Publisher Correction: Antimicrobial Resistance Prediction for Gram-Negative Bacteria via Game Theory-Based Feature Evaluation

Abstract The increasing prevalence of antimicrobial-resistant bacteria drives the need for advanced methods to identify antimicrobial-resistance (AMR) genes in bacterial pathogens. With the availability of whole genome sequences, best-hit methods can be used to identify AMR genes by differentiating unknown sequences with known AMR sequences in existing online repositories. Nevertheless, these methods may not perform well when identifying resistance genes with sequences having low sequence identity with known sequences. We present a machine learning approach that uses protein sequences, with sequence identity ranging between 10% and 90%, as an alternative to conventional DNA sequence alignment-based approaches to identify putative AMR genes in Gram-negative bacteria. By using game theory to choose which protein characteristics to use in our machine learning model, we can predict AMR protein sequences for Gram-negative bacteria with an accuracy ranging from 93% to 99%. In order to obtain similar classification results, identity thresholds as low as 53% were required when using BLASTp.

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Antimicrobial Activity of Iron-Halide Complexes Against Gram-Positive and Gram-Negative Bacteria

10.26434/chemrxiv.11864934.v1 ◽

2020 ◽

Author(s):

Nusrat Abedin ◽

Abdullah Hamed A Alshehri ◽

Ali M A Almughrbi ◽

Olivia Moore ◽

Sheikh Alyza ◽

...

Keyword(s):

Antimicrobial Activity ◽

Antimicrobial Resistance ◽

Extracellular Dna ◽

Antibiofilm Activity ◽

Gram Negative Bacteria ◽

Bacterial Strains ◽

Gram Positive ◽

Gram Negative ◽

Antimicrobial Substances ◽

Mammalian Cell Lines

Antimicrobial resistance (AMR) has become one of the more serious threats to the global health. The emergence of bacteria resistant to antimicrobial substances decreases the potencies of current antibiotics. Consequently, there is an urgent and growing need for the developing of new classes of antibiotics. Three prepared novel iron complexes have a broad-spectrum antimicrobial activity with minimum bactericidal concentration (MBC) values ranging from 3.5 to 10 mM and 3.5 to 40 mM against Gram-positive and Gram-negative bacteria with antimicrobial resistance phenotype, respectively. Time-kill studies and quantification of the extracellular DNA confirmed the bacteriolytic mode of action of the iron-halide compounds. Additionally, the novel complexes showed significant antibiofilm activity against the tested pathogenic bacterial strains at concentrations lower than the MBC. The cytotoxic effect of the complexes on different mammalian cell lines show sub-cytotoxic values at concentrations lower than the minimum bactericidal concentrations.

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Prevalence and Antimicrobial Resistance of Gram-Negative Bacteria Isolates in Shellfish Samples from Two River Estuaries in South-South Nigeria

Advances in Microbiology ◽

10.4236/aim.2021.119032 ◽

2021 ◽

Vol 11 (09) ◽

pp. 428-443

Author(s):

Nsikan Samuel Udoekong ◽

Bassey Enya Bassey ◽

Anne Ebri Asuquo ◽

Otobong Donald Akan ◽

Casmir Ifeanyichukwu Cajetan Ifeanyi

Keyword(s):

Antimicrobial Resistance ◽

Gram Negative Bacteria ◽

Gram Negative

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Whole-Genome Sequencing of Gram-Negative Bacteria Isolated From Bovine Mastitis and Raw Milk: The First Emergence of Colistin mcr-10 and Fosfomycin fosA5 Resistance Genes in Klebsiella pneumoniae in Middle East

Frontiers in Microbiology ◽

10.3389/fmicb.2021.770813 ◽

2021 ◽

Vol 12 ◽

Author(s):

Yasmine H. Tartor ◽

Norhan K. Abd El-Aziz ◽

Rasha M. A. Gharieb ◽

Hend M. El Damaty ◽

Shymaa Enany ◽

...

Keyword(s):

Antimicrobial Resistance ◽

Klebsiella Pneumoniae ◽

Genome Sequencing ◽

Bovine Milk ◽

Bovine Mastitis ◽

Raw Milk ◽

Whole Genome ◽

Gram Negative Bacteria ◽

Gram Negative ◽

E Coli

Antimicrobial resistance is a major concern in the dairy industry. This study investigated the prevalence, antimicrobial resistance phenotypes, and genome sequencing of Gram-negative bacteria isolated from clinical (n = 350) and subclinical (n = 95) bovine mastitis, and raw unpasteurized milk (n = 125). Klebsiella pneumoniae, Aeromonas hydrophila, Enterobacter cloacae (100% each), Escherichia coli (87.78%), and Proteus mirabilis (69.7%) were the most prevalent multidrug-resistant (MDR) species. Extensive drug-resistance (XDR) phenotype was found in P. mirabilis (30.30%) and E. coli (3.33%) isolates. Ten isolates (four E. coli, three Klebsiella species and three P. mirabilis) that displayed the highest multiple antibiotic resistance (MAR) indices (0.54–0.83), were exposed to whole-genome sequencing (WGS). Two multilocus sequence types (MLST): ST2165 and ST7624 were identified among the sequenced E. coli isolates. Three E. coli isolates (two from clinical mastitis and one from raw milk) belonging to ST2165 showed similar profile of plasmid replicon types: IncFIA, IncFIB, IncFII, and IncQ1 with an exception to an isolate that contained IncR, whereas E. coli ST7624 showed a different plasmid profile including IncHI2, IncHI2A, IncI1α, and IncFII replicon types. ResFinder findings revealed the presence of plasmid-mediated colistin mcr-10 and fosfomycin fosA5 resistance genes in a K. pneumoniae (K1) isolate from bovine milk. Sequence analysis of the reconstructed mcr-10 plasmid from WGS of K1 isolate, showed that mcr-10 gene was bracketed by xerC and insertion sequence IS26 on an IncFIB plasmid. Phylogenetic analysis revealed that K1 isolate existed in a clade including mcr-10-harboring isolates from human and environment with different STs and countries [United Kingdom (ST788), Australia (ST323), Malawi (ST2144), Myanmar (ST705), and Laos (ST2355)]. This study reports the first emergence of K. pneumoniae co-harboring mcr-10 and fosA5 genes from bovine milk in the Middle East, which constitutes a public health threat and heralds the penetration of the last-resort antibiotics. Hence, prudent use of antibiotics in both humans and animals and antimicrobial surveillance plans are urgently required.

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Antimicrobial Resistance in Some Gram-Negative Bacteria Isolated from the Bovine Ejaculate

Reproduction in Domestic Animals ◽

10.1111/rda.12127 ◽

2013 ◽

Vol 48 (3) ◽

pp. 525-528 ◽

Cited By ~ 5

Author(s):

C Kilburn ◽

DJ Rooks ◽

AJ McCarthy ◽

RD Murray

Keyword(s):

Antimicrobial Resistance ◽

Gram Negative Bacteria ◽

Gram Negative

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Antimicrobial Susceptibility Pattern of Gram-Negative Bacterial Isolates from Raw Chicken Meat Samples

Tribhuvan University Journal of Microbiology ◽

10.3126/tujm.v6i0.26590 ◽

2019 ◽

Vol 6 ◽

pp. 89-95

Author(s):

Neha Gautam ◽

Rojan Poudel ◽

Binod Lekhak ◽

Milan Kumar Upreti

Keyword(s):

Antimicrobial Resistance ◽

Pathogenic Bacteria ◽

Chicken Meat ◽

Food Microbiology ◽

Diffusion Method ◽

Resistance Pattern ◽

Kathmandu Valley ◽

Gram Negative Bacteria ◽

Gram Negative ◽

Meat Samples

Objectives: This research aims to study the microbial quality of chicken meat available in retail shop of Kathmandu Valley. Methods: This Study was conducted from June to December 2018 in three different districts of Kathmandu Valley. Samples were collected in sterile plastic bags, labeled properly and stored in an icebox and transported to the Food Microbiology laboratory of Golden Gate International College. During sample preparation, 25 grams of each sample was taken and transferred to sterile flasks containing 225 ml of buffered peptone water. Potential pathogenic Gram-negative bacteria were isolated by using respective selective media and identified by biochemical test. Antibiotic susceptibility profile of isolates was carried out by Kirby-Bauer disc diffusion method according to CLSI 2017 guideline. Results: Of total 81 chicken meat samples processed; 201 Gram negative bacteria were isolated. E. coli (100%) was the dominant Gram-negative isolates, followed by Citrobacter spp (62.96%), Pseudomonas spp (40.74%), Proteus spp (19.75%), Salmonella spp (16.04%) and Klebsiella spp (8.64%) respectively. No any multidrug isolates were detected. Conclusion: The study showed that the raw chicken meat samples of Kathmandu valley was highly contaminated with Gram negative potential pathogenic bacteria. Antimicrobial resistance pattern shown by the isolates may indicates that there is not overuse of drug in animals and the less chance of risk of increasing antimicrobial resistance.

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The carbon source influences the efflux pump-mediated antimicrobial resistance in clinically important Gram-negative bacteria

Journal of Antimicrobial Chemotherapy ◽

10.1093/jac/dkr573 ◽

2012 ◽

Vol 67 (4) ◽

pp. 921-927 ◽

Cited By ~ 12

Author(s):

N. A. Villagra ◽

J. A. Fuentes ◽

M. R. Jofre ◽

A. A. Hidalgo ◽

P. Garcia ◽

...

Keyword(s):

Antimicrobial Resistance ◽

Carbon Source ◽

Efflux Pump ◽

Gram Negative Bacteria ◽

Gram Negative

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National Surveillance of Antimicrobial Susceptibility of Bacteremic Gram-Negative Bacteria with Emphasis on Community-Acquired Resistant Isolates: Report from the 2019 Surveillance of Multicenter Antimicrobial Resistance in Taiwan (SMART)

Antimicrobial Agents and Chemotherapy ◽

10.1128/aac.01089-20 ◽

2020 ◽

Vol 64 (10) ◽

Author(s):

Po-Yu Liu ◽

Yu-Lin Lee ◽

Min-Chi Lu ◽

Pei-Lan Shao ◽

Po-Liang Lu ◽

...

Keyword(s):

Escherichia Coli ◽

Pseudomonas Aeruginosa ◽

Antimicrobial Resistance ◽

Klebsiella Pneumoniae ◽

Gram Negative Bacteria ◽

National Surveillance ◽

Gram Negative ◽

Content Type ◽

E Coli ◽

Carbapenem Resistant

ABSTRACT A multicenter collection of bacteremic isolates of Escherichia coli (n = 423), Klebsiella pneumoniae (n = 372), Pseudomonas aeruginosa (n = 300), and Acinetobacter baumannii complex (n = 199) was analyzed for susceptibility. Xpert Carba-R assay and sequencing for mcr genes were performed for carbapenem- or colistin-resistant isolates. Nineteen (67.8%) carbapenem-resistant K. pneumoniae (n = 28) and one (20%) carbapenem-resistant E. coli (n = 5) isolate harbored blaKPC (n = 17), blaOXA-48 (n = 2), and blaVIM (n = 1) genes.

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