scholarly journals Analysis of drug resistance in Helicobacter pylori by complete genome sequencing in Bama County, Guangxi, China

2020 ◽  
Author(s):  
yanqiang huang ◽  
Xiao-Hua Li ◽  
Yong-Yi Huang ◽  
Xian-ke Luo ◽  
Li-juan Zhao ◽  
...  
Keyword(s):  
Drug Resistance ◽  
Helicobacter Pylori ◽  
Genome Sequencing ◽  
Complete Genome ◽  
Gene Knockout ◽  
Resistance Rate ◽  
Resistant Bacteria ◽  
Drug Resistant ◽  
Complete Genome Sequencing ◽  
Clarithromycin Resistance

Abstract The resistance rate of clinical Helicobacter pylori (Hp) isolates has increased, however, the mechanism of drug resistance is unclear. In this study, we isolated drug-resistant Hp strains isolated from different areas and different populations of China for genomic analysis. The aim of this study was to investigate drug resistance in Hp from Bama County, Guangxi, China. Minimal inhibitory concentrations (MICs) of clarithromycin, metronidazole and levofloxacin were determined and complete genome sequencing was performed with annotation. The presence of hp1181 and hp1184 genes was detected by RT-PCR. The relationships between hp1181, hp1184 and clarithromycin resistance were confirmed by gene mutation and drug-resistant strains. Three drug-resistant Hp strains were isolated from patients with gastritis in Bama County. The strains showed a high degree of homology with hp26695 through complete genome detection and identification. Differences in genome sequences, gene quantity and gene characteristics were detected amongst the three strains. Prediction and analysis of the function on drug-resistant genes indicated that the RNA expression of hp1181 and hp1184 increased in the three strains that were the same in the artificially induced clarithromycin-resistant bacteria. After gene knockout, the drug sensitivity of the strains increased significantly. In summary, The expressions of the genes hp1184 and hp1181 were associated with clarithromycin resistance in the Hp from Bama, Guangxi.

scholarly journals Analysis of Drug Resistance in Helicobacter Pylori by Complete Genome Sequencing in Bama County, Guangxi, China

2020 ◽  
Author(s):  
yanqiang huang ◽  
Xiao-Hua Li ◽  
Yong-Yi Huang ◽  
Xian-ke Luo ◽  
Yan-Chun Qin ◽  
...  
Keyword(s):  
Drug Resistance ◽  
Genome Sequencing ◽  
Complete Genome ◽  
Gene Knockout ◽  
Resistance Rate ◽  
Resistant Bacteria ◽  
Drug Resistant ◽  
Minimal Inhibitory Concentrations ◽  
Complete Genome Sequencing ◽  
Clarithromycin Resistance

Abstract Background: The resistance rate of clinical Helicobacter pylori (Hp) isolates has increased, however, the mechanism of drug resistance is unclear. In this study, we isolated drug-resistant Hp strains isolated from different areas and different populations of China for genomic analysis.Objectives: The aim of this study was to investigate drug resistance in Hp from Bama County, Guangxi, China.Methods: Minimal inhibitory concentrations (MICs) of clarithromycin, metronidazole and levofloxacin were determined and complete genome sequencing was performed with annotation. The presence of hp1181 and hp1184 genes was detected by RT-PCR. The relationships between hp1181, hp1184 and clarithromycin resistance were confirmed by gene mutation and drug-resistant strains. Results: Three drug-resistant Hp strains were isolated from patients with gastritis in Bama County. The strains showed a high degree of homology with hp26695 through complete genome detection and identification. Differences in genome sequences, gene quantity and gene characteristics were detected amongst the three strains. Prediction and analysis of the function on drug-resistant genes indicated that the RNA expression of hp1181 and hp1184 increased in the three strains that were the same in the artificially induced clarithromycin-resistant bacteria. After gene knockout, the drug sensitivity of the strains increased significantly.Conclusions: The expressions of the genes hp1184 and hp1181 were associated with clarithromycin resistance in the Hp from Bama, Guangxi.

scholarly journals Complete genome sequencing and molecular characterization of SARS-COV-2 from COVID-19 cases in Alborz province in Iran

Heliyon ◽  
2021 ◽  
Vol 7 (9) ◽  
pp. e08027
Author(s):  
Amir Kaffashi ◽  
Jiabin Huang ◽  
Amir Bairami ◽  
Mohammad Hossein Fallah Mehrabadi ◽  
Somayeh Yaslianifard ◽  
...  
Keyword(s):  
Molecular Characterization ◽  
Genome Sequencing ◽  
Complete Genome ◽  
Complete Genome Sequencing

scholarly journals First-line Helicobacter pylori eradication therapies in countries with high and low clarithromycin resistance: a systematic review and network meta-analysis

Gut ◽  
2016 ◽  
Vol 67 (1) ◽  
pp. 20-27 ◽  
Author(s):  
Yee Hui Yeo ◽  
Sz-Iuan Shiu ◽  
Hsiu J Ho ◽  
Biyao Zou ◽  
Jaw-Town Lin ◽  
...  
Keyword(s):  
Helicobacter Pylori ◽  
Triple Therapy ◽  
Eradication Rate ◽  
Random Effect ◽  
Random Effect Model ◽  
Sequential Therapy ◽  
Resistance Rate ◽  
First Line ◽  
Clarithromycin Resistance ◽  
Optimal Regimen

ObjectiveTo determine the optimal regimen of different first-line Helicobacter pylori eradication therapies according to the clarithromycin resistance rate.DesignElectronic search for articles published between January 2005 and April 2016. Randomised, controlled trials that reported the effectiveness of first-line eradication therapies in treatment-naïve adults were included. Two independent reviewers performed articles screening and data extraction. Network and traditional meta-analyses were conducted using the random effect model. Subgroup analyses were performed to determine the ranking of regimens in countries with high (>15%) and low (<15%) clarithromycin resistance. Data including adverse events and therapeutic cure rate were also extracted and analysed.Results117 trials (totally 32 852 patients) for 17 H. pylori eradication regimens were eligible for inclusion. Compared with 7-day clarithromycin-based triple therapy, sequential therapy (ST) for 14 days had the highest effectiveness (OR=3.74, 95% CrI 2.37 to 5.96). ST-14 (OR=6.53, 95% CrI 3.23 to 13.63) and hybrid therapy (HY) for 10 days or more (OR=2.85, 95% CrI 1.58 to 5.37) represented the most effective regimen in areas with high and low clarithromycin resistance, respectively. The effectiveness of standard triple therapy was below therapeutic eradication rate in most of the countries. Longer duration was associated with higher eradication rate, but with a higher risk of events that lead to discontinuation.ConclusionsST and HY appeared to be the most effective therapies in countries with high and low clarithromycin resistance, respectively. The clinical decision for optimal regimen can be supported by referring to the rank ordering of relative efficacies stratified by local eradication rates, antibiotic resistance and safety profile.Trial registration numberCRD42015025445.

scholarly journals Complete Genome Sequencing and Genetic Characterization of Alkhumra Hemorrhagic Fever Virus Isolated from Najran, Saudi Arabia

Intervirology ◽  
2014 ◽  
Vol 57 (5) ◽  
pp. 300-310 ◽  
Author(s):  
Tariq A. Madani ◽  
Esam I. Azhar ◽  
El-Tayeb M.E. Abuelzein ◽  
Moujahed Kao ◽  
Hussein M.S. Al-Bar ◽  
...  
Keyword(s):  
Saudi Arabia ◽  
Genome Sequencing ◽  
Complete Genome ◽  
Genetic Characterization ◽  
Hemorrhagic Fever ◽  
Fever Virus ◽  
Complete Genome Sequencing ◽  
Hemorrhagic Fever Virus

Metagenomics facilitated complete genome sequencing of adenovirus untyped by real-time PCR

2018 ◽  
Vol 77 (2) ◽  
pp. 158-164 ◽  
Author(s):  
Xiaohui Zou ◽  
Yanyan Fan ◽  
Wang Zhang ◽  
Binghuai Lu ◽  
Yingmei Liu ◽  
...  
Keyword(s):  
Real Time ◽  
Genome Sequencing ◽  
Real Time Pcr ◽  
Complete Genome ◽  
Complete Genome Sequencing

Sipping from the firehose: complete genome sequencing of endometriosis patients

2012 ◽  
Vol 98 (3) ◽  
pp. S68
Author(s):  
K. Ward ◽  
R. Chettier ◽  
P. Farrington ◽  
H. Albertsen
Keyword(s):  
Genome Sequencing ◽  
Complete Genome ◽  
Complete Genome Sequencing
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