Association between<i>COL1</i>and Flowering Time in<i>Brassica nigra</i>: Replication, Validation, and Genotypic Disequilibrium

Krouchi, Fazia; Gustavsson, Susanne; Sjödin, Per; Kruskopf‐Österberg, M.; Lagercrantz, Ulf; Lascoux, Martin

doi:10.1086/591989

Cited by 4 publications

(1 citation statement)

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“…We have come a long way from the isozyme studies of the 1970s and even candidate gene studies in the near future will have much more detailed information than those that use fewer than 10 markers (e.g., Krouchi et al 2008). The lament of Rostoks et al (2006) that “whole-genome association studies in crop plants, with the exception of rice, are currently limited by the number of markers available, their format, and cost” is no longer necessary.…”

Section: Discussionmentioning

confidence: 99%

Statistical genetic issues for genome-wide association studiesThis article is one of a selection of papers from the conference “Exploiting Genome-wide Association in Oilseed Brassicas: a model for genetic improvement of major OECD crops for sustainable farming”.

Weir

2010

Genome

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Genotyping technology now allows the rapid and affordable generation of million-SNP profiles for humans, leading to considerable activity in association mapping. Similar activity is anticipated for many plant species, including Brassica. These plant association mapping activities will require the same care in quality control and quality assurance as for humans. The subsequent analyses may draw upon the same body of theory that is described here in the language of quantitative genetics.

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Section: Discussionmentioning

confidence: 99%

Statistical genetic issues for genome-wide association studiesThis article is one of a selection of papers from the conference “Exploiting Genome-wide Association in Oilseed Brassicas: a model for genetic improvement of major OECD crops for sustainable farming”.

Weir

2010

Genome

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Polymorphism and Divergence at Three Duplicate Genes in Brassica nigra

et al. 2008

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The CONSTANS-like gene family has been shown to evolve exceptionally fast in Brassicaceae. In the present study we analyzed sequence polymorphism and divergence of three genes from this family: COL1 (CON-STANS-LIKE 1) and two copies of CO (CONSTANS), COa and COb, in B. nigra. There was a significant fourfold difference in overall nucleotide diversity among the three genes, with BniCOb having twice as much variation as BniCOL1, which in turn was twice as variable as BniCOa. The ratio of nonsynonymous-to-synonymous substitutions (dN/dS) was high for all three genes, confirming previous studies. While we did not detect evidence of selection at BniCOa and BniCOb, there was a significant excess of polymorphic synonymous mutations in a McDonald-Kreitman test comparing COL1 in B. nigra and A. thaliana. This is apparently the result of an increase in selective constraint on COL1 in B. nigra combined with a decrease in A. thaliana. In conclusion, a complex scenario involving both demography and selection seems to have shaped the pattern of polymorphism at the three genes.

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