Dynamics of mixed-ploidy populations under demographic and environmental stochasticities

The population dynamics of autopolyploids – organisms with more than two genome copies of a single species – and their diploid progenitors have been extensively studied. The acquisition of multiple genome copies is heavily influenced by stochasticity, which strongly suggests the efficacy of a probabilistic approach to examine the long-term dynamics of a population with multiple cytotypes. Yet, our current understanding of the dynamics of autopolyploid populations has not incorporated stochastic population dynamics and coexistence theory. To investigate the factors contributing to the probability and stability of coexisting cytotypes, we designed a new population dynamics model that incorporates demographic and environmental stochasticities to simulate the formation, establishment, and persistence of diploids, triploids, and autotetraploids in the face of gene flow among cytotypes. Contrary to previous theoretical research, increased selfing rates and pronounced reproductive isolation pr..., All simulations were generated and analyzed with code provided in this repository., , # Dynamics of mixed-ploidy populations under demographic and environmental stochasticities

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This dataset contains R scripts to simulate and analyze simulation output associated with:
Gaynor ML, Kortessis N, Soltis DE, Soltis PS, and Ponciano JM. 2024. Dynamics of mixed-ploidy populations under demographic and environmental stochasticities.

The simulation framework is available in our R package AutoPop: [https://github.com/mgaynor1/AutoPop/](https://github.com/mgaynor1/AutoPop/), also available via zenodo: [10.5281/zenodo.14147297](https://doi.org/10.5281/zenodo.14147297).

# Summary

In this study, we designed a new stochastic stage-structured matrix population dynamics model for diploid, triploid, and autotetraploid. We then utilize this model to characterize the effects of reproductive isolation, cytotype interactions, and variation in the environment on: (1) the probability that diploids and tetraploids coexist and (2) the resulting stability of coexistence.

Due to the size o...

同源多倍体（autopolyploids）——即单一物种具有两个以上基因组拷贝的生物——及其二倍体祖先的种群动态已得到广泛研究。多基因组拷贝的获得受随机性（stochasticity）的显著影响，这强烈表明采用概率方法研究具有多种细胞型（cytotypes）种群长期动态的有效性。然而，我们目前对同源多倍体种群动态的理解尚未整合随机种群动态（stochastic population dynamics）与共存理论。为探究影响共存细胞型概率与稳定性的因素，我们设计了一种新的种群动态模型，该模型整合了种群统计随机性与环境随机性（demographic and environmental stochasticities），以模拟在细胞型间存在基因流的情况下，二倍体、三倍体和同源四倍体的形成、建立与持续存在。与先前的理论研究相反，自交率的提高和显著的生殖隔离（reproductive isolation）...，所有模拟均通过本仓库中提供的代码生成和分析。

# 种群统计与环境随机性下的混合倍性种群动态

本数据集包含用于模拟和分析以下研究相关输出的R脚本：Gaynor ML、Kortessis N、Soltis DE、Soltis PS及Ponciano JM. 2024. 《种群统计与环境随机性下的混合倍性种群动态》。该模拟框架可通过我们的R包AutoPop获取：[https://github.com/mgaynor1/AutoPop/](https://github.com/mgaynor1/AutoPop/)，亦可通过Zenodo获取：[10.5281/zenodo.14147297](https://doi.org/10.5281/zenodo.14147297)。

# 摘要

在本研究中，我们针对二倍体、三倍体和同源四倍体（autotetraploid）设计了一种新的随机阶段结构矩阵种群动态模型。我们随后利用该模型表征生殖隔离（reproductive isolation）、细胞型（cytotypes）互作及环境变异对以下两方面的影响：（1）二倍体与四倍体共存的概率；（2）共存的稳定性。由于数据规模...