The Ciona savignyi Genetic Map

玻璃海鞘遗传图谱

• 批准号: 7334192
• 负责人: AREND SIDOW
• 金额: $ 20.85万
• 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/7334192
• 关键词: Algorithms; Alleles; Anchored Polymerase Chain Reaction; Animal Model; Chordata; Chromosome Mapping; Chromosomes; Ciona intestinalis; Cloning; Communities; Data; Databases; Development; Drosophila genus; Embryonic Development; Exhibits; Exons; Fracture; Gene Expression Regulation; Gene Order; Generations; Genetic; Genetic Polymorphism; Genome; Genomics; Genotype; Goals; Grant; Human; Individual; Internet; Link; Maps; Modeling; Molecular; Mutagenesis; Mutation; NIH Program Announcements; Organism; Parents; Physical Map of the Human Genome; Polymorphic Microsatellite Marker; Population; Positioning Attribute; Process; Protocols documentation; Range; Regulation; Research Personnel; Resolution; Resources; Running; Scientist; Shotguns; Sister; Site; Spiders; Standards of Weights and Measures; Vertebrates; ascidian; base; desire; genome sequencing; genome wide association study; improved; insight; mutant; physical mapping; programs; response; size; tool

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 (-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.

这笔赠款是为了响应遗传和基因组计划公告工具而提交的 新兴模式生物研究。我建议在海鞘中构建一个 300 个标记的连锁图， Ciona savignyi，与将成为带注释的高质量基因组参考完全集成 顺序。该图谱不仅有助于克隆突变，而且有助于实现长距离突变 有效执行全基因组所需的 C. savignyi 参考序列的连续性 扫描诱导或自然发生的突变。除了全基因组图谱之外，高分辨率精细 将在不确定序列组装区域中进行尺度映射，以解决 C 中的歧义。 萨维尼基因组参考序列。该地图以及包含数千个可能的数据库 分布在整个基因组中的多态性标记将提供给社区。 海鞘是最简单的脊索动物之一，但它们的基本发育机制是 在结构和分子上与脊椎动物相似。尽管保护程度很高， 海鞘基因组的大小与果蝇基因组 (-180 Mb) 相当，因此实验表明 有利的基因组简单性。此外，海鞘具有许多有吸引力的胚胎学和实验学特征 促进发育过程中基因调控研究的特征。在过去的几年里，C. savignyi 已被开发为遗传模型生物，其突变体很容易从野生种群或 通过诱变。遗传图谱、标记和基因组组装的远程连续性是 将 C. savnyi 建立为成熟的遗传和基因组学的缺失的、至关重要的资源 模式生物。 Ciona savignyi 及其姊妹种 Ciona Enteris 在以下方面具有独特的信息： 脊索动物胚胎发育机制。胚胎的基本特征和具体特征 人类和这些脊索动物之间的发育和基因调控是保守的。洞察 以 Ciona 为模型的调控和发育的分子机制非常有效且 与人类的同源过程相关。