Evaluating the interaction of faecal pellet deposition rates and DNA degradation rates to optimize sampling design for DNA‐based mark–recapture analysis of Sonoran pronghorn
Evaluating the interaction of faecal pellet deposition rates and DNA degradation rates to optimize sampling design for DNA‐based mark–recapture analysis of Sonoran pronghorn
复制标题
评估粪便颗粒沉积率和 DNA 降解率的相互作用，以优化索诺兰叉角羚基于 DNA 的标记重捕获分析的采样设计
DOI：
10.1111/1755-0998.12362
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发表时间：
2015
影响因子：
7.7
通讯作者：
L. Waits
中科院分区：
文献类型：
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作者：
S. Woodruff;T. Johnson;L. Waits
种群人口统计知识对于物种管理很重要，但对于低密度、广泛分布的物种来说可能具有挑战性。对濒临灭绝的索诺兰叉角羚 (Antilocapra americana sonoriensis) 进行种群监测对于评估恢复工作的成功至关重要，与传统方法相比，无创 DNA 采样 (NDS) 可能更具成本效益且侵入性更小。我们评估了粪便颗粒沉积率和粪便 DNA 降解率，以最大限度地提高基于 DNA 的标记重捕获分析的采样效率。使用 1-7 天的采样间隔在 5 个水坑收集沉积数据，平均每只叉角羚每天一堆颗粒。为了评估核 DNA (nDNA) 降解情况，将 20 个粪便样本暴露于当地环境条件下，并在 1 至 124 天的 8 个时间点取样。六个 nDNA 微卫星位点的平均扩增成功率在第一天为 81%，在第七天为 63%，在第 14 天为 2%，在第 60 天为 0%。我们通过估计成功样本的数量、个体识别的成功率和每个成功样本的实验室成本来评估不同采样间隔（1-10 天）的效率。随着采样间隔的增加，每个成功样本的成本增加，成功率和效率下降。结果表明，粪便颗粒的 NDS 是索诺兰叉角羚个体识别、种群估计和人口统计监测的可行方法。我们建议收集 >7 天前的样本，并估计在夏季条件下（即极热和暴露于紫外线）4-7 天的采样间隔将达到标记重新捕获分析所需的样本大小，同时最大限度地提高效率。
Knowledge of population demographics is important for species management but can be challenging in low‐density, wide‐ranging species. Population monitoring of the endangered Sonoran pronghorn (Antilocapra americana sonoriensis) is critical for assessing the success of recovery efforts, and noninvasive DNA sampling (NDS) could be more cost‐effective and less intrusive than traditional methods. We evaluated faecal pellet deposition rates and faecal DNA degradation rates to maximize sampling efficiency for DNA‐based mark–recapture analyses. Deposition data were collected at five watering holes using sampling intervals of 1–7 days and averaged one pellet pile per pronghorn per day. To evaluate nuclear DNA (nDNA) degradation, 20 faecal samples were exposed to local environmental conditions and sampled at eight time points from one to 124 days. Average amplification success rates for six nDNA microsatellite loci were 81% for samples on day one, 63% by day seven, 2% by day 14 and 0% by day 60. We evaluated the efficiency of different sampling intervals (1–10 days) by estimating the number of successful samples, success rate of individual identification and laboratory costs per successful sample. Cost per successful sample increased and success and efficiency declined as the sampling interval increased. Results indicate NDS of faecal pellets is a feasible method for individual identification, population estimation and demographic monitoring of Sonoran pronghorn. We recommend collecting samples >7 days old and estimate that a sampling interval of 4–7 days in summer conditions (i.e. extreme heat and exposure to UV light) will achieve desired sample sizes for mark–recapture analysis while also maximizing efficiency.
DOI：
10.1111/j.1471-8286.2005.01155.x
发表时间：
2006-03-01
期刊：
MOLECULAR ECOLOGY NOTES
影响因子：
--
作者：
Peakall, R;Smouse, PE
通讯作者：
Smouse, PE