Sputum strains exhibit diversity within and between COPD subjects.

PURPOSE

is implicated in the pathogenesis of some COPD exacerbations. We sought to investigate whether the strain is variable between COPD subjects; that an exacerbation is associated with acquisition of a new strain and that certain strains are more commonly associated with exacerbations.

PATIENTS AND METHODS

Sputum samples were collected at stable and exacerbation visits from COPD subjects from a single center as part of the COPDMAP consortium. Samples identified as positive by qPCR were recultured in liquid cultures grown to extract genomic DNA; underwent Illumina MiSeq and bacterial genome sequences were de novo assembled and Multi Locus Sequence Type (MLST) was determined.

RESULTS

Thirty-five samples were obtained from 18 subjects. These included 13 stable and 22 exacerbation samples. The diversity between samples was very large with 25 different MLSTs being identified out of the 35 samples of which 12 MSLTs have not been described previously. Change and persistence of strain were observed between stable visits, from stable to exacerbation and vice-a-versa, and between exacerbation visits.

CONCLUSION

Sputum strains exhibit marked diversity within and between COPD subjects. Acquisition of a new strain is common between stable and exacerbation events such that no strain is specifically associated with an exacerbation.