Data and code for biogeochemical niche of alpine plants

Data and code for "Biogeochemical niche differentiation stabilizes plant species coexistence". figshare. Dataset.All R scripts use relative paths and assume the working directory is the one where the code is located.Contents:The Appendix Table are the detailed summary of Bayesian phylogenetic linear mixed modelsThe other file contains the dataset and R code used in this study. In this dataset file (alpine_plant_biogeo_niche), we contain 12 sheets.Sheet 1, named "Metadata" contains a detailed description of the abbreviations that appear in the dataset.Sheet 2, named "47spe_list", represents 47 wetland plant species involved in this study;Sheet 3, named "plant_BN", represents the leaf elementome data of 47 species;Sheet 4, named "plant_BN_tem ", represents the leaf elementome data of 47 species under different temperature;Sheet 5, named "spe_tem_group", represents the 10 species under different temperature;Sheet 6, named "site_spe", represents the presence/occurrence of each species in the site;Sheet 7, named "absolute_coexistence", represents the absolute coexisting frequency between the 15 species;Sheet 8, named "relative_coexistence", represents the relative coexisting frequency between the 15 species;Sheet 9, named "coex_freq", includes species coexisting frequency and elementome distance;Sheet 10, named "hypervolume_coex_corr ", includes species coexisting frequency, biogeochemical niche hypervolume distance and overlap between two species;Sheet 11, named "15spe_16ele, includes the concentrations and their differences of 16 elements among 15 species;Sheet 12, named "elementome_div", includes species richness, Shannon-Wiener index and elementome diversity at community-level.

本数据集配套论文《生物地球化学生态位分化维持植物物种共存》，相关数据与代码托管于figshare数据集平台。所有R脚本均采用相对路径，默认工作目录为代码所在文件夹。
数据集具体内容如下：
附录表格为贝叶斯系统发育线性混合模型（Bayesian phylogenetic linear mixed models）的详细汇总结果。其余文件包含本研究使用的数据集与R代码。本数据集文件（alpine_plant_biogeo_niche）共包含12个工作表：
1. 工作表1「Metadata（元数据）」：详细阐释数据集中出现的所有缩写词；
2. 工作表2「47spe_list」：收录本研究涉及的47种湿地植物物种；
3. 工作表3「plant_BN」：包含47个物种的叶片元素组学（elementome）数据；
4. 工作表4「plant_BN_tem」：包含47个物种在不同温度条件下的叶片元素组学数据；
5. 工作表5「spe_tem_group」：包含不同温度梯度下的10个物种分组信息；
6. 工作表6「site_spe」：记录各物种在样地中的出现/存在情况；
7. 工作表7「absolute_coexistence」：记录15个物种间的绝对共存频率；
8. 工作表8「relative_coexistence」：记录15个物种间的相对共存频率；
9. 工作表9「coex_freq」：包含物种共存频率与元素组学距离数据；
10. 工作表10「hypervolume_coex_corr」：包含物种共存频率、生物地球化学生态位超体积（hypervolume）距离与物种间生态位重叠数据；
11. 工作表11「15spe_16ele」：包含15个物种的16种元素浓度及其差值数据；
12. 工作表12「elementome_div」：包含群落水平的物种丰富度、香农-威纳指数（Shannon-Wiener index）与元素组多样性数据。