Category Archives: genomics

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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Posted in bioinformatics, conservation, domestication, evolution, genomics, natural history, next generation sequencing, plants | Tagged , , , | Leave a comment

Data, data everywhere and another tool to use: Taxonomer, a web-tool for metagenomics data analysis

Because sequencing. With all the affordable genome and metagenome sequencing available, we’ve reached an unprecedented point at which we can profile microbial communities more accurately than ever before. For this reason, it’s essential to develop efficient methods for data analysis. … Continue reading

Posted in bioinformatics, community ecology, genomics, metagenomics, methods, microbiology, software | Tagged , , , | Leave a comment

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

Posted in association genetics, bioinformatics, conservation, genomics, next generation sequencing | Leave a comment

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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Ice-Age Euro-trips

Recent works that attempt to get at human migrations inside Europe paint a complex portrait of migratory events, admixture with archaic hominids, and adaptive evolution to new geographies, and a changing global climate. Analyzing whole genomes of 51 ancient humans … Continue reading

Posted in adaptation, evolution, genomics, natural history, Paleogenomics, population genetics, selection | Tagged , , , , , , , , | Leave a comment

What’s all the buzz about? Bees got microbiomes too!

So I know we are all blabbing about the human microbiome, who isn’t fascinated by the impressive roles tiny microbes have in our lives!? Trying to unravel what exactly our microbial communities do for us, and how they relate to … Continue reading

Posted in Coevolution, community ecology, evolution, genomics, metagenomics, microbiology | Tagged , , | Leave a comment

RADseq and missing data: some considerations

Unlike Sanger sequencing, where loci are directly targeted for each individual and sequencing errors are relatively rare, massively multilocus datasets from next generation sequencing platforms are characterized by large amounts of missing data. This is particularly true for restriction digest … Continue reading

Posted in bioinformatics, genomics, methods, Molecular Ecology, the journal, next generation sequencing, phylogenetics, population genetics, theory | Tagged , , , | 3 Comments