Category Archives: next generation sequencing

Is equilibrium out of reach or are there some sneaky bouts of sex?

Reproductive systems impact the evolution of genetic diversity at the population level. Yet, we don’t know a lot about organisms that are partially clonal, despite the large component of biodiversity that dabbles in asexual reproduction to varying degrees. Clonal dynamics are … Continue reading

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The trouble with PCR duplicates

The sequencing center just sent your lane of Illumina data. You’re excited. Life is great. You begin to process the data. You align the data. You check for PCR duplicates. 50 percent. Half of your data is garbage. Everything is … Continue reading

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How do Missing Data Impact Phylogenetic Inference with UCEs?

Next-generation sequencing (NGS) has put gobs of sequence data in the hands of molecular biologists, and that data is measurably advancing our prospects for a fully resolved Tree of Life. Nearly simultaneously, however, we have realized that every NGS dataset … Continue reading

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Molecular Inversion Probes: phylogenomics without the excess?

The onset of the phylogenomic era has revolutionized molecular ecology and systematics, helping resolve relationships throughout the tree of life that have long eluded researchers working with only a handful of loci and morphological data. Phylogenetic studies of nonmodel organisms … Continue reading

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STITCH, in time, could save a lot of array design

A new algorithm for processing DNA sequence data, STITCH, could lower costs for studies of genetic variation within species by reconstructing, or “imputing”, the sequences of individual samples within a larger dataset. The ongoing proliferation of high-throughput (or, ugh, “next … Continue reading

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Mitogenomes from extinct New Zealand wrens shed light on the oldest songbird lineage

The order Passeriformes, commonly known as “perching birds” or “songbirds,” contains over half of all known avian species. Sister to all other Passeriformes are the acanthisittid wrens, a small and enigmatic family of New Zealand endemics. Though their providential phylogenetic … Continue reading

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The not so singular process of hybridization

What, if anything, are hybrids? Zach Gompert and Alex Buerkle ask this question in a special issue in Evolutionary Applications. Hybrids occur when unrelated individuals mate, but how distant do the taxa need to be to constitute a cross? The varied … Continue reading

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