论文部分内容阅读
用45个已知功能的植物抗病(R)基因序列对粳稻全基因组序列进行搜索,共找出2119个R基因同源序列或类似物(RGA),表明RGA在水稻基因组中成簇存在,呈非随机分布.采用隐马尔柯夫模型(HMM),将这些RGA按其功能域分成了21类.将粳稻的RGA与籼稻的基因组序列进行比较,共找到702个两亚种间等位的RGA,并发现其中有671个(占95.6%)RGA的基因组序列(包括编码区和非编码区)在两亚种间存在长度差异(InDel),表明水稻RGA在两亚种间存在很高的多态性.通过在InDel两侧设计引物并进行e-PCR验证,共开发出402个基于PCR的、表现为共显性的候选RGA标记.这些候选标记在两亚种间的长度差异在1~742bp之间,平均为10.26bp.有关数据均可从我们的网站(http://ibi.zju.edu.cn/RGAs/index.html)上获得.
A total of 2119 R gene homologues or analogs (RGA) were screened from 45 known plant disease resistance (R) gene sequences, indicating that RGA is clustered in rice genomes. Were randomly distributed.Using the Hidden Markov Model (HMM), these RGA were divided into 21 categories according to their functional domains.Comparing the RGA of japonica rice with the genome sequence of indica rice, 702 alleles RGA. The genomic sequence (including coding region and non-coding region) of 671 (95.6%) RGA was found between two subspecies. The results showed that rice RGA had high Polymorphism: 402 PCR-based, co-dominant candidate RGA markers were developed by designing primers on both sides of InDel and performing e-PCR validation.The differences in length of these candidate markers between the two subspecies were between 1 ~ 742bp with an average of 10.26bp The data is available on our website (http://ibi.zju.edu.cn/RGAs/index.html).