Antibiotic multidrug resistance in the cystic fibrosis airway microbiome is associated with decreased diversity

Heliyon
Andrea HahnKeith A Crandall

Abstract

Cystic fibrosis (CF) is associated with significant morbidity and early mortality due to recurrent acute and chronic lung infections. The chronic use of multiple antibiotics increases the possibility of multidrug resistance (MDR). Antibiotic susceptibility determined by culture-based techniques may not fully represent the resistance profile. The study objective was to detect additional antibiotic resistance using molecular methods and relate the presence of MDR to airway microbiome diversity and pulmonary function. Bacterial DNA was extracted from sputum samples and amplified for the V4 region of the 16S rRNA gene. An qPCR array was used to detect antibiotic resistance genes. Clinical culture results and pulmonary function were also noted for each encounter. Six study participants contributed samples from 19 encounters. Those samples with MDR (n = 7) had significantly lower diversity measured by inverse Simpson's index than those without (n = 12) (2.193 ± 0.427 vs 6.023 ± 1.564, p = 0.035). Differential abundance showed that samples with MDR had more Streptococcus (p = 0.002) and Alcaligenaceae_unclassified (p = 0.002). Pulmonary function was also decreased when MDR was present (FEV1, 51 ± 22.9 vs 77 ± 26.7, p = 0.054; FVC, 64....Continue Reading

Citations

May 16, 2020·Frontiers in Cellular and Infection Microbiology·Andrea HahnHeather D Bean
Nov 4, 2020·Antimicrobial Agents and Chemotherapy·Tara GallagherKatrine L Whiteson
Jan 31, 2021·Life·Filippo ScialoGiuseppe Castaldo
May 23, 2021·Journal of Investigative Medicine : the Official Publication of the American Federation for Clinical Research·Andrea HahnKeith A Crandall
Jun 3, 2021·Microbial Drug Resistance : MDR : Mechanisms, Epidemiology, and Disease·Elizabeth Marie GavioliEtty Vider
Dec 1, 2020·Journal of Cystic Fibrosis : Official Journal of the European Cystic Fibrosis Society·Steven L TaylorGeraint B Rogers
Jun 10, 2021·Journal of Cystic Fibrosis : Official Journal of the European Cystic Fibrosis Society·Andrew Lee, Deirdre Gilpin
Jul 8, 2021·Microbiology Spectrum·Thomas H HamptonBruce A Stanton
Jul 17, 2021·The Pediatric Infectious Disease Journal·Michael J BozzellaAndrea Hahn
Jun 26, 2020·The Journal of Heart and Lung Transplantation : the Official Publication of the International Society for Heart Transplantation·Ahmed A MetwallyDavid L Perkins

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Datasets Mentioned

BETA
PRJNA437613

Methods Mentioned

BETA
lavage
PCR
bronchoalveolar lavage

Software Mentioned

REDCap
DESeq2
phyloseq
mothur
PERMANOVA
IC
Microbial DNA qPCR Array Template Excel
Excel
MiSeq SOP
Rstudio

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