Ciona savignyi Genetic Map

玻璃海鞘遗传图谱

• 批准号: 7017909
• 负责人: AREND SIDOW
• 金额: $ 21.95万
• 依托单位: STANFORD UNIVERSITY
• 依托单位国家: 美国
• 财政年份: 2006
• 资助国家: 美国
• 起止时间: 2006-01-01 至 2008-12-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/7017909
• 关键词: Tunicata; computational biology; computer program /software; computer system design /evaluation; genetic markers; genetic models; genotype; linkage mapping; molecular biology information system; polymerase chain reaction

DESCRIPTION (provided by applicant): This grant is submitted in response to the Program Announcement Tools for Genetic and Genomic Studies in Emerging Model Organisms. I propose to construct a 300-marker linkage map in the ascidian, Ciona savignyi, that is fully integrated with what will become the annotated high quality genome reference sequence. This map will not only aid in the cloning of mutations, but also in achieving the long range contiguity in the C. savignyi reference sequence that will be needed to efficiently perform whole genome scans for induced or naturally occurring mutations. In addition to the genome-wide map, high-resolution fine- scale mapping in regions of uncertain sequence assembly will be performed to resolve ambiguities in the C. savignyi genome reference sequence. The map, along with a database of thousands of potentially polymorphic markers distributed across the genome, will be made available to the community. Ascidians are among the simplest chordates, yet their fundamental developmental mechanisms are structurally and molecularly conserved with those of vertebrates. Despite the high level of conservation, ascidian genomes are comparable in size to Drosophila's (about 180 Mb), thus exhibiting experimentally advantageous genomic simplicity. Further, ascidians have many attractive embryological and experimental features that facilitate studies of gene regulation during development. Over the past few years, C. savignyi has been developed as a genetic model organism, with mutants readily obtainable from wild populations or by mutagenesis. The genetic map, the markers, and the long-range contiguity of the genome assembly are the missing, critically important, resources to establish C. savignyi as a full-fledged genetic and genomic model organism. Ciona savignyi and its sister species, Ciona intestinalis, are uniquely informative with regards to the mechanisms of chordate embryonic development. Fundamental as well as specific features of embryonic development and gene regulation are conserved between humans and these chordates. Insights into the molecular mechanisms of regulation and development using Ciona as a model are highly effective and relevant to the homologous processes in human.

描述（由申请人提供）：此资助是为了响应“新兴模式生物遗传和基因组研究的计划公告工具”而提交的。我建议构建一个300标记的海鞘，海鞘savignyi，这是完全整合的，将成为注释的高质量的基因组参考序列的连锁图谱。该图谱不仅有助于突变的克隆，而且有助于实现C. Savignyi参考序列，其将需要有效地进行诱导或天然存在的突变的全基因组扫描。除了全基因组图谱外，还将在不确定的序列组装区域进行高分辨率精细定位，以解决C. savignyi基因组参考序列。该图谱，连同分布在基因组中的数千个潜在多态性标记的数据库，沿着将提供给社区。海鞘是最简单的脊索动物之一，但它们的基本发育机制在结构和分子上与脊椎动物相同。尽管高度保守，海鞘基因组的大小与果蝇的（约180 Mb）相当，因此表现出实验上有利的基因组简单性。此外，海鞘有许多有吸引力的胚胎学和实验特征，有利于研究发育过程中的基因调控。在过去的几年里，C。Savignyi已被开发为遗传模式生物，其突变体可容易地从野生群体或通过诱变获得。遗传图谱、标记和基因组组装的长距离连续性是建立C. savignyi作为一个成熟的遗传和基因组模式生物。赛维尼玻璃海鞘及其姊妹种，玻璃海鞘，是唯一的信息方面的脊索动物胚胎发育的机制。胚胎发育和基因调控的基本特征和具体特征在人类和这些脊索动物之间是保守的。以玻璃海鞘为模型深入了解调控和发育的分子机制是非常有效的，并且与人类的同源过程相关。