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Sequence Variation and Haplotype Structure Surrounding the Flowering Time Locus FRI in Arabidopsis thaliana.

Hagenblad, Jenny LU and Nordborg, Magnus (2002) In Genetics 161(1). p.289-298
Abstract
Linkage disequilibrium in highly selfing organisms is expected to extend well beyond the scale of individual genes. The pattern of polymorphism in such species must thus be studied over a larger scale. We sequenced 14 short (0.5-1 kb) fragments from a 400-kb region surrounding the flowering time locus FRI in a sample of 20 accessions of Arabidopsis thaliana. The distribution of allele frequencies, as quantified by Tajima's D, varies considerably over the region and is incompatible with a standard neutral model. The region is characterized by extensive haplotype structure, with linkage disequilibrium decaying over 250 kb. In particular, recombination is evident within 35 kb of FRI in a haplotype associated with a functionally important... (More)
Linkage disequilibrium in highly selfing organisms is expected to extend well beyond the scale of individual genes. The pattern of polymorphism in such species must thus be studied over a larger scale. We sequenced 14 short (0.5-1 kb) fragments from a 400-kb region surrounding the flowering time locus FRI in a sample of 20 accessions of Arabidopsis thaliana. The distribution of allele frequencies, as quantified by Tajima's D, varies considerably over the region and is incompatible with a standard neutral model. The region is characterized by extensive haplotype structure, with linkage disequilibrium decaying over 250 kb. In particular, recombination is evident within 35 kb of FRI in a haplotype associated with a functionally important allele. This suggests that A. thaliana may be highly suitable for linkage disequilibrium mapping. (Less)
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author
organization
publishing date
type
Contribution to journal
publication status
published
subject
in
Genetics
volume
161
issue
1
pages
289 - 298
publisher
Genetics Society of America
external identifiers
  • pmid:12019242
  • wos:000175814900025
  • scopus:0036263045
ISSN
0016-6731
language
English
LU publication?
yes
id
715e9122-fb9c-44a8-9952-adddf5b601f9 (old id 108295)
alternative location
http://www.genetics.org/cgi/content/abstract/161/1/289
date added to LUP
2007-07-23 11:02:07
date last changed
2017-01-01 04:31:19
@article{715e9122-fb9c-44a8-9952-adddf5b601f9,
  abstract     = {Linkage disequilibrium in highly selfing organisms is expected to extend well beyond the scale of individual genes. The pattern of polymorphism in such species must thus be studied over a larger scale. We sequenced 14 short (0.5-1 kb) fragments from a 400-kb region surrounding the flowering time locus FRI in a sample of 20 accessions of Arabidopsis thaliana. The distribution of allele frequencies, as quantified by Tajima's D, varies considerably over the region and is incompatible with a standard neutral model. The region is characterized by extensive haplotype structure, with linkage disequilibrium decaying over 250 kb. In particular, recombination is evident within 35 kb of FRI in a haplotype associated with a functionally important allele. This suggests that A. thaliana may be highly suitable for linkage disequilibrium mapping.},
  author       = {Hagenblad, Jenny and Nordborg, Magnus},
  issn         = {0016-6731},
  language     = {eng},
  number       = {1},
  pages        = {289--298},
  publisher    = {Genetics Society of America},
  series       = {Genetics},
  title        = {Sequence Variation and Haplotype Structure Surrounding the Flowering Time Locus FRI in Arabidopsis thaliana.},
  volume       = {161},
  year         = {2002},
}