Response to ‘Refined analyses suggest that recombination is a minor source of genomic diversity in Pseudomonas aeruginosa chronic cystic fibrosis infections’ by Williams et al. (2016 )

References

1. Bertels F., Silander O. K., Pachkov M., Rainey P. B., van Nimwegen E. 2014; Automated reconstruction of whole-genome phylogenies from short-sequence reads. Mol Biol Evol 31:1077–1088 [View Article][PubMed]
   [Google Scholar]
2. Darch S. E., McNally A., Harrison F., Corander J., Barr H. L., Paszkiewicz K., Holden S., Fogarty A., Crusz S. A., Diggle S. P. 2015; Recombination is a key driver of genomic and phenotypic diversity in a Pseudomonas aeruginosa population during cystic fibrosis infection. Sci Rep 5:7649 [View Article][PubMed]
   [Google Scholar]
3. O'Rawe J., Jiang T., Sun G., Wu Y., Wang W., Hu J., Bodily P., Tian L., Hakonarson H., other authors. 2013; Low concordance of multiple variant-calling pipelines: practical implications for exome and genome sequencing. Genome Med 5:28 [View Article][PubMed]
   [Google Scholar]
4. Williams D., Evans B., Haldenby S., Walshaw M. J., Brockhurst M. A., Winstanley C., Paterson S. 2015; Divergent, coexisting Pseudomonas aeruginosa lineages in chronic cystic fibrosis lung infections. Am J Respir Crit Care Med 191:775–785 [View Article][PubMed]
   [Google Scholar]
5. Williams D., Paterson S., Brockhurst M. A., Winstanley C. 2016; Refined analyses suggest that recombination is a minor source of genomic diversity in Pseudomonas aeruginosachronic cystic fibrosis infections. MGen [View Article] [Epub ahead of print].
   [Google Scholar]