Developing genomic resources for the toxic dinoflagellate Alexandrium tamarense

开发有毒甲藻亚历山大藻的基因组资源

• 批准号: 7232117
• 负责人: DEBASHISH BHATTACHARYA
• 金额: $ 34.61万
• 依托单位: UNIVERSITY OF IOWA
• 依托单位国家: 美国
• 财政年份: 2006
• 资助国家: 美国
• 起止时间: 2006-05-11 至 2009-03-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/7232117
• 关键词: Affect; Area; Biology; Candidate Disease Gene; Cell physiology; Cells; Communities; Condition; Data; Data Set; Databases; Dinophyceae; Ecology; Evolution; Expressed Sequence Tags; Future; Genbank; Gene Expression; Gene Expression Profile; Gene Targeting; Gene Transfer; Generations; Genes; Genome; Genomics; Growth; Harmful Algal Bloom; Horizontal Gene Transfer; Internet; Libraries; Life Cycle Stages; Messenger RNA; Modeling; Molecular; Molecular Evolution; Nitrates; Nuclear; Nutrient; Organelles; Paralysed; Phylogenetic Analysis; Physiology; Plastids; Poisoning; Process; Production; Proteins; Research; Resources; Saxitoxin; Scientist; Sequence Analysis; Shellfish; Source; Staging; Toxic effect; Toxin; Trees; Work; base; cDNA Library; cDNA Library Construction; fascinate; gene discovery; harmful algal blooms; inorganic phosphate; life history; nitrate; uptake

DESCRIPTION (provided by applicant): Alexandrium tamarense is a unicellular dinoflagellate protist that causes harmful algal blooms (HABs) and paralytic shellfish poisoning through the production of saxitoxins. Very little is known about the factors that influence the formation of HABs, their recent spread to new areas, and the genes involved in toxin production. Our work also shows that dinoflagellates are outstanding models for understanding endosymbiosis (organelle genesis) and horizontal gene transfer because of their unparalleled ability to host different plastid endosymbionts and to accumulate genes through horizontal gene transfer. Here we propose to generate a significant genomics resource for Alexandrium to accelerate research on the biology and control of HABs and on nuclear genome evolution in dinoflagellates. Our specific aims are to use a highly efficient gene discovery strategy to generate a comprehensive expressed sequence tag (EST) unigene set for Alexandrium. Phylogenomic and detailed phylogenetic analysis of the different sequences in the Alexandrium unigene set will result in trees that help elucidate the contribution of horizontal gene transfer from endosymbionts and other sources to dinoflagellate nuclear genome evolution. We will also use massively parallel signature sequencing analysis to create a transcriptome tag database for Alexandrium cells grown in different culture conditions that affect nutrient physiology, cell and life cycle stages, and toxin production. This work will help us identify target genes involved in these functions and will form the basis for future microarray analyses. This proposal is an integrated, collaborative effort that relies on expertise in molecular evolution, EST processing, and phylogenomics (Bhattacharya, Scares), high quality cDNA library construction (Scares), and expertise in the ecology and physiology of Alexandrium (Anderson). The results of this study will result in a valuable molecular resource for scientists working to understand the ecology and toxicity of HAB species like Alexandrium and will provide the first comprehensive genomics resource for these fascinating protists.

描述（由申请人提供）：塔玛亚历山大藻是一种单细胞甲藻原生生物，通过产生石房蛤毒素导致有害藻华 (HAB) 和麻痹性贝类中毒。对于影响HAB形成的因素、它们最近扩散到新的地区以及涉及毒素产生的基因，我们知之甚少。我们的工作还表明，甲藻是理解内共生（细胞器发生）和水平基因转移的杰出模型，因为它们具有无与伦比的宿主不同质体内共生体并通过水平基因转移积累基因的能力。在这里，我们建议为亚历山大藻生成重要的基因组学资源，以加速对 HAB 的生物学和控制以及甲藻核基因组进化的研究。我们的具体目标是使用高效的基因发现策略为 Alexandrium 生成全面的表达序列标签 (EST) unigene 集。对亚历山大藻unigene集中不同序列进行系统发育和详细的系统发育分析，将产生有助于阐明内共生体和其他来源的水平基因转移对甲藻核基因组进化的贡献的树。我们还将使用大规模并行特征测序分析为在不同培养条件下生长的亚历山大藻细胞创建转录组标签数据库，这些条件影响营养生理学、细胞和生命周期阶段以及毒素产生。这项工作将帮助我们识别参与这些功能的靶基因，并将构成未来微阵列分析的基础。该提案是一项综合性的协作努力，依赖于分子进化、EST 处理和系统基因组学（Bhattacharya，Scares）方面的专业知识、高质量 cDNA 文库构建（Scares）以及亚历山大藻生态学和生理学方面的专业知识（Anderson）。这项研究的结果将为致力于了解亚历山大藻等 HAB 物种的生态和毒性的科学家提供宝贵的分子资源，并将为这些迷人的原生生物提供第一个全面的基因组学资源。