help button home button Genetics J Clin Inv
HOME HELP FEEDBACK SUBSCRIPTIONS ARCHIVE SEARCH TABLE OF CONTENTS
Originally published as Genetics Published Articles Ahead of Print on February 3, 2008.

Genetics, Vol. 178, 2217-2226, April 2008, Copyright © 2008
doi:10.1534/genetics.107.082354

This Article
Right arrow Full Text
Right arrow Full Text (PDF)
Right arrow Data Supplement
Right arrow All Versions of this Article:
genetics.107.082354v1
178/4/2217    most recent
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Download to citation manager
Right arrow reprints & permissions
Google Scholar
Right arrow Articles by Ingvarsson, P. K.
Right arrow Articles by Jansson, S.
PubMed
Right arrow PubMed Citation
Right arrow Articles by Ingvarsson, P. K.
Right arrow Articles by Jansson, S.

Nucleotide Polymorphism and Phenotypic Associations Within and Around the phytochrome B2 Locus in European Aspen (Populus tremula, Salicaceae)

Pär K. Ingvarsson*,1, M. Victoria Garcia*, Virginia Luquez{dagger}, David Hall* and Stefan Jansson{dagger}

* Department of Ecology and Environmental Science and {dagger} Department of Plant Physiology, Umeå Plant Science Centre, Umeå University, SE-901 87 Umeå, Sweden

1 Corresponding author: Department of Ecology and Environmental Science, Umeå Plant Science Centre, Umeå University, SE-90187 Umeå, Sweden.
E-mail: par.ingvarsson{at}emg.umu.se

We investigated the utility of association mapping to dissect the genetic basis of naturally occurring variation in bud phenology in European aspen (Populus tremula). With this aim, we surveyed nucleotide polymorphism in 13 fragments spanning an 80-kb region surrounding the phytochrome B2 (phyB2) locus. Although polymorphism varies substantially across the phyB2 region, we detected no signs for deviations from neutral expectations. We also identified a total of 41 single nucleotide polymorphisms (SNPs) that were subsequently scored in a mapping population consisting of 120 trees. We identified two nonsynonymous SNPs in the phytochrome B2 gene that were independently associated with variation in the timing of bud set and that explained between 1.5 and 5% of the observed phenotypic variation in bud set. Earlier studies have shown that the frequencies of both these SNPs vary clinally with latitude. Linkage disequilibrium across the region was low, suggesting that the SNPs we identified are strong candidates for being causally linked to variation in bud set in our mapping populations. One of the SNPs (T608N) is located in the "hinge region," close to the chromophore binding site of the phyB2 protein. The other SNP (L1078P) is located in a region supposed to mediate downstream signaling from the phyB2 locus. The lack of population structure, combined with low levels of linkage disequilibrium, suggests that association mapping is a fruitful method for dissecting naturally occurring variation in Populus tremula.






HOME HELP FEEDBACK SUBSCRIPTIONS ARCHIVE SEARCH TABLE OF CONTENTS
Copyright © 2008 by the Genetics Society of America.