Functional Analysis of a Model Filamentous Fungus

模型丝状真菌的功能分析

• 批准号: 7391622
• 负责人: Jay C. Dunlap
• 金额: $ 127.33万
• 依托单位: DARTMOUTH COLLEGE
• 依托单位国家: 美国
• 财政年份: 2004
• 资助国家: 美国
• 起止时间: 2004-04-01 至 2009-04-05
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/7391622
• 关键词: Functional; Analysis; Model; Filamentous; Fungus

DESCRIPTION (provided by applicant): The overall goal of the four interdependent projects in this Program Project is to carry out functional genomics, annotation, and expression analyses of Neurospora crassa, the filamentous fungus that has become a model for the assemblage of over 250,000 species of non-yeast fungi. Most Neurospora genes have no homologs in yeasts and nearly 40% have no strong homologs in any organism to date, suggesting that examination of the functions of these genes will both novel and informative. Neurospora is an important model for basic research in eukaryotes, and fungi allied to Neurospora include significant animal and plant pathogens and industrial strains yielding antibiotics, chemicals, enzymes, and pharmaceuticals. The 43 Mb Neurospora genome is completely sequenced (>16 fold archival coverage), and automated annotation using programs trained on Neurospora genes predict 10,082 proteins. The first Project will pursue the systematic disruption of genes through targeted gene replacements, preliminary phenotyping of these strains, and their distribution to the scientific community at large. Through a primary focus in Annotation and Genomics, we will produce a platform for electronically capturing community feedback and data about the existing annotation, while building and maintaining a database to capture and display information about phenotypes, relying on data from EST analyses to refine the gene structures. Oligonucleotide-based microarrays will allow Transcriptional Profiling of the nearly 11,000 distinguishable transcripts in Neurospora. This effort will provide a baseline analysis of gene expression under a variety of growth conditions, and later begin to analyze the global effects of loss of novel genes; these data will be made available through the web via structures. Since alternative splicing, alternative promoters, and long antisense transcripts contribute widely to the overall complexity of expressed sequences in Neurospora, cDNA libraries will be generated from wild type and related strains to document this complexity to aid in annotation. Sequences from related strains will drive assembly of a SNP map. Overall, this effort will help to anchor genomic exploration within the largely unexplored phylogenetic Kingdom of the Fungi.

描述（由申请人提供）：该程序项目中四个相互依存项目的总体目标是进行功能基因组学，注释和表达分析，神经孢子虫（Neurospora Crassa）是丝状真菌，已成为超过250,000种的模型非酵母真菌。大多数神经孢子基因在酵母中没有同源物，迄今为止，近40％的人在任何生物体中都没有强大的同源物，这表明研究这些基因的功能将既新颖又有信息。 Neurospora是真核生物基础研究的重要模型，与Neurospora结盟的真菌包括重要的动物和植物病原体以及产生抗生素，化学物质，酶和药物的工业菌株。 43 MB Neurospora基因组已完全测序（> 16倍的档案覆盖范围），并使用在Neurospora基因上训练的程序预测10,082蛋白的程序自动注释。第一个项目将通过靶向基因替代品，这些菌株的初步表型以及它们分布到整个科学界来追求基因的系统破坏。通过注释和基因组学的主要重点，我们将建立一个平台，用于电子捕获社区反馈和有关现有注释的数据，同时构建和维护数据库以捕获和显示有关表型的信息，并依靠EST分析的数据来完善基因结构。基于寡核苷酸的微阵列将允许在Neurospora中近11,000次可区分的转录本进行转录分析。这项工作将在各种生长条件下对基因表达进行基线分析，然后开始分析新基因丧失的全球影响。这些数据将通过网络通过结构提供。由于替代剪接，替代启动子和长反义转录物对神经孢子中表达序列的总体复杂性有很大贡献，因此将从野生型和相关菌株中产生cDNA文库，以记录这种复杂性以帮助注释。来自相关菌株的序列将驱动SNP图的组装。总体而言，这项工作将有助于在很大程度上未开发的真菌王国中锚定基因组探索。