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Series GSE178890 Query DataSets for GSE178890
Status Public on Dec 10, 2022
Title G-quadruplex DNA as a target for pathogenic bacteria: efficacy of an extended naphthalene diimide ligand and mode of action
Organisms Escherichia coli; Staphylococcus aureus
Experiment type Expression profiling by high throughput sequencing
Summary Guanidine DNA quadruplex (G4-DNA) structures convey a distinctive layer of epigenetic information that is critical for the regulation of key biological activities and processes as genome transcription regulation, replication and repair. Despite several works that have been published recently, the information regarding their role and possible use as therapeutic drug targets in bacteria is still scarce. Here, we tested the biological activity of a small G4-DNA ligand library based on the naphthalene diimide (NDI) pharmacophore, against both Gram-positive and Gram-negative bacteria. For the best compound identified, NDI-10, the action mechanism was further characterized. Gram-negative bacteria were more resistant altogether due to the presence of the outer membrane, although the activity of the G4-Ligand was generally bactericidal, while it was bacteriostatic for Gram-positive bacteria. This asymmetric activity could be related to the different prevalence of putative G4-DNA structures in each group, the influence that they can exert on the gene expression (which was found more severe for the Gram-negative bacteria) and the role of the G4 structures in these bacteria, that seems to be more related to promote transcription in Gram-positive bacteria and repress transcription in Gram-negative.
Overall design 4 samples Ecoli and 4 samples Saureus no replicates
Contributor(s) Cebrián R, Pirota V, Belmonte-Reche E, de Jong A, Morales JC, Freccero M, Doria F, Kuipers OP
Citation(s) 34928608
Submission date Jun 25, 2021
Last update date Mar 13, 2023
Contact name Anne de Jong
Phone +31 50 363 2047
Organization name university of Groningen
Department Molecular Genetics
Street address Nijenborgh 7
City Groningen
ZIP/Postal code 9747 AG
Country Netherlands
Platforms (2)
GPL14548 Illumina HiSeq 2000 (Escherichia coli)
GPL17452 Illumina HiSeq 2000 (Staphylococcus aureus)
Samples (8)
GSM5399993 EC1
GSM5399994 EC2
GSM5399995 ECH1
BioProject PRJNA741414
SRA SRP325617

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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE178890_RAW.tar 680.0 Kb (http)(custom) TAR (of RPKM)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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