Geospatial Resolution of Human and Bacterial Diversity with City-Scale Metagenomics.
Geospatial Resolution of Human and Bacterial Diversity with City-Scale Metagenomics.
复制标题
通过城市规模的宏基因组学对人类和细菌多样性的地理空间分辨率。
DOI：
10.1016/j.cels.2015.01.001
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发表时间：
2015-07-29
期刊：
影响因子：
9.3
通讯作者：
Mason CE
中科院分区：
文献类型：
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作者：
Afshinnekoo E;Meydan C;Chowdhury S;Jaroudi D;Boyer C;Bernstein N;Maritz JM;Reeves D;Gandara J;Chhangawala S;Ahsanuddin S;Simmons A;Nessel T;Sundaresh B;Pereira E;Jorgensen E;Kolokotronis SO;Kirchberger N;Garcia I;Gandara D;Dhanraj S;Nawrin T;Saletore Y;Alexander N;Vijay P;Hénaff EM;Zumbo P;Walsh M;O'Mullan GD;Tighe S;Dudley JT;Dunaif A;Ennis S;O'Halloran E;Magalhaes TR;Boone B;Jones AL;Muth TR;Paolantonio KS;Alter E;Schadt EE;Garbarino J;Prill RJ;Carlton JM;Levy S;Mason CE
环境中存在的大量微生物和其他物种影响着人类健康和疾病，特别是在城市中，但尚未在全市范围内使用宏基因组学进行分析。我们对整个纽约市（NYC）地铁系统、Gowanus运河和公园的表面进行了DNA测序。近一半的DNA（48%）与任何已知的生物体都不匹配；鉴定的生物跨越1,688个细菌、病毒、古细菌和真核生物分类群，其中富含与皮肤相关的无害属（例如，不动杆菌）。预测留在地铁表面的人类DNA祖先可以概括美国人口普查数据，细菌特征可以揭示车站的历史，例如飓风淹没的车站中的海洋相关细菌。发现了一些病原体的证据（炭疽芽孢杆菌），但纽约市缺乏病例报告，这表明病原体代表了正常的城市微生物群。纽约市的基线宏基因组图谱可以帮助长期疾病监测、减轻生物恐怖主义威胁和城市建筑环境中的健康管理。
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.