Genomic Profiling of Evolving Daptomycin Resistance in a Patient with Recurrent Staphylococcus argenteus Sepsis

Hao, Samantha; Abdelghany, Mazin; Lyden, Amy; Sit, Rene; Tan, Michelle; Tato, Cristina M.; DeRisi, Joseph L.; Miller, Steve; Doernberg, Sarah B; Langelier, Charles

doi:10.1128/aac.00961-20

Cited by 10 publications

(5 citation statements)

References 12 publications

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“…Moreover, a study revealed that cases of S. argenteus bacteremia were associated with higher mortality than methicillin-susceptible S. aureus bacteremia ( Chen et al., 2018b ). S. argenteus with different antibiotic resistance genes have been reported ( Aung et al., 2021 ; Eshaghi et al., 2021 ), including an isolate with elevated MIC (4µg/ml) to daptomycin and vancomycin in the United States ( Hao et al., 2020 ). Recent studies from China ( Chen and Wu, 2020 ) and Japan ( Wakabayashi et al., 2021 ) have also identified S. argenteus from retail foods and an emerging bovine mastitis pathogen in Thailand ( Pumipuntu, 2019 ).…”

Section: Resultsmentioning

confidence: 99%

“…There are increasing reports of S. argenteus infections worldwide ( Chantratita et al., 2016 ; Alhussein et al., 2020 ; Diot et al., 2020 ; Hao et al., 2020 ; Mitsutake et al., 2020 ; Eshaghi et al., 2021 ). S. argenteus isolates are generally penicillin-resistant ( blaZ -positive) ( Becker et al., 2019 ), but in Europe, methicillin-resistant (MR)- S. argenteus (>10 isolates) have been identified in Denmark ( Hansen et al., 2017 ), Netherlands ( Bank et al., 2021 ) and Sweden ( Hallbäck et al., 2018 ; Giske et al., 2019 ).…”

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

First Report of a Methicillin-Resistant, High-Level Mupirocin-Resistant Staphylococcus argenteus

Shittu

Layer

Strommenger

et al. 2022

Front. Cell. Infect. Microbiol.

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We describe the identification of a methicillin-resistant, high-level mupirocin-resistant Staphylococcus argenteus. The isolate (1801221) was characterized as t6675-ST2250-SCCmecIVc, and whole-genome sequencing revealed that the isolate possessed two plasmids. One plasmid (34,870 bp), designated p1_1801221 with rep23, harboured the mupirocin resistance (mupA) gene. The second plasmid (20,644 bp), assigned as p2_1801221 with rep5a and rep16, carried the resistance determinants for penicillin (blaZ) and cadmium (cadD). Phylogenetic analysis revealed that the isolate clustered with the European ST2250 lineage. The overall high similarity of both plasmids in S. argenteus with published DNA sequences of Staphylococcus aureus plasmids strongly suggests an interspecies transfer. The pathogenic potential, community and nosocomial spread, and acquisition of antibiotic resistance gene determinants, including the mupA gene by S. argenteus, highlight its clinical significance and the need for its correct identification.

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Section: Resultsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

First Report of a Methicillin-Resistant, High-Level Mupirocin-Resistant Staphylococcus argenteus

Shittu

Layer

Strommenger

et al. 2022

Front. Cell. Infect. Microbiol.

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“…The use of whole-genome sequencing (WGS) as part of hospital epidemiology and outbreak investigations holds considerable promise. Our hospital routinely performs WGS to evaluate suspected healthcare transmission of microbes ( Crawford et al., 2020 ), track newly emerging pathogens ( Woodworth et al., 2019 ), and analyze cases of unusual antimicrobial resistance patterns ( Hao et al., 2020a ). Here, we performed WGS of serially collected P. aeruginosa isolates to study progressive acquisition of resistance despite guideline-directed antimicrobial treatment in an immunocompromised host.…”

Section: Introductionmentioning

confidence: 99%

In host evolution of beta lactam resistance during active treatment for Pseudomonas aeruginosa bacteremia

Spottiswoode,

Hao,

Sanchez-Guerrero

et al. 2023

Front. Cell. Infect. Microbiol.

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Multidrug-resistant (MDR) Pseudomonas aeruginosa has been declared a serious threat by the United States Centers for Disease Control and Prevention. Here, we used whole genome sequencing (WGS) to investigate recurrent P. aeruginosa bloodstream infections in a severely immunocompromised patient. The infections demonstrated unusual, progressive increases in resistance to beta lactam antibiotics in the setting of active treatment with appropriate, guideline-directed agents. WGS followed by comparative genomic analysis of isolates collected over 44 days demonstrated in host evolution of a single P. aeruginosa isolate characterized by stepwise acquisition of two de-novo genetic resistance mechanisms over the course of treatment. We found a novel deletion affecting the ampC repressor ampD and neighboring gene ampE, which associated with initial cefepime treatment failure. This was followed by acquisition of a porin nonsense mutation, OprD, associated with resistance to carbapenems. This study highlights the potential for in-host evolution of P. aeruginosa during bloodstream infections in severely immunocompromised patients despite appropriate antimicrobial therapy. In addition, it demonstrates the utility of WGS for understanding unusual resistance patterns in the clinical context.

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“…In recent years, S. argenteus has been increasingly reported worldwide as an emerging pathogen, causing a wide spectrum of infectious diseases such as skin and soft-tissue infections (SSTIs) [ 6 , 13 ], necrotizing fasciitis [ 4 ], chronic prosthetic-related infection [ 25 , 26 , 27 ], bacteremia and invasive endovascular infections [ 14 , 19 , 28 ] that may have high impact of mortality [ 29 ]. It has also been documented as a nasal colonizing isolate in healthy people [ 30 ], an environmental isolate in dental clinics [ 31 ], and has even been identified in retail foods [ 32 ].…”

Section: Introductionmentioning

confidence: 99%

“…Previous reports have found that S. argenteus clinical isolates were susceptible to most of the antimicrobials tested [ 2 , 12 , 30 , 37 ], and the beta-lactamase gene blaZ has often been associated with them [ 9 , 13 , 15 ]. However, resistance to non-beta-lactam antimicrobials has been noted recently [ 29 , 30 , 37 ], furthermore, the occurrence of daptomycin resistance was reported for S. argenteus detected in a complex vascular graft infection in the USA [ 28 ]. Therefore, acquisition of drug resistance by S. argenteus is an issue of growing concern.…”

Section: Introductionmentioning

confidence: 99%

Distribution of Virulence Factors and Resistance Determinants in Three Genotypes of Staphylococcus argenteus Clinical Isolates in Japan

et al. 2021

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Staphylococcus argenteus, a novel staphylococcal species independent of S. aureus, causes a wide spectrum of infectious diseases. As detection of this species from humans and animals has been increasingly reported worldwide, its growing virulence and drug resistance via external genetic determinants has become concerning. In this study, the prevalence and genetic characteristics of virulence factors and drug resistance determinants were investigated for 82 S. argenteus clinical isolates in Hokkaido, Japan, for a one-year period starting in August 2019. These S. argenteus isolates corresponded to 0.66% of the total number of S. aureus isolates collected in the same period. The most prevalent genotype was sequence type (ST) 2250 and staphylocoagulase (coa) genotype XId (45.1%, n = 37), followed by ST1223-coa XV (30.5%, n = 25) and ST2198-coa XIV (24.4%, n = 20). Panton-Valentine leukocidin genes (lukS-PV-lukF-PV) were identified in a single ST2250 isolate. Only ST1223 isolates had the enterotoxin gene cluster (egc-2), seb, and selw (detection rate; 100%, 60%, and 84%, respectively), while sec, sey, sel26-sel27, tst-1 were only detected in ST2250 isolates (detection rate; 10.8%, 100%, 67.6%, and 10.8%, respectively). ST2198 isolates harbored selx at a significantly higher rate (60%) than isolates of other STs. Although most of S. argenteus isolates were susceptible to antimicrobials examined, ST2198 showed higher resistance rates to penicillin, macrolides, and aminoglycosides than other STs, and it harbored various resistance genes such as blaZ, erm(C), msr(A), lnuA, and aac(6′)-Ie-aph(2″)-Ia. Only one ST2250 isolate possessed SCCmec-IVc, showing resistance to oxacillin. blaZ was the most prevalent determinant of resistance in the three STs and belonged to two plasmid groups and a chromosomal group, suggesting its diverse origin. lnu(A) in ST2198 isolates was assigned to a major cluster with various staphylococcal species. The present study indicates that the prevalence of virulence factors and drug resistance profile/determinants differ depending on the lineage (ST) of S. argenteus.

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Genomic Profiling of Evolving Daptomycin Resistance in a Patient with Recurrent Staphylococcus argenteus Sepsis

Cited by 10 publications

References 12 publications

First Report of a Methicillin-Resistant, High-Level Mupirocin-Resistant Staphylococcus argenteus

First Report of a Methicillin-Resistant, High-Level Mupirocin-Resistant Staphylococcus argenteus

In host evolution of beta lactam resistance during active treatment for Pseudomonas aeruginosa bacteremia

Distribution of Virulence Factors and Resistance Determinants in Three Genotypes of Staphylococcus argenteus Clinical Isolates in Japan

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