Sequencing of chloroplast genome using whole cellular DNA and Solexa sequencing technology

文献类型： 外文期刊

第一作者： Wu, Jian

作者： Wu, Jian;Liu, Bo;Cheng, Feng;Wang, Xiao-Wu;Ramchiary, Nirala;Choi, Su Ryun;Lim, Yong Pyo

作者机构：

关键词： chloroplast genome;sequencing;Solexa sequencing technology;whole cellular DNA;Brassica rapa

期刊名称：FRONTIERS IN PLANT SCIENCE （ 影响因子：5.753； 五年影响因子：6.612 ）

ISSN： 1664-462X

年卷期： 2012 年 3 卷

页码：

收录情况： SCI

摘要： Sequencing of the chloroplast (cp) genome using traditional sequencing methods has been difficult because of its size (>120 kb) and the complicated procedures required to prepare templates. To explore the feasibility of sequencing the cp genome using DNA extracted from whole cells and Solexa sequencing technology, we sequenced whole cellular DNA isolated from leaves of three Brassica rapa accessions with one lane per accession. In total, 246, 362, and 361 Mb sequence data were generated for the three accessions Chiifu-401-42, Z16, and FT respectively. Micro-reads were assembled by reference-guided assembly using the cpDNA sequences of B. rapa, Arabidopsis thaliana, and Nicotiana tabacum. We achieved coverage of more than 99.96% of the cp genome in the three tested accessions using the B. rapa sequence as the reference. When A. thaliana or N. tabacum sequences were used as references, 99.7-99.8 or 95.5-99.7% of the B. rapa cp genome was covered, respectively. These results demonstrated that sequencing of whole cellular DNA isolated from young leaves using the Illumina Genome Analyzer is an efficient method for high-throughput sequencing of cp genome.

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