Metagenomics-enabled microbial surveillance
Lessons learnt from the COVID-19 pandemic include increased awareness of the potential
for zoonoses and emerging infectious diseases that can adversely affect human health …
for zoonoses and emerging infectious diseases that can adversely affect human health …
The ecology of environmental DNA and implications for conservation genetics
MA Barnes, CR Turner - Conservation genetics, 2016 - Springer
Environmental DNA (eDNA) refers to the genetic material that can be extracted from bulk
environmental samples such as soil, water, and even air. The rapidly expanding study of …
environmental samples such as soil, water, and even air. The rapidly expanding study of …
Simple statistical identification and removal of contaminant sequences in marker-gene and metagenomics data
Background The accuracy of microbial community surveys based on marker-gene and
metagenomic sequencing (MGS) suffers from the presence of contaminants—DNA …
metagenomic sequencing (MGS) suffers from the presence of contaminants—DNA …
MMseqs2 enables sensitive protein sequence searching for the analysis of massive data sets
To the Editor: The throughput of DNA sequencing has increased much faster than
computational speed in the past decade, and sensitive-sequence searching has become the …
computational speed in the past decade, and sensitive-sequence searching has become the …
Global monitoring of antimicrobial resistance based on metagenomics analyses of urban sewage
Antimicrobial resistance (AMR) is a serious threat to global public health, but obtaining
representative data on AMR for healthy human populations is difficult. Here, we use …
representative data on AMR for healthy human populations is difficult. Here, we use …
Large-scale generation and analysis of filamentous fungal DNA barcodes boosts coverage for kingdom fungi and reveals thresholds for fungal species and higher …
Species identification lies at the heart of biodiversity studies that has in recent years
favoured DNA-based approaches. Microbial Biological Resource Centres are a rich source …
favoured DNA-based approaches. Microbial Biological Resource Centres are a rich source …
[HTML][HTML] A global metagenomic map of urban microbiomes and antimicrobial resistance
D Danko, D Bezdan, EE Afshin, S Ahsanuddin… - Cell, 2021 - cell.com
We present a global atlas of 4,728 metagenomic samples from mass-transit systems in 60
cities over 3 years, representing the first systematic, worldwide catalog of the urban …
cities over 3 years, representing the first systematic, worldwide catalog of the urban …
Antimicrobial resistance: A global emerging threat to public health systems
M Ferri, E Ranucci, P Romagnoli… - Critical reviews in food …, 2017 - Taylor & Francis
Antimicrobial resistance (AMR) became in the last two decades a global threat to public
health systems in the world. Since the antibiotic era, with the discovery of the first antibiotics …
health systems in the world. Since the antibiotic era, with the discovery of the first antibiotics …
Understanding the promises and hurdles of metagenomic next-generation sequencing as a diagnostic tool for infectious diseases
Agnostic metagenomic next-generation sequencing (mNGS) has emerged as a promising
single, universal pathogen detection method for infectious disease diagnostics. This …
single, universal pathogen detection method for infectious disease diagnostics. This …
A deep siamese neural network improves metagenome-assembled genomes in microbiome datasets across different environments
Metagenomic binning is the step in building metagenome-assembled genomes (MAGs)
when sequences predicted to originate from the same genome are automatically grouped …
when sequences predicted to originate from the same genome are automatically grouped …