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Examining the Sequencing Sample Prep 'Ecosystem'

While Daniel MacArthur at Genetic Future is blogging about Nick Loman's attempt to "estimate the number of second-generation sequencing machines in the wild," Keith Robison at Omics! Omics! is surveying the second-gen sample prep "ecosystem." He writes that because each manufacturer supplies its own collection of sample preparation kits, things have become complicated for third party suppliers that produce sample prep options. "For example, targeted re-sequencing using hybridization really needs to have the sequencing adapters blocked with competing oligos — and those will depend on which platform the sample has been prepared for," Robison writes, adding that "it would [be] great for benchmarking instruments if precisely the same library could be fed into multiple machines — and it would be great for researchers looking to buy sequencing capacity on the open market to be able to defer committing to a platform to the last minute." Of course, he says, it's not that simple, because selling kits is a "potentially lucrative" business teeming with "nasty (and silly) legal strategies."

The Scan

Transcriptomic, Epigenetic Study Appears to Explain Anti-Viral Effects of TB Vaccine

Researchers report in Science Advances on an interferon signature and long-term shifts in monocyte cell DNA methylation in Bacille Calmette-Guérin-vaccinated infant samples.

DNA Storage Method Taps Into Gene Editing Technology

With a dual-plasmid system informed by gene editing, researchers re-wrote DNA sequences in E. coli to store Charles Dickens prose over hundreds of generations, as they recount in Science Advances.

Researchers Model Microbiome Dynamics in Effort to Understand Chronic Human Conditions

Investigators demonstrate in PLOS Computational Biology a computational method for following microbiome dynamics in the absence of longitudinally collected samples.

New Study Highlights Role of Genetics in ADHD

Researchers report in Nature Genetics on differences in genetic architecture between ADHD affecting children versus ADHD that persists into adulthood or is diagnosed in adults.