Category Archives: genomics

Societal constructs, and Genetic diversity

While we grapple with numerous discoveries of variation in genomic diversity in humans, interest has subsequently risen in understanding their causes/results. Two recent papers describe experiments to determine (a) the effects of marital rules (who gets to marry whom) on … Continue reading

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The Kennewick, and the Oase I

Last week was glorious for ancient DNA enthusiasts – here are some quick blurbs on findings from genomic analyses of the Kennewick man, and the Oase I individual. The ancestry and affiliations of Kennewick Man, Rasmussen et al. (2015) Nature DOI: … Continue reading

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The evolution of phylogeography in the next gen era: 20 years in review

Phylogeographers have long known about the limitations of single locus studies (ie, the effects of selective sweeps, stochasticity in lineage sorting among loci) and that adding loci improves the accuracy of demographic parameter estimates. As we continue to shift towards collecting multi-locus datasets thanks to high throughput … Continue reading

Posted in evolution, genomics, Molecular Ecology, the journal, next generation sequencing, phylogeography, Uncategorized | 2 Comments

Genomic history of Eurasia

The route of modern humans out of Africa has been contentious, with archaeological and genetic finds pointing towards a route through Egypt, versus one through Ethiopia. Pagani et al. (2015) analyze the genomic admixture of individuals sampled from both Egypt … Continue reading

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Old dogs, and ‘carnivorous’ pandas

It was a good fortnight for large mammals! Two recent studies attempt to date the emergence of modern canids, and offer insights into the gut microbiomes of giant pandas. Ancient Wolf Genome Reveals an Early Divergence of Domestic Dog Ancestors and … Continue reading

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

The genomics of bee sociality

Bee species cover the spectrum of sociality: there are solitary bees, there are eusocial bees – which are divided into facultative eusocial (the ones that can be either solitary or eusocial depending on external cues) and obligate eusocial bees, and … Continue reading

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Genomic diversity and secondary contact

Under a divergence, or isolation model, the genomes of individuals in a daughter-population are expected to harbor greater differentiation relative to its sister-population, and lower differentiation within the population (after sufficient time since divergence). Divergence thus is a mechanism of … Continue reading

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Another lesson in genomics experimental design and avoiding batch effects

Twitter has been abuzz with Orna Man and Yoav Gilad’s (re)analysis of the data from a recent PNAS paper: “Comparison of the transcriptional landscapes between human and mouse tissues”. The PNAS paper concluded that the gene expression profiles of different … Continue reading

Posted in bioinformatics, genomics, next generation sequencing, RNAseq | Tagged , , | 2 Comments

When genomes duplicate

Whole genome duplication events have played an important role in the evolutionary history of plants. Vallejo-Marín et al. (2015) describe origins of a new polyploid species, Mimulus peregrines, found on the Scottish mainland as well as the Orkney Islands. It was formed within … Continue reading

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Gene flow and Population Fitness

Fitness effects of gene flow (both advantageous and deleterious) have garnered plenty of recent press and scientific exploration. At the population level, the concepts and consequences are notoriously familiar. In the context of immigration, they reduce to existing genetic variation, … Continue reading

Posted in adaptation, evolution, genomics, natural history, population genetics, selection, speciation, theory | Tagged , , , , , | 1 Comment