Zoological Institute, University of Basel, Basel, Switzerland.
Mol Ecol Resour. 2012 Nov;12(6):1097-104. doi: 10.1111/j.1755-0998.2012.03169.x. Epub 2012 Jul 21.
The cichlid fishes in the East African Great Lakes are a prime model system for the study of adaptive radiation. Therefore, the availability of an elaborate phylogenetic framework is an important prerequisite. Previous phylogenetic hypotheses on East African cichlids are mainly based on mitochondrial and/or fragment-based markers, and, to date, no taxon-rich phylogeny exists that is based on multilocus DNA sequence data. Here, we present the design of an extensive new primer set (24 nuclear makers) for East African cichlids that will be used for multilocus phylogenetic analyses in the future. The primers are designed to work for both Sanger sequencing and next-generation sequencing with the 454 technology. As a proof of principle, we validate these primers in a phylogenetically representative set of 16 cichlid species from Lake Tanganyika and main river systems in the area and provide a basic evaluation of the markers with respect to marker length and diversity indices.
东非大湖中的慈鲷鱼类是适应性辐射研究的主要模式系统。因此，详细的系统发育框架的可用性是一个重要的前提条件。以前关于东非慈鲷的系统发育假说主要基于线粒体和/或基于片段的标记，迄今为止，还没有基于多基因座 DNA 序列数据的丰富分类群系统发育。在这里，我们介绍了一个用于东非慈鲷的广泛的新引物设计（24 个核标记），该设计将用于未来的多基因座系统发育分析。这些引物设计可用于 Sanger 测序和下一代测序的 454 技术。作为原理验证，我们在来自坦噶尼喀湖和该地区主要河流系统的 16 种慈鲷物种的系统发育代表性集合中验证了这些引物，并根据标记长度和多样性指数对这些标记进行了基本评估。
