Characterization of Rice Genomes and Transcriptomes Using Novel Sequencing Technologies

PI：W. Richard McCombie（冷泉港实验室）首席研究员：Li Liao（特拉华州大学），Black C. Meyers（特拉华州大学）DNA测序技术在经历了近十年的缓慢、渐进的变化后，已经进入了一个非常快速的变化阶段。 特别地，已经开发了完全不同类型的测序仪（例如454 Lifesciences，Solexa），其提供了大量数据，但比当前测序仪提供的单个序列长度短得多。 本研究的主要目的是：（1）通过对四个水稻品种（Oryza glaberrima，O. punctata、斑叶野螟O. officinalis和O. minuta）（2）开发新的战略和软件工具，以便最有效地将这些新的测序仪与以前的测序仪结合使用。在组装算法的开发和测试过程中，研究人员将评估每个技术平台的不同覆盖率（混合）的组装。作为该项目的结果，研究人员将确定最有效的方法，以测序其他重要的植物基因组在未来使用这些测序技术之一或组合。访问项目成果测序数据将被纳入Gramene（www.gramene.org）和水稻地图对齐项目（www.omap.org）。 可通过http://www.cis.udel.edu/~lliao/访问软件。

PI: W. Richard McCombie (Cold Spring Harbor Lab)CO-PIs: Li Liao (University of Delaware), Black C. Meyers (University of Delaware) DNA sequencing technology has entered a phase of very rapid change after nearly a decade of slower, incremental changes. In particular, radically different types of sequencers ( e.g. 454 Lifesciences, Solexa) have been developed which have provided large amounts of data but much shorter individual sequence lengths than are provided by current sequencers. The primary goal of this proposal is to (1) test these methods by genomic sequencing of orthologous regions from four rice species (Oryza glaberrima, O. punctata, O. officinalis, and O. minuta) (2) develop new strategies and software tools to most effectively use these new sequencers in combination with previous sequencers. During development and testing of the assembly algorithm, the investigators will assess the assembly of different ratios (mixtures) of coverage from each technology platform. As a result of this project, the investigators will determine the most efficient method to sequence additional important plant genomes in the future using one or a combination of these sequencing technologies.Access to project outcomesSequence data will be incorporated into Gramene (www.gramene.org) and the Oryza Map Alignment Project (www.omap.org). Software will be accessible via http://www.cis.udel.edu/~lliao/.