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Plant Biol (Stuttg) 2004; 6(2): 128-139
DOI: 10.1055/s-2004-817837
Original Paper

Georg Thieme Verlag Stuttgart · New York

Geographic Distribution and Recombination of Genomic Fragments on the Short Arm of Chromosome 2 of Arabidopsis thaliana

H. Schmuths1 , M. H. Hoffmann2 , K. Bachmann1
  • 1Department of Taxonomy, Institute of Plant Genetics and Crop Plant Research, Gatersleben, Germany
  • 2Present address: Institute of Geobotany and Botanical Gardens, Halle, Germany
Weitere Informationen

Publikationsverlauf

Publikationsdatum:
26. März 2004 (online)

   Lizenzen und Reprints

Abstract

Range expansion from Pleistocene refugia and anthropogenic influences contribute to the present distribution pattern of Arabidopsis thaliana. We scored a genome-wide set of CAPSs and found two markers with an east-west geographic distribution across the Eurasian range of the species. Regions around the two SNPs were sequenced in 98 accessions, including newly collected plants from Middle Asia and Western Siberia. These regions correspond to a gene (∼ 1500 bp) and a non-coding region (∼ 500 bp) 300 kbp apart on chromosome 2. Nucleotide diversities, π, of the two sequenced fragments were 0.0032 and 0.0130. The haplotypes of both sequences belonged to one of two groups: a rather uniform “Asian” and a more variable “European” haplotype group, on the basis of non-disjunct clusters of SNPs. Recombination between “Asian” and “European” haplotypes occurs where they meet. Especially in the “European” haplotype, many rare SNP variants representing independent mutations are scattered among the shared haplotype-specific SNPs. This agrees with previous suggestions of two large haplotype groups in A. thaliana and the post-glacial colonization of central Europe from the east and the west. A clear correlation between climatic factors and the haplotype distribution may reflect the dispersal history rather than local climate adaptation. The pattern of SNP variation within the contiguous sequences explains why only a minority of SNPs selected across the genome show evidence of this geographic pattern.

Key words

Sequence polymorphism - Arabidopsis thaliana - natural populations - biogeography - pattern - recombination.

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H. Schmuths

Department of Taxonomy
Institute of Plant Genetics and Crop Plant Research

Corrensstraße 3

06466 Gatersleben

Germany

eMail: schmuths@ipk-gatersleben.de

Section Editor: M. Koornneef