Journal clubs

We will discuss the recent study of Gray et al. that uses ecological niche modelling and coalescent analyses to infer the phylogeography of the Anolis sericeus complex.

The first journal club of 2019 will discuss a study by Anderson et al. on the growth and mutations patterns of one single humongous  individual of the  fungus Armillaria gallica.

Pleiotropy and linkage desiquilibrium will be central to discussions at our next journal club. We will discuss the study of Lotterhos et al. giving new insights into the evolution of genetic architectures.

We will discuss the recent study of Mohd-Assaad et al. on the genetic basis of local adaptation in a fungal plant pathogen and genome-wide selection scans to identify loci under selection.

In the study of Bast et al., we will discuss genomic patterns associated with the lack of recombination in asexual stick insects such as levels of polymorphisms, biased gene conversion and the effectiveness of purifying selection.

We will discuss the study of Combs et al. and gain insights into spatial autocorrelation, coancestry and evolutionary clustering analyses as well as invasion in urban landscapes

We will discuss tests for positive selection and evolutionary processes involved in host specificity in insect pathogens in the recent study of Kobmoo et al.

We will discuss a new Genome-Wide Association Study approach implemented by Caitlins & Didelot (TreeWAS). The method search for statistically significant associations between a phenotype and the genotype at all loci in a genetic dataset. treeWAS has the advantage to control for the confounding effects of clonal population structure and population stratification.

We will discuss a study by Krohn et al. using a reduced representation genomic approach (RAD sequencing) to study the genetic diversity and evolutionary relationships of an endangered vole and other closely related desert-dwelling voles.

Wang et al. MolecularEcology(2016)25,3605–3621

Mol. Biol. Evol. 32(10):2547–2558 doi:10.1093/molbev/msv126

We are going to discuss a paper about axial patterning in Trichechus this week.

Buchholtz, E. A., K. L. Wayrynen and I. W. Lin (2014). "Breaking constraint: axial patterning in Trichechus (Mammalia: Sirenia)." Evol Dev 16(6): 382-393.

We will have the next “EvoDevo Journal Club” again on Thursday 12th at 14.15 in room 3513 (! new room !). This week we are going to discuss a paper of Chartier et al. about floral morphospace.

A comprehensive metatranscriptome analysis pipeline and its validation using human small intestine microbiota datasets

For this week's journal club, we have a paper on robustly estimating microbial diversity from NGS data, a topic that is probably relevant for a lot of us.

Robust estimation of microbial diversity in theory and in practice

This weeks paper: “Replication levels, false presences and the estimation of the presence/absence from eDNA metabarcoding data”

This week we’ll move away from the opisthokonts, and will talk about a group of rhizarian parasites; the phytomyxids.

At the parasite journal club this week we will try again to discuss the myxozoans,  a weird group of parasites within the opisthokonts. They are a strange group of microscopic sized metazoans related to the Cnidaria, and are found in aquatic habitats where they act as parasites of fish, amphibians, reptiles and rarely invertebrates.

The paper we will discuss on Thursday will be presented by Håvard.

SWARM: robust and fast clustering method for amplicon-based studies 

This week we will discuss another weird group of parasites within the opisthokonts, the myxozoans. They are a strange group of microscopic sized metazoans related to the Cnidaria, and are found in aquatic habitats where they act as parasites of fish, amphibians, reptiles and rarely invertebrates.

This Thursday (6th of November) we will talk more about Illumina sequencing. The paper from last time that compares Illumina with Ion Torrent (Salipante et al. 2014) will be discussed this week.  We also want to discuss a paper that have used the Illumina platform to look at microbial community composition and diversity (Sinclair et al. 2014).

This Friday we will discuss this review paper about the fascinating and numerous microsporidian parasites.