Category Archives: next generation sequencing

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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Steelhead in a random forest: identifying the genetic basis of migration

Genome-wide association studies (GWAS) have been quite successful in identifying variants associated with various phenotypes (I suppose there is some debate surrounding this statement. For an interesting, if dated, discussion look here). While most of this work was originally conducted … Continue reading

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Poorly updated databases will affect your results

If you’re anything like me, your research is heavily dependent on the many wonderful database resources available online. NCBI, UniProtKB, Ensembl, Swiss-Prot, EMBL-EBI, and many other sites and organizations offer highly useful (and often curated) molecular information. Can you imagine … Continue reading

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