Analysis of core protein clusters identifies candidate variable sites conferring metronidazole resistance in Helicobacter pylori

Gastroenterology Report
Eng-Guan ChuaMichael J Wise

Abstract

Metronidazole is one of the first-line drugs of choice in the standard triple therapy used to eradicate Helicobacter pylori infection. Hence, the global emergence of metronidazole resistance in Hp poses a major challenge to health professionals. Inactivation of RdxA is known to be a major mechanism of conferring metronidazole resistance in H. pylori. However, metronidazole resistance can also arise in H. pylori strains expressing functional RdxA protein, suggesting that there are other mechanisms that may confer resistance to this drug. We performed whole-genome sequencing on 121 H. pylori clinical strains, among which 73 were metronidazole-resistant. Sequence-alignment analysis of core protein clusters derived from clinical strains containing full-length RdxA was performed. Variable sites in each alignment were statistically compared between the resistant and susceptible groups to determine candidate genes along with their respective amino-acid changes that may account for the development of metronidazole resistance in H. pylori. Resistance due to RdxA truncation was identified in 34% of metronidazole-resistant strains. Analysis of core protein clusters derived from the remaining 48 metronidazole-resistant strains and 48 metro...Continue Reading

References

Jun 1, 1988·European Journal of Epidemiology·Y GlupczynskiA Burette
Jul 15, 1999·The Journal of Antimicrobial Chemotherapy·P J JenksA Labigne
Feb 24, 2001·Protein Science : a Publication of the Protein Society·M TeplovaM Egli
Jan 5, 2002·Scandinavian Journal of Gastroenterology. Supplement·E J van der WoudenJ H Kleibeuker
Jul 24, 2002·Nucleic Acids Research·Kazutaka KatohTakashi Miyata
Jul 21, 2004·Journal of Computational Chemistry·Eric F PettersenThomas E Ferrin
Feb 25, 2005·Antimicrobial Agents and Chemotherapy·Jill M Moore, Nina R Salama
Nov 22, 2005·Nature Methods·Thomas J AlbertDouglas E Berg
Jun 4, 2010·Antioxidants & Redox Signaling·Hitoshi TsugawaToshifumi Hibi
Apr 30, 2011·BMC Bioinformatics·Marcus LechnerSonja J Prohaska
Apr 18, 2012·Journal of Computational Biology : a Journal of Computational Molecular Cell Biology·Anton BankevichPavel A Pevzner
Oct 18, 2012·Alimentary Pharmacology & Therapeutics·C Y TayB J Marshall
Dec 25, 2012·Antimicrobial Agents and Chemotherapy·Ousman SeckaJulian E Thomas
Oct 1, 2013·The Journal of Biological Chemistry·Benjamin W ParkerMichael J Gray
Mar 20, 2014·Bioinformatics·Torsten Seemann
May 8, 2015·Nature Protocols·Lawrence A KelleyMichael J E Sternberg
Sep 29, 2015·World Journal of Methodology·Reza GhotaslouYalda Mohammadzadeh Asl
Nov 2, 2016·Gut·P MalfertheinerUNKNOWN European Helicobacter and Microbiota Study Group and Consensus panel
Nov 5, 2016·BMC Microbiology·Muhammad MiftahussururYoshio Yamaoka

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Citations

Jun 3, 2021·Biology·Carol Thomas, Christopher D Gwenin
Dec 3, 2021·Journal of Applied Microbiology·Jeannete ZuritaHugo Navarrete

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Methods Mentioned

BETA
biopsy
PCR
gene knockout

Software Mentioned

ProteinOrtho
Phyre2
MAFFT
SPAdes assembler
BLASTN
Prokka
UCSF Chimera package

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