Phylogeography of Larix sukaczewii Dyl. and Larix sibirica L. inferred from nucleotide variation of nuclear genes

Neyton H.T. Araki, Ismael A. Khatab, Kariyawasam K.G.U. Hemamali, Nobuyuki Inomata, Xiao Ru Wang, Alfred Szmidt

Research output: Contribution to journalArticle

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Abstract

We investigated phylogeography of Larix sukaczewii and Larix sibirica using nucleotide variation at three following nuclear gene regions: 5.8 S rDNA including two internal transcribed spacers (ITS), cinnamyl alcohol dehydrogenase (CAD), and phytochrome-O (PHYO). We also included sequences of the 4-coumarate: coenzyme A ligase (4CL) gene region obtained in our recent study. CAD and PHYO showed very low nucleotide variation, but ITS and 4CL had levels of variation similar to those reported for other conifers. Pleistocene refugia have been hypothesized to exist in the Southern Urals and South Central Siberia, where four out of nine of the investigated populations occur. We found moderate to high levels of population differentiation (F ST =0.115-0.531) in some pairwise comparisons suggesting limited gene flow and independent evolution of some refugial populations. In L. sukaczewii, low levels of differentiation were found among populations from areas glaciated during the Pleistocene, indicating their recent origin. Our results also suggest these populations were created by migrants from multiple, genetically distinct refugia. Furthermore, some haplotypes observed in populations from previously glaciated areas were not found in putative refugial populations, suggesting these populations might have contributed little to the extant populations created after the Last Glacial Maximum. Some authors regard L. sukaczewii and L. sibirica as a single species, while others consider them as separate species. The observed conspicuous differences in haplotype composition and distribution between L. sukaczewii and L. sibirica, together with high values of F ST between populations of the two species, appear to support the latter classification.

Original languageEnglish
Pages (from-to)611-623
Number of pages13
JournalTree Genetics and Genomes
Volume4
Issue number4
DOIs
Publication statusPublished - Oct 1 2008

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Larix
Larix sibirica
Phylogeography
phylogeography
Nucleotides
nucleotides
refugium
gene
alcohol
Pleistocene
Population
Genes
genes
Last Glacial Maximum
gene flow
coniferous tree
Coenzyme A Ligases
Phytochrome
cinnamyl alcohol dehydrogenase
coenzyme A

All Science Journal Classification (ASJC) codes

  • Forestry
  • Molecular Biology
  • Genetics
  • Horticulture

Cite this

Araki, N. H. T., Khatab, I. A., Hemamali, K. K. G. U., Inomata, N., Wang, X. R., & Szmidt, A. (2008). Phylogeography of Larix sukaczewii Dyl. and Larix sibirica L. inferred from nucleotide variation of nuclear genes. Tree Genetics and Genomes, 4(4), 611-623. https://doi.org/10.1007/s11295-008-0137-1

Phylogeography of Larix sukaczewii Dyl. and Larix sibirica L. inferred from nucleotide variation of nuclear genes. / Araki, Neyton H.T.; Khatab, Ismael A.; Hemamali, Kariyawasam K.G.U.; Inomata, Nobuyuki; Wang, Xiao Ru; Szmidt, Alfred.

In: Tree Genetics and Genomes, Vol. 4, No. 4, 01.10.2008, p. 611-623.

Research output: Contribution to journalArticle

Araki, Neyton H.T. ; Khatab, Ismael A. ; Hemamali, Kariyawasam K.G.U. ; Inomata, Nobuyuki ; Wang, Xiao Ru ; Szmidt, Alfred. / Phylogeography of Larix sukaczewii Dyl. and Larix sibirica L. inferred from nucleotide variation of nuclear genes. In: Tree Genetics and Genomes. 2008 ; Vol. 4, No. 4. pp. 611-623.
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