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標題: | 開發水稻之單一核苷酸多型性品種鑑別系統 Development of Rice Variety Identification System using Single Nucleotide Polymorphic Markers |
作者: | Chia-Lin Chou 周佳霖 |
指導教授: | 胡凱康 |
關鍵字: | 水稻,品種鑑別,單一核?酸多型性, rice,variety identification,single nucleotide polymorphism (SNP), |
出版年 : | 2015 |
學位: | 碩士 |
摘要: | 本研究從水稻44K SNP晶片分析得到35,746筆包含413個廣泛來源的水稻基因型分析結果,經由篩選成功讀值率、SNP類型、對偶基因位置、次要對偶基因型頻度等資訊,得到表現較佳的130個SNP基因座,再經實驗測試,先選擇可判讀且於次族群中遺傳距離較遠的品種間具多型性的47個基因座後,對本研究收集到的49個目標品種基因型分析,挑選出適用於我國優良水稻推薦品種組合的10個SNP組成水稻SNP品種鑑別套件。使用的10個SNP標誌在49個包含我國優良水稻推薦品種的水稻品種間之平均PIC值為0.402,於49個品種間共1,176個兩兩組合之中,僅無法鑑別‘臺南16號’/‘越光’、‘臺東30號’/‘臺東33號’、‘臺中秈糯1號’/‘臺中秈糯2號’等背景相似度極高的三組品種。從篩選品種中選取遺傳距離最大且不具品種權保護的3個品種組成標準品種,其涵蓋100%的對偶基因型。 The goal of this study is to develop a set of single nucleotide polymorphism (SNP) markers for identification of Taiwan rice varieties. At first, 130 candidate SNP were selected based on call rates, SNP types, allele positions and minor allele frequency (MAF) from 35,746 SNP datasets which derived from 413 rice varieties analyzed by rice 44K SNP microarray chip. By laboratory analysis around 130 SNP and 8 genetically distinct japonica Taiwan rice varieties, we narrowed down the candidate SNP into 47 SNP loci. After genotyping 49 rice varieties with these 47 SNP markers, we found that a selected set of 10 SNP markers was capable to distinguish 1,173 pairs out of total 1,176 variety pairs except 3 pairs of closly related varieties, ‘TN16’/‘Koshihikari’, ‘TT30’/‘TT33’ and ‘TCSG1’/‘TCSG2’. The average of polymorphism information contents (PICs) is 0.402 for the selected set. We also selected 3 varieties as reference varieties that they have largest genetic distance within 49 Taiwan rice varieties and all without protect by Plant Variety Right. The reference varieties cover 100% of the alleles of 49 rice varieties used in this study. |
URI: | http://tdr.lib.ntu.edu.tw/jspui/handle/123456789/4500 |
全文授權: | 同意授權(全球公開) |
顯示於系所單位: | 農藝學系 |
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