Category Archives: next generation sequencing

Evolution 2018: assortative mating, combinatorial speciation and genome dynamics

The Evolution conference in Montpellier is over, and as the sun, wine and great science become a memory, here is my recap of some conference highlights following on from a great first day: A sea of scientists waiting for a … Continue reading

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Posted in adaptation, conferences, evolution, genomics, natural history, next generation sequencing, phylogenetics, population genetics, speciation | Tagged , | Leave a comment

The eyes have it!

Eyes are pretty darn complicated, which makes them cool models for studying complex trait evolution.  Maybe the first time I realized how interesting eyes are when I saw this by the oatmeal about the amazing-ness of the mantis shrimp (are they your … Continue reading

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Metabarcoding for every body, every habitat, every time

The immediate reason why I wanted to write about Boosting DNA metabarcoding for biomonitoring with phylogenetic estimation of operational taxonomic units’ ecological profiles is its usefulness for the scientific community and the effort of the authors to make their study reproducible. … Continue reading

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Posted in bioinformatics, community, community ecology, DNA barcoding, fieldwork, metagenomics, next generation sequencing, phylogenetics, R | Tagged , , , , , , | Leave a comment

What is DAS? A new tool to recover genomes from metagenomes

There are a lot of data out there, and if you haven’t already noticed the ‘omics train has steadily stayed its path through the fruitful (but challenging) world of metagenomics. Metagenomics offers the chance to unravel complex microbial communities without … Continue reading

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Chromosomal inversions and the maintenance of species barriers

Chromosomal inversions have long fascinated evolutionary biologists for their role in adaptation and speciation. These structural variants are abundant in natural populations and can have diverse evolutionary consequences. They can cause reproductive isolation through hybrid sterility or protect sets of … Continue reading

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DNA extraction for PacBio sequencing

PacBio is emerging as the favoured sequencing approach for assembling high-quality reference genomes. But the big issue with PacBio sequencing is that to get long sequence reads you need to start with high molecular weight DNA. For my first foray … Continue reading

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Signal Boosting a Comprehensive Review of eDNA and Metabarcoding Studies

Everything is meta these days – metabarcoding, metagenomics, and now meta blog posts that are reviews of reviews. Much like every ecologist at least dabbles in the molecular world, so most of those predisposed to molecular ecology and population genetics … Continue reading

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Posted in bioinformatics, community ecology, DNA barcoding, metagenomics, methods, microbiology, next generation sequencing, population genetics | Tagged , , , , , , , , , , | 1 Comment

Sequencing round-up 2018

The deluge of new sequencing approaches continues at a pace. It seems that you turn your back for five minutes and there’s a shiny new sequencing platform promising to deliver more for less. What is the current state of play … Continue reading

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Major new microbial groups expand diversity and alter our understanding of the tree of life

I still believe in revolutions. And sometimes they just happen, almost unnoticed. One such revolution happened on a boring 11th of April 2016 when Laura Hug et al. published their new tree of life in the journal of Nature Microbiology. … Continue reading

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Posted in bioinformatics, community ecology, evolution, genomics, metagenomics, microbiology, next generation sequencing, phylogenetics | Tagged , , , , , , , | 1 Comment

Retrieving a million sequences and avoiding primer bias, a new method that might have it all

We have come a long way since the early days when sequencing was a breakthrough method initially used to identify uncultured microbes from the environment. It is now been almost three decades, in fact, since the first microbial 16S rRNA … Continue reading

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