Development of new mitochondrial DNA markers in Scots pine (Pinus sylvestris L.) for population and phylogeographic studies
- 116 Downloads
Fragments of genomic DNA of Scots pine (Pinus sylvestris L.) homologous to the mitochondrial DNA (mtDNA) contigs of Norway spruce (Picea abies (L.) Karst.) and loblolly pine (Pinus taeda L.) were resequenced in a sample of the Scots pine trees of European, Siberian, Mongolian, and Caucasian origin in order to develop mtDNA markers. Flanking non-coding regions of some mitochondrial genes were also investigated and resequenced. Five single nucleotide polymorphisms (SNPs) and a single minisatellite locus were identified. Caucasian samples differed from the rest by three SNPs. Two SNPs have been linked to an early described marker in the first intron of the nad7 gene, and all together revealed three haplotypes in European populations. No variable SNPs were found in the Siberian and Mongolian populations. The minisatellite locus contained 41 alleles across European, Siberian, and Mongolian populations, but, this locus demonstrated a weak population differentiation (F ST = 5.8), probably due to its high mutation rate.
Keywordsmitochondrial DNA next generation sequencing markers phylogeography Pinus sylvestris Scots pine
Unable to display preview. Download preview PDF.
- 2.Tollefsrud, M.M., Kissling, R., Gugerli, F., et al., Genetic consequences of glacial survival and postglacial colonization in Norway spruce: combined analysis of mitochondrial DNA and fossil pollen, Mol. Ecol., 2008, vol. 17, pp. 4134–4150. doi 10.1111/j.1365294X.2008.03893xCrossRefPubMedGoogle Scholar
- 6.Semerikov, V.L., Semerikova, S.A., Polezhaeva, M.M., et al., Southern montane populations did not contribute to the recolonization of West Siberian Plain by Siberian larch (Larix sibirica): a range-wide analysis of cytoplasmic markers, Mol. Ecol., 2013, vol. 22, pp. 4958–4971. doi 10.1111/mec.12433CrossRefPubMedGoogle Scholar
- 7.Naydenov, K., Senneville, S., Beaulieu, J., et al., Glacial vicariance in Eurasia: mitochondrial DNA evidence from scots pine for complex heritage involving genetically distinct refugia at mid-northern latitudes and in Asia Minor, BMC Evol. Biol., 2007, vol. 22, pp. 7–233. doi 10.1186/1471-2148-7-233Google Scholar
- 10.Sambrook, J., Fritsch, E.F., and Maniatis, T., Molecular Cloning: A Laboratory Manual, New York: Cold Spring Harbor Lab., 1989, 2nd ed.Google Scholar
- 11.Rozen, S. and Skaletsky, H.J., Primer3 on the WWW for general users and for biologist programmers, in Bioinformatics Methods and Protocols: Methods in Molecular Biology, Krawetz, S. and Misener, S., Eds., Totowa, N.J.: Humana, 2000, pp. 365–386.Google Scholar
- 13.Hall, T.A., BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT, Nucleic Acids Symp., 1999, Ser. 41, pp. 95–98.Google Scholar
- 16.Excoffier, L., Laval, G., and Schneider, S., ARLEQUIN ver. 3.1: An Integrated Software Package for Population Genetics Data Analysis. Computational and Molecular Population Genetics Lab (CMPG), Bern: Institute of Zoology, University of Bern, 2006.Google Scholar
- 18.Raymond, M. and Rousset, F., GENEPOP (version 1.2): population genetics software for exact tests and ecumenicism, J. Hered., 1995, vol. 86, pp. 248–249.Google Scholar