SUMMARY
The panoply of microorganisms and other species present in our environment influence human health and disease, especially in cities, but have not been profiled with metagenomics at a city-wide scale. We sequenced DNA from surfaces across the entire New York City (NYC) subway system, the Gowanus Canal, and public parks. Nearly half of the DNA (48%) does not match any known organism; identified organisms spanned 1,688 bacterial, viral, archaeal, and eukaryotic taxa, which were enriched for harmless genera associated with skin (e.g., Acinetobacter). Predicted ancestry of human DNA left on subway surfaces can recapitulate U.S. Census demographic data, and bacterial signatures can reveal a station’s history, such as marine-associated bacteria in a hurricane-flooded station. Some evidence of pathogens was found (Bacillus anthracis), but a lack of reported cases in NYC suggests that the pathogens represent a normal, urban microbiome. This baseline metagenomic map of NYC could help long-term disease surveillance, bioterrorism threat mitigation, and health management in the built environment of cities.
Figure 3B has been corrected to show the general coverage of the Yersinia pestis pMT1 plasmid, but not the murine toxin gene (yMT). The initial claim of ''.consistent 203 coverage across the murine toxin gene.'' was erroneously based on looking at gene annotation coordinates from different reference sequences. No reads mapped to the yMT gene when updated annotations were used. The Summary, Results, and Discussion sections have been revised to remove and clarify misleading and speculative text about pathogenic organisms. We now state that although all our metagenomic analysis tools identified reads with similarity to B. anthracis and Y. pestis sequences, there is minimal coverage to the backbone genome of these organisms, and there is no strong evidence to suggest these organisms are in fact present, and no evidence of pathogenicity. The figure and the text have been corrected online and in the print version.
A family in which five members has a weak B variant and one member had a normal A and weak B reaction is reported. It appears that these phenotypes arise by the inheritance of a variant allele of the ABO locus. Their cells react weakly when added to anti-B sera, and they have normal anti-A activity and an absence of anti-B in their sera. Additionally, all of the members tested had increased levels of cellular H substance and all of the affected secretor members of the family secreted normal amounts of both B and H substance. Transferase activity of the sera of these individuals confirmed the presence of the B-gene specific transferase.
We describe a polymorphism revealed by a high‐copy‐number tandem repeat which serves to distinguish most individuals sampled (96%) from two chromosomal races of Peromyscus leucopus. Classical morphology, allozymes, mtDNA, and rDNA have all failed to provide fixed markers which separate these two chromosomal races. Data from P. leucopus further documents the utility of DNA polymorphisms to establish the natal origin (DNA ‘zipcodes’) of populations or individuals.
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