Genetically diverse Pseudomonas aeruginosa populations display similar transcriptomic profiles in a cystic fibrosis explanted lung

Nature Communications
Adrian KordesSusanne Häussler

Abstract

Previous studies have demonstrated substantial genetic diversification of Pseudomonas aeruginosa across sub-compartments in cystic fibrosis (CF) lungs. Here, we isolate P. aeruginosa from five different sampling areas in the upper and lower airways of an explanted CF lung, analyze ex vivo transcriptional profiles by RNA-seq, and use colony re-sequencing and deep population sequencing to determine the genetic diversity within and across the various sub-compartments. We find that, despite genetic variation, the ex vivo transcriptional profiles of P. aeruginosa populations inhabiting different regions of the CF lung are similar. Although we cannot estimate the extent to which the transcriptional response recorded here actually reflects the in vivo transcriptomes, our results indicate that there may be a common in vivo transcriptional profile in the CF lung environment.

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Citations

May 29, 2020·Nature Reviews. Microbiology·Erik BakkerenWolf-Dietrich Hardt
Jan 15, 2020·NPJ Biofilms and Microbiomes·Janne G ThömingSusanne Häussler
Jan 12, 2021·Expert Opinion on Drug Delivery·Douweh Leyla Gbian, Abdelwahab Omri
Jan 27, 2021·Pathogens·Jiwasmika BaishyaCatherine A Wakeman
Nov 13, 2020·Microbiology and Molecular Biology Reviews : MMBR·Niilo KaldaluTanel Tenson
Nov 21, 2020·Nature Reviews. Microbiology·Elio RossiHelle Krogh Johansen
Jan 10, 2021·NPJ Biofilms and Microbiomes·Janne G ThömingSusanne Häussler
Jun 4, 2021·Nature Communications·Kemal AvicanMaria Fällman

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Methods Mentioned

BETA
RNASeq

Software Mentioned

gff
FastTree
TREAT
iTOL
PRANK
R package vegan
integrative genome viewer ( IGV )
SPAdes
Roary
Prokka

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