Microbial Community Profiling in Intensive Care Units Expose Limitations in Current Sanitary Standards

Ribeiro, Lucas F.; Lopes, Érica Mendes; Kishi, Luciano Takeshi; Ribeiro, Laryssa Freitas; Menegueti, Mayra Gonçalves; Gaspar, Gilberto Gambero; Silva‐Rocha, Rafael; Guazzaroni, María-Eugenia

doi:10.3389/fpubh.2019.00240

Cited by 31 publications

(68 citation statements)

References 59 publications

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…The bacterial profile found in this study for ICU and NICU environments is similar to other intensive care studies, with Proteobacteria and Firmicutes as the most abundant bacterial phyla detected [1,2,5]. However, most abundant bacterial genera and species detected in our study varied, particularly because of the high rates of specific HAI related bacteria.…”

Section: Discussionsupporting

confidence: 84%

“…Hospital indoor environment including surfaces, staff and patients are the focus of major recent investigations regarding the microbiome and its bacterial composition [1][2][3][4]. This extensive investigations became possible due to the dissemination of culture-independent microbiology methods using next-generation DNA sequencing directly from the collected samples.…”

Section: Introductionmentioning

confidence: 99%

“…Hospital contaminated environments, including surfaces and staff, are well recognized reservoirs and transmission sources for HAI-related pathogens [2,12,17,[20][21][22][23][24][25]. In this scenario, the study of hospital microbiome has substantial implications in the healthcare system: the continuous monitoring of hospital environment, bacterial tracking, and detailed epidemiological investigations may contribute to decrease HAI rates and improve healthcare system quality.…”

Section: Introductionmentioning

confidence: 99%

See 2 more Smart Citations

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

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.

show abstract

Section: Discussionsupporting

confidence: 84%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

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

“…Hospital indoor environment including surfaces, staff and patients are the focus of major recent investigations regarding the microbiome and its bacterial composition (1)(2)(3)(4). This became possible due to the dissemination of culture-independent microbiology methods using next-generation DNA sequencing.…”

Section: Introductionmentioning

confidence: 99%

“…Hospital contaminated environments, including surfaces and staff, are well recognized as reservoirs and transmission sources for HAI-related pathogens (2,12,(15)(16)(17)(18)(19)(20)(21). In this scenario, the study of hospital microbiome has substantial implications in the healthcare system: the continuous monitoring of hospital environment, bacterial tracking, and detailed epidemiological investigations may contribute to decrease HAI rates and improve healthcare system quality.…”

Section: Introductionmentioning

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

Simultaneous monitoring of SARS-CoV-2 and bacterial profiles from the air of hospital environments with COVID-19-affected patients

et al. 2022

View full text Add to dashboard Cite

The SARS-CoV-2 presence and the bacterial community profile in air samples collected at the Intensive Care Unit (ICU) of the Operational Unit of Infectious Diseases of Santa Caterina Novella Hospital in Galatina (Lecce, Italy) have been evaluated in this study. Air samplings were performed in different rooms of the ICU ward with and without COVID-19 patients. No sample was found positive to SARS-CoV-2, according to Allplex 2019-nCoV Assay. The airborne bacterial community profiles determined by the 16S rRNA gene metabarcoding approach up to the species level were characterized by richness and biodiversity indices, Spearman correlation coefficients, and Principal Coordinate Analysis. Pathogenic and non-pathogenic bacterial species, also detected in outdoor air samples, were found in all collected indoor samples. Staphylococcus pettenkoferi, Corynebacterium tuberculostearicum, and others coagulase-negative staphylococci, detected at high relative abundances in all the patients’ rooms, were the most abundant pathogenic species. The highest mean relative abundance of S. pettenkoferi and C. tuberculostearicum suggested that they were likely the main pathogens of COVID-19 patients at the ICU ward of this study. The identification of nosocomial pathogens representing potential patients’ risks in ICU COVID-19 rooms and the still controversial airborne transmission of the SARS-CoV-2 are the main contributions of this study.

show abstract

Microbial Community Profiling in Intensive Care Units Expose Limitations in Current Sanitary Standards

Cited by 31 publications

References 59 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

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

Simultaneous monitoring of SARS-CoV-2 and bacterial profiles from the air of hospital environments with COVID-19-affected patients

Contact Info

Product

Resources

About