Nanopore DNA sequencing technologies and their applications towards single-molecule proteomics

A Dorey, S Howorka - Nature chemistry, 2024‏ - nature.com
Sequencing of nucleic acids with nanopores has emerged as a powerful tool offering rapid
readout, high accuracy, low cost and portability. This label-free method for sequencing at the …

Perspectives and benefits of high-throughput long-read sequencing in microbial ecology

L Tedersoo, M Albertsen, S Anslan… - Applied and …, 2021‏ - journals.asm.org
Short-read, high-throughput sequencing (HTS) methods have yielded numerous important
insights into microbial ecology and function. Yet, in many instances short-read HTS …

Acute and persistent effects of commonly used antibiotics on the gut microbiome and resistome in healthy adults

WE Anthony, B Wang, KV Sukhum, AW D'Souza… - Cell reports, 2022‏ - cell.com
Antibiotics are deployed against bacterial pathogens, but their targeting of conserved
microbial processes means they also collaterally perturb the commensal microbiome. To …

Nanopore metagenomics enables rapid clinical diagnosis of bacterial lower respiratory infection

T Charalampous, GL Kay, H Richardson, A Aydin… - Nature …, 2019‏ - nature.com
The gold standard for clinical diagnosis of bacterial lower respiratory infections (LRIs) is
culture, which has poor sensitivity and is too slow to guide early, targeted antimicrobial …

Nanopore adaptive sampling: a tool for enrichment of low abundance species in metagenomic samples

S Martin, D Heavens, Y Lan, S Horsfield, MD Clark… - Genome biology, 2022‏ - Springer
Adaptive sampling is a method of software-controlled enrichment unique to nanopore
sequencing platforms. To test its potential for enrichment of rarer species within …

Full-length 16S rRNA gene amplicon analysis of human gut microbiota using MinION™ nanopore sequencing confers species-level resolution

Y Matsuo, S Komiya, Y Yasumizu, Y Yasuoka… - BMC microbiology, 2021‏ - Springer
Background Species-level genetic characterization of complex bacterial communities has
important clinical applications in both diagnosis and treatment. Amplicon sequencing of the …

Nanopore targeted sequencing for the accurate and comprehensive detection of SARS‐CoV‐2 and other respiratory viruses

M Wang, A Fu, B Hu, Y Tong, R Liu, Z Liu, J Gu… - Small, 2020‏ - Wiley Online Library
The ongoing global novel coronavirus pneumonia COVID‐19 outbreak has engendered
numerous cases of infection and death. COVID‐19 diagnosis relies upon nucleic acid …

Maternal microbiota, early life colonization and breast milk drive immune development in the newborn

C Kalbermatter, N Fernandez Trigo… - Frontiers in …, 2021‏ - frontiersin.org
The innate immune system is the oldest protection strategy that is conserved across all
organisms. Although having an unspecific action, it is the first and fastest defense …

Hybrid metagenomic assembly enables high-resolution analysis of resistance determinants and mobile elements in human microbiomes

D Bertrand, J Shaw, M Kalathiyappan, AHQ Ng… - Nature …, 2019‏ - nature.com
Abstract Characterization of microbiomes has been enabled by high-throughput
metagenomic sequencing. However, existing methods are not designed to combine reads …

mNGS in clinical microbiology laboratories: on the road to maturity

D Han, Z Li, R Li, P Tan, R Zhang… - Critical reviews in …, 2019‏ - Taylor & Francis
Metagenomic next-generation sequencing (mNGS) is increasingly being applied in clinical
laboratories for unbiased culture-independent diagnosis. Whether it can be a next routine …