WormBase: expanding the reference resource for helminth research

WormBase：扩展蠕虫研究的参考资源

• 批准号: MR/S000453/1
• 负责人: Matthew Berriman
• 金额: $ 113.33万
• 依托单位: Wellcome Sanger Institute
• 依托单位国家: 英国
• 项目类别: Research Grant
• 财政年份: 2018
• 资助国家: 英国
• 起止时间: 2018 至 无数据
• 项目状态: 已结题
• 来源: https://gtr.ukri.org/projects?ref=MR%2FS000453%2F1
• 关键词: WormBase; expanding; reference; resource; helminth

Many developments in modern medicine are based on the enormous progress made over the last 50 years in our understanding of how our genes work. Many diseases are caused by genes malfunctioning in some way, and understanding the function of genes allows to design diagnostic tools and treatments against specific malfunctions. Much of the research that has led to this progress is difficult to do in humans. Because all animals are related by evolution, study of simple animals helps to understand human biology. Certain key model organisms have been the focus of intensive study. One of these is the tiny roundworm, or nematode, Caenorhabditis elegans. C. elegans research has been supported by the MRC for over 50 years, leading to two Nobel prizes, and is a key contributor to our understanding of basic processes such as cell death and ageing. In addition to its relevance for understanding human biology, research on C. elegans is particularly important to our understanding of the biology of parasitic worms. Globally, more than one billion people are infected with parasitic nematodes, including filarial nematodes, such as Onchocerca that causes river blindness, and Brugia that causes elephantiasis; intestinal nematodes such as hookworms, whipworms and giant roundworms. Typically infections are associated with and promote poverty. Genetic research has been revolutionized by obtaining the complete DNA sequence (the genome) of the organism being studied, which contains all the gene sequences. C. elegans was the first animal to have its genome sequenced and now major programmes are collecting genome sequences for parasitic species. To use genome sequences and all the new information about genes requires information resources that tie together DNA information with experimental data, and relate corresponding genes across animals. This application will support the development of WormBase, the reference information resource for all genomic and biological data for C. elegans that is essential for fundamental research using this model organism. The application will also support the expansion of WormBase to include the curation of genomic and experimental information for increasing numbers of parasitic nematodes, and an expansion in scope to include Schistosoma mansoni, a parasitic flatworm. Research into both types of parasitic worms (flatworms and nematodes) has much in common despite their evolutionary distance and WormBase will now support fundamental research in both these areas. By relating parasitology and basic science research, WormBase is uniquely placed to enable community-wide exploitation of data emerging for parasites by applying information, technological infrastructure, and curatorial expertise developed for C. elegans.

现代医学的许多发展都是基于过去50年来我们对基因工作原理的理解所取得的巨大进步。许多疾病是由基因以某种方式发生故障引起的，了解基因的功能可以设计针对特定故障的诊断工具和治疗方法。导致这一进展的许多研究很难在人类身上进行。因为所有的动物在进化上都是相互联系的，所以研究简单的动物有助于理解人类的生物学。某些关键模式生物一直是深入研究的重点。其中之一是微小的蛔虫，或线虫，秀丽隐杆线虫。C.秀丽线虫的研究已经由MRC支持了50多年，导致两次诺贝尔奖，并且是我们理解细胞死亡和衰老等基本过程的关键贡献者。除了与理解人类生物学有关外，对C。线虫对我们理解寄生蠕虫的生物学特别重要。在全球范围内，超过10亿人感染寄生线虫，包括丝虫线虫，如导致河盲症的盘尾丝虫和导致象皮病的布鲁吉亚丝虫;肠道线虫，如钩虫，鞭虫和巨型蛔虫。感染通常与贫穷有关，并加剧贫穷。通过获得所研究的生物体的完整DNA序列（基因组），基因研究已经发生了革命性的变化，其中包含所有基因序列。C.线虫是第一个对其基因组测序的动物，现在主要方案正在收集寄生物种的基因组序列。要使用基因组序列和所有关于基因的新信息，需要将DNA信息与实验数据联系起来的信息资源，并将动物之间的相应基因联系起来。该应用程序将支持WormBase的开发，WormBase是所有C.这对使用这种模式生物进行基础研究至关重要。该应用程序还将支持WormBase的扩展，以包括越来越多的寄生线虫的基因组和实验信息的管理，并扩大范围以包括曼氏血吸虫（一种寄生扁形虫）。对这两种类型的寄生蠕虫（扁形虫和线虫）的研究有很多共同之处，尽管它们的进化距离很远，WormBase现在将支持这两个领域的基础研究。通过将寄生虫学和基础科学研究联系起来，WormBase处于独特的地位，通过应用为C.优美的

项目成果

Using WormBase: A Genome Biology Resource for Caenorhabditis elegans and Related Nematodes.

• DOI: 10.1007/978-1-4939-7737-6_14
• 发表时间: 2018
• 期刊: Methods in molecular biology (Clifton, N.J.)
• 作者: Grove C;Cain S;Chen WJ;Davis P;Harris T;Howe KL;Kishore R;Lee R;Paulini M;Raciti D;Tuli MA;Van Auken K;Williams G;WormBase Consortium
• 通讯作者: WormBase Consortium

The Gene Ontology resource: enriching a GOld mine.

• DOI: 10.1093/nar/gkaa1113
• 发表时间: 2021-01-08
• 期刊: Nucleic acids research
• 影响因子: 14.9
• 作者: Gene Ontology Consortium

Ensembl Genomes 2022: an expanding genome resource for non-vertebrates.

• DOI: 10.1093/nar/gkab1007
• 发表时间: 2022-01-07
• 期刊: Nucleic acids research
• 影响因子: 14.9
• 作者: Yates AD;Allen J;Amode RM;Azov AG;Barba M;Becerra A;Bhai J;Campbell LI;Carbajo Martinez M;Chakiachvili M;Chougule K;Christensen M;Contreras-Moreira B;Cuzick A;Da Rin Fioretto L;Davis P;De Silva NH;Diamantakis S;Dyer S;Elser J;Filippi CV;Gall A;Grigoriadis D;Guijarro-Clarke C;Gupta P;Hammond-Kosack KE;Howe KL;Jaiswal P;Kaikala V;Kumar V;Kumari S;Langridge N;Le T;Luypaert M;Maslen GL;Maurel T;Moore B;Muffato M;Mushtaq A;Naamati G;Naithani S;Olson A;Parker A;Paulini M;Pedro H;Perry E;Preece J;Quinton-Tulloch M;Rodgers F;Rosello M;Ruffier M;Seager J;Sitnik V;Szpak M;Tate J;Tello-Ruiz MK;Trevanion SJ;Urban M;Ware D;Wei S;Williams G;Winterbottom A;Zarowiecki M;Finn RD;Flicek P
• 通讯作者: Flicek P

Term Matrix: a novel Gene Ontology annotation quality control system based on ontology term co-annotation patterns.

• DOI: 10.1098/rsob.200149
• 发表时间: 2020-09
• 期刊: Open biology
• 影响因子: 5.8
• 作者: Wood V;Carbon S;Harris MA;Lock A;Engel SR;Hill DP;Van Auken K;Attrill H;Feuermann M;Gaudet P;Lovering RC;Poux S;Rutherford KM;Mungall CJ
• 通讯作者: Mungall CJ

Comparative genomics of the major parasitic worms.

• DOI: 10.1038/s41588-018-0262-1
• 发表时间: 2019-01
• 期刊: Nature genetics
• 影响因子: 30.8
• 作者: International Helminth Genomes Consortium