering the current small effective population size and the existence of inbreeding, we recommend that habitat protection be continued to maximize the genetic diversity of the Jankowski’s bunting population.

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