SARS-CoV-2 variants identification: overview of molecular existing methods

G Berno, L Fabeni, G Matusali, CEM Gruber, M Rueca… - Pathogens, 2022 - mdpi.com
Since the beginning of COVID-19 pandemic the Real Time sharing of genome sequences of
circulating virus supported the diagnostics and surveillance of SARS-CoV-2 and its …

[HTML][HTML] Applying the digital data and the bioinformatics tools in SARS-CoV-2 research

M Tan, J Xia, H Luo, G Meng, Z Zhu - Computational and Structural …, 2023 - Elsevier
Bioinformatics has been playing a crucial role in the scientific progress to fight against the
pandemic of the coronavirus disease 2019 (COVID-19) caused by the severe acute …

ViralFlow: a versatile automated workflow for SARS-CoV-2 genome assembly, lineage assignment, mutations and intrahost variant detection

FZ Dezordi, AMS Neto, TL Campos, PMC Jeronimo… - Viruses, 2022 - mdpi.com
The COVID-19 pandemic is driven by Severe Acute Respiratory Syndrome coronavirus 2
(SARS-CoV-2) that emerged in 2019 and quickly spread worldwide. Genomic surveillance …

Advancing precision vaccinology by molecular and genomic surveillance of severe acute respiratory syndrome coronavirus 2 in Germany, 2021

DY Oh, M Hölzer, S Paraskevopoulou… - Clinical infectious …, 2022 - academic.oup.com
Background Comprehensive pathogen genomic surveillance represents a powerful tool to
complement and advance precision vaccinology. The emergence of the Alpha variant in …

Nanopore sequencing technology and its applications

P Zheng, C Zhou, Y Ding, B Liu, L Lu, F Zhu… - MedComm, 2023 - Wiley Online Library
Since the development of Sanger sequencing in 1977, sequencing technology has played a
pivotal role in molecular biology research by enabling the interpretation of biological genetic …

[HTML][HTML] SARS-CoV-2 genomic surveillance in Malaysia: displacement of B. 1.617. 2 with AY lineages as the dominant Delta variants and the introduction of Omicron …

NAM Azami, D Perera, R Thayan, S AbuBakar… - International Journal of …, 2022 - Elsevier
Objectives This study reported SARS-CoV-2 whole genome sequencing results from June
2021 to January 2022 from seven genome sequencing centers in Malaysia as part of the …

Transmission of SARS-CoV-2 among children and staff in German daycare centres

J Loss, J Wurm, G Varnaccia, A Schienkiewitz… - Epidemiology & …, 2022 - cambridge.org
In daycare centres, the close contact of children with other children and employees favours
the transmission of infections. The majority of children< 6 years attend daycare programmes …

[HTML][HTML] First detection of SARS-CoV-2 variant B. 1.1. 529 (Omicron) in Ecuador

A Carrazco-Montalvo, I Armendáriz-Castillo… - New microbes and new …, 2022 - Elsevier
Abstract The National Institute of Research and Public Health reported the first local record
of the Omicron variant detected in Ecuador. A fully vaccinated subject returned from South …

Robust mutation profiling of SARS-CoV-2 variants from multiple raw Illumina sequencing data with cloud workflow

HGM Lim, SH Hsiao, YC Fann, YCG Lee - Genes, 2022 - mdpi.com
Several variants of the novel severe acute respiratory syndrome coronavirus 2 (SARS-CoV-
2) are emerging all over the world. Variant surveillance from genome sequencing has …

Emergence and spread of a B. 1.1. 28-derived P. 6 lineage with Q675H and Q677H spike mutations in Uruguay

N Rego, C Salazar, M Paz, A Costábile, A Fajardo… - Viruses, 2021 - mdpi.com
Uruguay controlled the viral dissemination during the first nine months of the SARS-CoV-2
pandemic. Unfortunately, towards the end of 2020, the number of daily new cases …