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首页> 外文学位 >Assessment of the contemporary population structure and admixture of Atlantic swordfish (Xiphias gladius L.) via mixed stock analysis and Bayesian clustering of multiple nuclear SNPs genotyped through high resolution melting.
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Assessment of the contemporary population structure and admixture of Atlantic swordfish (Xiphias gladius L.) via mixed stock analysis and Bayesian clustering of multiple nuclear SNPs genotyped through high resolution melting.

机译：通过混合种群分析和通过高分辨率熔解进行基因分型的多个核单核苷酸多态性的贝叶斯聚类评估大西洋箭鱼（Xiphias gladius L.）的当代种群结构和混合。

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摘要

North Atlantic and South Atlantic swordfish (Xiphias gladius L.) are currently managed as two stocks separated at 5°N. While previous studies of genetic population structure using both mitochondrial and nuclear DNA confirm two genetically distinct stocks, sampling coverage has not been uniform or representative of all areas and estimates of admixture in areas of contact have not been provided. In this study, we examined: 1) the applicability of high-resolution melting analysis (HRMA) in population genetic studies of non-model organisms, 2) the use of nuclear markers in Atlantic swordfish and the methodology whereby nuclear gene variation can be quickly screened, identified, and genotyped using short-amplicon (SA) HRMA and unlabeled probe (UP) HRMA, and 3) the use of HRMA to characterize nuclear markers to study the genetic population structure of Atlantic swordfish using representative samples of the entire basin to provide an estimation of population admixture by means of Bayesian individual assignment.;High resolution melting analysis (HRMA) is shown to be a highly sensitive, rapid, closed-tube genotyping method amenable to high throughput and, though until recently primarily confined to clinical studies, suitable for population studies in non-model species. Ten nuclear markers were genotyped primarily by SA- and UP-HRMA in North Atlantic (n=419), South Atlantic (n=296), and Mediterranean (n=59) swordfish. Comparisons of pairwise F ST, AMOVA, PCoA, and Bayesian individual assignments were congruent with previous finding of three discrete populations with comparatively low levels of estimated gene flow for a marine organism (F ST = 0.039-0.126). Population admixture was identified and estimated in the Northeast Atlantic and appeared to be asymmetrical, with swordfish from the South Atlantic found among North Atlantic localities but no North Atlantic migrants identified in the South Atlantic. The Mediterranean boundary currently at the Strait of Gibraltar is found to extend west into Atlantic waters to approximately 8°W. Similarly, the boundary between North and South Atlantic swordfish should be revised to a line that extends north from 0°N 45°W to 25°N 45°W and from that position, as a nearly horizontal line, eastwards to the African coast. Finally, I show that Bayesian individual assignment using the developed marker set can be used for mixed stock allocation in the Northeast Atlantic.
机译：目前，北大西洋和南大西洋箭鱼（Xiphias gladius L.）是作为两个在5°N分开的种群进行管理的。尽管先前使用线粒体和核DNA进行的遗传种群结构研究都证实了两种遗传上不同的种群，但采样覆盖率并不一致或不能代表所有区域，并且未提供接触区域的混合估计。在这项研究中，我们研究了：1）高分辨率熔解分析（HRMA）在非模式生物种群遗传研究中的适用性，2）在大西洋箭鱼中使用核标记以及可以快速实现核基因变异的方法使用短扩增子（SA）HRMA和未标记探针（UP）HRMA进行筛选，鉴定和基因分型，以及3）使用HRMA表征核标记物，使用整个盆地的代表性样本研究大西洋剑鱼的遗传种群结构，可以通过贝叶斯个体分配来估计种群混合。高分辨率分离分析（HRMA）被证明是一种高灵敏度，快速，封闭管基因分型方法，适合高通量，尽管直到最近主要限于临床研究，适用于非模型物种的种群研究。在北大西洋（n = 419），南大西洋（n = 296）和地中海（n = 59）箭鱼中，主要通过SA-和UP-HRMA对10个核标记进行了基因分型。成对的F ST，AMOVA，PCoA和贝叶斯个体分配的比较与先前发现的三个离散种群的海洋生物估计基因流量水平相对较低（F ST = 0.039-0.126）是一致的。在东北大西洋发现并估计了混合种群，而且似乎是不对称的，在北大西洋地区发现了来自南大西洋的箭鱼，但在南大西洋没有发现北大西洋移民。发现目前在直布罗陀海峡的地中海边界向西延伸到大西洋水域，至大约8°W。同样，应该将北大西洋箭鱼和南大西洋箭鱼之间的边界修改为一条从北纬0°N 45°W到北纬25°N 45°W的线，并从该位置向近东延伸至非洲海岸。最后，我证明了使用发达的标记集进行的贝叶斯个体分配可用于东北大西洋的混合种群分配。

著录项

  • 作者

    Smith, Brad Lawrence.;

  • 作者单位

    Texas A&M University.;

  • 授予单位 Texas A&M University.;
  • 学科 Biology Genetics.;Agriculture Fisheries and Aquaculture.;Biology Oceanography.
  • 学位 Ph.D.
  • 年度 2012
  • 页码 143 p.
  • 总页数 143
  • 原文格式 PDF
  • 正文语种 eng
  • 中图分类
  • 关键词

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