Dataset Information

Diversity, distribution and sources of bacteria in residential kitchens.

ABSTRACT: Bacteria readily colonize kitchen surfaces, and the exchange of microbes between humans and the kitchen environment can impact human health. However, we have a limited understanding of the overall diversity of these communities, how they differ across surfaces and sources of bacteria to kitchen surfaces. Here we used high-throughput sequencing of the 16S rRNA gene to explore biogeographical patterns of bacteria across >?80 surfaces within the kitchens of each of four households. In total, 34 bacterial and two archaeal phyla were identified, with most sequences belonging to the Actinobacteria, Bacteroidetes, Firmicutes and Proteobacteria. Genera known to contain common food-borne pathogens were low in abundance but broadly distributed throughout the kitchens, with different taxa exhibiting distinct distribution patterns. The most diverse communities were associated with infrequently cleaned surfaces such as fans above stoves, refrigerator/freezer door seals and floors. In contrast, the least diverse communities were observed in and around sinks, which were dominated by biofilm-forming Gram-negative lineages. Community composition was influenced by conditions on individual surfaces, usage patterns and dispersal from source environments. Human skin was the primary source of bacteria across all kitchen surfaces, with contributions from food and faucet water dominating in a few specific locations. This study demonstrates that diverse bacterial communities are widely distributed in residential kitchens and that the composition of these communities is often predictable. These results also illustrate the ease with which human- and food-associated bacteria can be transferred in residential settings to kitchen surfaces.

SUBMITTER: Flores GE

PROVIDER: S-EPMC5100818 | biostudies-literature | 2013 Feb

REPOSITORIES: biostudies-literature

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Diversity, distribution and sources of bacteria in residential kitchens.

Flores Gilberto E GE Bates Scott T ST Caporaso J Gregory JG Lauber Christian L CL Leff Jonathan W JW Knight Rob R Fierer Noah N

Environmental microbiology 20121122 2

Bacteria readily colonize kitchen surfaces, and the exchange of microbes between humans and the kitchen environment can impact human health. However, we have a limited understanding of the overall diversity of these communities, how they differ across surfaces and sources of bacteria to kitchen surfaces. Here we used high-throughput sequencing of the 16S rRNA gene to explore biogeographical patterns of bacteria across > 80 surfaces within the kitchens of each of four households. In total, 34 bac ...[more]

PMID: 23171378

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Project description:The predominant hypothesis regarding the composition of microbial assemblages in indoor environments is that fungal assemblages are structured by outdoor air with a moderate contribution by surface growth, whereas indoor bacterial assemblages represent a mixture of bacteria entered from outdoor air, shed by building inhabitants, and grown on surfaces. To test the fungal aspect of this hypothesis, we sampled fungi from three surface types likely to support growth and therefore possible contributors of fungi to indoor air: drains in kitchens and bathrooms, sills beneath condensation-prone windows, and skin of human inhabitants. Sampling was done in replicated units of a university-housing complex without reported mold problems, and sequences were analyzed using both QIIME and the new UPARSE approach to OTU-binning, to the same result. Surfaces demonstrated a mycological profile similar to that of outdoor air from the same locality, and assemblages clustered by surface type. "Weedy" genera typical of indoor air, such as Cladosporium and Cryptococcus, were abundant on sills, as were a diverse set of fungi of likely outdoor origin. Drains supported more depauperate assemblages than the other surfaces and contained thermotolerant genera such as Exophiala, Candida, and Fusarium. Most surprising was the composition detected on residents' foreheads. In addition to harboring Malassezia, a known human commensal, skin also possessed a surprising richness of non-resident fungi, including plant pathogens such as ergot (Claviceps purperea). Overall, fungal richness across indoor surfaces was high, but based on known autecologies, most of these fungi were unlikely to be growing on surfaces. We conclude that while some endogenous fungal growth on typical household surfaces does occur, particularly on drains and skin, all residential surfaces appear - to varying degrees - to be passive collectors of airborne fungi of putative outdoor origin, a view of the origins of the indoor microbiome quite different from bacteria.

Project description:Exposure to arsenic (As) or lead (Pb) has been associated with adverse health outcomes, and high-risk populations can be disproportionately exposed to these metals in soils. The objectives of this study were: to examine if predicted soil As and Pb concentrations at maternal residences of South Carolina (SC) low-income mothers differed based on maternal race (non-Hispanic black versus white), to examine whether differences in predicted residential soil As and Pb concentrations among black and white mothers differed by socioeconomic status (SES), and to examine whether such disparities persisted after controlling for anthropogenic sources of these metals, including direction from, and distance to industrial facilities. Kriged soil As and Pb concentrations were estimated at maternal residences in 11 locations in SC, and models with maternal race and individual and US Census block group level SES measures were examined. US Environmental Protection Agency Toxics Release Inventory (TRI) facility As and Pb releases categorized by distance and direction to block groups in which mothers resided were also identified, as were proxy measures for historic use of leaded gasoline (road density) and Pb-based paint (categories of median year home built by US Census block group). Consistent racial disparities were observed for predicted residential soil As and Pb concentrations, and the disparity was stronger for Pb than As (betas from adjusted models for black mothers were 0.12 and 2.2 for As and Pb, respectively, all p<0.006). Higher road density and older homes in block groups were more closely associated with higher predicted soil As and Pb concentrations than on-site releases of As and Pb categorized by facility location. These findings suggest that non-Hispanic black mothers in this study population had elevated residential As and Pb soil concentrations, after adjusting for SES, and that soil As and Pb concentrations were not associated with recent industrial releases.

Project description:BackgroundIsolation of marine microorganisms is fundamental to gather information about their physiology, ecology and genomic content. To date, most of the bacterial isolation efforts have focused on the photic ocean leaving the deep ocean less explored. We have created a marine culture collection of heterotrophic bacteria (MARINHET) using a standard marine medium comprising a total of 1561 bacterial strains, and covering a variety of oceanographic regions from different seasons and years, from 2009 to 2015. Specifically, our marine collection contains isolates from both photic (817) and aphotic layers (744), including the mesopelagic (362) and the bathypelagic (382), from the North Western Mediterranean Sea, the North and South Atlantic Ocean, the Indian, the Pacific, and the Arctic Oceans. We described the taxonomy, the phylogenetic diversity and the biogeography of a fraction of the marine culturable microorganisms to enhance our knowledge about which heterotrophic marine isolates are recurrently retrieved across oceans and along different depths.ResultsThe partial sequencing of the 16S rRNA gene of all isolates revealed that they mainly affiliate with the classes Alphaproteobacteria (35.9%), Gammaproteobacteria (38.6%), and phylum Bacteroidetes (16.5%). In addition, Alteromonas and Erythrobacter genera were found the most common heterotrophic bacteria in the ocean growing in solid agar medium. When comparing all photic, mesopelagic, and bathypelagic isolates sequences retrieved from different stations, 37% of them were 100% identical. This percentage increased up to 59% when mesopelagic and bathypelagic strains were grouped as the aphotic dataset and compared to the photic dataset of isolates, indicating the ubiquity of some bacterial isolates along different ocean depths. Finally, we isolated three strains that represent a new species, and the genome comparison and phenotypic characterization of two of these strains (ISS653 and ISS1889) concluded that they belong to a new species within the genus Mesonia.ConclusionsOverall, this study highlights the relevance of culture-dependent studies, with focus on marine isolated bacteria from different oceanographic regions and depths, to provide a more comprehensive view of the culturable marine bacteria as part of the total marine microbial diversity.

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Diversity, distribution and sources of bacteria in residential kitchens.

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Diversity, distribution and sources of bacteria in residential kitchens.

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