R script to simulate the phenology of the pine processionary moth, Thaumetopoea pityocampa, from the egg to the last larval instar (L5).
收藏资源简介：
This folder contains : - ReadMe file with the following explanation - the R script to simulate the phenology of the pine processionary moth (PPM_phenological_model.R), - the flight curve of the pine processionary moth in Orleans (France) in 2019 (Flight_Orleans_2019.csv ; col 1 = date, col 2 = number of adult catches, col 3 = cumulated number of catches) - temperature dataset from June 2019 to December 2020 (Temperature.csv; col 1 = mean daily temperature, col 2 = Date, col 3 = Julian day continuously counted from one year to another). These meteorological data were recorded by the agroclimatic station at Orleans (number 45234, north latitude 47.827 °, east longitude 1.909 °), part of the INRAE national agroclimatic network managed by the service unit AgroClim (Avignon, France). The R script was used in R version 3.5.1 (2018-07-02) The R script will call automatically the flight curve and the temperature dataset given that you have placed them in your working directory, it requires the following R packages : lubridate, hydroGOF, ggplot2 (to be installed beforehand). The function coded to simulate the phenology of the pine processionary moth is called « param ». Input parameters are :<br> - Rm (Maximal development rate in days^(-1) ),<br> - Tm (Optimum temperature in °C)<br> - To (Spread of curve in °C)<br> for each life stage from the egg to L5.<br> This phenology model accumulates the daily development rate given by the Taylor equation and provides for each life stage (resegg, resL1,… resL5) : "min First day" (first day with an individual entering at this stage), "max First day" (last day with an individual entering at this stage), "min Last day" (first day with an individual achieving this stage development), "max Last day" (last day with an individual achieving this stage development), "mean duration" (mean duration of this life stage across all individuals). This is a summary of the phenology but “tabnb” provides the number of individuals present in each stage according to the date. To download the software R, please visit: https://www.r-project.org/ This work was supported by: the national project called PHENEC (grant from the French Research Agency – ANR – number19-CE32-0007; https://www6.inrae.fr/phenec/Project-description), the SOERE called TEMPO (https://tempo.pheno.fr/soere-tempo_eng/), and the French region Val de Loire. Associated scientific article:<br> Poitou L, Laparie M, Pincebourde S, Rousselet J, Suppo C, Robinet C (2022) Warming causes atypical phenology in a univoltine moth with differentially sensitive larval stages. Frontiers in Ecology and Evolution, DOI: 10.3389/fevo.2022.825875.
本文件夹包含以下内容： 1. 一份附带详细说明的README文件 2. 用于模拟松异舟蛾（pine processionary moth, PPM）物候学的R脚本（文件名为PPM_phenological_model.R） 3. 2019年法国奥尔良地区松异舟蛾的诱捕飞行曲线（文件名为Flight_Orleans_2019.csv；第1列为日期，第2列为成虫诱捕数量，第3列为累计诱捕数量） 4. 2019年6月至2020年12月的气温数据集（文件名为Temperature.csv；第1列为日平均气温，第2列为日期，第3列为跨年度连续统计的儒略日） 上述气象数据由法国奥尔良的农业气象站（编号45234，北纬47.827°，东经1.909°）采集，该站点隶属于法国国家农业食品与环境研究院（INRAE）的全国农业气象网络，由法国阿维尼翁的AgroClim业务单元负责运维。 本R脚本基于R 3.5.1版本（发布于2018-07-02）编写运行。若将飞行曲线文件与气温数据集置于你的R工作目录中，该脚本可自动调用这两份数据；运行前需预先安装以下R扩展包：lubridate、hydroGOF与ggplot2。 用于模拟松异舟蛾物候学的核心函数命名为"param"，其输入参数针对从卵期到L5幼虫期的各生命阶段设置，分别为： - Rm：最大发育速率（单位：d⁻¹） - Tm：最适温度（单位：℃） - To：曲线离散度（单位：℃） 该物候模型基于泰勒方程（Taylor equation）累计每日发育速率，并为每个生命阶段（resegg、resL1至resL5）输出以下结果： - "min First day"（最早进入日）：首个个体进入该阶段的日期 - "max First day"（最晚进入日）：最后一个个体进入该阶段的日期 - "min Last day"（最早完成日）：首个个体完成该阶段发育的日期 - "max Last day"（最晚完成日）：最后一个个体完成该阶段发育的日期 - "mean duration"（平均时长）：所有个体完成该阶段发育的平均耗时 上述为物候模拟的汇总结果，而"tabnb"可输出指定日期各生命阶段内的个体数量。 如需下载R软件，请访问：https://www.r-project.org/ 本数据集相关研究得到以下项目资助：法国国家科研署（ANR）资助的全国性项目PHENEC（项目编号19-CE32-0007，详情见https://www6.inrae.fr/phenec/Project-description）、名为TEMPO的长期生态学研究站网络SOERE（详情见https://tempo.pheno.fr/soere-tempo_eng/），以及法国中央-卢瓦尔河谷大区（Val de Loire）。 相关学术论文： Poitou L, Laparie M, Pincebourde S, Rousselet J, Suppo C, Robinet C (2022) 气候变暖导致单化性蛾类幼虫阶段差异化敏感的物候异常. 《生态学与进化前沿》（Frontiers in Ecology and Evolution）, DOI: 10.3389/fevo.2022.825875.
