| Literature DB >> 24558582 |
Federico Luebert1, Pit Jacobs2, Hartmut H Hilger2, Ludo A H Muller2.
Abstract
The genetic structure of populations of closely related, sympatric species may hold the signature of the geographical mode of the speciation process. In fully allopatric speciation, it is expected that genetic differentiation between species is homogeneously distributed across the genome. In nonallopatric speciation, the genomes may remain undifferentiated to a large extent. In this article, we analyzed the genetic structure of five sympatric species from the plant genus Heliotropium in the Atacama Desert. We used amplified fragment length polymorphisms (AFLPs) to characterize the genetic structure of these species and evaluate their genetic differentiation as well as the number of loci subject to positive selection using divergence outlier analysis (DOA). The five species form distinguishable groups in the genetic space, with zones of overlap, indicating that they are possibly not completely isolated. Among-species differentiation accounts for 35% of the total genetic differentiation (F ST = 0.35), and F ST between species pairs is positively correlated with phylogenetic distance. DOA suggests that few loci are subject to positive selection, which is in line with a scenario of nonallopatric speciation. These results support the idea that sympatric species of Heliotropium sect. Cochranea are under an ongoing speciation process, characterized by a fluctuation of population ranges in response to pulses of arid and humid periods during Quaternary times.Entities:
Keywords: Adaptive radiation; Chile; Heliotropium; allopatry; speciation; sympatry
Year: 2013 PMID: 24558582 PMCID: PMC3925428 DOI: 10.1002/ece3.929
Source DB: PubMed Journal: Ecol Evol ISSN: 2045-7758 Impact factor: 2.912
Overview of oligonucleotide primer combinations used for the selective PCR amplification in the AFLP analysis of 96 specimens belonging to five different Heliotropium species and the numbers of polymorphic loci that were generated for each primer combination.
| # Polymorphic markers | ||
|---|---|---|
| ATG | CAG | 87 |
| ATA | CAC | 82 |
| ATT | CAA | 118 |
| Total | 287 |
Genetic diversities, estimated as percentages of polymorphic AFLP markers and corrected for unequal sample sizes by multiple random subsampling (subsample size = 7; Leberg 2002), in five Heliotropium species and average pairwise linkage disequilibria between polymorphic markers within each species measured as the square of the correlation coefficient between allele frequencies (r2); N, sample size; SD, standard deviation.
| % Polymorphic markers | |||||
|---|---|---|---|---|---|
| Species | Uncorrected | Corrected (SD) | |||
| 17 | 71 | 55 (3) | 0.073 (0.12) | 0.0000 | |
| 25 | 77 | 55 (5) | 0.065 (0.14) | 0.0042 | |
| 21 | 72 | 55 (3) | 0.054 (0.085) | 0.0000 | |
| 26 | 85 | 60 (7) | 0.063 (0.11) | 0.0000 | |
| 7 | 68 | NA | 0.17 (0.21) | 0.0000 | |
Figure 1(A) Dendrogram resulted from cluster analysis. (B) Scatter plot of the two first axis (percentage of variance explained indicated in brackets) of the multidimensional scaling. (C) Relation between interspecific phylogenetic distance and Nem between populations, depicting the curve adjusted with a linear model and indicating the Spearman correlation and its P-value. (D) Phylogenetic analysis with Bayesian Posterior probabilities >50 above branches, Heliotropium sect. Cochranea highlighted in gray, and studied species in bold and color-coded. Color codes for species are the same across figures. Black arrows (A–B) indicate individuals of one species intermixed with individuals of other species.
Results of an AMOVA indicating sums of square deviations (SSD), mean square deviations (MSD), number of degrees of freedom, and variance components.
| Variance components | ||||||
|---|---|---|---|---|---|---|
| SSD | MSD | df | % variation | |||
| Populations | 1539.909 | 384.97737 | 4 | 18.862 | 35.37 | 0 |
| Error | 3135.882 | 34.46024 | 91 | 34.460 | 64.63 | |
| Total | 4675.792 | 49.21886 | 95 | 53.322 | ||
Results of the divergence outlier analysis for each species pair. Percentage of outliers as calculated in relation to all polymorphic loci.
| Species pair | Dataset | “Neutral” | % outliers | |
|---|---|---|---|---|
| 0.2489 | 0.205 ± 0.018 | 6 (0–9) | 2.28 | |
| 0.3184 | 0.284 ± 0.016 | 8 (0–14) | 3.04 | |
| 0.3161 | 0.281 ± 0.034 | 4 (3–16) | 1.52 | |
| 0.2791 | 0.256 ± 0.008 | 7 (7–8) | 2.66 | |
| 0.1004 | 0.086 ± 0.008 | 5 (5–7) | 1.90 | |
| 0.1771 | 0.151 ± 0.009 | 4 (4–7) | 1.52 | |
| 0.1729 | 0.137 ± 0.008 | 8 (8–12) | 3.04 | |
| 0.2362 | 0.218 ± 0.015 | 4 (4–4) | 1.52 | |
| 0.2498 | 0.221 ± 0.010 | 9 (9–11) | 3.42 | |
| 0.2288 | 0.196 ± 0.012 | 7 (5–7) | 2.66 |
Figure 2Histograms of F frequency distribution for each species pair of sympatric species of Heliotropium sect. Cochranea in the area of Totoral, Chile.