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Escallonia (Escalloniaceae) is a New World genus of c. 39 species distributed mainly in the South American highlands. Plastid DNA sequence data from the intergenic spacers trnS-trnG and 3′ trnV-ndhC and the ndhF gene f...

The accurate identification of taxa of Aotus is essential for 1) the development of precise biomedical assays, 2) the determination of potential illegal traffic of this genus, and 3) conservation. Although many studies h...

Subjects / keywords: AlphaFold; convergence; convergent evolution; foldtree; homoplasy; protein structure

In plant leaves, resource use follows a trade-off between rapid resource capture and conservative storage. This “worldwide leaf economics spectrum” consists of a suite of intercorrelated leaf traits, among which leaf...

The nominal species Oligoryzomys flavescens (yellow pygmy rice rat) appears in different phylogenetic reconstructions as paraphyletic, forming a complex together with Oligoryzomys fornesi (Fornes' pygmy rice rat) or Olig...

UNLABELLED: Analysis of Phylogenetics and Evolution (APE) is a package written in the R language for use in molecular evolution and phylogenetics. APE provides both utility functions for reading and writing data and mani...

Computational evolutionary biology, statistical phylogenetics and coalescent-based population genetics are becoming increasingly central to the analysis and understanding of molecular sequence data. We present the Bayesi...

In phylogenetics, the unrooted model of phylogeny and the strict molecular clock model are two extremes of a continuum. Despite their dominance in phylogenetic inference, it is evident that both are biologically unrealis...

Subjects / keywords: Biology; Ribosomal RNA; Phylogenetics; Gene; Genetics; Computational biology

Abstract This book presents the statistical methods that are useful in the study of molecular evolution and illustrates how to use them in actual data analysis. Molecular evolution has been developing at a great pace ove...

Bayesian inference of phylogeny using Markov chain Monte Carlo (MCMC) plays a central role in understanding evolutionary history from molecular sequence data. Visualizing and analyzing the MCMC-generated samples from the...

Summary: After more than fifteen years of existence, the R package ape has continuously grown its contents, and has been used by a growing community of users. The release of version 5.0 has marked a leap towards a modern...

With the advent of molecular phylogenetics, Perrie & al. (in Austral. Syst. Bot. 28: 256–264. 2015), Schneider & al. (in Perspect. Pl. Ecol. Evol. Syst. 18: 70–78. 2016), Shang & al. (in Molec. Phylogen. Evol. 127: 4...

The Drawida japonica (Michaelsen, 1892) species complex is widely distributed across Asia, yet its taxonomy remains challenging due to morphological conservatism and cryptic diversity. Using an integrative taxonomic appr...

After almost 70 years of stability following publication of Andersen's (1912) monograph on the group, the systematics of megachiropteran bats (Chiroptera: Pteropodidae) was thrown into flux with the advent of molecular p...

ABSTRACT Enteric diseases of bacterial origin are frequent in the pig industry, of particular notoriety are the colibacillosis that mainly affect piglets and cause great damage to the swine industry worldwide. The aim of...

The inference of phylogenetic hypotheses from landmark data has been questioned during the last two decades. Besides theoretical concerns, one of the limitations pointed out for the use of landmark data in phylogenetics ...

Abstract Zoonoses are among the greatest threats to human health, with many zoonotic pathogens believed to have emerged following the Neolithic transition. Palaeomicrobiological investigations of the zooarchaeological re...