Data from: Global Spore Sampling Project: A global, standardized dataset of airborne fungal DNA
Le résumé fourni par la source
Novel methods for sampling and characterizing biodiversity hold great promise for re-evaluating patterns of life across the planet. The sampling of airborne spores with a cyclone sampler, and the sequencing of their DNA, have been suggested as an efficient and well-calibrated tool for surveying fungal diversity across various environments. Here we present data originating from the Global Spore Sampling Project, comprising 2,768 samples collected during two years at 47 outdoor locations across the world. Each sample represents fungal DNA extracted from 24 m3 of air. We applied a conservative bioinformatics pipeline that filtered out sequences that did not show strong evidence of representing a fungal species. The pipeline yielded 27,954 species-level operational taxonomic units (OTUs). Each OTU is accompanied by a probabilistic taxonomic classification, validated through comparison with expert evaluations. To examine the potential of the data for ecological analyses, we partitioned the variation in species distributions into spatial and seasonal components, showing a strong effect of the annual mean temperature on community composition. The database is organized in five datasets in a csv format (columns separated by commas): (1) metadata providing the location, date, and time for each sample, along with sequencing depth and other essential information (metadata.csv); (2) species-level OTU tables per sample describing the number of sequences assigned to each species (otu.table.csv 3); (3) taxonomic classification of each species-level OTU (taxonomy.csv); (4) closest matching sequences and their taxonomy for ASVs in putatively fungal pseudophyla, which are included in (2) and (3) (fungi_pseudophyla.csv); and (5) closest matching sequences and their taxonomy for ASVs in putatively non-fungal pseudophyla, which are not included in the other datasets (nonfungi_pseudophyla.csv). The first four datasets can be linked to each other using the unique sample codes and the unique identifiers for species-level OTUs. The three first datafiles are also provided in allData.RData which can be read into R as load("allData.RData").
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