Tutorial program Spring 2015: Genomics, ecology, evolution, etc

So here are the papers chosen for our tutorial this Spring (from the list here), in the ordre in wich they will be discussed: Zhan et al 2014 The genetics of monarch butterfly migration and warning colouration Nature 514: 317–321 Foote et al 2015 Convergent evolution of the genomes of marine mammals Nature Genetics doi:10.1038/ng.3198 Artieri and Fraser 2014 Evolution at two levels of gene expression in yeast Genome Res 24: 411-421 Gurdasani et al 2015 The African Genome Variation Project shapes medical genetics in Africa Nature 517: 327–332 Brawnd et al 2014 The genomic substrate for adaptive radiation in African cichlid fish Nature 513: 375–381 Arbeithuber et al 2015 Crossovers are associated with mutation and biased gene conversion at recombination hotspots PNAS 112: 2109–2114 Poelstra et al 2014 The genomic landscape underlying phenotypic integrity in the face of gene flow in crows Science 344: 1410-1414 Lamichhaney et al 2015 Evolution of Darwin’s finches and their beaks revealed by genome sequencing Nature 518: 371–375 An exiting semester in perspective, full of genomes, ecology and evolution.

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Suggested paper list for Spring 2015

Like last Spring, we are offering the students following our tutorial Genomes, Ecology, Evolution, etc. the opportunity to chose the 8 papers which we will discuss. Here is the list of papers which we propose: Lamichhaney et al 2015 Evolution of Darwin’s finches and their beaks revealed by genome sequencing Nature 518: 371–375 Poelstra et al 2014 The genomic landscape underlying phenotypic integrity in the face of gene flow in crows Science 344: 1410-1414 Zhan et al 2013 Peregrine and saker falcon genome sequences provide insights into evolution of a predatory lifestyle Nature Genetics 45: 563–566 Foote et al 2015 Convergent evolution of the genomes of marine mammals Nature Genetics doi:10.1038/ng.3198 Arbeithuber et al 2015 Crossovers are associated with mutation and biased gene conversion at recombination hotspots PNAS 112: 2109–2114 Zhan et al 2014 The genetics of monarch butterfly migration and warning colouration Nature 514: 317–321 Villar et al 2015 Enhancer Evolution across 20 Mammalian Species Cell 160: 554–566 Artieri and Fraser 2014 Evolution at two levels of gene expression in yeast Genome Res 24: 411-421 Brawnd et al 2014 The genomic substrate for adaptive radiation in African cichlid fish Nature 513: 375–381 Gurdasani et al 2015 The African Genome …

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Stick Insect Genomes Reveal Natural Selection’s Role in Parallel Speciation

Parallel evolution provides evidence for evolution by natural selection and can cause repeated divergence at specific genes. The parallel evolution of phenotypic traits under similar environmental pressures was estimated to cover almost half of same genomic regions. However, the genomic footprints of parallel evolution on parallel speciation is not clearly known yet. In a recent study, Víctor Soria-Carrasco et al. investigated the natural selection’s role in parallel speciation with stick insect populations. Herbivorous stick insect (Timema cristinae) is an endemic species to California and adapted to different host plants, Adenostoma fasciculatum and Ceanothus spinosus. Researchers investigated the whole genome divergence by parallel speciation in a nice experimental set up with this species. T.cristinae individuals were sampled from four replicate population pairs where 3 of them were adjacent and one was 6.4 km far away. They annotated the reference genome for the species and resequenced 160 individuals sampled from field transplant experiment. In the first part of the study, the data obtained was used to analyse the effects of adaptation on genomic divergence in different scales and aspects. The results showed that the divergence between ecotype pairs varied geographically. Principal components analysis and phylogenomic trees clustered the individuals by geography, not …

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