The number of genes having different alleles between rice cultivars estimated by SNP analysis
The number of genes having different alleles between rice cultivars estimated by SNP analysis
复制标题
DOI：
10.1007/s00122-007-0632-z
复制
发表时间：
2007-09
影响因子：
5.4
通讯作者：
K. Shirasawa;Hiroaki Maeda;L. Monna;S. Kishitani;T. Nishio
中科院分区：
文献类型：
--
作者：
K. Shirasawa;Hiroaki Maeda;L. Monna;S. Kishitani;T. Nishio
大量基因中单核苷酸多态性 (SNP) 的鉴定将能够估计群体中具有不同等位基因的基因数量。本研究通过PCR-RF-SSCP分析了21个水稻品种之间的SNP，其中包括17个日本品种、1个旱稻和3个籼稻品种。尽管 PCR-RF-SSCP 和错配切割分析都可用于筛选 SNP，但 PCR-RF-SSCP 分析被发现是比错配切割分析更有效的 SNP 检测方法。在分析的 1,036 个基因中，显示日本品种之间多态性的 DNA 片段数量为 134 个。在 137 个基因中，鉴定出 638 个 DNA 多态性。 52个外显子存在多态性的基因中，1个存在移码突变，3个存在导致氨基酸插入或缺失的多态性，16个基因存在错义多态性。估计 17 个日本品种之间的移码突变和错义多态性基因数量平均分别为 41 和 677 个，粳稻和粳稻品种之间的移码突变和错义多态性基因数量分别为 425 和 6,977 个。通过基因 SNP 分析来鉴定水稻育种过程中选择的品种的染色体区域。
Identification of single nucleotide polymorphisms (SNPs) in a large number of genes will enable estimation of the number of genes having different alleles in a population. In the present study, SNPs between 21 rice cultivars including 17 Japanese cultivars, one upland rice, and threeindicacultivars were analyzed by PCR–RF–SSCP. PCR–RF–SSCP analysis was found to be a more efficient method for detecting SNPs than mismatch–cleavage analysis, though both PCR–RF–SSCP and mismatch–cleavage are useful for screening SNPs. The number of DNA fragments showing polymorphism between Japanese cultivars was 134 in the 1,036 genes analyzed. In 137 genes, 638 DNA polymorphisms were identified. Out of 52 genes having polymorphisms in the exons, one had a frame-shift mutation, three had polymorphism causing amino acid insertions or deletions, and 16 genes had missense polymorphisms. The number of genes having frame-shift mutations and missense polymorphisms between the 17 Japanese cultivars was estimated to be 41 and 677 on average, respectively, and those betweenjaponicaandindicato be 425 and 6,977, respectively. Chromosomal regions of cultivars selected in rice breeding processes were identified by SNP analysis of genes.