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Comparative Nucleotide Diversity Across North American and European Populus Species
Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för ekologi, miljö och geovetenskap.
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2012 (Engelska)Ingår i: Journal of Molecular Evolution, ISSN 0022-2844, E-ISSN 1432-1432, Vol. 74, nr 5-6, s. 257-272Artikel i tidskrift (Refereegranskat) Published
Abstract [en]

Nucleotide polymorphisms in two North American balsam poplars (Populus trichocarpa Torr. & Gray and P. balsamifera L.; section Tacamahaca), and one Eurasian aspen (P. tremula L.; section Populus) were compared using nine loci involved in defense, stress response, photoperiodism, freezing tolerance, and housekeeping. Nucleotide diversity varied among species and was highest for P. tremula (theta (w) = 0.005, pi (T) = 0.007) as compared to P. balsamifera (theta (w) = 0.004, pi (T) = 0.005) or P. trichocarpa (theta (w) = 0.002, pi (T) = 0.003). Across species, the defense and the stress response loci accounted for the majority of the observed level of nucleotide diversity. In general, the studied loci did not deviate from neutral expectation either at the individual locus (non-significant normalized Fay and Wu's H) or at the multi-locus level (non-significant HKA test). Using molecular clock analysis, section Tacamahaca probably shared a common ancestor with section Populus approximately 4.5 million year ago. Divergence between the two closely related balsam poplars was about 0.8 million years ago, a pattern consistent with an isolation-with-migration (IM) model. As expected, P. tremula showed a five-fold higher substitution rate (2 x 10(-8) substitution/site/year) compared to the North American species (0.4 x 10(-8) substitution/site/year), probably reflecting its complex demographic history. Linkage disequilibrium (LD) varied among species with a more rapid decay in the North American species (< 400 bp) in comparison to P. tremula (a parts per thousand << 400 bp). The similarities in nucleotide diversity pattern and LD decay of the two balsam poplar species likely reflects the recent time of their divergence.

Ort, förlag, år, upplaga, sidor
2012. Vol. 74, nr 5-6, s. 257-272
Nyckelord [en]
Populus, Nucleotide diversity, Linkage disequilibrium, Selection, Divergence
Nationell ämneskategori
Biokemi och molekylärbiologi
Identifikatorer
URN: urn:nbn:se:umu:diva-60345DOI: 10.1007/s00239-012-9504-5ISI: 000307249400004OAI: oai:DiVA.org:umu-60345DiVA, id: diva2:563528
Tillgänglig från: 2012-10-30 Skapad: 2012-10-09 Senast uppdaterad: 2018-06-08Bibliografiskt granskad

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Ingvarsson, Pär K.Jansson, Stefan

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Ingvarsson, Pär K.Jansson, Stefan
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Institutionen för ekologi, miljö och geovetenskapInstitutionen för fysiologisk botanikUmeå Plant Science Centre (UPSC)
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Journal of Molecular Evolution
Biokemi och molekylärbiologi

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