Usefulness of molecular typing methods for epidemiological and evolutionary studies of Staphylococcus aureus isolated from bovine intramammary infections

Chadi, Zoubida Dendani; Dib, Loubna; Zeroual, Fayçal; Benakhla, Ahmed

doi:10.1016/j.sjbs.2022.103338

Cited by 12 publications

(19 citation statements)

References 161 publications

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“…Both are used to identify pathogen species. Restriction fragment length polymorphism (RFLP) [ 64 ], multiple-locus variable-number tandem repeat analysis (MLVA) [ 65 ], and pulsed-field gel electrophoresis (PFGE) typing [ 66 ] have been used to recognize the strains. PFGE is still considered the gold standard, mainly for short-term surveillance [ 65 ], while multilocus sequence typing is useful for long-term and global epidemiological investigations [ 67 ].…”

Section: Mastitis Diagnosismentioning

confidence: 99%

Basic concepts, recent advances, and future perspectives in the diagnosis of bovine mastitis

Algharib,

Dawood,

Huang

et al. 2024

J Vet Sci

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Mastitis is one of the most widespread infectious diseases that adversely affects the profitability of the dairy industry worldwide. Accurate diagnosis and identification of pathogens early to cull infected animals and minimize the spread of infection in herds is critical for improving treatment effects and dairy farm welfare. The major pathogens causing mastitis and pathogenesis are assessed first. The most recent and advanced strategies for detecting mastitis, including genomics and proteomics approaches, are then evaluated . Finally, the advantages and disadvantages of each technique, potential research directions, and future perspectives are reported. This review provides a theoretical basis to help veterinarians select the most sensitive, specific, and cost-effective approach for detecting bovine mastitis early.

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Section: Mastitis Diagnosismentioning

confidence: 99%

Basic concepts, recent advances, and future perspectives in the diagnosis of bovine mastitis

Algharib,

Dawood,

Huang

et al. 2024

J Vet Sci

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“…Over recent years, several methods such as multilocus sequence typing (MLST) and staphylococcal protein A (spa) typing have been utilized to study molecular epidemiology and typing of S. aureus human and animal strains [ 3 5 ]. Despite their utility, these techniques are labour intensive and often fail to reveal intricate genetic differences between strains [ 6 7 ]. Whole-genome sequencing (WGS) offers in-depth comprehensive genotype information, including whole genome MLST and spa typing by WGS, enhancing our understanding of strain diversity and the genetic determinants of antimicrobial resistance [ 7 9 ].…”

Section: Introductionmentioning

confidence: 99%

“…Despite their utility, these techniques are labour intensive and often fail to reveal intricate genetic differences between strains [ 6 7 ]. Whole-genome sequencing (WGS) offers in-depth comprehensive genotype information, including whole genome MLST and spa typing by WGS, enhancing our understanding of strain diversity and the genetic determinants of antimicrobial resistance [ 7 9 ].…”

Section: Introductionmentioning

confidence: 99%

Hybrid Illumina-Nanopore assembly improves identification of multilocus sequence types and antimicrobial resistance genes of Staphylococcus aureus isolated from Vermont dairy farms: comparison to Illumina-only and R9.4.1 nanopore-only assemblies

Chakrawarti,

Eckstrom,

Laaguiby

et al. 2024

Access Microbiology

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Antimicrobial resistance (AMR) in Staphylococcus aureus is a pressing public health challenge with significant implications for the dairy industry, encompassing bovine mastitis concerns and potential zoonotic threats. To delve deeper into the resistance mechanisms of S. aureus, this study employed a hybrid whole genome assembly approach that synergized the precision of Illumina with the continuity of Oxford Nanopore. A total of 62 isolates, collected from multiple sources from Vermont dairy farms, were sequenced using the GridION Oxford Nanopore R9.4.1 platform and the Illumina platform, and subsequently processed through our long-read first bioinformatics pipeline. Our analyses showcased the hybrid-assembled genome’s superior completeness compared to Oxford Nanopore (R9.4.1)-only or Illumina-only assembled genomes. Furthermore, the hybrid assembly accurately determined multilocus sequence typing (MLST) strain types across all isolates. The comprehensive probe for antibiotic resistance genes (ARGs) using databases like CARD, Resfinder, and MEGARES 2.0 characterized AMR in S. aureus isolates from Vermont dairy farms, and revealed the presence of notable resistance genes, including beta-lactam genes blaZ, blaI, and blaR. In conclusion, the hybrid assembly approach emerged as a tool for uncovering the genomic nuances of S. aureus isolates collected from multiple sources on dairy farms. Our findings offer a pathway for detecting AMR gene prevalence and shaping AMR management strategies crucial for safeguarding human and animal health.

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“… 5 The use of molecular typing is, therefore, warranted. 6 The mec A gene, a structural determinant that encodes penicillin-binding protein 2a (PBP2a) is considered one of the useful molecular markers of putative MRSA. 7 The methicillin resistance is primarily attributed to overexpression of PBP2a which has a low affinity to β-lactam antibiotics.…”

Section: Introductionmentioning

confidence: 99%

Molecular Epidemiology and Characterization of Multidrug-Resistant MRSA ST398 and ST239 in Himachal Pradesh, India

Patil¹,

Dong²,

Shrama³

et al. 2023

IDR

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Methicillin-resistant Staphylococcus aureus (MRSA) is a common cause of severe and difficult-to-treat infections in humans and animals. We aimed to identify the predominant lineages of methicillin-resistant S. aureus in Himachal Pradesh, India, to understand the genomic epidemiology along with the genotypic and phenotypic characteristics. Methods: We isolated 250 S. aureus from two district hospitals in Himachal Pradesh, India. Methicillin-Resistant S. aureus (MRSA) isolates were subjected to MLST, SCCmec typing, and resistance as well as virulence determinants were determined by PCR and sequencing. Bio-typing was also performed for source tracking. Results: A 17.6% (44/250) of isolates were classified as MRSA by both the MRSA detection kit and disc diffusion methods. Antimicrobial Susceptibility Testing of MRSA isolates (n = 44) showed high resistance to oxacillin (77.27%), erythromycin (77.27%), tetracycline (75%), cefoxitin (65.9%), and gentamicin (61.36%), while low resistance was observed for teicoplanin (36.36%), vancomycin and levofloxacin (31.81%) and fusidic acid (18.18%). All isolates were sensitive to linezolid, quinupristin-dulfopristin, dalbavancin, and cefazoline. The SCCmec-II was observed in 20.45% of isolates, SCCmec-I in 11.36%, SCCmec-III in 9%, SCCmec-IV in 40.9% and SCCmec-V in 18.18%. The mecA gene was present in all isolates (n = 44) and 50% also had the vanA gene. 35% of isolates had the lukS-PV/lukf-PV toxin gene and 11.36% had the co-existence of mecA, vanA, and lukS-PV/lukf-PV. The major strain was ST398 (39%) followed by ST239 (27%), ST217 (16%), ST121 (11%), and ST338 (7%). The MRSA isolates produced staphylokinase and β-hemolysis but were negative for bovine plasma coagulation tests. In Conclusion:The predominant MRSA clones in Himachal Pradesh, India, were hospital-associated multi-drug resistant-MRSA ST239 with PVL and community-associated MRSA ST398.

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Usefulness of molecular typing methods for epidemiological and evolutionary studies of Staphylococcus aureus isolated from bovine intramammary infections

Cited by 12 publications

References 161 publications

Basic concepts, recent advances, and future perspectives in the diagnosis of bovine mastitis

Basic concepts, recent advances, and future perspectives in the diagnosis of bovine mastitis

Hybrid Illumina-Nanopore assembly improves identification of multilocus sequence types and antimicrobial resistance genes of Staphylococcus aureus isolated from Vermont dairy farms: comparison to Illumina-only and R9.4.1 nanopore-only assemblies

Molecular Epidemiology and Characterization of Multidrug-Resistant MRSA ST398 and ST239 in Himachal Pradesh, India

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