Dissecting structural and functional genomic factors underlying the resistance of Atlantic salmon fry to infectious pancreatic necrosis

剖析大西洋鲑鱼苗对传染性胰腺坏死的抵抗力背后的结构和功能基因组因素

• 批准号: BB/F002750/1
• 负责人: Stephen Bishop
• 金额: $ 58.76万
• 依托单位: Roslin Institute
• 依托单位国家: 英国
• 项目类别: Research Grant
• 财政年份: 2007
• 资助国家: 英国
• 起止时间: 2007 至 无数据
• 项目状态: 已结题
• 来源: https://gtr.ukri.org/projects?ref=BB%2FF002750%2F1
• 关键词: Dissecting; structural; functional; genomic; factors

Infectious pancreatic necrosis (IPN) is currently the most serious viral disease affecting the UK salmon farming industry. IPN is caused by infectious pancreatic necrosis virus (IPNV) which results in damage to the pancreas, intestine and liver of infected salmon. The annual economic loss to the UK aquaculture industry from IPN is estimated to be £5-10 million. Surviving salmon can become carriers of infection and then spread the disease to other susceptible fish, perpetuating IPN in both farmed and wild fish populations. Atlantic salmon vary in susceptibility to IPNV infection as they proceed through their life cycle. Newly-hatched salmon, i.e. fry, live in freshwater. They are particularly susceptible to IPN, and epidemics in hatcheries are typified by sudden large-scale mortalities. Subsequently, at the smolt life cycle stage, salmon alter their physiology in readiness for the move from freshwater to seawater. Salmon smolts (more specifically post-smolts) are susceptible to IPN during a period lasting from 2 - 10 weeks after seawater transfer. Certain families show genetic resistance to IPN, and we have previously shown that it is possible to identify resistant and susceptible salmon smolts using genetic markers. However, a number of questions relating to IPN resistance remain unanswered. In particular, whilst there is evidence that these genetic effects are consistent across different stages of the salmon life-cycle, i.e. consistent in smolts and fry, it is not conclusive. Furthermore, it is not known which specific genes and molecular pathways underlie genetic resistance to IPN. In an attempt to answer these questions we have three major objectives. First, we will confirm and describe genetic resistance to IPN in salmon fry and identify specific genomic regions affecting resistance. Second, we will determine which salmon genes work differently between genetically resistant and susceptible fish following infection. This will give insight into which biological mechanisms lead to genetic differences in resistance. Third, we will bring together all of the results to identify specific genes that may be responsible for the genetic resistance. The results of the study will strengthen salmon breeding programmes by providing genetic marker tests to identify IPN resistant fish early in the salmon life-cycle, thus reducing costs and reducing the number of diseased fish. The improved knowledge of the crucial genes defining IPN resistance may also contribute to the rational development of control measures against IPNV infections, including vaccination, and provide sensitive diagnostic tests. This project will be undertaken by researchers based at the Roslin Institute and the Institute of Aquaculture at Stirling University, and will also utilise the facilities and expertise of the Centre for Environment, Fisheries and Aquaculture Science, Weymouth. These UK researchers will collaborate with the Genomic Research on Atlantic Salmon Project (GRASP) in Canada, providing access to world-leading salmon genomics resources. The involvement of the innovative salmon breeding company Landcatch Natural Selection ensures that a clear route exists for the immediate commercial application of the results. This project is relevant to research supported by the BBSRC aimed at the analysis of the mechanisms of immune function and disease, and fits the priority relating to the control of infectious diseases, including the genetics of host resistance to infection.

传染性胰腺坏死（IPN）是目前影响英国鲑鱼养殖业的最严重的病毒性疾病。IPN是由传染性胰腺坏死病毒（IPNV）引起的，其导致受感染的鲑鱼的胰腺、肠和肝脏的损伤。IPN给英国水产养殖业造成的年度经济损失估计为500万至1000万英镑。存活的鲑鱼可能成为感染的携带者，然后将疾病传播给其他易感鱼类，使养殖和野生鱼类种群的IPN永久化。大西洋鲑鱼在其生命周期中对IPNV感染的易感性各不相同。刚孵化的鲑鱼，即鱼苗，生活在淡水中。它们特别容易受到IPN的影响，孵化场的流行病通常是突然的大规模死亡。随后，在小鲑鱼的生命周期阶段，鲑鱼改变了它们的生理机能，准备从淡水转移到海水。鲑鱼二龄鲑（更具体地，二龄鲑后）在海水转移后持续2 - 10周的时间期间对IPN敏感。某些家庭表现出遗传抗性IPN，我们以前已经表明，它是可能的，以确定使用遗传标记的抗性和易感鲑鱼小鲑鱼。然而，与IPN抗性相关的许多问题仍然没有答案。特别是，虽然有证据表明这些遗传效应在鲑鱼生命周期的不同阶段是一致的，即在小鲑鱼和鱼苗中是一致的，但这并不是决定性的。此外，目前还不知道哪些特定的基因和分子途径的遗传抗性IPN。为了回答这些问题，我们有三个主要目标。首先，我们将确认和描述鲑鱼鱼苗对IPN的遗传抗性，并确定影响抗性的特定基因组区域。其次，我们将确定哪些鲑鱼基因在感染后在遗传抗性和易感鱼类之间的作用不同。这将有助于了解哪些生物学机制导致抗性的遗传差异。第三，我们将汇集所有结果，以确定可能负责遗传抗性的特定基因。研究结果将加强鲑鱼养殖方案，提供遗传标记测试，在鲑鱼生命周期的早期确定抗互穿网络的鱼类，从而降低成本，减少患病鱼类的数量。对定义IPN抗性的关键基因的进一步了解也可能有助于合理开发针对IPNV感染的控制措施，包括疫苗接种，并提供敏感的诊断测试。该项目将由罗斯林研究所和斯特林大学水生生物研究所的研究人员进行，并将利用韦茅斯环境、渔业和水生生物科学中心的设施和专业知识。这些英国研究人员将与加拿大的大西洋鲑鱼基因组研究项目（GRASP）合作，提供世界领先的鲑鱼基因组学资源。创新的鲑鱼养殖公司Landcatch Natural Selection的参与确保了一条明确的路线，可以立即将结果用于商业应用。该项目与BBSRC支持的旨在分析免疫功能和疾病机制的研究有关，并符合与控制传染病有关的优先事项，包括宿主抗感染的遗传学。

项目成果

Sequencing and characterisation of an extensive Atlantic salmon (Salmo salar L.) microRNA repertoire.

• DOI: 10.1371/journal.pone.0070136
• 发表时间: 2013
• 期刊: PloS one
• 影响因子: 3.7
• 作者: Bekaert M;Lowe NR;Bishop SC;Bron JE;Taggart JB;Houston RD
• 通讯作者: Houston RD

Development and validation of a high density SNP genotyping array for Atlantic salmon (Salmo salar).

• DOI: 10.1186/1471-2164-15-90
• 发表时间: 2014-02-06
• 期刊: BMC genomics
• 影响因子: 4.4
• 作者: Houston RD;Taggart JB;Cézard T;Bekaert M;Lowe NR;Downing A;Talbot R;Bishop SC;Archibald AL;Bron JE;Penman DJ;Davassi A;Brew F;Tinch AE;Gharbi K;Hamilton A
• 通讯作者: Hamilton A

Characterisation of QTL-linked and genome-wide restriction site-associated DNA (RAD) markers in farmed Atlantic salmon.

• DOI: 10.1186/1471-2164-13-244
• 发表时间: 2012-06-15
• 期刊: BMC genomics
• 影响因子: 4.4
• 作者: Houston RD;Davey JW;Bishop SC;Lowe NR;Mota-Velasco JC;Hamilton A;Guy DR;Tinch AE;Thomson ML;Blaxter ML;Gharbi K;Bron JE;Taggart JB
• 通讯作者: Taggart JB