Category Archives: methods

On hyRAD-X, another option for museum genomics

Last year, I profiled Suchan et al.’s “hyRAD” method for reduced-representation genome sequencing of degraded sources of DNA using RAD probes. While it’s too early to say whether hyRAD will be widely used by molecular ecologists looking to integrate historic … Continue reading

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Posted in genomics, methods, natural history, next generation sequencing, phylogenetics, phylogeography, population genetics, RNAseq, selection, transcriptomics | Tagged , , , | Leave a comment

(Un)usual sources of ancient DNA

Working with ancient DNA can be quite painful at times, but hard work pays off (or so they say) and scientists are starting to reap great benefits from their effort by exploring more and more things to extract DNA from.

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Posted in evolution, genomics, methods, Paleogenomics | Tagged , , , | 1 Comment

To RADseq or not to RADseq?

It’s a cliche to say that we live in a moment of unprecedented possibility for molecular ecology, as high-throughput sequencing methods drive the cost of collecting DNA sequence data ever lower. But at the same time, it’s a tricky moment, … Continue reading

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Posted in adaptation, association genetics, genomics, methods, next generation sequencing, selection | Tagged , , , , | 7 Comments

Dishing out Art: “Soiling” our microbiology curriculum

Sarah Adkins wrote this post as a final project for Stacy Krueger-Hadfield’s Science Communication course at the University of Alabama at Birmingham. She is a MS student working with Dr. Jeffrey Morris at UAB. They are looking at how microbes (i.e., phytoplankton and E. … Continue reading

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Posted in blogging, Coevolution, evolution, methods, microbiology, natural history, selection | Tagged , , , , , | Leave a comment

An Update on the Great BAMM Controversy

Update, 01 August 2016, 2:50PM. This post has been updated to include information contained in the supplemental material of Rabosky et al. 2017, and clarify the difference between branch-specific and tree-wide rate variation. Back in August, I summarized the main … Continue reading

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Posted in blogging, evolution, methods, phylogenetics, science publishing, software, speciation | Tagged , , , | Leave a comment

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

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

The road ahead

It’s been almost two weeks since we woke up to the reality that Donald Trump — the failed casino mogul, the virtuoso tax-dodger, the reality-show star, the self-described serial sexual assailant, the Ku Klux Klan endorsee and darling of white … Continue reading

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Posted in citizen science, community, funding, NIH, NSF, politics, United States | 25 Comments