Diversity patterns and speciation processes in a two-island system with continuous migration

supplementary.pdf contains the Supplementary Information to the manuscript. videos.zip contains three videos mentioned in the manuscript, showing the evolution of populations for specific values of genome size (B) and migration probability (ε): B = 1000 and ε = 0.004, B = 2000 and ε = 0.004, and B = 2000 and ε = 0.02. Frames show all individuals in each island in time steps of two generations, and the videos start at the onset of radiation. Individuals with the same color belong to the same species and they are connected by links when they belong to the same island. The bars on the right side indicate the distribution of abundances in each island over time. two-islands.zip is a package with the files to compile the simulation of the population evolution. Content: seed.in, infinite_model.f90, README.md, and Program_FiniteB_2islands.f90. We provide two codes, both written in FORTRAN: Program_FiniteB_2islands.f90 This program considers a finite genome, and the user can set the parameters in the code. The outputs are TemporalB.txt, NetworkB.txt, Ind_informatonB.txt. 1.1) Temporal.txt has 7 columns, the first 3 refers to the parameters: population size (pop), genome size (B) and migration rate (mig). The remaining columns refer to the time (generation), species code (esp), and its respective abundance in island 1 (abund1) and in island2 (abund2). 1.2) Network.txt can be used to plot the network of genetic compatibility. It has four columns: the time (generation), codes of a pair of compatible individuals (ind1 and ind2), and the percentage of dissimilarity between the two individuals H/B*100 (H/B). 1.3) Ind_information.txt has five columns: it gives at each time (generation), the code of each individual (ind), its species (esp) under a global referential, the island that it is (island), and if it is a migrant (migrate_yes/no) For additional information, please, contact Sabrina Araujo ([e-mail]). infinite_model.f90 This program considers the infinite genome model, and the user can set the other parameters in the code. The outputs are: number.dat - time, sp.total, sp.island1, sp.island2 numbertot.dat - 3 lines for each time step: time, abundances of species in island1 time, abundances of species in island2 time, abundances of all species in the system

supplementary.pdf 包含本稿件的补充信息。videos.zip 包含论文中提及的三段视频，展示基因组大小（B）与迁移概率（ε）取特定参数时的种群演化过程，分别为B=1000且ε=0.004、B=2000且ε=0.004，以及B=2000且ε=0.02。视频以每两代作为一个时间步，逐帧展示每个岛屿上的全部个体，起始于物种辐射爆发的初始时刻。颜色一致的个体属于同一物种，同一岛屿内的个体间以连线相连。右侧的柱状图用于呈现各岛屿上物种丰度随时间的分布情况。

two-islands.zip 为种群演化模拟编译所需的文件压缩包，内含seed.in、infinite_model.f90、README.md以及Program_FiniteB_2islands.f90。

本次提供两款均采用FORTRAN编写的代码：其一为Program_FiniteB_2islands.f90，该程序基于有限基因组模型，用户可在代码内自行设定相关参数。其输出文件包括TemporalB.txt、NetworkB.txt以及Ind_informatonB.txt。
1.1) TemporalB.txt：共7列，前3列为参数项，分别为种群规模（pop）、基因组大小（B）与迁移率（mig）；剩余4列依次为时间（世代数）、物种编码（esp）、该物种在岛屿1的丰度（abund1）以及岛屿2的丰度（abund2）。
1.2) NetworkB.txt：可用于绘制遗传兼容性网络，共4列，依次为时间（世代数）、一对兼容个体的编码（ind1与ind2），以及二者间的遗传差异百分比H/B×100（即H/B）。
1.3) Ind_informatonB.txt：共5列，记录每个时间步（世代数）下的个体信息：个体编码（ind）、全局参照系下的物种归属（esp）、个体所在岛屿（island），以及是否为迁移个体（migrate_yes/no）。

如需获取更多相关信息，请联系Sabrina Araujo（邮箱：[e-mail]）。

infinite_model.f90：该程序基于无限基因组模型，用户可在代码内自行设定其余参数。其输出文件包括：
- number.dat：包含4列数据，依次为时间（世代数）、总物种数（sp.total）、岛屿1的物种数（sp.island1）以及岛屿2的物种数（sp.island2）。
- numbertot.dat：每个时间步对应3行数据，分别为岛屿1的物种丰度随时间变化、岛屿2的物种丰度随时间变化，以及系统内所有物种的总丰度随时间变化。