Phylogeny

How to built a completely resolved species-level phylogeny using TCAT

A completely resolved species-level phylogeny is necessary for studies in macroevolution and macroecology. Sampling fraction and taxonomy are the two most commonly used methods to account for incomplete sampling, however, the pros and cons for both methods are unappreciated. Here I biefly demonstrate superior method --- TACT, using dated Vitales tree and its taxonomy to generate a completely resolved species-level Vitales tree.

AJB: Estimating rates and patterns of diversification with incomplete sampling: a case study in the rosids

Recent advances in generating large‐scale phylogenies enable broad‐scale estimation of species diversification. These now common approaches typically are characterized by (1) incomplete species coverage without explicit sampling methodologies and/or …

SciAdv: The evolutionary origins of the cat attractant nepetalactone in catnip

Catnip or catmint ( _Nepeta_ spp.) is a flowering plant in the mint family (Lamiaceae) famed for its ability to attract cats. This phenomenon is caused by the compound nepetalactone, a volatile iridoid that also repels insects. Iridoids are present …

MPE: Phylogeny and divergence time estimation of the walnut family (Juglandaceae) based on nuclear RAD-Seq and chloroplast genome data

The walnut family Juglandaceae was widely distributed in the Northern Hemisphere while several extant genera now exhibit intercontinental disjunctions. Recent progress in the systematics of Juglandaceae has greatly broadened our knowledge about its …

Demonstrating gene tree conflict with Phyparts Piecharts

Explained the importance of understanding the underlying conflict among gene trees. List all the steps required to reach the final stage of data visualization. Along with each step, necesary methods (software, an scripts) and data sets are also deatailed.

MPE: Accelerated diversification correlated with functional traits shapes extant diversity of the early divergent angiosperm family Annonaceae

A major goal of phylogenetic systematics is to understand both the patterns of diversification and the processes by which these patterns are formed. Few studies have focused on the ancient, species-rich Magnoliales clade and its diversification …

PhyloSynth

PhyloSynth is a collaborative group of scientists that aim to provide an updated framework and set of phylogenies for the plant tree of life.

Research Talk at IBCAS Youth Forum

Research talk to introduce my 5-year post-doc research to students, and researchers at Institute of Botany, Chinese Academy of Sciences

Ecology: For common community phylogenetic analyses, go ahead and use synthesis phylogenies

Should we build our own phylogenetic trees based on gene sequence data, or can we simply use available synthesis phylogenies? This is a fundamental question that any study involving a phylogenetic framework must face at the beginning of the project. …

Research Lightning Talks at Florida Museum of Natural History

5-min lightning talk to introduce my research to researchers at Florida Museum of Natural History