Use of methylation filtration and Cot fractionation for analysis of genome composition and comparative genomics in bread wheat

查看全文 作　　者：Rajib [1,2]Bandopadhyay;Sachin [1,3]Rustgi;Rajat Kanti [4]Chaudhuri;Paramjit [5]Khuran;Jitendra Paul [5]Khurana;Akhilesh Kumar [5]Tyagi;Harindra Singh [1]Balyan;Andreas [6]Houben;Pushpendra Kumar [1]Gupta 机构地区：[1]Department of Genetics & Plant Breeding, Ch. Charan Singh University, Meerut 250004, India;[2]Department of Biotechnology, Birla Institute of Technology, Mesra 835215, Ranchi, India;[3]Department of Crop & Soil Sciences, Washington State University, Pullman 99163, USA;[4]Department of Botany, University of Calcutta, Kolkata 700019, India;[5]Department of Plant Molecular Biology, University of Delhi South Campus, New Delhi 110021, India;[6]Leibniz Institute of Plant Genetics and Crop Plant Research, Corrensstrasse-03, Gatersleben 06466, Germany 出　　处：《Journal of Genetics and Genomics》索引2011年第38卷第7期,共11页 基　　金：supported by the Government of India's Departments of Biotechnology,and Science and Technology, Indian National Science Academy,and National Institute of Health grant(No.1 R01 GM080749-01A1) 摘　　要：We investigated the compositional and structural differences in sequences derived from different fractions of wheat genomic DNA obtained using methylation filtration and C0t fractionation.Comparative analysis of these sequences revealed large compositional and structural variations in terms of GC content,different structural elements including repeat sequences(e.g.,transposable elements and simple sequence repeats), protein coding genes,and non-coding RNA genes.A correlation between methylation status[determined on the basis of selective inclusion/ exclusion in methylation-filtered(MF) library]of different repeat elements and expression level was observed.The expression levels were determined by comparing MF sequences with expressed sequence tags(ESTs) available in the public domain.Only a limited overlap among MF, high C0t(HC),and ESTs was observed,suggesting that these sequences may largely either represent the low-copy non-transcribed sequences or include genes with low expression levels.Thus,these results indicated a need to study MF and HC sequences along with ESTs to fully appreciate complexity of wheat gene space. 关 键 词：比较基因组学 面包小麦 甲基化 COT 过滤 分馏 简单重复序列 基因表达水平