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Nat Genet. 2013 Aug;45(8):884-890. doi: 10.1038/ng.2678. Epub 2013 Jun 23.

Massive genomic variation and strong selection in Arabidopsis thaliana lines from Sweden.

Author information

1
Gregor Mendel Institute, Austrian Academy of Sciences, Vienna, Austria.
2
Molecular and Computational Biology, University of Southern California, Los Angeles, California, USA.
3
Max F. Perutz Laboratories, University of Vienna, Vienna, Austria.
4
Central European Institute of Technology, Masaryk University, Brno, Czech Republic.
#
Contributed equally

Abstract

Despite advances in sequencing, the goal of obtaining a comprehensive view of genetic variation in populations is still far from reached. We sequenced 180 lines of A. thaliana from Sweden to obtain as complete a picture as possible of variation in a single region. Whereas simple polymorphisms in the unique portion of the genome are readily identified, other polymorphisms are not. The massive variation in genome size identified by flow cytometry seems largely to be due to 45S rDNA copy number variation, with lines from northern Sweden having particularly large numbers of copies. Strong selection is evident in the form of long-range linkage disequilibrium (LD), as well as in LD between nearby compensatory mutations. Many footprints of selective sweeps were found in lines from northern Sweden, and a massive global sweep was shown to have involved a 700-kb transposition.

PMID:
23793030
PMCID:
PMC3755268
DOI:
10.1038/ng.2678
[Indexed for MEDLINE]
Free PMC Article

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