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) …

Evaluating the efficiency of 16S-ITS-23S operon sequencing for species level resolution in microbial communities

M Srinivas, CJ Walsh, F Crispie, O O'Sullivan… - Scientific Reports, 2025 - nature.com
Rapid advancements in long-read sequencing have facilitated species-level microbial
profiling through full-length 16S rRNA sequencing (~ 1500 bp), and more notably, by the …

Genome analysis and description of Tunturibacter gen. nov. expands the diversity of Terriglobia in tundra soils

A Messyasz, MK Männistö, LJ Kerkhof… - Environmental …, 2024 - Wiley Online Library
Increased temperatures in Arctic tundra ecosystems are leading to higher microbial
respiration rates of soil organic matter, resulting in the release of carbon dioxide and …

The Ribosomal Operon Database: A Full‐Length rDNA Operon Database Derived From Genome Assemblies

AK Krabberød, E Stokke, E Thoen… - Molecular Ecology …, 2025 - Wiley Online Library
Current rDNA reference sequence databases are tailored towards shorter DNA markers,
such as parts of the 16/18S marker or the internally transcribed spacer (ITS) region …

Effects of operational parameters on bacterial communities in Hong Kong and global wastewater treatment plants

Y Zhang, Y Deng, C Wang, S Li, FTK Lau, J Zhou… - Msystems, 2024 - Am Soc Microbiol
Wastewater treatment plants (WWTPs) are indispensable biotechnology facilities for modern
cities and play an essential role in modern urban infrastructure by employing …

Temporal changes in the mouse gut bacteriota influenced by host sex, diet, and exercise

RA Dowden, LJ Kerkhof… - Journal of Applied …, 2024 - journals.physiology.org
The gut microbiota plays an important role in host physiology. However, the effects of host
sex, lifestyle, and temporal influences on the bacterial community within the gut remain ill …

PRONAME: a user-friendly pipeline to process long-read nanopore metabarcoding data by generating high-quality consensus sequences

B Dubois, M Delitte, S Lengrand, C Bragard… - Frontiers in …, 2024 - frontiersin.org
Background The study of sample taxonomic composition has evolved from direct
observations and labor-intensive morphological studies to different DNA sequencing …

Mycobiome Analysis of Tall Fescue Grass Under Drought Stress Using the Illumina MiSeq and Oxford Nanopore Technology MinION

G Groben, BB Clarke, LJ Kerkhof… - Phytobiomes …, 2023 - Am Phytopath Society
The effects that mycobiomes have on physiological traits in turfgrasses are poorly
understood. Drought tolerance, an economically and ecologically important trait, can be …

A Step-by-Step Guide to Sequencing and Assembly of Complete Bacterial Genomes Using the Oxford Nanopore MinION

A Kumar, MM Häggblom, LJ Kerkhof - High Throughput Gene Screening …, 2024 - Springer
Abstract The Oxford Nanopore (ONT) MinION enables sequencing of longer DNA/RNA
fragments compared to other sequencers, such as Illumina, etc. This nanopore method …

Evaluating the Efficiency of 16S-ITS-23S operon Sequencing: A Comparison of Primer Pairs, Sequencing Platforms, and Taxonomic Classifiers

M Srinivas, CJ Walsh, F Crispie, O O'Sullivan… - 2024 - researchsquare.com
Background The field of 16S rRNA-targeted metagenetics has been enhanced through the
improved accuracy of long-read sequencing. More specifically, recent advances have …