BACKGROUND The number of species with completed genomes, including those with evidence for recent whole genome duplication events has exploded. The recently sequenced Atlantic salmon genome has been through two rounds of whole genome duplication since the divergence of teleost fish from the lineage that led to amniotes. This quadrupoling of the number of potential genes has led to complex patterns of retention and loss among gene families. RESULTS Methods have been developed to characterize the interplay of duplicate gene retention processes across both whole genome duplication events and additional smaller scale duplication events. Further, gene expression divergence data has become available as well for Atlantic salmon and the closely related, pre-whole genome duplication pike and methods to describe expression divergence are also presented. These methods for the characterization of duplicate gene retention and gene expression divergence that have been applied to salmon are described. CONCLUSIONS With the growth in available genomic and functional data, the opportunities to extract functional inference from large scale duplicates using comparative methods have expanded dramatically. Recently developed methods that further this inference for duplicated genes have been described.

中文翻译：

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使用比较基因组学从全基因组复制事件中提取功能趋势。

背景技术具有完整基因组的物种的数量激增，包括那些具有最近的全基因组复制事件证据的物种。自从硬骨鱼类与导致羊膜鱼类的世系分化以来，最近测序的大西洋鲑鱼基因组经历了两轮全基因组复制。潜在基因数量的这种四重性导致了基因家族之间复杂的保留和丢失模式。结果已开发出方法来表征整个基因组重复事件和其他较小规模重复事件中重复基因保留过程之间的相互作用。此外，大西洋鲑的基因表达差异数据也已经可用，并且还提供了密切相关的全基因组复制前派克和描述表达差异的方法。描述了已应用于鲑鱼的这些表征重复基因保留和基因表达差异的方法。结论随着可用基因组和功能数据的增长，使用比较方法从大规模重复样本中提取功能推论的机会得到了极大的扩展。已经描述了最近开发的方法，其进一步推导了对重复基因的推断。