Journal ArticleDOI
Fungal aerosols at dairy farms using molecular and culture techniques.
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TLDR
Differences in the diversity profiles of the five dairy farms support the idea that the novel approach identifies a large number of fungal taxa, and the presence of a diverse portrait of fungi in air may represent a health risk for workers who are exposed on a daily basis.About:
This article is published in Science of The Total Environment.The article was published on 2019-02-25. It has received 36 citations till now. The article focuses on the topics: Indoor bioaerosol & Bioaerosol.read more
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Journal ArticleDOI
Comparison of the performance of ITS1 and ITS2 as barcodes in amplicon-based sequencing of bioaerosols.
TL;DR: The authors strongly recommend using ITS1 as a universal fungal barcode for quick general analyses of diversity and when limited financial resources are available, primarily due its ability to capture taxonomic profiles similar to those obtained using the shotgun metagenomic.
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Bioaerosol Sampler Choice Should Consider Efficiency and Ability of Samplers To Cover Microbial Diversity.
TL;DR: The findings from this work suggest that the choice of a bioaerosol sampler should include information about the efficiency and ability of samplers to cover microbial diversity, and suggest that electrostatic filters result in better coverage of the microbial diversity among the tested air Samplers.
Journal ArticleDOI
Bioaerosols Play a Major Role in the Nasopharyngeal Microbiota Content in Agricultural Environment.
TL;DR: Nasopharynx sampling and microbiota could be used as a proxy of air sampling for exposure assessment studies or for the determination of exposure markers in highly contaminated agricultural environments.
Journal ArticleDOI
The effects of waste sorting in environmental microbiome, THP-1 cell viability and inflammatory responses
Carla Viegas,Carla Viegas,Liliana Aranha Caetano,Jennie Cox,M. Korkalainen,Sarah R. Haines,Karen C. Dannemiller,Susana Viegas,Tiina Reponen +8 more
TL;DR: The broad spectrum of microbial contamination detected in this study demonstrates that adequate monitoring of bioaerosol exposure is necessary to evaluate and minimize risks and that the use of high-throughput DNA sequencing and in vitro studies in combination can support the implementation of effective environmental monitoring programs of public and occupational health importance.
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The Inhalable Mycobiome of Sawmill Workers: Exposure Characterization and Diversity.
TL;DR: The fungal diversity in air samples from sawmill workers’ breathing zones was characterized and differences in the richness, diversity, and taxonomic composition between companies, departments, wood types, and seasons suggested that the potential health effects of fungal inhalation may be different; hence, a risk assessment based on the fungal Diversity differences should be performed.
References
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QIIME allows analysis of high-throughput community sequencing data.
J. Gregory Caporaso,Justin Kuczynski,Jesse Stombaugh,Kyle Bittinger,Frederic D. Bushman,Elizabeth K. Costello,Noah Fierer,Antonio Gonzalez Peña,Julia K. Goodrich,Jeffrey I. Gordon,Gavin A. Huttley,Scott T. Kelley,Dan Knights,Jeremy E. Koenig,Ruth E. Ley,Catherine A. Lozupone,Daniel McDonald,Brian D. Muegge,Meg Pirrung,Jens Reeder,Joel Sevinsky,Peter J. Turnbaugh,William A. Walters,Jeremy Widmann,Tanya Yatsunenko,Jesse R. Zaneveld,Rob Knight,Rob Knight +27 more
TL;DR: An overview of the analysis pipeline and links to raw data and processed output from the runs with and without denoising are provided.
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Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities
Patrick D. Schloss,Patrick D. Schloss,Sarah L. Westcott,Sarah L. Westcott,Thomas Ryabin,Justine R. Hall,Martin Hartmann,Emily B. Hollister,Ryan A. Lesniewski,Brian B. Oakley,Donovan H. Parks,Courtney J. Robinson,Jason W. Sahl,Blaz Stres,Gerhard G. Thallinger,David J. Van Horn,Carolyn F. Weber +16 more
TL;DR: M mothur is used as a case study to trim, screen, and align sequences; calculate distances; assign sequences to operational taxonomic units; and describe the α and β diversity of eight marine samples previously characterized by pyrosequencing of 16S rRNA gene fragments.
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Search and clustering orders of magnitude faster than BLAST
TL;DR: UCLUST is a new clustering method that exploits USEARCH to assign sequences to clusters and offers several advantages over the widely used program CD-HIT, including higher speed, lower memory use, improved sensitivity, clustering at lower identities and classification of much larger datasets.