ArticleGenome biology and evolution2019
Phylogenomic Analysis Reveals the Evolutionary Route of Resistant Genes in Staphylococcus aureus.
Article in Genome biology and evolution, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers, 1 of them a synthesis that pooled it.
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19 citing papers in PubMed, 1 synthesis or guideline pooled it, 38 citations in OpenAlex.
- Comprehensive in silico genomics analysis of global trends and host-specific emergence of aminoglycoside resistance in Staphylococcus aureus: a One-Health perspective.BMC microbiology · 2026Pooled it
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- Optimized Plasmid Extraction Uncovers Novel and Mobilizable Plasmids in Staphylococcus nepalensis Sharing Antimicrobial Resistance Across Different Bacterial Genera.Current microbiology · 2025Article
- Population and pan-genomic analyses ofApplied and environmental microbiology · 2025Article
- Revealing the clinical relevance ofMicrobiology spectrum · 2025Article
- Global phylogenomic analysis ofMicrobial genomics · 2025Article
- Average nucleotide identity-basedmSystems · 2024Article
- Average Nucleotide Identity basedbioRxiv : the preprint server for biology · 2024Article
- Kinship analysis ofVeterinary world · 2024Article
- The ESKAPE mobilome contributes to the spread of antimicrobial resistance and CRISPR-mediated conflict between mobile genetic elements.Nucleic acids research · 2023Article
- Whole-Genome Sequencing ofMicrobiology spectrum · 2022Article
- Shared antibiotic resistance and virulence genes in Staphylococcus aureus from diverse animal hosts.Scientific reports · 2022Article
- Article
- Tracking Infection and Genetic Divergence of Methicillin-ResistantFrontiers in veterinary science · 2022Article
- Genomic Analysis of GlobalFrontiers in microbiology · 2021Article
- Antimicrobial Resistance Profiles of Coagulase-Negative Staphylococci in Community-Based Healthy Individuals in Germany.Frontiers in public health · 2021Article
- Reconstructing organisms in silico: genome-scale models and their emerging applications.Nature reviews. Microbiology · 2020Review
- Microbial communities and gene contributions in smokeless tobacco products.Applied microbiology and biotechnology · 2020Article
- Population genomics of Staphylococcus pseudintermedius in companion animals in the United States.Communications biology · 2020Article
Corrections and comments
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Authors and funding
4 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Multidrug-resistant Staphylococcus aureus is a leading concern worldwide. Coagulase-Negative Staphylococci are claimed to be the reservoir and source of important resistant elements in S. aureus. However, the origin and evolutionary route of resistant genes in S. aureus are still remaining unknown. Here, we performed a detailed phylogenomic analysis of 152 completely sequenced S. aureus strains in comparison with 7,529 non-Staphylococcus aureus reference bacterial genomes. Our results reveal that S. aureus has a large open pan-genome where 97 (55%) of its known resistant-related genes belonging to its accessory genome. Among these genes, 47 (27%) were located within the Staphylococcal Cassette Chromosome mec (SCCmec), a transposable element responsible for resistance against major classes of antibiotics including beta-lactams, macrolides, and aminoglycosides. However, the physically linked mec-box genes (MecA-MecR-MecI) that are responsible for the maintenance of SCCmec elements is not unique to S. aureus, instead it is widely distributed within Staphylococcaceae family. The phyletic patterns of SCCmec-encoded resistant genes in Staphylococcus species are significantly different from that of its core genes indicating frequent exchange of these genes between Staphylococcus species. Our in-depth analysis of SCCmec-resistant gene phylogenies reveals that genes such as blaZ, ble, kmA, and tetK that are responsible for beta-lactam, bleomycin, kanamycin, and tetracycline resistance in S. aureus were laterally transferred from non-Staphylococcus sources. In addition, at least 11 non-SCCmec-encoded resistant genes in S. aureus, were laterally acquired from distantly related species. Our study evidently shows that gene transfers played a crucial role in shaping the evolution of antibiotic resistance in S. aureus.
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