Bayesian support for Evolution: detecting phylogenetic signal in a subset of the primate family
The theory of evolution states that the diversity of species can be explained by descent with modification. Therefore, all living beings are related through a common ancestor. This evolutionary process must have left traces in our molecular composition. In this work, we present a randomization procedure in order to determine if a group of 5 species of the primate family, namely, macaque, guereza, orangutan, chimpanzee and human, has retained these traces in its molecules. Firstly, we present the randomization methodology through two toy examples, which allow to understand its logic. We then carry out a DNA data analysis to assess if the group of primates contains phylogenetic information which links them in a joint evolutionary history. This is carried out by monitoring a Bayesian measure, called marginal likelihood, which we estimate by using nested sampling. We found that it would be unusual to get the relationship observed in the data among these primate species if they had not shared a common ancestor. The results are in total agreement with the theory of evolution.
Code (0)
등록된 구현이 없습니다.
Tasks
DiversitySimilar Papers 제목 키워드 기반
Evolutionary shift detection with ensemble variable selection
1. Abrupt environmental changes can lead to evolutionary shifts in trait evolution. Identifying these shifts is an important step in understanding the evolutionary history of phenotypes. 2. We propose an ensemble variabl…
Variable SelectionApproximate Bayesian computation for Markovian binary trees in phylogenetics
Phylogenetic trees describe the relationships between species in the evolutionary process, and provide information about the rates of diversification. To understand the mechanisms behind macroevolution, we consider a cla…
Online Bayesian phylogenetic inference: theoretical foundations via Sequential Monte Carlo
Phylogenetics, the inference of evolutionary trees from molecular sequence data such as DNA, is an enterprise that yields valuable evolutionary understanding of many biological systems. Bayesian phylogenetic algorithms, …
Comparing the topology of phylogenetic network generators
Phylogenetic networks represent evolutionary history of species and can record natural reticulate evolutionary processes such as horizontal gene transfer and gene recombination. This makes phylogenetic networks a more co…
GeoPhy: Differentiable Phylogenetic Inference via Geometric Gradients of Tree Topologies
Phylogenetic inference, grounded in molecular evolution models, is essential for understanding the evolutionary relationships in biological data. Accounting for the uncertainty of phylogenetic tree variables, which inclu…
Variational Inference