Environmental DNA detection of rare and invasive fish species in two Great Lakes tributaries
Environmental DNA detection of rare and invasive fish species in two Great Lakes tributaries
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DOI：
10.1111/mec.14395
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发表时间：
2018-01-01
影响因子：
4.9
通讯作者：
Heath, Daniel D.
中科院分区：
文献类型：
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作者：
Balasingham, Katherine D.;Walter, Ryan P.;Heath, Daniel D.
从水环境样品中提取和表征DNA为稀有物种的检测提供了一种替代的非侵入性方法。环境DNA，加上PCR和下一代测序（元条形码），已被证明是非常敏感的检测稀有水生物种。我们的研究使用了定制设计的群体特异性引物组和下一代测序来检测三种处于风险中的物种（东部沙镖鲈，Ammocypta pellucida;北方马德姆，Noturus stigmosus;和银闪光，Notropis photogenis），一种入侵物种（圆虾虎鱼，Neogobius melanostomus）和来自加拿大安大略南部两条五大湖支流的另外78种本地物种：格兰德河和西德纳姆河在这两条河流中使用捕获和eDNA方法检测到的82种鱼类中，我们的eDNA方法分别检测到Grand River和Sydenham River中86.2%和72.0%的鱼类，其中包括我们的四个目标物种。我们的分析还确定了我们的目标物种和其他已确定物种之间的显着的积极和消极的物种共现模式。我们的研究结果表明，eDNA metabarcoding的目标是鱼类群落以及个别物种的利益提供了一个更好的理解的因素，影响目标物种的空间分布在生态系统中比可能只有目标物种的数据。此外，eDNA很容易作为初始调查工具或与基于捕获的方法一起实施，以改进物种分布模式的映射。
The extraction and characterization of DNA from aquatic environmental samples offers an alternative, noninvasive approach for the detection of rare species. Environmental DNA, coupled with PCR and next-generation sequencing (metabarcoding), has proven to be very sensitive for the detection of rare aquatic species. Our study used a custom-designed group-specific primer set and next-generation sequencing for the detection of three species at risk (Eastern Sand Darter, Ammocrypta pellucida; Northern Madtom, Noturus stigmosus; and Silver Shiner, Notropis photogenis), one invasive species (Round Goby, Neogobius melanostomus) and an additional 78 native species from two large Great Lakes tributary rivers in southern Ontario, Canada: the Grand River and the Sydenham River. Of 82 fish species detected in both rivers using capture-based and eDNA methods, our eDNA method detected 86.2% and 72.0% of the fish species in the Grand River and the Sydenham River, respectively, which included our four target species. Our analyses also identified significant positive and negative species co-occurrence patterns between our target species and other identified species. Our results demonstrate that eDNA metabarcoding that targets the fish community as well as individual species of interest provides a better understanding of factors affecting the target species spatial distribution in an ecosystem than possible with only target species data. Additionally, eDNA is easily implemented as an initial survey tool, or alongside capture-based methods, for improved mapping of species distribution patterns.