Identification of candidate genes for the seed coat colour change in a Brachypodium distachyon mutant induced by gamma radiation using whole-genome re-sequencing.
Brachypodium distachyon has been proposed as a model plant for agriculturally important cereal crops such as wheat and barley. Seed coat colour change from brown-red to yellow was observed in a mutant line (142-3) of B. distachyon, which was induced by chronic gamma radiation. In addition, dwarf phenotypes were observed in each of the lines 142-3, 421-2, and 1376-1. To identify causal mutations for the seed coat colour change, the three mutant lines and the wild type were subjected to whole-genome re-sequencing. After removing natural variations, 906, 1057, and 978 DNA polymorphisms were detected in 142-3, 421-2, and 1376-1, respectively. A total of 13 high-risk DNA polymorphisms were identified in mutant 142-3. Based on a comparison with DNA polymorphisms in 421-2 and 1376-1, candidate causal mutations for the seed coat colour change in 142-3 were selected. In the two independent Arabidopsis thaliana lines carrying T-DNA insertions in the AtCHI, seed colour change was observed. We propose a frameshift mutation in BdCHI1 as a causal mutation responsible for seed colour change in 142-3. The DNA polymorphism information for these mutant lines can be utilized for functional genomics in B. distachyon and cereal crops.
a Department of Biotechnology, College of Life Sciences & Biotechnology, Korea University, Seoul 02841, Korea.
Man Bo
MB
Lee
b Division of Biotechnology, College of Life Sciences & Biotechnology, Korea University, Seoul 02841, Korea.
Dae Yeon
DY
Kim
b Division of Biotechnology, College of Life Sciences & Biotechnology, Korea University, Seoul 02841, Korea.
Yong Weon
YW
Seo
D058431:Brachypodium / Q000235:genetics / Q000528:radiation effects*; D009154:Mutation; D010641:Phenotype; D010940:Plant Proteins / Q000235:genetics* / Q000528:radiation effects; D011110:Polymorphism, Genetic; D012639:Seeds / Q000235:genetics / Q000528:radiation effects; D017422:Sequence Analysis, DNA / Q000379:methods*
D010940:Plant Proteins
Brachypodium distachyon; InDel; SNP; couleur du tégument de la graine; gamma radiation; irradiation gamma; seed coat colour