Whole genome sequencing revealed new molecular characteristics in multidrug resistant staphylococci recovered from high frequency touched surfaces in London

Cave, Rory; Misra, Raju; Chen, Jiazhen; Wang, Shiyong; Mkrtchyan, Hermine V.

doi:10.1038/s41598-019-45886-6

Cited by 30 publications

(49 citation statements)

References 53 publications

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“…This gene has been found in hospital environments and circulating in the community. Also, mecA gene is not only restricted to S. aureus, but also detected among other species from the genera, including S. epidermidis [60,61]. In our study, patient nasal samples from both ICU and NICU were predominant for mecA AMR gene, which could be related to most abundant gram-positive bacteria found in nasal samples: S. epidermidis.…”

Section: Discussionsupporting

confidence: 48%

One year cross-sectional study in adult and neonatal intensive care units reveals the bacterial and antimicrobial resistance genes profiles in patients and hospital surfaces

Christoff¹,

Sereia²,

Cruz³

et al. 2020

PLoS ONE

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Several studies have shown the ubiquitous presence of bacteria in hospital surfaces, staff, and patients. Frequently, these bacteria are related to HAI (healthcare-associated infections) and carry antimicrobial resistance (AMR). These HAI-related bacteria contribute to a major public health issue by increasing patient morbidity and mortality during or after hospital stay. Bacterial high-throughput amplicon gene sequencing along with identification of AMR genes, as well as whole genome sequencing (WGS), are biotechnological tools that allow multiple-sample screening for a diversity of bacteria. In this paper, we used these methods to perform a one-year cross sectional profiling of bacteria and AMR genes in adult and neonatal intensive care units (ICU and NICU) in a Brazilian public, tertiary hospital. Our results showed high abundances of HAI-related bacteria such as S. epidermidis, S. aureus, K. pneumoniae, A. baumannii complex, E. coli, E. faecalis, and P. aeruginosa in patients and hospital surfaces. Most abundant AMR genes detected throughout ICU and NICU were mecA, bla CTX-M-1 group , bla SHV-like , and bla KPC-like. We found that NICU environment and patients were more widely contaminated with pathogenic bacteria than ICU. Patient samples, despite the higher bacterial load, have lower bacterial diversity than environmental samples in both units. Finally, we also identified contamination hotspots in the hospital environment showing constant frequencies of bacterial and AMR contamination throughout the year. Whole genome sequencing (WGS), 16S rRNA oligotypes, and AMR identification allowed a high-resolution characterization of the hospital microbiome profile.

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Section: Discussionsupporting

confidence: 48%

One year cross-sectional study in adult and neonatal intensive care units reveals the bacterial and antimicrobial resistance genes profiles in patients and hospital surfaces

Christoff¹,

Sereia²,

Cruz³

et al. 2020

PLoS ONE

View full text Add to dashboard Cite

show abstract

“…Potentially pathogenic taxa have also been reported in other surfaces such as ATMs (Bik et al, 2016) or kitchen sponges (Marotta et al, 2018). In our study, the identification of such species (e.g., S. aureus, C. perfringens) is not surprising (see also Cave et al, 2019). These species can be found in healthy humans; for example, S. aureus colonizes 70% of the healthy Mexican population (Hamdan-Partida et al, 2010), and C. perfringens is part of the healthy intestinal human microbiota (Palmer et al, 2007).…”

Section: Potential Pathogens and The Safeness Of Riding The Subwaysupporting

confidence: 77%

Passenger-surface microbiome interactions in the subway of Mexico City

Vargas-Robles

Gonzalez-Cedillo

Hernández

et al. 2020

Preprint

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Interaction between hands and the environment permits the interchange of microorganisms. The Mexico City subway is used daily by millions of passengers that get in contact with its surfaces. In this study, we used 16S rRNA gene sequencing to characterize the microbiomes of frequently touched surfaces, also comparing regular and women-only wagons. We also explored the effect of surface cleaning on microbial resettling. Finally, we studied passenger behavior and characterized microbial changes after traveling.Most passengers (99%), showed some type of surface interaction during a wagon trip, mostly with the hands (92%). We found microbiome differences associated with surfaces, probably reflecting diverse surface materials and usage frequency. The platform floor was the most bacterial diverse surface, while the stair handrail and pole were the least diverse ones. After pole cleaning, the resettling of microbial diversity was fast (5-30 minutes); however, it did not resemble the initial composition.After traveling, passengers significantly increased their hand microbial diversity and converged to a similar microbial composition among passengers. Additionally, passenger hand microbiomes resembled subway surfaces in diversity and also in the frequency of potentially pathogenic taxa. However, microbial fingerprints were preserved within passengers after traveling.

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“…Meticillinresistant S. aureus (MRSA) carrying mecA gene is a rising threat to public health (55). This gene has been found not only in hospital environments, but also circulating in the community and not only restricted to S. aureus, but also detected among other species from the genera, including S. epidermidis (56,57). Carbapenem resistance and Extended spectrum -lactamases genes detected here (blaKPC-like, blaCTX-M-1 group, blaSHV-like and) were commonly reported in studies from Brazilian hospital environments as a serious problem in urgent need of actions to reduce their spreading rates (58,59).…”

Section: Discussionmentioning

confidence: 99%

One year cross-sectional study in adult and neonatal intensive care units reveals the bacterial and antimicrobial resistance genes profiles in patients and hospital surfaces

Christoff¹,

Sereia²,

Cruz³

et al. 2020

Preprint

View full text Add to dashboard Cite

Several studies have shown the ubiquitous presence of bacteria in the hospital environmental surfaces, staff, and patients. Frequently, these bacteria are related to HAI (healthcare-associated infections) and carry antimicrobial resistance (AMR). These HAI-related bacteria contributes to a major public health issue by increasing patient morbidity and mortality during or after hospital stay. Bacterial high-throughput amplicon gene sequencing along with AMR genes identification and whole genome sequencing (WGS) are new biotechnological tools that allow multiple-sample screening for a diversity of bacteria. In this paper, we used these methods to perform an one-year cross sectional profiling of bacteria and AMR genes in adult and neonatal intensive care units (ICU and NICU) in a Brazilian public hospital. Our results showed high abundances of HAI-related bacteria as S. epidermidis, S. aureus, K. pneumoniae, A. baumannii complex, E. coli, E. faecalis and P. aeruginosa in patients and hospital surfaces. Most abundant AMR genes detected throughout ICU and NICU were mecA, blaCTX-M-1 group, blaSHV-like and blaKPC-like. We found that NICU environment and patients were more widely contaminated with pathogenic bacteria than ICU. Patient samples, despite the higher bacterial load, have lower bacterial diversity than environmental samples in both units. Finally, we also identified contamination hotspots in the hospital environment showing constant frequencies of bacterial and AMR contamination throughout the year. WGS sequencing, 16S rRNA oligotypes and AMR identification allowed a high-resolution data analysis for bacterial characterization and its distributions along the hospital microbiome profile.

show abstract

Whole genome sequencing revealed new molecular characteristics in multidrug resistant staphylococci recovered from high frequency touched surfaces in London

Cited by 30 publications

References 53 publications

One year cross-sectional study in adult and neonatal intensive care units reveals the bacterial and antimicrobial resistance genes profiles in patients and hospital surfaces

One year cross-sectional study in adult and neonatal intensive care units reveals the bacterial and antimicrobial resistance genes profiles in patients and hospital surfaces

Passenger-surface microbiome interactions in the subway of Mexico City

One year cross-sectional study in adult and neonatal intensive care units reveals the bacterial and antimicrobial resistance genes profiles in patients and hospital surfaces

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