Rates and mechanisms of bacterial mutagenesis from maximum-depth sequencing.

In 1943, Luria and Delbrück used a phage-resistance assay to establish spontaneous mutation as a driving force of microbial diversity. Mutation rates are still studied using such assays, but these can only be used to examine the small minority of mutations conferring survival in a particular condition. Newer approaches, such as long-term evolution followed by whole-genome sequencing, may be skewed by mutational ‘hot’ or ‘cold’ spots.

The khmer software package: enabling efficient nucleotide sequence analysis.

The khmer package is a freely available software library for working efficiently with fixed length DNA words, or k-mers. khmer provides implementations of a probabilistic k-mer counting data structure, a compressible De Bruijn graph representation, De Bruijn graph partitioning, and digital normalization. khmer is implemented in C++ and Python, and is freely available under the BSD license at  https://github.

Simultaneous event-based and emergent timing: synchronization, continuation, and phase correction.

It has been claimed that rhythmic tapping and circle drawing represent fundamentally different timing processes (event-based and emergent, respectively) and also that circle drawing is difficult to synchronize with a metronome and exhibits little phase correction. In the present study, musically trained participants tapped with their left hands, drew circles with their right (dominant) hands, and also performed both tasks simultaneously. In Experiment 1, they synchronized with a metronome and then continued on their own, whereas in Experiment 2, they synchronized with a metronome containing phase perturbations.