Large-scale DNA polymorphism study of Oryza sativa and O-rufipogon reveals the origin and divergence of Asian rice
Large-scale DNA polymorphism study of Oryza sativa and O-rufipogon reveals the origin and divergence of Asian rice
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DOI：
10.1007/s00122-006-0473-1
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发表时间：
2007-02-01
影响因子：
5.4
通讯作者：
Terauchi, Ryohei
中科院分区：
文献类型：
--
作者：
Rakshit, Sujay;Rakshit, Arunita;Terauchi, Ryohei
对30份栽培稻及其野生近缘种的26 kb DNA序列进行了多态性分析，发现该序列分布在第1、2、3、4染色体上，共有22个位点，其中1个区域的多态性最高。利用所有的DNA序列进行系统发育分析表明，O.紫花苜蓿属籼型和亚种japonica是从野生种O.野甘草属O.紫花苜蓿属籼稻的遗传多样性指数（PI）为0.0024，而水稻的遗传多样性指数（PI）为0.0024。japonica表现出极低的核苷酸多样性（pi = 0.0001），表明后者起源于少数奠基者。O.紫花苜蓿属japonica与SSP相比含有大量的衍生的和固定的非同义置换。印度核苷酸多样性和系谱史在22个基因座之间有很大差异。2号染色体上的一个RLD15位点显示出与ssp. japonica序列与O. rufipogon和O.紫花苜蓿属印度连锁不平衡（LD）分析在两个不同的区域。O中的LD。rufipogon在5kb内衰减，而O.紫花苜蓿属印度
Polymorphism over similar to 26 kb of DNA sequence spanning 22 loci and one region distributed on chromosomes 1, 2, 3 and 4 was studied in 30 accessions of cultivated rice, Oryza sativa, and its wild relatives. Phylogenetic analysis using all the DNA sequences suggested that O. sativa ssp. indica and ssp. japonica were independently domesticated from a wild species O. rufipogon. O. sativa ssp. indica contained substantial genetic diversity (pi = 0.0024), whereas ssp. japonica exhibited extremely low nucleotide diversity (pi = 0.0001) suggesting the origin of the latter from a small number of founders. O. sativa ssp. japonica contained a larger number of derived and fixed non-synonymous substitutions as compared to ssp. indica. Nucleotide diversity and genealogical history substantially varied across the 22 loci. A locus, RLD15 on chromosome 2, showed a distinct genealogy with ssp. japonica sequences distantly separated from those of O. rufipogon and O. sativa ssp. indica. Linkage disequilibrium (LD) was analyzed in two different regions. LD in O. rufipogon decays within 5 kb, whereas it extends to similar to 50 kb in O. sativa ssp. indica.