Evaluation of NGS-based approaches for SARS-CoV-2 whole genome characterisation

C Charre, C Ginevra, M Sabatier, H Regue… - Virus …, 2020 - academic.oup.com
Since the beginning of the COVID-19 outbreak, SARS-CoV-2 whole-genome sequencing
(WGS) has been performed at unprecedented rate worldwide with the use of very diverse …

Microbiome diagnostics

R Schlaberg - Clinical chemistry, 2020 - academic.oup.com
BACKGROUND During the past decade, breakthroughs in sequencing technology and
computational biology have provided the basis for studies of the myriad ways in which …

[PDF][PDF] Molecular characterization of SARS-CoV-2 in the first COVID-19 cluster in France reveals an amino acid deletion in nsp2 (Asp268del)

A Bal, G Destras, A Gaymard… - Clinical Microbiology …, 2020 - Elsevier
[3] Corman VM, Landt O, Kaiser M, Molenkamp R, Meijer A, Chu DKW, et al. Detection of
103 2019 novel coronavirus (2019-nCoV) by real-time RT-PCR. Euro Surveill 2020; 25. 104 …

[HTML][HTML] Retrospective validation of a metagenomic sequencing protocol for combined detection of RNA and DNA viruses using respiratory samples from pediatric …

S van Boheemen, AL van Rijn, N Pappas… - The Journal of Molecular …, 2020 - Elsevier
Viruses are the main cause of respiratory tract infections. Metagenomic next-generation
sequencing (mNGS) enables unbiased detection of all potential pathogens. To apply mNGS …

[HTML][HTML] Novel opportunities for NGS-based one health surveillance of foodborne viruses

M Desdouits, M de Graaf, S Strubbia… - One Health …, 2020 - Springer
Foodborne viral infections rank among the top 5 causes of disease, with noroviruses and
hepatitis A causing the greatest burden globally. Contamination of foods by infected food …

Clinical metagenomics for infectious corneal ulcers: Rags to riches?

L Ung, PJM Bispo, T Doan, RN Van Gelder… - The ocular …, 2020 - Elsevier
The emergence of clinical metagenomics as an unbiased, hypothesis-free approach to
diagnostic testing is set to fundamentally alter the way infectious diseases are detected …

[HTML][HTML] Comparison of nucleic acid extraction methods for a viral metagenomics analysis of respiratory viruses

M Sabatier, A Bal, G Destras, H Regue, G Quéromès… - Microorganisms, 2020 - mdpi.com
Viral metagenomics next-generation sequencing (mNGS) is increasingly being used to
characterize the human virome. The impact of viral nucleic extraction on virome profiling has …

[PDF][PDF] Molecular epidemiology of SARS CoV-2: A review of current data on genetic variability of the virus

M Parczewski, A Ciechanowicz - Pol. Arch. Intern. Med, 2020 - scholar.archive.org
Severe acute respiratory syndrome coronavirus 2 (SARS CoV-2), associated with
coronavirus disease (COVID-19) is a novel pathogen recently introduced to the human …

[HTML][HTML] Evaluation of a commercial exogenous internal process control for diagnostic RNA virus metagenomics from different animal clinical samples

S Van Borm, Q Fu, R Winand, K Vanneste… - Journal of Virological …, 2020 - Elsevier
Metagenomic next generation sequencing (mNGS) is increasingly recognized as an
important complementary tool to targeted human and animal infectious disease diagnostics …

[HTML][HTML] Metagenomic information recovery from human stool samples is influenced by sequencing depth and profiling method

TM Santiago-Rodriguez, A Garoutte, E Adams… - Genes, 2020 - mdpi.com
Sequencing of the 16S rRNA gene (16S) has long been a go-to method for microbiome
characterization due to its accessibility and lower cost compared to shotgun metagenomic …