基于 Cot 的基因富集在小麦（普通小麦）中的功效。

The efficacy of Cot-based gene enrichment in wheat (Triticum aestivum L.).

作者信息

Lamoureux Didier, Peterson Daniel G, Li Wanlong, Fellers John P, Gill Bikram S

机构信息

Wheat Genetics Resource Center, Department of Plant Pathology, Kansas State University, Manhattan 66506, USA.

出版信息

Genome. 2005 Dec;48(6):1120-6. doi: 10.1139/g05-080.

DOI:10.1139/g05-080

PMID:16391681

Abstract

We report the results of a study on the effectiveness of Cot filtration (CF) in the characterization of the gene space of bread wheat (Triticum aestivum L.), a large genome species (1C = 16,700 Mb) of tremendous agronomic importance. Using published Cot data as a guide, 2 genomic libraries for hexaploid wheat were constructed from the single-stranded DNA collected at Cot values > 1188 and 1639 M x s. Compared with sequences from a whole genome shotgun library from Aegilops tauschii (the D genome donor of bread wheat), the CF libraries exhibited 13.7-fold enrichment in genes, 5.8-fold enrichment in unknown low-copy sequences, and a 3-fold reduction in repetitive DNA. CF is twice as efficient as methylation filtration at enriching wheat genes. This research suggests that, with improvements, CF will be a highly useful tool in sequencing the gene space of wheat.

摘要

我们报告了一项关于 Cot 过滤（CF）在表征面包小麦（Triticum aestivum L.）基因空间方面有效性的研究结果。面包小麦是一种具有巨大农学重要性的大基因组物种（1C = 16,700 Mb）。以已发表的 Cot 数据为指导，从 Cot 值 > 1188 和 1639 M x s 收集的单链 DNA 构建了两个六倍体小麦基因组文库。与来自节节麦（面包小麦的 D 基因组供体）的全基因组鸟枪法文库的序列相比，CF 文库在基因方面表现出 13.7 倍的富集，在未知低拷贝序列方面表现出 5.8 倍的富集，并且重复 DNA 减少了 3 倍。在富集小麦基因方面，CF 的效率是甲基化过滤的两倍。这项研究表明，经过改进后，CF 将成为测序小麦基因空间的非常有用的工具。