Natural variation in CIRCADIAN CLOCK ASSOCIATED 1 is associated with flowering time in Brassica rapa.
Flowering time is a very important agronomic trait and the development of molecular markers associated with this trait can facilitate crop breeding. CIRCADIAN CLOCK ASSOCIATED 1 (CCA1), a core oscillator component of circadian rhythms that affect metabolic pathways in plants, has been implicated in flowering time control in species of Brassica. CCA1 gene sequences from three Brassica rapa inbred lines, showing either early flowering or late flowering phenotypes, were analyzed and a high level of sequence variation was identified, especially within the fourth intron. Using this information, three PCR primer sets were designed and tested using various inbred lines of B. rapa. The usage of InDel markers was further validated by evaluation of flowering time and high resolution melting (HRM) analysis. Both methods, PCR and HRM, validated the use of newly developed markers. Additional sequence analyses of Brassica plants with diploid (AA, BB, or CC) and allotetraploid genomes further confirmed a large number of sequence polymorphisms in the CCA1 gene, including insertions/deletions in the fourth intron. Our results demonstrated that sequence variations in CCA1 can be used to develop valuable trait-related molecular markers for Brassica crop breeding.
a Department of Biological Science, College of Bioscience and Biotechnology, Chungnam National University, Daejeon 305-764, Republic of Korea.
Hankuil
H
Yi
b Department of Horticulture, Chungnam National University, Gung-Dong, Yuseong-Gu, Daejeon 305-764, Republic of Korea.|d Department of Horticulture, Shenyang Agricultural University, Shenyang, China.
Xiaonan
X
Li
b Department of Horticulture, Chungnam National University, Gung-Dong, Yuseong-Gu, Daejeon 305-764, Republic of Korea.
Seong Ho
SH
Lee
c Department of Horticulture, Sunchon National University, Suncheon, Jeonnam, Republic of Korea.
Ill-Sup
IS
Nou
b Department of Horticulture, Chungnam National University, Gung-Dong, Yuseong-Gu, Daejeon 305-764, Republic of Korea.
Yong Pyo
YP
Lim
a Department of Biological Science, College of Bioscience and Biotechnology, Chungnam National University, Daejeon 305-764, Republic of Korea.
Yoonkang
Y
Hur
D029741:Brassica rapa / Q000145:classification / Q000235:genetics*; D056925:Circadian Rhythm Signaling Peptides and Proteins / Q000235:genetics*; D018744:DNA, Plant / Q000737:chemistry / Q000235:genetics; D004171:Diploidy; D035264:Flowers / Q000235:genetics*; D014644:Genetic Variation; D018745:Genome, Plant / Q000235:genetics; D054643:INDEL Mutation; D010641:Phenotype; D010802:Phylogeny; D000069600:Plant Breeding / Q000379:methods; D010940:Plant Proteins / Q000235:genetics*; D017422:Sequence Analysis, DNA; D057891:Tetraploidy; D013997:Time Factors
D056925:Circadian Rhythm Signaling Peptides and Proteins; D018744:DNA, Plant; D010940:Plant Proteins
Brassica rapa; CCA1; PCR markers; date de floraison; flowering time; marqueurs PCR; sequence variation; variation nucléotidique