Data for: Improving population size estimation at Western Capercaillie leks: lek counts vs. genetic methods

The Western Capercaillie (Tetrao urogallus), hereafter capercaillie, is the largest galliform bird present in the boreal and montane forests of the Western Palearctic. Precise and accurate methods for estimating the number of individuals and/or their densities are crucial for the proper management of its free-ranging populations. However, obtaining reliable estimates of the abundance of populations of wild species and, particularly, of birds is not a simple task. In the case of lek-mating birds such as capercaillie, surveys are traditionally based on lek counts, that is, counts of calling males present in their mating areas: the leks. This study was carried out on the Pyrenees at six capercaillie leks where two different lek counting approaches were performed: hide-based and walk-based. The results were compared with those obtained from an estimate of minimum population size (MPE) derived from genotyping all faeces samples found in the lek area, and with a population size estimate deriv..., To estimate the population size (N) of each lek, we use only the male samples that have been correctly analysed i.e., with a QI>0.6. We used the Bayesian approach of this classical M0 model, in which the model is implemented in JAGS code (Plummer 2003) using data augmentation (Kéry and Schaub 2012, Chapter 6.2.1). This model estimated the detection probability on all three sampling occasions based on the assumption that all individuals in each sampling session have equal detection probabilities (see Otis et al., 1978, Kéry and Schaub, 2012 and Supplementary Material S1 for more details and see the Otis Mo model code in R). References: Kéry, M. and Schaub, M. 2012. Bayesian population analysis using WinBUGS. A hierarchical perspective. First edition. - Academic Press. Otis, D.L., Burnham, K. P., White, G. C. and Anderson, D. R. 1978. Statistical inference from capture data on closed animal populations. – Wildl. Monogr. 62:3–135. Plummer, M. 2003. JAGS: a program for analysis of Bayesi..., , # Data for: Improving population size estimation at Western Capercaillie leks: lek counts vs. genetic methods The databases provide the date of each sampling season and the number of individuals genotyped with the number of times each individual has been sampled within each sampling session. We provide our data in nine databases (the different leks) ready-to-use databases by loading them into the R functions in Supplementary Material S1 for the Otis M0 model. The databases are: AND1-2018.xlsx survey: 2018-1 AND1-2019.xlsx survey: 2019-1 AND2-2007.xlsx survey: 2017-2 T10-2018.xlsx survey: 2018-2 T17-2016.xlsx survey: 2016-1 T18-2016.xlsx survey: 2016-2 T19-2016.xlsx survey: 2016-3 T20-2016.xlsx survey: 2016-4 T20-2017.xlsx survey: 2017-1 Abbreviations of the database: date: date the sample was collected (faeces) indv: label of the genotyped individual An additional database is: Y_capercaille.xlsx This database is a summary of the samples counting for the whole nine leks ...西方松鸡（Western Capercaillie，学名*Tetrao urogallus*，下文简称松鸡）是古北界西部寒温带针叶林与山地森林中体型最大的鸡形目鸟类。精准估算其种群个体数量与种群密度，对其野生种群的科学管理至关重要。然而，获取野生鸟类种群丰度的可靠估算值并非易事。对于松鸡这类采用求偶场交配（lek-mating）策略的鸟类，传统调查多基于求偶场计数法：即统计其交配区域（求偶场，lek）内鸣叫雄性的数量。 本研究在比利牛斯山脉的6处松鸡求偶场开展，采用两种不同的求偶场计数方案：隐蔽观测法（hide-based）与徒步巡查法（walk-based）。研究结果与两类种群规模估算值进行了对比：一是通过对求偶场区域内所有粪便样本进行基因分型得到的最小种群规模估算值（minimum population size, MPE），二是[...]（原文此处截断）。 为估算每个求偶场的种群规模（N），本研究仅纳入经正确分析的雄性样本，即质量指数（QI）大于0.6的样本。 我们采用经典奥的斯M0模型（Otis M0 model）的贝叶斯分析框架（Bayesian approach），该模型通过数据增强（data augmentation）在JAGS代码（Plummer 2003）中实现（Kéry与Schaub 2012，第6.2.1章）。模型基于「每次采样时段内所有个体检测概率均等」的假设，对三次采样的检测概率进行估算（详细信息参见Otis等, 1978；Kéry与Schaub 2012及补充材料S1，R语言中奥的斯M0模型代码参见相关文档）。 参考文献： Kéry, M. 与 Schaub, M. 2012. 《基于WinBUGS的贝叶斯种群分析：层级视角》，第一版. 学术出版社（Academic Press）. Otis, D.L., Burnham, K.P., White, G.C. 与 Anderson, D.R. 1978. 封闭动物种群捕获数据的统计推断. ——《野生动物专题文集》（Wildl. Monogr.）62: 3–135. Plummer, M. 2003. JAGS：贝叶斯分析程序[...]（原文此处截断） # 数据集主题：提升西方松鸡求偶场种群规模估算精度：求偶场计数法与遗传学法的对比 本数据集提供了各采样季的采样日期，以及经基因分型的个体数量，同时记录了每个个体在各采样时段内的被采样次数。 我们将数据整理为9个可供直接使用的数据库（对应9处不同求偶场），可通过加载至补充材料S1中提供的R语言函数，用于奥的斯M0模型分析。各数据库如下： AND1-2018.xlsx（采样季：2018-1） AND1-2019.xlsx（采样季：2019-1） AND2-2007.xlsx（采样季：2017-2） T10-2018.xlsx（采样季：2018-2） T17-2016.xlsx（采样季：2016-1） T18-2016.xlsx（采样季：2016-2） T19-2016.xlsx（采样季：2016-3） T20-2016.xlsx（采样季：2016-4） T20-2017.xlsx（采样季：2017-1） 数据库字段说明： date：粪便样本的采集日期 indv：基因分型个体的标签 额外数据库： Y_capercaille.xlsx 该数据库汇总了全部9处求偶场的样本计数信息[...]（原文此处截断）