I’m a post-doc in the Antonelli Lab at the University of Gothenburg, Sweden, working on pipelines in R for phylogenetic analysis. As part of this work I’m converting the program SUPERSMART to R, a project called “supersmartR”. Prior to this position, I did a PhD at Imperial College London and the Zoological Society of London where I attempted to re-appraise the “living fossil” concept. In my work, I particularly enjoy developing software and have created a range of R and python packages for munging and analysing biological data (from DNA to species records).
PhD in Macroevolution and Palaeobiology, 2017
Imperial College London & Zoological Society of London
MRes in Biodiversity Informatics and Genomics, 2013
Imperial College London
BSc in Biology with French for science, 2012
Imperial College London & Université Paris-Sud
As part of my post-doc I’m devising and developing an automated pipeline for generating phylogenetic trees,
supersmartR. This new program acts as an update to SUPERSMART and is comprised of a series of independent R packages.
All R packages developed as part of this project are aimed to be of the highest quality, and as a result they are all submitted to ROpenSci for thorough scrutiny, review and testing.
For the latest updates on
supersmartR progress, check out the website.
Background photo credit: Asadalikhan1993
“Living fossil” is a term coined by Darwin often used to describe organisms that appear to be ancient and have changed little. The term, however, is hugely controversial: it has multiple definitions and interpretations; it seems to recall the debunked Victorian science of “evolutionary progress”; and many, wrongly, use the term to argue that evolution can be halted.
In my PhD I attempted to take a new look at the term. I wanted to understand whether the term could be a real label: does it denote a unique category of biodiversity? I also attempted to clarify the concept by proposing a quantifiable definition. Additionally, I explored what the label means for conservation biologists (Are living fossils worth conserving?) and what potential factors may explain the “living fossil”-condition.
Below are the top “living fossil” birds and mammals according to their proximate “Evolutionary Performance Index” (pEPI) – the lower the less performant and the more likely the taxon is a living fossil. The table also holds key stats on over 20,000 other plants and animals. For more information see the paper, “Quantifying the Living Fossil Concept”
N.spp = Number of species, Age = Time since clade split, Success = number of species relative to sister, Change = observed morpholoical and ecological change relative to sister, pEPI = proximate evolutionary performance (excludes change) [plus % quartile], EPI = evolutionary performance (includes change), ED = Evolutionary distinctness Open table in a new window
Background photo credit: Patrick K59