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.

该赠款是根据遗传和基因组的计划公告工具提交的 新兴模型生物的研究。我建议在海沿岸构建一个300标记的链接图， Ciona savignyi，与将成为注释的高质量基因组参考完全集成 顺序。该地图不仅有助于克隆突变的克隆，而且还可以实现远距离的范围 C. savignyi参考序列中的连续性将有效地执行整个基因组 扫描诱导或自然发生的突变。除了全基因组图外，高分辨率细细 - 将在不确定的序列组装区域中进行比例映射，以解决C中的歧义。 Savignyi基因组参考序列。地图以及数千个潜在的数据库 分布在整个基因组中的多态性标记将提供给社区。 海沿岸是最简单的和弦之一，但他们的基本发展机制是 结构和分子与脊椎动物的保守。尽管有很高的保护水平，但 西西亚基因组的大小与果蝇（-180 MB）相当，因此在实验上表现出来 有利的基因组简单性。此外，海沿岸有许多有吸引力的胚胎学和实验性 在发育过程中促进基因调节研究的特征。在过去的几年中，C。Savignyi 已作为遗传模型生物开发，突变体很容易从野生种群中获得或 通过诱变。基因组组装的遗传图，标记和远距离连续性是 缺少，至关重要的资源将C. savignyi建立为成熟的遗传和基因组 模型生物。 Ciona Savignyi及其姐妹物种Ciona Intestinalis在关于 弦核胚胎发育的机制。胚胎的基本和特定特征 人类和这些弦核之间的发育和基因调节是保守的。洞悉 使用ciona作为模型的调节和发展的分子机制非常有效，并且 与人类的同源过程有关。