These authors contributed equally to this work.
Patterns of polymorphism resulting from long-range colonization in the Mediterranean conifer Aleppo pine
Article first published online: 1 SEP 2009
DOI: 10.1111/j.1469-8137.2009.03015.x
© The Authors (2009). Journal compilation © New Phytologist (2009)
Issue

New Phytologist
Special Issue: Featured papers on ‘Weeds - bridging the gap between evolutionary ecology and crop science’
Volume 184, Issue 4, pages 1016–1028, December 2009
Additional Information
How to Cite
Grivet, D., Sebastiani, F., González-Martínez, S. C. and Vendramin, G. G. (2009), Patterns of polymorphism resulting from long-range colonization in the Mediterranean conifer Aleppo pine. New Phytologist, 184: 1016–1028. doi: 10.1111/j.1469-8137.2009.03015.x
- †
These authors contributed equally to this work.
Publication History
- Issue published online: 6 NOV 2009
- Article first published online: 1 SEP 2009
- Received: 16 April 2009, Accepted: 12 July 2009
References
- , , . 2006. Geographical patterns of adaptation within a species’s range: interactions between drift and gene flow. Journal of Evolutionary Biology 19: 203–215.
- , . 2000. Post-fire regeneration of natural Pinus halepensis forests in the east Mediterranean Basin. In: Ne’emanG, TrabaudL, eds. Ecology, biogeography and management of Pinus halepensis and P. brutia forest ecosystems in the Mediterranean basin. Leiden, The Netherlands: Backhuys Publishers, 269–289.
- , , . 2004. Ecophysiological response to severe drought in Pinus halepensis Mill. trees of two provenances. Plant Ecology 171: 15–22.
- , , , , . 1998. Pines of the Mediterranean Basin. In: RichardsonDM, ed. Ecology and biogeography of Pinus. Cambridge, UK: Cambridge University Press, 153–170.
- , , , , , , , , , et al. 2007. Population genomics: whole-genome analysis of polymorphism and divergence in Drosophila simulans. PLoS Biology 5: 2534–2559.
- , , . 2001. Polymorphism of natural populations of Pinus halepensis Mill. in Morocco as revealed by morphological characters. Euphytica 119: 309–316.
- , , , , . 2004. Nucleotide diversity and linkage disequilibrium in loblolly pine. Proceedings of the National Academy of Sciences, USA 101: 15255–15260.
- , , , . 1998. Detection of haplotypic variation and natural hybridization in halepensis-complex pine species using chloroplast simple sequence repeat (SSR) markers. Molecular Ecology 7: 1633–1643.
- , , . 2007. Divergence among species and populations of Mediterranean pines in biomass allocation of seedlings grown under two watering regimes. Annals of Forest Science 64: 87–97.
- , , , , , . 1996. Gene expression under water deficit in loblolly pine (Pinus taeda): isolation and characterization of cDNA clones. Physiologia Plantarum 97: 139–148.
- , , , , , . 2008. To growth or to seed: ecotypic variation in reproductive allocation and cone production by young female Aleppo pine (Pinus halepensis) Pinaceae. American Journal of Botany 95: 1–10.
- , , , , . 2001. Diverging trends between heterozygosity and allelic richness during postglacial colonization in the European beech. Genetics 157: 389–397.
- , , . 2002. A simulated annealing approach to define the genetic structure of populations. Molecular Ecology 11: 2571–2581.
- , , , , , . 2002. A selective advantage to immigrant genes in a Daphnia metapopulation. Science 295: 485–488.
- , , , . 1998. Chloroplast microsatellites reveal population genetic diversity in red pine, Pinus resinosa Ait. Molecular Ecology 7: 307–316.
- , , . 2008. Genetic variation across species’s geographical ranges: the central-marginal hypothesis and beyond. Molecular Ecology 17: 1170–1188. Direct Link:
- , , , , , , , , , et al. 2008. Contrasting patterns of selection at Pinus pinaster Ait. drought stress candidate genes as revealed by genetic differentiation analyses. Molecular Biology and Evolution 25: 417–437.
- , , . 2005. Arlequin (version 3.0): An integrated software package for population genetics data analysis. Evolutionary Bioinformatics Online 1: 47–50.
- . 1984. Pines: drawings and descriptions of the genus Pinus. Leiden, the Netherlands: Brill EJ & Backhuys W.
- , . 2000. Hitchhiking under positive Darwinian selection. Genetics 155: 1405–1413.
- . 1997. Statistical tests of neutrality of mutations against population growth, hitchhiking and background selection. Genetics 147: 915–925.
- , , . 2007. The multifarious effects of dispersal and gene flow on contemporary adaptation. Functional Ecology 21: 434–443.
- , , . 2001. Genetic diversity of Pinus halepensis Mill. Populations detected by RAPD loci. Annals of Forest Science 58: 869–875.
- , , , , . 2006. DNA sequences variation and selection of tag single-nucleotide polymorphisms at candidate genes for drought-stress response in Pinus taeda L. Genetics 172: 1915–1926.
- . 2001. FSTAT, a program to estimate and test gene diversities and fixation indices (version 2.9.3). Available from http://www.unil.ch/izea/softwares/fstat.html.
- , . 2003. Chloroplast DNA phylogeography of the hornbeam in Europe: evidence for a bottleneck at the outset of post-glacial colonization. Conservation Genetics 4: 47–56.
- , , . 1986. Isozyme variation among native stands and plantations of Aleppo pine in Israel. Israel Journal of Botany 35: 161–174.
- . 1995. Gene flow and genetic restoration: the Florida panther as a case study. Conservation Biology 9: 996–1007.
- , . 2004. How much of the variation in adaptive divergence can be explained by gene flow? An evaluation using lake-stream stickleback pairs. Evolution 58: 2319–2331.
- , , , , , , , . 2006. Multilocus patterns of nucleotide diversity, linkage disequilibrium and demographic history of Norway spruce [Picea abies (L.) Karst]. Genetics 174: 2095–2105.
- . 2000. The genetic legacy of the Quaternary ice ages. Nature 405: 907–913.
- , . 1964. The number of alleles that can be maintained in a finite population. Genetics 49: 725–738.
- . 2002. Gene flow and the limits to natural selection. Trends in Ecology & Evolution 17: 183–189.
- , , , , . 2003. The power and promise of population genomics: from genotyping to genome typing. Nature Reviews. Genetics 4: 981–994.
- , , . 2002. A coalescent-based method for detecting and estimating recombination from gene sequences. Genetics 160: 1231–1241.
- , , . 1998. Analysis of hypervariable chloroplast microsatellites in Pinus halepensis reveals a dramatic genetic bottleneck. In: KarpA, IsaacPG, IngramDS, eds. Molecular tools for screening biodiversity. London, UK: Chapman & Hall, 407–412.
- . 1962. Le pin d’Alep (Pinus halepensis Mill.). Etude taxonomique, phytogéographique, écologique et sylvicole. Annales de l’Ecole Nationale Des Eaux et Forêts et de la Station de Recherches et Expériences Forestières, 19: 7–207.
- , , , , . 2008. Scanning the genome for gene single nucleotide polymorphisms involved in adaptive population differentiation in white spruce. Molecular Ecology 17: 3599–3613.
- , , , , , . 2006. Chloroplast microsatellites reveal colonization and metapopulation dynamics in the Canary Island pine. Molecular Ecology 15: 2691–2698.
- , , . 2009. Characterization of demographic expansions from pairwise comparisons of linked microsatellite haplotypes. Genetics 181: 1013–1019.
- , , . 1975. The bottleneck effect and genetic variability in populations. Evolution 29: 1–10.
- , . 2004. Does gene flow constrain adaptive divergence or vice versa? A test using ecomorphology and sexual isolation in Timema cristinae walking-sticks. Evolution 58: 102–112.
- , , , , . 1995. Size of genetic bottlenecks leading to virus fitness loss is determined by mean initial population fitness. Journal of Virology 69: 2869–2872.
- , , . 1999. No evidence of bottleneck in the postglacial recolonization of Europe by the noctule bat (Nyctalus noctula). Evolution 53: 1247–1258.
- , , , , , , , , , et al. 2003. Glacial refugia: hotspots but not melting pots of genetic diversity. Science 300: 1563–1565.
- , , . 2005. Climate changes and tree phylogeography in the Mediterranean. Taxon 54: 877–885.
- . 1992. Les enseignements des données historiques concernant le Pin d’Alep. Forêt Méditerranéenne 12: 155–157.
- , . 2008. Reduced responses to selection after species range expansion. Science 321: 96.
- , , , , , . 2007. Demographic history has influenced nucleotide diversity in European Pinus sylvestris populations. Genetics 177: 1713–1724.
- , , , , , . 2005. Support from the relationship of genetic and geographic distance in human populations for a serial founder effect originating in Africa. Proceedings of the National Academy of Sciences, USA 102: 15942–15947.
- , . 2007. mlcoalsim: multilocus coalescent simulations. Evolutionary Bioinformatics 2: 1–4.
- , , , , . 2000. Isolation and characterization of a dehydrin gene from white spruce induced upon wounding, drought and cold stresses. Plant Molecular Biology 43: 1–10.
- , , . 2007. Distribution modelling and statistical phylogeography: an integrative framework for generating and testing alternative biogeographical hypotheses. Journal of Biogeography 34: 1833–1845.
- . 1993. Investigation of potential gene flow limitation of behavioural adaptation in an aridlands spider. Behavioral Ecology and Sociobiology 32: 355–363.
- , . 1992. Population-growth makes waves in the distribution of pairwise genetic-differences. Molecular Biology and Evolution 9: 552–569.
- , , . 2007. A multilocus perspective on colonization accompanied by selection and gene flow. Evolution 61: 2971–2985.
- . 1996. Equilibrium values of measures of population subdivision for stepwise mutation processes. Genetics 142: 1357–1362.
- , , . 2005. Genes induced by WDS are differentially expressed in two populations of Aleppo pine (Pinus halepensis). Tree Genetics & Genomes 1: 166–173.
- , , . 1986. Local differentiation among Mediterranean populations of Aleppo pine in their isoenzymes. Silvae Genetica 35: 11–19.
- , . 1999. Estimation of past demographic parameters from the distribution of pairwise differences when the mutation rates very among sites: application to human mitochondrial DNA. Genetics 152: 1079–1089.
- , , , . 2000. Patterns of variation at a mitochondrial sequence-tagged-site locus provides new insights into the postglacial history of European Pinus sylvestris populations. Molecular Ecology 9: 1205–1211.
- , . 1980. Maladaptation in marginal population of the mosquito fish, Gambusia affinis. Evolution 34: 65–75.
- , , . 2003. Contemporary evolution meets conservation biology. Trends in Ecology & Evolution 18: 94–101.
- . 2005. Using genome scans of DNA polymorphism to infer adaptive population divergence. Molecular Ecology 14: 671–688.
- . 1989. Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics 123: 585–595.
- , , , . 2004. Life histories of Mediterranean pines. Plant Ecology 171: 53–68.
- , , . 1994. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Research 22: 4673–4680.
- . 2001. Effects of releasing maladapted individuals: a demographic-evolutionary model. American Naturalist 158: 331–340.
- , , , . 1996. A set of primers for the amplification of 20 chloroplast microsatellite in Pinaceae. Molecular Ecology 5: 595–598.
- , , , . 1998. Distribution of genetic diversity in Pinus pinaster Ait. as revealed by chloroplast microsatellites. Theoretical and Applied Genetics 97: 456–463.
- , , , . 2008. Climate-related variability in carbon and oxygen stable isotopes among populations of Aleppo pine grown in common-garden tests. Trees 22: 759–769.
- , , . 2009. Search for nucleotide diversity patterns of local adaptation in dehydrins and other cold-related candidate genes in Scots pine (Pinus sylvestris L.). Tree Genetics & Genomes 5: 117–132.
- , . 2001. Geographic pattern of genetic variation in Pinus resinosa: area of greatest diversity is not the origin of postglacial populations. Molecular Ecology 10: 103–111.
- . 1975. On the number of segregating sites. Theoretical Population Biology 7: 256–276.
- , . 1984. Estimating F-statistics for the analysis of population structure. Evolution 38: 1358–1370.
- , , , , . 2007. Fossil calibration of molecular divergence infers a moderate mutation rate and recent radiations for Pinus. Molecular Biology and Evolution 24: 90–101.
- , . 2005. Molecular population genetics and the search for adaptive evolution in plants. Molecular Biology and Evolution 22: 506–519.
- , , , . 2006. Statistical tests for detecting positive selection by utilizing high-frequency variants. Genetics 174: 1431–1439.

1469-8137/asset/NPH_left.gif?v=1&s=08bb9ae88048d5716b3d3495e7b2fcfe48536ab2)