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 …

Current challenges and best-practice protocols for microbiome analysis

R Bharti, DG Grimm - Briefings in bioinformatics, 2021 - academic.oup.com
Analyzing the microbiome of diverse species and environments using next-generation
sequencing techniques has significantly enhanced our understanding on metabolic …

Primer, pipelines, parameters: issues in 16S rRNA gene sequencing

I Abellan-Schneyder, MS Matchado, S Reitmeier… - Msphere, 2021 - Am Soc Microbiol
Short-amplicon 16S rRNA gene sequencing is currently the method of choice for studies
investigating microbiomes. However, comparative studies on differences in procedures are …

Advances in chemical and biological methods to identify microorganisms—from past to present

R Franco-Duarte, L Černáková, S Kadam, K S. Kaushik… - Microorganisms, 2019 - mdpi.com
Fast detection and identification of microorganisms is a challenging and significant feature
from industry to medicine. Standard approaches are known to be very time-consuming and …

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 …

[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 …

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) …

Drought Stress Amelioration in Maize (Zea mays L.) by Inoculation of Bacillus spp. Strains under Sterile Soil Conditions

M Azeem, MZ Haider, S Javed, MH Saleem, A Alatawi - Agriculture, 2022 - mdpi.com
The aim of the present study was to promote plant growth characteristics including mineral
uptake and various phytohormone production by indigenously isolated Bacillus spp. strains …

Strain-level epidemiology of microbial communities and the human microbiome

Y Yan, LH Nguyen, EA Franzosa, C Huttenhower - Genome medicine, 2020 - Springer
The biological importance and varied metabolic capabilities of specific microbial strains
have long been established in the scientific community. Strains have, in the past, been …

[HTML][HTML] Computational methods for 16S metabarcoding studies using Nanopore sequencing data

A Santos, R van Aerle, L Barrientos… - Computational and …, 2020 - Elsevier
Assessment of bacterial diversity through sequencing of 16S ribosomal RNA (16S rRNA)
genes has been an approach widely used in environmental microbiology, particularly since …