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Detecting population declines via monitoring the effective number of breeders (Nb ).
Molecular Ecology Resources ( IF 7.7 ) Pub Date : 2020-09-02 , DOI: 10.1111/1755-0998.13251
Gordon Luikart 1 , Tiago Antao 2 , Brian K Hand 1 , Clint C Muhlfeld 3 , Matthew C Boyer 4 , Ted Cosart 1 , Brian Trethewey 1 , Robert Al-Chockhachy 5 , Robin S Waples 6
Affiliation  

Estimating the effective population size and effective number of breeders per year (Nb) can facilitate early detection of population declines. We used computer simulations to quantify bias and precision of the one‐sample LDNe estimator of Nb in age‐structured populations using a range of published species life history types, sample sizes, and DNA markers. Nb estimates were biased by ~5%–10% when using SNPs or microsatellites in species ranging from fishes to mosquitoes, frogs, and seaweed. The bias (high or low) was similar for different life history types within a species suggesting that life history variation in populations will not influence Nb estimation. Precision was higher for 100 SNPs (H ≈ 0.30) than for 15 microsatellites (H ≈ 0.70). Confidence intervals (CIs) were occasionally too narrow, and biased high when Nb was small (Nb < 50); however, the magnitude of bias would unlikely influence management decisions. The CIs (from LDNe) were sufficiently narrow to achieve high statistical power (≥0.80) to reject the null hypothesis that Nb = 50 when the true Nb = 30 and when sampling 50 individuals and 200 SNPs. Similarly, CIs were sufficiently narrow to reject Nb = 500 when the true Nb = 400 and when sampling 200 individuals and 5,000 loci. Finally, we present a linear regression method that provides high power to detect a decline in Nb when sampling at least five consecutive cohorts. This study provides guidelines and tools to simulate and estimate Nb for age structured populations (https://github.com/popgengui/agestrucnb/), which should help biologists develop sensitive monitoring programmes for early detection of changes in Nb and population declines.

中文翻译:

通过监测育种者的有效数量 (Nb ) 来检测种群下降。

估计每年的有效种群规模和有效育种者数量 ( N b ) 有助于及早发现种群下降。我们使用一系列已发表的物种生活史类型、样本大小和 DNA 标记,使用计算机模拟来量化年龄结构种群中N b的单样本LDNe估计量的偏差和精度。在从鱼类到蚊子、青蛙和海藻的物种中使用 SNP 或微卫星时,N b估计值存在约 5%–10% 的偏差。一个物种内不同生活史类型的偏差(高或低)是相似的,这表明种群的生活史变化不会影响N b估计。100 个 SNP ( H  ≈ 0.30) 的精度高于15 个微卫星 ( H  ≈ 0.70)。置信区间 (CI) 有时太窄,并且当N b小时(N b  < 50)偏高;然而,偏差的大小不太可能影响管理决策。顺式(从LDNe)充分缩小,以实现高功率统计(≥0.80)拒绝零假设,即Ñ b  = 50时的真实Ñ b  = 30和采样50分的个人和200个SNP时。类似地,顺被足够窄,以拒绝Ñ b  = 500时的真实Ñb  = 400 并且当采样 200 个个体和 5,000 个基因座时。最后,我们提出了一种线性回归方法,该方法在对至少五个连续队列进行采样时提供高功效来检测N b的下降。本研究为模拟和估计年龄结构种群的N b (https://github.com/popgengui/agestrucnb/)提供了指导方针和工具,这将有助于生物学家开发灵敏的监测程序,以便及早发现N b的变化和种群下降.
更新日期:2020-09-02
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