6 Works

Data from: A gravid fossil turtle from the Early Cretaceous reveals a different egg development strategy to that of extant marine turtles

Edwin-Alberto Cadena, Mary Luz Parra-Ruge, Juan De D. Parra-Ruge & Santiago Padilla-Bernal
Extant sea turtles develop and lay pliable (flexible) eggs, however, it is unknown if they inherited this reproductive strategy from their closer fossil relatives or corresponds to an evolutionary novelty. Here we describe the first undisputable gravid marine fossil turtle ever found, from the early Cretaceous of Colombia, belonging to Desmatochelys padillai Cadena and Parham, which constitutes a representative of Protostegidae. Using thin sectioning of one the eggs, as well as scanning electron microscopy coupled...

Data from: Comparing the rates of speciation and extinction between phylogenetic trees

Liam J. Revell
Over the past decade or so it has become increasingly popular to use reconstructed evolutionary trees to investigate questions about the rates of speciation and extinction. Although the methodology of this field has grown substantially in its sophistication in recent years, here I’ll take a step back to present a very simple model that is designed to investigate the relatively straightforward question of whether the tempo of diversification (speciation and extinction) differs between two or...

Data from: Comparing convenience and probability sampling for urban ecology applications

Andrew Speak, Francisco J. Escobedo, Alessio Russo & Stefan Zerbe
1. Urban forest ecosystems confer multiple ecosystem services. There is thus a need to quantify ecological characteristics in terms of community structure and composition so that benefits can be better understood in ecosystem service models. Efficient sampling and monitoring methods are crucial in this process. 2. Full tree inventories are scarce due to time and financial constraints, thus a variety of sampling methods exist. Modern vegetation surveys increasingly use stratified-random plot-based sampling to reduce the...

Data from: Graphs in phylogenetic comparative analysis: Anscombe’s quartet revisited

Liam J. Revell, Klaus Schliep, Eugenio Valderrama & James E. Richardson
1. In 1973 the statistician Francis Anscombe used a clever set of bivariate datasets (now known as Anscombe’s quartet) to illustrate the importance of graphing data as a component of statistical analyses. In his example, each of the four datasets yielded identical regression coefficients and model fits, and yet when visualized revealed strikingly different patterns of covariation between x and y. 2. Phylogenetic comparative methods are statistical methods too, yet visualizing the data and phylogeny...

Data from: Convergent morphology in Alpinieae (Zingiberaceae): recircumscribing Amomum as a monophyletic genus

Hugo De Boer, Mark Newman, Axel Dalberg Poulsen, A. Jane Droop, Tomas Fer, Le Thi Thu Hien, Kristyna Hlavata, Vichith Lamxay, James E. Richardson, Karin Steffen & Jana Leong-Škorničková
The tropical ginger genus Amomum (Zingiberaceae) has always posed challenges for classification based on morphological characters. Previous molecular phylogenetic studies showed Amomum to be paraphyletic but limited sampling and absence of the data of the type Amomum subulatum made it impossible to resolve the paraphyly and make nomenclatural changes. Here, Amomum is further investigated in a multi-marker phylogenetic framework using matK and nrITS including multiple accessions of the type, the genus Elettaria and additional accessions...

Data from: Comparing evolutionary rates between trees, clades, & traits

Liam J. Revell, Laura E. González-Valenzuela, Alejandro Alfonso, Luisa A. Castellanos-García, Carlos E. Guarnizo & Andrew J. Crawford
1. The tempo of evolutionary change through time is among the most heavily studied dimensions of macroevolution using phylogenies. 2. Here, we present a simple, likelihood-based method for comparing the rate of phenotypic evolution for continuous characters between trees. Our method is derived from a previous approach published by Brian O’Meara and colleagues in 2006. 3. We examine the statistical performance of the method and find that it suffers from the typical downward bias expected...

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