Transcriptome Profiling and Targeted Genic Improvement of the X. tropicalis Genom

描述（由申请人提供）：爪蟾是研究早期脊椎动物发育和细胞生物学的首选系统。基因组序列的可用性使得能够进行基因组和遗传分析。然而，X. tropicalis的基因组仍然很差，阻碍了这些努力。在这个提议中，我们将进行靶向测序来注释基因组的基因部分。这将包括1）转录测序以组装转录组并鉴定时间基因表达，2）序列捕获以填补基因组的基因部分中的缺口，以及3）SNP鉴定以促进遗传学。改进了X.热带非洲爪蟾基因组组装将使非洲爪蟾社区的许多优先事项成为可能，这些优先事项在2009年非洲爪蟾白色论文中概述：1）它将使更完整的ORFeome成为可能2）极大地促进遗传学和3）改善X的组装。乳杆菌基因组。由于这些原因，2009年非洲爪蟾社区白色文件列出了“X. tropicalis genome sequence and annotation”作为一个重要的资源。

DESCRIPTION (provided by applicant): Xenopus is a premier system for studying early vertebrate developmental and cell biology. The availability of genomic sequence has enabled genomic and genetic analyses. However, annotation of gene models in the X. tropicalis genome remains poor, hampering these efforts. In this proposal, we will perform targeted sequencing to annotate the genic part of the genome. This will include 1) transcript sequencing to assemble the transcriptome and identify temporal gene expression, 2) sequence capture to fill gaps in the genic portions of the genome, and 3) SNP identification to facilitate genetics. Improved annotation of the genic portion of the X. tropicalis genome assembly will enable many priorities of the Xenopus community that are outlined in the 2009 Xenopus White Paper: 1) it will make a more complete ORFeome possible 2) greatly facilitate genetics and 3) improve the assembly of the X. laevis genome. For these reasons, the 2009 Xenopus Community White Paper lists "Improvement of the X. tropicalis genome sequence and annotation" as an essential resource.