Identification of acquired antimicrobial resistance genes
Ea Zankari,Henrik Hasman,Salvatore Cosentino,Martin Vestergaard,Simon Rasmussen,Ole Lund,Frank Møller Aarestrup,Mette Voldby Larsen +7 more
TLDR
A web server providing a convenient way of identifying acquired antimicrobial resistance genes in completely sequenced isolates was created, and the method was evaluated on WGS chromosomes and plasmids of 30 isolates.Abstract:
Objectives
Identification of antimicrobial resistance genes is important for understanding the underlying mechanisms and the epidemiology of antimicrobial resistance. As the costs of whole-genome sequencing (WGS) continue to decline, it becomes increasingly available in routine diagnostic laboratories and is anticipated to substitute traditional methods for resistance gene identification. Thus, the current challenge is to extract the relevant information from the large amount of generated data.read more
Citations
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Journal ArticleDOI
A Next-Generation Sequencing-Based Approach to Identify Genetic Determinants of Antibiotic Resistance in Cambodian Helicobacter pylori Clinical Isolates.
Vo Phuoc Tuan,Vo Phuoc Tuan,Dou Narith,Evariste Tshibangu-Kabamba,Ho Dang Quy Dung,Pham Thanh Viet,Sin Sokomoth,Tran Thanh Binh,Sok Sokhem,Tran Dinh Tri,Seng Ngov,Pham Huu Tung,Ngo Phuong Minh Thuan,Tran Cong Truc,Bui Hoang Phuc,Takashi Matsumoto,Kartika Afrida Fauzia,Junko Akada,Tran Thi Huyen Trang,Yoshio Yamaoka,Yoshio Yamaoka +20 more
TL;DR: High antibiotic resistance rates of CLR, MTZ, and LVX are observed, emphasizing the need for periodic evaluation and alternative therapies in Cambodia, and NGS showed high capability for detecting genetic resistance determinants and potential for implementation in local treatment policies.
Journal ArticleDOI
Characterization of cefotaxime-resistant urinary Escherichia coli from primary care in South-West England 2017-18.
Jacqueline Findlay,Virginia C. Gould,Paul North,Karen E. Bowker,O. Martin Williams,Alasdair P. MacGowan,Matthew B. Avison +6 more
TL;DR: The correlation between cefotaxime resistance and ciprofloxacin resistance was largely attributable to the high-risk pandemic clones ST131 and ST1193.
Journal ArticleDOI
Molecular characterization of a multidrug resistance IncF plasmid from the globally disseminated Escherichia coli ST131 clone.
Minh-Duy Phan,Brian M. Forde,Kate M. Peters,Sohinee Sarkar,Steven J. Hancock,Mitchell Stanton-Cook,Nouri L. Ben Zakour,Mathew Upton,Scott A. Beatson,Mark A. Schembri +9 more
TL;DR: In this paper, the authors determined the complete sequence and performed a comprehensive annotation of pEC958, an IncF plasmid from the E. coli ST131 reference strain EC958.
Journal ArticleDOI
Listeria monocytogenes Sequence Types 121 and 14 Repeatedly Isolated Within One Year of Sampling in a Rabbit Meat Processing Plant: Persistence and Ecophysiology.
Frederique Pasquali,Federica Palma,Laurent Guillier,Alex Lucchi,Alessandra De Cesare,Gerardo Manfreda +5 more
TL;DR: ST121 carried the qacH gene and was phenotypically resistant to quaternary ammonium compounds and showed greater ability to form biofilms, which might contribute to the occasional colonization and persistence on harborage sites where sanitizing procedures are difficult to display.
Journal ArticleDOI
Occurrence and Genomic Characterization of ESBL-Producing, MCR-1-Harboring Escherichia coli in Farming Soil
Beiwen Zheng,Chen Huang,Hao Xu,Lihua Guo,Jing Zhang,Xin Wang,Xin Wang,Xiawei Jiang,Xiao Yu,Linfeng Jin,Xuewen Li,Youjun Feng,Yonghong Xiao,Lanjuan Li +13 more
TL;DR: The first isolation of mcr-1 is reported in ESBL-producing E. coli from farming soils, highlighting the importance of active surveillance of colistin-resistant organisms in soil.
References
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Journal ArticleDOI
Multilocus Sequence Typing of Total-Genome-Sequenced Bacteria
Mette Voldby Larsen,Salvatore Cosentino,Simon Rasmussen,Carsten Friis,Henrik Hasman,Rasmus L. Marvig,Lars Jelsbak,Thomas Sicheritz-Pontén,David W. Ussery,Frank Møller Aarestrup,Ole Lund +10 more
TL;DR: A Web-based method for MLST of 66 bacterial species based on whole-genome sequencing data that enables investigators to determine the sequence types of their isolates on the basis of WGS data.
Journal ArticleDOI
Molecular genetics of aminoglycoside resistance genes and familial relationships of the aminoglycoside-modifying enzymes.
TL;DR: A preliminary assessment of the amino acids which may be important in binding aminoglycosides was obtained from data and from the results of mutational analysis of several of the genes encoding am inoglycoside-modifying enzymes.
Journal ArticleDOI
Acquired Antibiotic Resistance Genes: An Overview
Angela H.A.M. van Hoek,Dik Mevius,Dik Mevius,Beatriz Guerra,Peter Mullany,Adam P. Roberts,Henk Aarts +6 more
TL;DR: Attention is paid to mobile genetic elements such as plasmids, transposons, and integrons, which are associated with AR genes, and involved in the dispersal of antimicrobial determinants between different bacteria.
Journal ArticleDOI
Staphylococcus aureus CC398: Host Adaptation and Emergence of Methicillin Resistance in Livestock
Lance B. Price,Marc Stegger,Henrik Hasman,Maliha Aziz,Jesper Larsen,Paal Skytt Andersen,Talima Pearson,Andrew E. Waters,Jeffrey T. Foster,James M. Schupp,John D. Gillece,Elizabeth M. Driebe,Cindy M. Liu,Cindy M. Liu,Burkhard Springer,Irena Zdovc,Antonio Battisti,Alessia Franco,Jacek Żmudzki,Stefan Schwarz,Patrick Butaye,Eric Jouy,Constança Pomba,M. Concepción Porrero,Raymond Ruimy,Tara C. Smith,D. Ashley Robinson,J. Scott Weese,Carmen Sofia Arriola,Fangyou Yu,Frédéric Laurent,Paul Keim,Paul Keim,Robert Skov,Frank Møller Aarestrup +34 more
TL;DR: The results strongly suggest that livestock-associated MRSA CC398 originated in humans as MSSA, which appears to have undergone a rapid radiation in conjunction with the jump from humans to livestock, where it subsequently acquired tetracycline and methicillin resistance.
Journal ArticleDOI
Comparison of antimicrobial resistance phenotypes and resistance genes in Enterococcus faecalis and Enterococcus faecium from humans in the community, broilers, and pigs in Denmark.
TL;DR: Differences in the occurrence of resistance and tetracycline resistance genes were observed among isolates from the different sources, however, similar resistance patterns and resistant genes were detected frequently indicating that transmission of resistant enterococci or resistance genes takes place between humans, broilers, and pigs.
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