Faculty of Forestry, University of British Columbia, Vancouver, B.C., Canada V6T 1Z4.
J Microbiol Methods. 2011 Sep;86(3):368-75. doi: 10.1016/j.mimet.2011.06.019. Epub 2011 Jul 3.
We offer a guide to de novo genome assembly using sequence data generated by the Illumina platform for biologists working with fungi or other organisms whose genomes are less than 100Mb in size. The guide requires no familiarity with sequencing assembly technology or associated computer programs. It defines commonly used terms in genome sequencing and assembly; provides examples of assembling short-read genome sequence data for four strains of the fungus Grosmannia clavigera using four assembly programs; gives examples of protocols and software; and presents a commented flowchart that extends from DNA preparation for submission to a sequencing center, through to processing and assembly of the raw sequence reads using freely available operating systems and software.
我们提供了一个使用 Illumina 平台生成的序列数据从头开始组装基因组的指南，适用于研究真菌或其他基因组小于 100Mb 的生物体的生物学家。该指南不需要熟悉测序组装技术或相关的计算机程序。它定义了基因组测序和组装中常用的术语；提供了使用四个组装程序为 Grosmannia clavigera 真菌的四个菌株组装短读长基因组序列数据的示例；给出了协议和软件的示例；并展示了一个带注释的流程图，从提交给测序中心的 DNA 准备开始，一直到使用免费的操作系统和软件处理和组装原始序列读段。
