| Literature DB >> 29692882 |
Soo-Rang Lee1, Ji-Eun Choi2, Byoung-Yoon Lee2, Jeong-Nam Yu3, Chae Eun Lim2.
Abstract
Human-driven habitat fragmentation leads to spatial isolation of endangered plant species increasing extinction risk. Understanding genetic variability and population structure of rare and isolated plant species is of great importance for assessing extinction risk and setting up conservation plans. Aconitum austrokoreense, an endangered and endemic species in Korea, is a perennial herb commonly used for medicinal purposes. We used five nuclear microsatellites and one chloroplast marker to investigate genetic diversity and population structure for 479 individuals of A. austrokoreense from seven populations throughout South Korea. A multivariate approach, discriminant analysis of principal components analysis, revealed broad-scale spatial patterns of A. austrokoreense populations across three major mountains that were composed of seven genetically distinct subgroups. High pairwise FST values (mean FST = 0.35; highest FST = 0.55) suggested significant differentiation among populations. Overall within population genetic variation was low. Based on Mantel test, there was significant correlation between geographical and genetic distances indicating pattern of isolation by distance. Our results suggest that A. austrokoreense populations may have undergone recent population bottlenecks. Given the limited dispersal ability of the species and ongoing habitat fragmentation, population isolation may further be exacerbated leading to increased extinction risk.Entities:
Keywords: Aconitum; austrokoreense; chloroplast haplotypes; endangered species; gene flow; microsatellite; population structure
Year: 2018 PMID: 29692882 PMCID: PMC5909456 DOI: 10.1093/aobpla/ply021
Source DB: PubMed Journal: AoB Plants Impact factor: 3.276
Sampling sites and molecular diversity assessed from nuclear microsatellite markers and a single chloroplast marker; N, number of samples collected; P, percentage of polymorphic loci; NA, allelic richness (mean number of alleles) with rarefaction; NE, mean number of effective alleles; Ho, mean observed heterozygosity; He, mean expected heterozygosity; FIS, mean fixation index; Nhp, number of chloroplast haplotypes; Hcp, mean gene diversity index for haplotype. Significance level was marked as followings: nsP > 0.05, *P < 0.05, **P < 0.01. SD stands for standard deviation.
| Locality | Acronym | Nuclear microsatellite | Chloroplast | |||||||
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| Mt. Cheongryang | CR | 187 | 80 | 3.13 [1.80] | 1.79 [0.75] | 0.29 [0.15] | 0.35 [0.25] | 0.188** | 2 | 1 [0.006] |
| Mt. Choijeong | CJ | 63 | 80 | 2.21 [0.95] | 1.21 [0.25] | 0.15 [0.11] | 0.14 [0.16] | 0.140* | 1 | 1 [0.002] |
| Mt. Jiri Baengmu | BM | 30 | 100 | 3.39 [1.96] | 2.21 [1.35] | 0.35 [0.17] | 0.43 [0.23] | 0.184** | 2 | 1 [0.008] |
| Mt. Jiri Chilseon | CS | 30 | 100 | 3.00 [0.63] | 2.18 [0.20] | 0.40 [0.17] | 0.54 [0.05] | 0.272** | 2 | 1 [0.009] |
| Mt. Jiri Ungseok | US | 90 | 100 | 4.83 [1.16] | 1.39 [0.31] | 0.22 [0.20] | 0.24 [0.19] | 0.117** | 1 | 1 [0.001] |
| Mt. Hogu | HG | 48 | 80 | 2.98 [0.63] | 1.38 [0.43] | 0.29 [0.30] | 0.21 [0.24] | −0.107ns | 2 | 1 [0.004] |
| Mt. Mangun | MU | 31 | 60 | 3.00 [0.75] | 1.52 [0.57] | 0.39 [0.22] | 0.25 [0.28] | 0.059ns | 1 | 1 [0.008] |
Pairwise FST among seven Aconitum austrokoreense populations in South Korea. All FST values presented were significant at P < 0.05. See Table 1 for population abbreviation. Grand mean = mean of pairwise FST across all population pairs.
| CR | CJ | BM | CS | US | HG | MU | |
|---|---|---|---|---|---|---|---|
| CR | 0 | ||||||
| CJ | 0.35 | 0 | |||||
| BM | 0.34 | 0.41 | 0 | ||||
| CS | 0.30 | 0.55 | 0.22 | 0 | |||
| US | 0.42 | 0.44 | 0.16 | 0.43 | 0 | ||
| HG | 0.46 | 0.54 | 0.11 | 0.43 | 0.32 | 0 | |
| MU | 0.46 | 0.54 | 0.05 | 0.38 | 0.24 | 0.03 | 0 |
| Grand mean 0.39 | |||||||
Results of AMOVA. All variance components were statistically significant (P < 0.005); df stands for degrees of freedom.
| Source | df | Sum of squares | Percentage of variation | Fixation index |
|---|---|---|---|---|
| Among populations ( | 6 | 360.117 | 39 | 0.385 |
| Among individuals ( | 472 | 422.821 | 11 | 0.171 |
| Within individuals ( | 479 | 303.500 | 51 | 0.490 |
Figure 1.Discriminant analysis of principal components (DAPC)-based clustering analysis for seven populations of Aconitum austrokoreense in South Korea. (A) Based on BIC, seven genetically distinct groups were identified (K = 7); (B) PCA scatterplot of the seven A. austrokoreense populations collected throughout South Korea. The axes are the first two components explaining maximum genetic structure; (C) Pie charts show DAPC analysis-based group assignment for individuals in each population across South Korea. The sizes of the pie charts indicate the relative sample size.
Figure 2.Chloroplast psbA–trnH IGS haplotype network of 479 Aconitum austrokoreense in South Korea. (A) A diagram shows haplotype network among seven populations. Lines separating the haplotypes represent a single point mutation or insertion/deletion event. (B) Pie charts represent contribution of four haplotypes in each population. The circle size is proportional to frequency of each haplotype.
Figure 3.The correlation between geographic distance and FST for 21 Aconitum austrokoreense population pairs from South Korea. A significant IBD pattern was identified through a Mantel test (r = 0.48, P < 0.05).