Category Archives: genomics

Resurrecting our ghosts: Helen Pilcher’s Bring Back the King

On September 7, 1936, at the Beaumaris Zoo in Hobart, Tasmania, a wolf-like creature named Benjamin paced up and down in his cage. As night fell, temperatures grew cooler. The keepers, underpaid and struggling themselves, had forgotten to open the … Continue reading

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Diving into the inbreeding depression

This post is going to be a little melodramatic, but I hope that despite all the reading on inbreeding depression, you won’t get depressed. As the media finally started feeding us all the catastrophic news about the impact of global … Continue reading

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Handling microbial contamination in NGS data

Until recently, I had given little thought to the potential for unwanted microbial contamination in high throughput sequence data. I suspect that if you’re a molecular ecologist who doesn’t primarily study microbes or work with ancient DNA, you’re in a … Continue reading

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Unbalanced population sampling and STRUCTURE

The utility and intuition offered by the program STRUCTURE, and more generally, the ‘admixture’ model of Pritchard et al. (2000) are unquestioned – with tens of thousands of citations, it retains its lead among the most popular population genetics software. … Continue reading

Posted in bioinformatics, genomics, howto, methods, population genetics, software, STRUCTURE | Tagged , , | 1 Comment

Diving into chilly California waters, understanding genomic differentiation and the role of gene transfer in marine cyanophages

At this point, it’s clear: microbes are everywhere, there are a lot of them, and they are important. In fact, they are more abundant, more diverse and older than any other organism we have on this planet. In particular, cyanobacteria … Continue reading

Posted in Coevolution, evolution, genomics, horizontal gene transfer, microbiology, population genetics | Tagged , , | Leave a comment

The importance of culturing the uncultured, delving into the microbial consortia in the human gut

The molecular side of ecology has grown by leaps and bounds in recent decades. The review we covered not too long ago, did a nice job of summarizing many key aspects highlighting the importance of this relatively new molecular view … Continue reading

Posted in community ecology, genomics, medicine, metagenomics, microbiology | Tagged , , | 1 Comment

Still ruffling feathers after all these years: Darwin’s finches and a molecular view of adaptive radiation

One of the many lovely things about molecular ecology is its ability to shine new light on old stories. The well-known case of Darwin’s finches is a classic example of adaptive radiation. These finches demonstrate a clear instance where over time, … Continue reading

Posted in adaptation, association genetics, evolution, genomics, Molecular Ecology, the journal, population genetics, RNAseq, selection, speciation | Tagged , , | Leave a comment