NDLI: Comparative Nucleotide Diversity Across North American and European Populus Species

Content Provider	Springer Nature Link
Author	Ismail, Mohamed Soolanayakanahally, Raju Y. Ingvarsson, Pär K. Guy, Robert D. Jansson, Stefan Silim, Salim N. El Kassaby, Yousry A.
Copyright Year	2012
Abstract	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 (θ w = 0.005, π T = 0.007) as compared to P. balsamifera (θ w = 0.004, π T = 0.005) or P. trichocarpa (θ w = 0.002, π 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 × 10−8 substitution/site/year) compared to the North American species (0.4 × 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 (≫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.
Starting Page	257
Ending Page	272
Page Count	16
File Format	PDF
ISSN	00222844
Journal	Journal of Molecular Evolution
Volume Number	74
Issue Number	5-6
e-ISSN	14321432
Language	English
Publisher	Springer-Verlag
Publisher Date	2012-05-06
Publisher Place	New York
Access Restriction	One Nation One Subscription (ONOS)
Subject Keyword	Populus Nucleotide diversity Linkage disequilibrium Selection Divergence Plant Genetics & Genomics Microbiology Evolutionary Biology Cell Biology Animal Genetics and Genomics Plant Sciences
Content Type	Text
Resource Type	Article
Subject	Genetics Molecular Biology Ecology, Evolution, Behavior and Systematics

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