Yuan Q, Liang F, Hsiao J, Zismann V, Benito M I, Quackenbush J, Wing R, Buell R
The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA.
Nucleic Acids Res. 2000 Sep 15;28(18):3636-41. doi: 10.1093/nar/28.18.3636.
A wealth of molecular resources have been developed for rice genomics, including dense genetic maps, expressed sequence tags (ESTs), yeast artificial chromosome maps, bacterial artificial chromosome (BAC) libraries and BAC end sequence databases. Integration of genetic and physical maps involves labor-intensive empirical experiments. To accelerate the integration of the bacterial clone resources with the genetic map for the International Rice Genome Sequencing Project, we cleaned and filtered the available EST and BAC end sequences for repetitive sequences and then searched all available rice genetic markers with our filtered databases. We identified 418 genetic markers that aligned with at least one BAC end sequence with >95% sequence identity, providing a set of large insert clones with an average separation of 1 Mb that can serve as nucleation points for the sequencing phase of the International Rice Genome Sequencing Project.
针对水稻基因组学，已经开发出了大量分子资源，包括高密度遗传图谱、表达序列标签（EST）、酵母人工染色体图谱、细菌人工染色体（BAC）文库以及BAC末端序列数据库。遗传图谱和物理图谱的整合需要进行大量耗费人力的实验。为了加速国际水稻基因组测序计划中细菌克隆资源与遗传图谱的整合，我们对现有的EST和BAC末端序列进行了清洗和过滤，去除重复序列，然后用我们过滤后的数据库搜索所有可用的水稻遗传标记。我们鉴定出了418个与至少一个BAC末端序列比对且序列同一性>95%的遗传标记，提供了一组平均间隔为1 Mb的大插入片段克隆，这些克隆可作为国际水稻基因组测序计划测序阶段的成核点。
