Third-generation sequencing: the spearhead towards the radical transformation of modern genomics

K Athanasopoulou, MA Boti, PG Adamopoulos… - Life, 2021 - mdpi.com
Although next-generation sequencing (NGS) technology revolutionized sequencing, offering
a tremendous sequencing capacity with groundbreaking depth and accuracy, it continues to …

[HTML][HTML] Nanopore sequencing and its application to the study of microbial communities

L Ciuffreda, H Rodríguez-Pérez, C Flores - Computational and structural …, 2021 - Elsevier
Since its introduction, nanopore sequencing has enhanced our ability to study complex
microbial samples through the possibility to sequence long reads in real time using …

Metagenomic profiling pipelines improve taxonomic classification for 16S amplicon sequencing data

AR Odom, T Faits, E Castro-Nallar, KA Crandall… - Scientific reports, 2023 - nature.com
Most experiments studying bacterial microbiomes rely on the PCR amplification of all or part
of the gene for the 16S rRNA subunit, which serves as a biomarker for identifying and …

The newest Oxford Nanopore R10. 4.1 full-length 16S rRNA sequencing enables the accurate resolution of species-level microbial community profiling

T Zhang, H Li, S Ma, J Cao, H Liao… - Applied and …, 2023 - Am Soc Microbiol
The long-read amplicon provides a species-level solution for the community. With the
improvement of nanopore flowcells, the accuracy of Oxford Nanopore Technologies (ONT) …

Nanopore is preferable over Illumina for 16S amplicon sequencing of the gut microbiota when species-level taxonomic classification, accurate estimation of richness …

M Szoboszlay, L Schramm, D Pinzauti, J Scerri… - Microorganisms, 2023 - mdpi.com
Nanopore sequencing is a promising technology used for 16S rRNA gene amplicon
sequencing as it can provide full-length 16S reads and has a low up-front cost that allows …

Freshwater monitoring by nanopore sequencing

L Urban, A Holzer, JJ Baronas, MB Hall… - Elife, 2021 - elifesciences.org
While traditional microbiological freshwater tests focus on the detection of specific bacterial
indicator species, including pathogens, direct tracing of all aquatic DNA through …

[HTML][HTML] Comparing the significance of the utilization of next generation and third generation sequencing technologies in microbial metagenomics

I Akacin, Ş Ersoy, O Doluca, M Güngörmüşler - Microbiological Research, 2022 - Elsevier
Since the exploration of sequencing began in 2005, third and next-generation sequencing
(TGS and NGS) technologies have fundamentally changed metagenomics research. These …

The bad and the good—microorganisms in cultural heritage environments—an update on biodeterioration and biotreatment approaches

A Pyzik, K Ciuchcinski, M Dziurzynski, L Dziewit - Materials, 2021 - mdpi.com
Cultural heritage objects constitute a very diverse environment, inhabited by various
bacteria and fungi. The impact of these microorganisms on the degradation of artworks is …

Finding the right fit: evaluation of short-read and long-read sequencing approaches to maximize the utility of clinical microbiome data

JL Gehrig, DM Portik, MD Driscoll… - Microbial …, 2022 - microbiologyresearch.org
A long-standing challenge in human microbiome research is achieving the taxonomic and
functional resolution needed to generate testable hypotheses about the gut microbiota's …

Real-time culture-independent microbial profiling onboard the international space station using nanopore sequencing

S Stahl-Rommel, M Jain, HN Nguyen, RR Arnold… - Genes, 2021 - mdpi.com
For the past two decades, microbial monitoring of the International Space Station (ISS) has
relied on culture-dependent methods that require return to Earth for analysis. This has a …