scholarly journals MetaCherchant: analyzing genomic context of antibiotic resistance genes in gut microbiota

2017 ◽  
Vol 34 (3) ◽  
pp. 434-444 ◽  
Author(s):  
Evgenii I Olekhnovich ◽  
Artem T Vasilyev ◽  
Vladimir I Ulyantsev ◽  
Elena S Kostryukova ◽  
Alexander V Tyakht
Keyword(s):  
Antibiotic Resistance ◽  
Gut Microbiota ◽  
Resistance Genes ◽  
Antibiotic Resistance Genes ◽  
Genomic Context

Metagenomic profiles and antibiotic resistance genes in gut microbiota of mice exposed to arsenic and iron

Chemosphere ◽  
2014 ◽  
Vol 112 ◽  
pp. 1-8 ◽  
Author(s):  
Xuechao Guo ◽  
Su Liu ◽  
Zhu Wang ◽  
Xu-xiang Zhang ◽  
Mei Li ◽  
...  
Keyword(s):  
Antibiotic Resistance ◽  
Gut Microbiota ◽  
Resistance Genes ◽  
Antibiotic Resistance Genes

scholarly journals Dynamic changes in Antibiotic Resistance Genes and Gut Microbiota after H. Pylori Eradication Therapies

2021 ◽  
Author(s):  
LINGLING WANG ◽  
Haobin Yao ◽  
Tereasa Tong ◽  
KS Lau ◽  
Suet Yi Leung ◽  
...  
Keyword(s):  
Antibiotic Resistance ◽  
Gut Microbiota ◽  
Resistance Genes ◽  
Eradication Therapy ◽  
Antibiotic Resistance Genes ◽  
Short Term ◽  
Significant Difference ◽  
Treatment Naïve ◽  
Stool Samples ◽  
H Pylori

Abstract Background: Short-term antibiotics exposure is associated with alterations in microbiota and antibiotic resistance genes (ARGs) in the human gut. While antibiotics are critical in the successful eradication of Helicobacter pylori, the short-term and long-term impacts on the composition and quantity of antibiotics resistance genes after H. pylori eradication is unclear. This study used whole genome shotgun metagenomic of stool samples to characterize the gut microbiota and ARGs, before and after H. pylori eradication therapy. Results: Forty-four H. pylori-infected patients were recruited including 21 treatment naïve patients who received clarithromycin-based triple therapy (CLA group) and 23 patients who failed previous therapies, in which 10 received levofloxacin-based quadruple therapy [LEVO group] and 13 received other combinations [OTHER group] in the current study. Stool samples were collected at baseline (before current treatment), 6-week and 6-month after eradication therapy. At baseline, there was only a slight difference among the three groups on ARGs and gut microbiota. After eradication therapy, there was a transient but significant increase in gut ARGs 6-week post-therapy, among which the LEVO group had the most significant ARGs alteration compared to other two groups. For treatment naïve patients, those with higher ARG richness and ErmF abundance were prone to fail CLA eradication. For gut microbiota, the bacteria richness decreased at 6-week and there was a significant difference in microbiota community among the three groups at 6-week. Conclusions: Our findings demonstrated the dynamic alterations in gut microbiota and ARGs induced by different eradication therapies, which could influence the choices of antibiotics in eradication therapy.

scholarly journals Functional screening of antibiotic resistance genes from human gut microbiota reveals a novel gene fusion

2012 ◽  
Vol 336 (1) ◽  
pp. 11-16 ◽  
Author(s):  
Gong Cheng ◽  
Yongfei Hu ◽  
Yeshi Yin ◽  
Xi Yang ◽  
Chunsheng Xiang ◽  
...  
Keyword(s):  
Antibiotic Resistance ◽  
Gut Microbiota ◽  
Resistance Genes ◽  
Gene Fusion ◽  
Antibiotic Resistance Genes ◽  
Functional Screening ◽  
Human Gut ◽  
Novel Gene ◽  
Human Gut Microbiota

scholarly journals Metagenome-wide analysis of antibiotic resistance genes in a large cohort of human gut microbiota

2013 ◽  
Vol 4 (1) ◽  
Author(s):  
Yongfei Hu ◽  
Xi Yang ◽  
Junjie Qin ◽  
Na Lu ◽  
Gong Cheng ◽  
...  
Keyword(s):  
Antibiotic Resistance ◽  
Gut Microbiota ◽  
Resistance Genes ◽  
Antibiotic Resistance Genes ◽  
Large Cohort ◽  
Human Gut ◽  
Human Gut Microbiota

scholarly journals Phylogenetic barriers to horizontal transfer of antimicrobial peptide resistance genes in the human gut microbiota

2018 ◽  
Author(s):  
Bálint Kintses ◽  
Orsolya Méhi ◽  
Eszter Ari ◽  
Mónika Számel ◽  
Ádám Györkei ◽  
...  
Keyword(s):  
Antibiotic Resistance ◽  
Gut Microbiota ◽  
Resistance Genes ◽  
Gut Microbiome ◽  
Horizontal Transfer ◽  
Bacterial Species ◽  
Antibiotic Resistance Genes ◽  
Genetic Exchange ◽  
Human Gut ◽  
Human Gut Microbiota

AbstractThe human gut microbiota has adapted to the presence of antimicrobial peptides (AMPs) that are ancient components of immune defence. Despite important medical relevance, it has remained unclear whether AMP resistance genes in the gut microbiome are available for genetic exchange between bacterial species. Here we show that AMP- and antibiotic-resistance genes differ in their mobilization patterns and functional compatibilities with new bacterial hosts. First, whereas AMP resistance genes are widespread in the gut microbiome, their rate of horizontal transfer is lower than that of antibiotic resistance genes. Second, gut microbiota culturing and functional metagenomics revealed that AMP resistance genes originating from phylogenetically distant bacteria only have a limited potential to confer resistance inEscherichia coli, an intrinsically susceptible species. Third, the phenotypic impact of acquired AMP resistance genes heavily depends on the genetic background of the recipient bacteria. Taken together, functional compatibility with the new bacterial host emerges as a key factor limiting the genetic exchange of AMP resistance genes. Finally, our results suggest that AMPs induce highly specific changes in the composition of the human microbiota with implications for disease risks.

scholarly journals The Difference of Antibiotic Resistance Genes in Gut Microbiota Among Yak, Beef and Dairy Cattle by Metagenomic Approach

2020 ◽  
Author(s):  
Weiwei Wang ◽  
Xiaojuan Wei ◽  
Lingyu Wu ◽  
Xiaofei Shang ◽  
Fusheng Cheng ◽  
...  
Keyword(s):  
Drug Resistance ◽  
Antibiotic Resistance ◽  
Gut Microbiota ◽  
Dairy Cattle ◽  
Resistance Genes ◽  
Antibiotic Resistance Genes ◽  
Basic Research ◽  
Antibiotic Resistant ◽  
The Difference ◽  
Metagenomic Approach

Abstract The drug resistance has been partly driven by the overuse of antimicrobials in agricultural feeding. Better understanding of the antibiotic resistance in gut of bovine is needed to assess its potential effects based on metagenomic approach and analysis. In this study, we collected 40 fecal samples to explore the drug resistance deriving from antibiotics in bacterial community by an analysis of the diversity and difference of antibiotic resistant genes (ARGs) in gut microbiota from yak, beef and dairy cattle. 1688 genes were annotated, including 734 ARG subtypes in summary. The ARGs were related with tetracycline, quinolone, β-lactam, aminoglycoside, in accordance with the antibiotics widely used in clinic for humans or animals. The emergence, prevalence and differences in resistance genes in the intestines of yaks, beef and dairy cattle may be caused by the selective pressure of different feeding patterns. Additionally, the abundance of ARGs in yak was lower than in beef and dairy cattle, while the abundance of integron, a kind of mobile genetic elements (MGEs), was higher than those in beef and dairy cattle. Furthermore, the results of this study demonstrated that a comprehensive profile of various ARGs among yak, beef and dairy cattle for providing a basic research.

scholarly journals Metagenomics-Based Analysis of the Age-Related Cumulative Effect of Antibiotic Resistance Genes in Gut Microbiota

Antibiotics ◽  
2021 ◽  
Vol 10 (8) ◽  
pp. 1006
Author(s):  
Lei Wu ◽  
Xinqiang Xie ◽  
Ying Li ◽  
Tingting Liang ◽  
Haojie Zhong ◽  
...  
Keyword(s):  
Antibiotic Resistance ◽  
Gut Microbiota ◽  
Resistance Genes ◽  
Antibiotic Resistance Genes ◽  
Tetracycline Resistance ◽  
Cumulative Effect ◽  
Resistance Mechanisms ◽  
Human Gut ◽  
Human Gut Microbiota ◽  
Age Related

Antibiotic resistance in bacteria has become a major global health problem. One of the main reservoirs of antibiotic resistance genes is the human gut microbiota. To characterise these genes, a metagenomic approach was used. In this study, a comprehensive antibiotic resistome catalog was established using fecal samples from 246 healthy individuals from world’s longevity township in Jiaoling, China. In total, 606 antibiotic resistance genes were detected. Our results indicated that antibiotic resistance genes in the human gut microbiota accumulate and become more complex with age as older groups harbour the highest abundance of these genes. Tetracycline resistance gene type tetQ was the most abundant group of antibiotic resistance genes in gut microbiota, and the main carrier of antibiotic resistance genes was Bacteroides. Antibiotic efflux, inactivation, and target alteration were found to be the dominant antimicrobial resistance mechanisms. This research may help to establish a comprehensive antibiotic resistance catalog that includes extremely long-lived healthy people such as centenarians, and may provide potential recommendations for controlling the use of antibiotics.

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