Mapping of a quantitative trait locus for resistance against infectious salmon anaemia in Atlantic salmon (Salmo salar): comparing survival analysis with analysis on affected/resistant data.
Mapping of a quantitative trait locus for resistance against infectious salmon anaemia in Atlantic salmon (Salmo salar): comparing survival analysis with analysis on affected/resistant data.
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DOI：
10.1186/1471-2156-8-53
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发表时间：
2007-08-14
期刊：
影响因子：
2.9
通讯作者：
Meuwissen TH
中科院分区：
文献类型：
--
作者：
Moen T;Sonesson AK;Hayes B;Lien S;Munck H;Meuwissen TH
传染性鲑鱼贫血(ISA)是一种影响全球养殖大西洋鲑鱼(Salmo Salar)的病毒性疾病。对影响抗病性的数量性状基因座(QTL)的定位，可以提高我们对该性状的遗传基础的认识，为分子标记辅助选择提供手段。我们之前对商业大西洋鲑鱼家族进行了基因组扫描，对ISA抗性进行了挑战测试，确定了几个可能的QTL。在本研究中，我们试图在来自同一挑战测试的一个较大的家系材料中验证这些QTL中最强的一个，并通过区间定位来确定该QTL的位置。我们还想探索在生存分析框架内进行QTL分析的不同方法(即使用事件发生时间数据)，并将生存分析的结果与对二分性性状“受影响/耐药”的分析结果进行比较。该QTL位于大西洋鲑鱼连锁群8上(遵循SALMAP符号)，在新的数据集中得到确认。其最可能的位置位于包含标记BHMS130、BHMS170和BHMS553的标记簇上。在同一区域观察到显著的分离扭曲，但与QTL无关。基于Cox比例风险模型，建立了QTL的最大似然法。QTL定位也使用Haley-Knott方法(受影响/抗病数据)，并在方差成分框架内(受影响/抗病数据和事件发生时间数据)。在所有情况下，使用受影响/抗性数据的分析比使用事件发生时间数据的分析为QTL提供了更有力的证据。本研究验证了大西洋鲑鱼对传染性鲑鱼贫血的抗性QTL，并确定了其在第8连锁群上的较精确定位。QTL可以解释6%的抗病表型变异。连锁群也表现出显著的分离扭曲。在这种情况下，生存模型被证明并不比基于“受影响/抵抗”的二分特征的模型更适合分析数据。
Infectious Salmon Anaemia (ISA) is a viral disease affecting farmed Atlantic salmon (Salmo salar) worldwide. The identification of Quantitative Trait Loci (QTL) affecting resistance to the disease could improve our understanding of the genetics underlying the trait and provide a means for Marker-Assisted Selection. We previously performed a genome scan on commercial Atlantic salmon families challenge tested for ISA resistance, identifying several putative QTL. In the present study, we set out to validate the strongest of these QTL in a larger family material coming from the same challenge test, and to determine the position of the QTL by interval mapping. We also wanted to explore different ways of performing QTL analysis within a survival analysis framework (i.e. using time-to-event data), and to compare results using survival analysis with results from analysis on the dichotomous trait 'affected/resistant'. The QTL, located on Atlantic salmon linkage group 8 (following SALMAP notation), was confirmed in the new data set. Its most likely position was at a marker cluster containing markers BHMS130, BHMS170 and BHMS553. Significant segregation distortion was observed in the same region, but was shown to be unrelated to the QTL. A maximum likelihood procedure for identifying QTL, based on the Cox proportional hazard model, was developed. QTL mapping was also done using the Haley-Knott method (affected/resistant data), and within a variance-component framework (affected/resistant data and time-to-event data). In all cases, analysis using affected/resistant data gave stronger evidence for a QTL than did analysis using time-to-event data. A QTL for resistance to Infectious Salmon Anaemia in Atlantic salmon was validated in this study, and its more precise location on linkage group eight was determined. The QTL explained 6% of the phenotypic variation in resistance to the disease. The linkage group also displayed significant segregation distortion. Survival models proved in this case not to be more suitable than models based on the dichotomous trait 'affected/resistant' for analysing the data.
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