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Open AccessJournal ArticleDOI

A global metagenomic map of urban microbiomes and antimicrobial resistance

David Danko, +681 more
- 24 Jun 2021 - 
- Vol. 184, Iss: 13, pp 3376
TLDR
This paper presented a global atlas of 4,728 metagenomic samples from mass-transit systems in 60 cities over three years, representing the first systematic, worldwide catalog of the urban microbial ecosystem.
About: 
This article is published in Cell.The article was published on 2021-06-24 and is currently open access. It has received 123 citations till now. The article focuses on the topics: Metagenomics.

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Citations
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Assessment of global health risk of antibiotic resistance genes

Zhenyan Zhang, +10 more
- 23 Mar 2022 - 
TL;DR: In this article , an analysis at the metagenomic level from various habitats (6 types of habitats, 4572 samples) detects 2561 ARGs that collectively conferred resistance to 24 classes of antibiotics.
Journal ArticleDOI

Spread of airborne antibiotic resistance from animal farms to the environment: Dispersal pattern and exposure risk

- 01 Jan 2022 - 
TL;DR: In this paper , the authors investigated the dispersal pattern and exposure risk of airborne ARGs (especially in zoonotic pathogens) in the environment of chicken and dairy farms, where samples were collected from the livestock houses and surrounding environments (upwind and downwind areas) for assessing ARG profiles.
Journal ArticleDOI

Spread of airborne antibiotic resistance from animal farms to the environment: Dispersal pattern and exposure risk.

Hong Bai, +7 more
- 01 Jan 2022 - 
TL;DR: In this paper, the authors investigated the dispersal pattern and exposure risk of airborne ARGs (especially in zoonotic pathogens) in the environment of chicken and dairy farms, where samples were collected from the livestock houses and surrounding environments (upwind and downwind areas) for assessing ARG profiles.
Journal ArticleDOI

Metagenomics-enabled microbial surveillance

Karrie Ko, +2 more
- 01 Apr 2022 - 
TL;DR: In this article , the authors proposed a method to improve detection of both known and yet-to-emerge pathogens by using metagenomics-enabled surveillance methods, which could transform global efforts to detect risks to human health within a One Health framework.
Journal ArticleDOI

Characterization of the public transit air microbiome and resistome reveals geographical specificity.

Marcus H. Y. Leung, +20 more
- 26 May 2021 - 
TL;DR: In this paper, the public transit air microbiomes and resistomes of six cities across three continents (Denver, Hong Kong, London, New York City, Oslo, Stockholm) were characterized.
References
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Journal ArticleDOI

Basic Local Alignment Search Tool

Stephen F. Altschul, +4 more
- 01 Oct 1990 - 
TL;DR: A new approach to rapid sequence comparison, basic local alignment search tool (BLAST), directly approximates alignments that optimize a measure of local similarity, the maximal segment pair (MSP) score.
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Fast gapped-read alignment with Bowtie 2

Ben Langmead, +3 more
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TL;DR: Bowtie 2 combines the strengths of the full-text minute index with the flexibility and speed of hardware-accelerated dynamic programming algorithms to achieve a combination of high speed, sensitivity and accuracy.
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FastTree 2--approximately maximum-likelihood trees for large alignments.

Morgan N. Price, +3 more
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TL;DR: Improvements to FastTree are described that improve its accuracy without sacrificing scalability, and FastTree 2 allows the inference of maximum-likelihood phylogenies for huge alignments.
Journal ArticleDOI

Structure, function and diversity of the healthy human microbiome

Curtis Huttenhower, +253 more
- 14 Jun 2012 - 
TL;DR: The Human Microbiome Project Consortium reported the first results of their analysis of microbial communities from distinct, clinically relevant body habitats in a human cohort; the insights into the microbial communities of a healthy population lay foundations for future exploration of the epidemiology, ecology and translational applications of the human microbiome as discussed by the authors.
Journal ArticleDOI

Fast and sensitive protein alignment using DIAMOND

Benjamin Buchfink, +2 more
- 01 Jan 2015 - 
TL;DR: DIAMOND is introduced, an open-source algorithm based on double indexing that is 20,000 times faster than BLASTX on short reads and has a similar degree of sensitivity.
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