Ancient split of major genetic lineages of European Black Pine: evidence from chloroplast DNA

Krassimir D. Naydenov*, Michel K. Naydenov, Alexander Alexandrov, Kole Vasilevski, Veselka Gyuleva, Vlado Matevski, Biljana Nikolic, Venceslas Goudiaby, Faruk Bogunic, Despina Paitaridou, Andreas Christou, Irina Goia, Christopher Carcaillet, Adrian Escudero Alcantara, Cengiz Ture, Suleyman Gulcu, Lorenzo Peruzzi, Salim Kamary, Srdjan Bojovic, Georgi HinkovAnatoly Tsarev

*Corresponding author for this work

Research output: Contribution to journalArticleAcademicpeer-review

12 Citations (Scopus)


The European Black Pine (Pinus nigra Arn.) has a long and complex history. Genetic distance and frequency analyses identified three differentiated genetic groups, which corresponded to three wide geographical areas: Westerns Mediterranean, Balkan Peninsula and Asia Minor. These groups shared common ancestors (14.75 and 10.72 Ma). The most recent splits occurred after the Messinian Salinity Crisis (4.37 Ma) and the Early–Middle Pleistocene Transitions (0.93 Ma). The posterior ancestral population size (Na) is 260,000–265,000 individuals. Each pool is further fragmented, with evidence of a phylogeographic structure (Nst > Gst) typically observed in some natural populations from the Western Mediterranean region and the Balkan Peninsula. The laboratory analysis was performed by fragment analysis—i.e. electrophoretic sizing of polymerase chain reaction fragments, combined with the sequencing analysis of 33 % of all individuals as a control. Intense sampling of chloroplast DNA polymorphisms (3154 individuals and 13 markers: SNPs and SSRs) over the full area of the species’ natural distribution indicated moderate among-population variability (Gst(nc) ≤ 0.177) in various parts of its range. These results indicate that the natural populations have long migration histories that differ from one another and that they have been strongly phylogeographically affected by complex patterns of isolation, speciation and fragmentation. Long and varying climatic fluctuations in the region of the principal genetic group have been the probable cause of different forest community associations with different successional patterns resulting in interglacial refugia vs. macro long-term refugia.

Original languageEnglish
Article number68
JournalTree Genetics and Genomes
Issue number4
Publication statusPublished - 2016


  • Chloroplast DNA
  • Phylogeography
  • Pinus nigra
  • Population structure
  • SNP
  • SSR


Dive into the research topics of 'Ancient split of major genetic lineages of European Black Pine: evidence from chloroplast DNA'. Together they form a unique fingerprint.

Cite this