scholarly journals Viable bacterial communities on hospital window components in patient rooms

PeerJ ◽  
2020 ◽  
Vol 8 ◽  
pp. e9580
Author(s):  
Patrick F. Horve ◽  
Leslie G. Dietz ◽  
Suzanne L. Ishaq ◽  
Jeff Kline ◽  
Mark Fretz ◽  
...  

Previous studies demonstrate an exchange of bacteria between hospital room surfaces and patients, and a reduction in survival of microorganisms in dust inside buildings from sunlight exposure. While the transmission of microorganisms between humans and their local environment is a continuous exchange which generally does not raise cause for alarm, in a hospital setting with immunocompromised patients, these building-source microbial reservoirs may pose a risk. Window glass is often neglected during hospital disinfection protocols, and the microbial communities found there have not previously been examined. This pilot study examined whether living bacterial communities, and specifically the pathogens Methicillin-resistant Staphylococcus aureus (MRSA) and Clostridioides difficile (C. difficile), were present on window components of exterior-facing windows inside patient rooms, and whether relative light exposure (direct or indirect) was associated with changes in bacterial communities on those hospital surfaces. Environmental samples were collected from 30 patient rooms in a single ward at Oregon Health & Science University (OHSU) in Portland, Oregon, USA. Sampling locations within each room included the window glass surface, both sides of the window curtain, two surfaces of the window frame, and the air return grille. Viable bacterial abundances were quantified using qPCR, and community composition was assessed using Illumina MiSeq sequencing of the 16S rRNA gene V3/V4 region. Viable bacteria occupied all sampled locations, but was not associated with a specific hospital surface or relative sunlight exposure. Bacterial communities were similar between window glass and the rest of the room, but had significantly lower Shannon Diversity, theorized to be related to low nutrient density and resistance to bacterial attachment of glass compared to other surface materials. Rooms with windows that were facing west demonstrated a higher abundance of viable bacteria than those facing other directions, potentially because at the time of sampling (morning) west-facing rooms had not yet been exposed to sunlight that day. Viable C. difficile was not detected and viable MRSA was detected at very low abundance. Bacterial abundance was negatively correlated with distance from the central staff area containing the break room and nursing station. In the present study, it can be assumed that there is more human traffic in the center of the ward, and is likely responsible for the observed gradient of total abundance in rooms along the ward, as healthcare staff both deposit more bacteria during activities and affect microbial transit indoors. Overall, hospital window components possess similar microbial communities to other previously identified room locations known to act as reservoirs for microbial agents of hospital-associated infections.

Author(s):  
M. V. Kuznetsova ◽  
◽  
М. G. Маммаеvа ◽  
L. V. Кirichenko ◽  
M. A. Shishkin ◽  
...  

The diversity of microbial communities the artificial salt constructions (ASC) located in the medicalpreventive and sanatorium institutions of the Perm region was studied. It was found that the surfaces of the abiotic salt of all ASC were contaminated with microorganisms, and a significant difference was found between the constructions of sylvinite (86.5% of positive samples) and halite (47.4%). The number of viable bacteria, as well as staphylococci, were also higher in sylvinite constructions than in halite ones. Based on bacteriological research and analysis of the 16S rRNA gene nucleotide sequences, the isolated staphylococcus strains belong to the following species: Staphylococcus epidermidis – 42.3% (n=11), S. aureus and S. saprophyticus – 19.2% (n=5), S. simulans – 7.7% (n=2) and one strain of S. cohnii urealyticum, S. hominis, S. warneri – 3.8%. The species composition of microbiocenoses formed on surfaces determined by gas chromatography–mass spectrometry included representatives of 18 genera belonging to the three main phylums: Actinobacteria, Firmicutes and Proteobacteria. Actinobacteria (Actinomyces, Corynebacterium, Nocardia, Propionibacterium, Rhodococcus, etc.) were dominant in both groups ASC. Among Firmicutes, representatives of the genus Clostridium predominated in sylvinite ASC – 63.8% of the total number of bacteria, while in halite they were half as many – 32.1%. The content of coccal microbiota, in contrast, in halite constructions was almost 3 times higher than in sylvinite. Identified quantitative and qualitative indicators of the microbiota of the ASC complement the understanding of the constructions of microbial communities under conditions of high salt load and anthropogenic impact.


2019 ◽  
Author(s):  
Chen Chen ◽  
Lilan Hao ◽  
Weixia Wei ◽  
Fei Li ◽  
Liju Song ◽  
...  

AbstractHuman urine is traditionally considered to be sterile, and whether the urine harbours distinct microbial communities has been a matter of debate. The potential link between female urine and reproductive tract microbial communities is currently not clear.Here we collected the urine samples from 147 Chinese women of reproductive age, and explored the nature of colonization by 16S rRNA gene amplicon sequencing, real-time qPCR and live bacteria culture. To demonstrate utility intra-individual Spearman’s correlation was used to explore the relationship between urine and multi-sites of the reproductive tract. PERMANOVA was also performed to explore potential correlations between the lifestyle and various clinical factors and urinary bacterial communities. Our data demonstrated distinct bacterial communities in urine, indicative of a non-sterile environment. Types of diverse, Streptococcus-dominated, and Lactobacillus-dominated were the three most common types in the cohort. Detailed comparison of the urinary microbiota to the multi-sites of reproductive tract microbiota demonstrated the urinary microbiota was more similar to the microbiota in the cervix and uterine cavity instead of vagina in the same women.Our data demonstrates the potential connectivity of the microbiota in the female urogenital system and provided insight into the exploration of urethra and genital tract diseases.


2021 ◽  
Vol 9 (8) ◽  
pp. 1673
Author(s):  
Andrea K. Borsodi ◽  
Márton Mucsi ◽  
Gergely Krett ◽  
Attila Szabó ◽  
Tamás Felföldi ◽  
...  

In this study, we examined the effect of salinity and alkalinity on the metabolic potential and taxonomic composition of microbiota inhabiting the sodic soils in different plant communities. The soil samples were collected in the Pannonian steppe (Hungary, Central Europe) under extreme dry and wet weather conditions. The metabolic profiles of microorganisms were analyzed using the MicroResp method, the bacterial diversity was assessed by cultivation and next-generation amplicon sequencing based on the 16S rRNA gene. Catabolic profiles of microbial communities varied primarily according to the alkali vegetation types. Most members of the strain collection were identified as plant associated and halophilic/alkaliphilic species of Micrococcus, Nesterenkonia, Nocardiopsis, Streptomyces (Actinobacteria) and Bacillus, Paenibacillus (Firmicutes) genera. Based on the pyrosequencing data, the relative abundance of the phyla Proteobacteria, Actinobacteria, Acidobacteria, Gemmatimonadetes and Bacteroidetes also changed mainly with the sample types, indicating distinctions within the compositions of bacterial communities according to the sodic soil alkalinity-salinity gradient. The effect of weather extremes was the most pronounced in the relative abundance of the phyla Actinobacteria and Acidobacteria. The type of alkali vegetation caused greater shifts in both the diversity and activity of sodic soil microbial communities than the extreme aridity and moisture.


2017 ◽  
Author(s):  
Yun Wang ◽  
Fabian Staubach

AbstractD. melanogaster has become an important model organism to study host-microbe interaction. However, we still know little about the natural microbial communities that are associated with D. melanogaster. Especially, information on inter-individual variation is still lacking because most studies so far have used pooled material from several flies. Here, we collected bacterial 16S rRNA gene community profiles from a set of 32 individuals from a single population and compare the variation to that of samples collected from different substrates and locations. While community differences were on average larger between samples collected from different substrates, there was still a surprising amount of variation of microbial communities between individual flies. The samples clustered into two groups suggesting that there are yet unknown factors that affect the composition of natural fly associated microbial communities and need research.ImportanceD. melanogaster is an important model organism in evolutionary biology and also for the study of host-microbe interaction. In order to connect these to aspects of D. melanogaster biology, it is crucial to better understand the natural D. melanogaster microbiota because only the natural microbiota can affect the evolution of the host. We present, to our knowledge, the first data set that captures inter-individual variation of D. melanogaster associated bacterial communities. Clustering of communities into two larger groups suggests that there are important drivers of these communities that we do not understand yet suggesting in return that more research on the natural microbiota of D. melanogaster is needed.


2019 ◽  
Author(s):  
Ezequiel Santillan ◽  
Hari Seshan ◽  
Florentin Constancias ◽  
Stefan Wuertz

SummaryTrait-based approaches are increasingly gaining importance in community ecology, as a way of finding general rules for the mechanisms driving changes in community structure and function under the influence of perturbations. Frameworks for life-history strategies have been successfully applied to describe changes in plant and animal communities upon disturbance. To evaluate their applicability to complex bacterial communities, we operated replicated wastewater treatment bioreactors for 35 days and subjected them to eight different disturbance frequencies of a toxic pollutant (3-chloroaniline), starting with a mixed inoculum from a full-scale treatment plant. Relevant ecosystem functions were tracked and microbial communities assessed through metagenomics and 16S rRNA gene sequencing. Combining a series of ordination, statistical and network analysis methods, we associated different life-history strategies with microbial communities across the disturbance range. These strategies were evaluated using tradeoffs in community function and genotypic potential, and changes in bacterial genus composition. We further compared our findings with other ecological studies and adopted a semi-quantitative CSR (competitors, ruderals, stress-tolerants) classification. The framework reduces complex datasets of microbial traits, functions, and taxa into ecologically meaningful components to help understand the system response to disturbance, and hence represents a promising tool for managing microbial communities.Originality-Significance StatementThis study establishes, for the first time, CSR life-history strategies in the context of bacterial communities. This framework is explained using community aggregated traits in an environment other than soil, also a first, using a combination of ordination methods, network analysis, and genotypic information from shotgun metagenomics and 16S rRNA gene amplicon sequencing.


PeerJ ◽  
2017 ◽  
Vol 5 ◽  
pp. e3437 ◽  
Author(s):  
Jennifer M. DeBruyn ◽  
Kathleen A. Hauther

The human microbiome has demonstrated an importance for the health and functioning in living individuals. However, the fate of the microbiome after death is less understood. In addition to a better understanding of microbe-mediated decomposition processes, postmortem succession of human-associated microbial communities has been suggested as a possible forensic tool for estimating time since death, or postmortem interval (PMI). The objective of our study was to document postmortem changes in human gut bacterial communities. Gut microflora were repeatedly sampled from the caeca of cadavers as they decayed under natural environmental conditions. 16S rRNA gene amplicon sequencing revealed that over time, bacterial richness significantly increased (rs = 0.449) while diversity decreased (rs =  − 0.701). The composition of gut bacterial communities changed in a similar manner over time towards a common decay community. OTUs belonging to Bacteroidales (Bacteroides, Parabacteroides) significantly declined while Clostridiales (Clostridium, Anaerosphaera) and the fly-associated Gammaproteobacteria Ignatzschineria and Wohlfahrtiimonas increased. Our examination of human caeca microflora in decomposing cadavers adds to the growing literature on postmortem microbial communities, which will ultimately contribute to a better understanding of decomposition processes.


2021 ◽  
Vol 9 (5) ◽  
pp. 898
Author(s):  
Ren Min Oh ◽  
Elena Bollati ◽  
Prasha Maithani ◽  
Danwei Huang ◽  
Benjamin J. Wainwright

The large canopy-forming macroalga, Sargassum ilicifolium, provides shelter and food for numerous coral reef species, but it can also be detrimental at high abundances where it outcompetes other benthic organisms for light and space. Here, we investigate the microbial communities associated with S. ilicifolium in Singapore, where it is an abundant and important member of coral reef communities. We collected eight complete S. ilicifolium thalli from eight island locations along an approximate 14 km east-to-west transect. Each thallus was dissected into three separate parts: holdfast, vesicles, and leaves. We then characterized the bacterial communities associated with each part via polymerase chain reaction (PCR) amplification of the 16S rRNA gene V4 region. We then inferred predicted metagenome functions using METAGENassist. Despite the comparatively short distances between sample sites, we show significant differences in microbial community composition, with communities further differentiated by part sampled. Holdfast, vesicles and leaves all harbor distinct microbial communities. Functional predictions reveal some separation between holdfast and leaf communities, with higher representation of sulphur cycling taxa in the holdfast and higher representation of nitrogen cycling taxa in the leaves. This study provides valuable baseline data that can be used to monitor microbial change, and helps lay the foundation upon which we can begin to understand the complexities of reef-associated microbial communities and the roles they play in the functioning and diversity of marine ecosystems.


2021 ◽  
Vol 12 ◽  
Author(s):  
Ahmed Elsheshtawy ◽  
Benjamin Gregory James Clokie ◽  
Amaya Albalat ◽  
Allan Beveridge ◽  
Ahmad Hamza ◽  
...  

The external mucosal surfaces of the fish harbor complex microbial communities, which may play pivotal roles in the physiological, metabolic, and immunological status of the host. Currently, little is known about the composition and role of these communities, whether they are species and/or tissue specific and whether they reflect their surrounding environment. Co-culture of fish, a common practice in semi-intensive aquaculture, where different fish species cohabit in the same contained environment, is an easily accessible and informative model toward understanding such interactions. This study provides the first in-depth characterization of gill and skin microbiomes in co-cultured Nile tilapia (Oreochromis niloticus) and grey mullet (Mugil capito) in semi-intensive pond systems in Egypt using 16S rRNA gene-based amplicon sequencing. Results showed that the microbiome composition of the external surfaces of both species and pond water was dominated by the following bacterial phyla: Proteobacteria, Fusobacteriota, Firmicutes, Planctomycetota, Verrucomicrobiota, Bacteroidota, and Actinobacteriota. However, water microbial communities had the highest abundance and richness and significantly diverged from the external microbiome of both species; thus, the external autochthonous communities are not a passive reflection of their allochthonous communities. The autochthonous bacterial communities of the skin were distinct from those of the gill in both species, indicating that the external microbiome is likely organ specific. However, gill autochthonous communities were clearly species specific, whereas skin communities showed higher commonalities between both species. Core microbiome analysis identified the presence of shared core taxa between both species and pond water in addition to organ-specific taxa within and between the core community of each species. These core taxa included possibly beneficial genera such as Uncultured Pirellulaceae, Exiguobacterium, and Cetobacterium and opportunistic potential pathogens such as Aeromonas, Plesiomonas, and Vibrio. This study provides the first in-depth mapping of bacterial communities in this semi-intensive system that in turn provides a foundation for further studies toward enhancing the health and welfare of these cultured fish and ensuring sustainability.


2017 ◽  
Author(s):  
Jennifer M DeBruyn ◽  
Kathleen A Hauther

The human microbiome has demonstrated importance for health and functioning in living individuals. However the fate of the microbiome after death is poorly understood. In addition to a better understanding of microbe-mediated decomposition processes, postmortem succession of human-associated microbial communities has been suggested as a possible forensic tool for estimating time since death, or postmortem interval (PMI). The objective of our study was to document postmortem changes in human gut bacterial communities. Gut microflora were repeatedly sampled from the caeca of cadavers as they decayed under natural environmental conditions. 16S rRNA gene amplicon sequencing revealed that over time, bacterial richness significantly increased (rs = 0.449) while diversity decreased (rs = -0.701). The composition of gut bacterial communities changed in a similar manner over time towards a common decay community. OTUs belonging to Bacteroidales (Bacteroides, Parabacteroides) significantly declined while Clostridiales (Clostridium, Anaerosphaera) and the fly-associated Gammaproteobacteria Ignatzschineria and Wohlfahrtiimonas increased. A best fit multiple regression model, which included five OTUs, improved the ability to predict PMI (R2 = 0.824; p < 0.001). Our examination of human caeca microflora in decomposing cadavers adds to the growing literature on postmortem microbial communities, which will ultimately contribute to a better understanding of decomposition processes.


2013 ◽  
Vol 31 (4_suppl) ◽  
pp. 16-16
Author(s):  
Elizabeth E. Half ◽  
Itay Amir ◽  
Uri Gophna ◽  
Fred M. Konikoff

16 Background: Gastroesophageal reflux can cause inflammation, metaplasia, dysplasia and cancer of the esophagus. The incidence of esophageal adenocarcinoma (EAC) has increased almost six fold in the past 30 yrs despite the increased use of Proton Pump Inhibitors (PPIs) to treat reflux. Recently, erosive esophagitis has been shown to increase the risk of EAC relative to patients with normal esophagus (NE). The reason for this remains unknown. Aim: To determine whether the microbiota of gastric refluxate and esophageal biopsies differs between patients with heartburn and NE vs. patients with abnormal esophageal mucosa [esophagitis or Barrett's esophagus (BE)] and to elucidate the effect of PPIs on bacterial communities. Methods: Gastric fluid and esophageal biopsies were collected during endoscopy from 13 BE/esophagitis patients and from 7 with NE. To reveal how PPIs alter the microbiota, samples were obtained from 8 of the patients (2 NE, 4 esophagitis and 2 with BE), before and after 8 weeks of PPI therapy. DNA was extracted and 16S rRNA gene pyrosequencing of microbial communities was performed. Results: Significant differences in the composition of gastric fluid bacteria, but not the esophagus-associated microbiota, were found between patients with heartburn and NE vs. patients with esophagitis and/or BE. Notably, Enterobacteriaceae (specifically Escherichia and Enterobacter) were significantly enriched in gastric fluid of patients with BE/esophagitis (P=0.01) compared to NE. PPIs had a remarkable effect on microbial communities both in the stomach and the esophagus. In gastric fluid, Moraxellaceae were decreased (P=0.016), whereas Erysipelotrichaceae were increased (P=0.031) following PPI treatment. Esophageal biopsies revealed genera belonging to the Microccocaceae, known to be opportunistic human pathogens, which increased following PPIs (P =0.031). Conclusions: Gastric fluid microbiota is modified in heartburn patients with esophagitis and/or Barrett's esophagus compared to patients with normal esophagus. PPI treatment markedly alters gastric and esophageal microbial populations. These modified bacterial communities may predispose to inflammation, dysplasia and cancer.


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