RRC ID 671
Author Saitoh K, Onishi K, Mikami I, Thidar K, Sano Y.
Title Allelic diversification at the C (OsC1) locus of wild and cultivated rice: nucleotide changes associated with phenotypes.
Journal Genetics
Abstract Divergent phenotypes are often detected in domesticated plants despite the existence of invariant phenotypes in their wild forms. One such example in rice is the occurrence of varying degrees of apiculus coloration due to anthocyanin pigmentation, which was previously reported to be caused by a series of alleles at the C locus. The present study reveals, on the basis of comparison of its maps, that the C gene appears to be the rice homolog (OsC1) of maize C1, which belongs to the group of R2R3-Myb factors. Two different types of deletions causing a frameshift were detected in the third exon, and both of the deleted nucleotides corresponded to the positions of putative base-contacting residues, suggesting that the Indica and Japonica types carry loss-of-function mutations with independent origins. In addition, replacement substitutions were frequently detected in OsC1 of strains carrying the previously defined C alleles. Molecular population analysis revealed that 17 haplotypes were found in 39 wild and cultivated rices, and the haplotypes of most cultivated forms could be classified into one of three distinct groups, with few shared haplotypes among taxa, including Indica and Japonica types. The genealogy of the OsC1 gene suggests that allelic diversification causing phenotypic change might have resulted from mutations in the coding region rather than from recombination between preexisting alleles. The McDonald and Kreitman test revealed that the changes in amino acids might be associated with selective forces acting on the lineage of group A whose haplotypes were carried by most Asian cultivated forms. The results regarding a significant implication for genetic diversity in landraces of rice are also discussed.
Volume 168(2)
Pages 997-1007
Published 2004-10
DOI 10.1534/genetics.103.018390
PII 168/2/997
PMID 15514070
PMC PMC1448844
MeSH Alleles* Amino Acid Substitution Base Sequence DNA-Binding Proteins / genetics* Gene Deletion Genetic Variation* Haplotypes / genetics Molecular Sequence Data Oryza / genetics* Phenotype Plant Proteins* / genetics Proto-Oncogene Proteins c-myb* Sequence Homology, Nucleic Acid Zea mays / genetics
IF 3.564
Times Cited 58
Rice W2002 W2012 W1865 W1819 W1294 W1943 W1944 W025 W1468 W1647 W1187