Category Archives: next generation sequencing

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

Posted on 8 June, 2018 by Kelle Freel

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 →

Share
Posted in bioinformatics, community ecology, genomics, metagenomics, methods, microbiology, next generation sequencing | Tagged , , , | Leave a comment

Chromosomal inversions and the maintenance of species barriers

Posted on 29 May, 2018 by Alex Twyford

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 →

Share
Posted in adaptation, genomics, hybridization, next generation sequencing, speciation | Tagged , | Leave a comment

DNA extraction for PacBio sequencing

Posted on 26 April, 2018 by Alex Twyford

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 →

Share
Posted in genomics, next generation sequencing, Uncategorized | Tagged , , , | Leave a comment

Signal Boosting a Comprehensive Review of eDNA and Metabarcoding Studies

Posted on 10 April, 2018 by Katharine Coykendall

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 →

Share
Posted in bioinformatics, community ecology, DNA barcoding, metagenomics, methods, microbiology, next generation sequencing, population genetics | Tagged , , , , , , , , , , | Leave a comment

Sequencing round-up 2018

Posted on 31 March, 2018 by Alex Twyford

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 →

Share
Posted in genomics, next generation sequencing | Tagged , , , | 1 Comment

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

Posted on 18 March, 2018 by Laetitia Wilkins

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 →

Share
Posted in bioinformatics, community ecology, evolution, genomics, metagenomics, microbiology, next generation sequencing, phylogenetics | Tagged , , , , , , , | Leave a comment

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

Posted on 19 January, 2018 by Kelle Freel

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 →

Share
Posted in bioinformatics, evolution, metagenomics, methods, microbiology, next generation sequencing | Tagged , , | Leave a comment

Molecular ecology, the flowchart

Posted on 2 January, 2018 by Jeremy Yoder

Towards the end of last semester my department’s evolutionary genetics journal club read Rasmus Nielsen’s terrific 2005 review of tests for recent natural selection in genetic data. Nielsen provides figures illustrating the effects of a recent selective sweep and the … Continue reading →

Share
Posted in association genetics, bioinformatics, genomics, howto, infographic, linkage mapping, next generation sequencing, phylogenetics, phylogeography, population genetics, selection | Leave a comment

We have the technology. Is sequencing getting better, smaller, faster?

Posted on 21 September, 2017 by Kelle Freel

Okay, I know some version of the phrase “recent developments in rapid and affordable sequencing have made blah blah blah possible…” is something you’ve probably read 10,000 times. However, third-generation sequencing platforms have turned out to be pretty darn astounding. … Continue reading →

Share
Posted in bioinformatics, evolution, fieldwork, genomics, methods, next generation sequencing | Tagged , , , | 1 Comment

Non-model organisms are so hot right now

Posted on 4 August, 2017 by Kelle Freel

What makes a model organism? Well, as the name suggests, they are widely studied and have been adapted to a vast array of common genetic techniques. A few of the most often utilized organisms, which you are most likely already … Continue reading →

Share
Posted in bioinformatics, domestication, evolution, genomics, next generation sequencing, yeast | Tagged , | Leave a comment