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| Status |
Public on May 16, 2023 |
| Title |
Transcriptome analysis of S. maltophilia in the exponential and stationary phases and after a treatment with quorum sensing autoinducers. |
| Organism |
Stenotrophomonas maltophilia K279a |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Stenotrophomonas maltophilia is an emerging opportunistic multidrug-resistant pathogen frequently co-isolated with other relevant nosocomial pathogens in respiratory tract infections. S. maltophilia uses the endogenous DSF quorum sensing (QS) system to regulate virulence processes but can also respond to exogenous AHL signals produced by neighboring bacteria. A whole-transcriptome sequencing analysis was performed for S. maltophilia strain K279a in the exponential and stationary phases and in exponential cultures after a treatment with exogenous DSF or AHLs. Our first analysis reveals that during the beginning of the stationary phase 1673 genes are differentially expressed representing 37% of total genomic content. COG analysis showed that most of these genes were enriched for energetic metabolism processes and regulation of gene expression. In a second analysis, and after adding DSF or AHLs to cultures in exponential phase, 82 and 28 were found deregulated respectively, 22 of which were commonly upregulated by both autoinducers. Interestingly, among these genes affected by both DSFs and AHLs, 14 functional genes were also upregulated in the stationary phase. Gene functions regulated by all tested conditions include lipid and amino acid metabolism, stress response and signal transduction mechanisms, nitrogen and iron metabolism, and adaptation to microoxic conditions. Overall, our findings provide clues on the role that the QS could have in the transition from the exponential to the stationary phase in S. maltophilia and for the bacterial fitness for high-density growth.
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| Overall design |
In total 14 samples were analyzed (5 different conditions with two or three independent samples), and all cultures were done in LB at 37C. Condition K279a early-stationary phase: S. maltophilia K279a grown on LB to an OD550 of 5.0 (24 h); condition K279a mid/late-exponential phase: S. maltophilia K279a grown on LB to an OD550 of 1.5 (4.5 h); condition K279a treated with DMSO: S. maltophilia K279a culture supplemented at the early-exponential phase with DMSO and cells collected 3 hours later as a control; condition K279a treated with DSF: S. maltophilia K279a culture supplemented at the early-exponential phase with DSF at 10 uM and cells collected 3 hours later; condition K279a treated with AHLs: S. maltophilia K279a culture supplemented at the early-exponential phase with a combo of C8-HSL, 3OC8-HSL and C10-HSL, at 10 µM each and cells collected 3 hours later.
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| Contributor(s) |
Coves X, Huedo P, Bravo Bravo M, Conchillo-Solé Ò, Gomez A, Esteve-Codina A, Dabad M, Daura X, Yero D, Gibert I |
| Citation(s) |
37272812, 38469346 |
| |
| Submission date |
Jun 20, 2022 |
| Last update date |
Mar 20, 2024 |
| Contact name |
Isidre Gibert |
| E-mail(s) |
[email protected]
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| Organization name |
Universitat Autònoma de Barcelona (UAB)
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| Department |
Institut de Biotecnologia i de Biomedicina (IBB)
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| Lab |
Bacterial Molecular Genetics
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| Street address |
Carrer de la Vinya, s/n
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| City |
Bellaterra |
| State/province |
Barcelona |
| ZIP/Postal code |
08193 |
| Country |
Spain |
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| Platforms (1) |
| GPL32370 |
Illumina HiSeq 2000 (Stenotrophomonas maltophilia K279a) |
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| Samples (14)
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| Relations |
| BioProject |
PRJNA850920 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE206442_GIBERT_01_new_annot_wo_outlier_DMSO_vs_AHL_norm_counts.txt.gz |
199.4 Kb |
(ftp)(http) |
TXT |
| GSE206442_GIBERT_01_new_annot_wo_outlier_DMSO_vs_AHL_results.xlsx |
540.9 Kb |
(ftp)(http) |
XLSX |
| GSE206442_GIBERT_01_new_annot_wo_outlier_DMSO_vs_DSF_norm_counts.txt.gz |
197.6 Kb |
(ftp)(http) |
TXT |
| GSE206442_GIBERT_01_new_annot_wo_outlier_DMSO_vs_DSF_results.xlsx |
522.3 Kb |
(ftp)(http) |
XLSX |
| GSE206442_GIBERT_01_new_annot_wo_outlier_STAT_vs_LOG_norm_counts.txt.gz |
200.7 Kb |
(ftp)(http) |
TXT |
| GSE206442_GIBERT_01_new_annot_wo_outlier_STAT_vs_LOG_results.xlsx |
700.5 Kb |
(ftp)(http) |
XLSX |
| GSE206442_alternative_names.csv.gz |
438 b |
(ftp)(http) |
CSV |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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