Metagenomics

Last updated: 2021 Jul 12
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Original Article
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Metagenomic sequencing of RNA from a single patient in Wuhan led to the identification of a new virus belonging to the Coronaviridae family and designated as 'WH-Human 1' virus. The longest (30,474 nucleotides) had highest abundance and closely resembled the SARS-like coronavirus (CoV) isolate--bat SL-CoVZC45 (GenBank accession number MG772933) with 89.1% identity.
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 		32015508
(Nature)
PMID
32015508
Date of Publishing: 2020 Mar
Title A new coronavirus associated with human respiratory disease in China
Author(s) nameWu F, Zhao S et al.
Journal Nature
Impact factor
24.36
Citation count: 4209
Date of Entry 2021 Jul 12

Metagenomics analysis of three samples from Taiwan revealed the co-existence of Haemophilus parainfluenzae. NGS depths representing exixtence of infections: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7473175/bin/TEMI_A_1782271_SM4509.jpg Haemophilus parainfluenzae (accession number CP035368.2) was the dominant population in metagenomic contigs of CGMH-CGU-07 and -08 samples.
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 		32543353
(Emerg Microbes Infect)
PMID
32543353
Date of Publishing: 2020 Dec
Title SARS-CoV-2 genomic surveillance in Taiwan revealed novel ORF8-deletion mutant and clade possibly associated with infections in Middle East
Author(s) nameGong YN, Tsao KC et al.
Journal Emerg Microbes Infect
Impact factor
5.84
Citation count: 69

Metagenomics sequencing revealed bacterial and viral co-infections and the respiratory microbial diversity associated with SARS-CoV-2, cause of disease severity. SARS-CoV-2 was detected in 31/40 (77.5%) samples positive by RT-PCR. No fungal or protist coinfections were detected
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 		33219095
(mBio)
PMID
33219095
Date of Publishing: 2020 Nov 20
Title Metagenomic Next-Generation Sequencing of Nasopharyngeal Specimens Collected from Confirmed and Suspect COVID-19 Patients
Author(s) nameMostafa HH, Fissel JA et al.
Journal mBio
Impact factor
6.5
Citation count: 39

Metagenomics analysis of the first SARS-CoV-2 patient from Ecuador revealed the presence of pathogenic bacterial coinfection. It was most likely involved in worsening the patient's health condition. The Age of patient 50 years, gender: male, Number of DNA sequences were: 206111 Number of Bases: 43603091 Coronavirus sequences represented 0.036%, Of all microorganisms presents.
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 		32588004
(medRxiv)
PMID
32588004
Date of Publishing: 2020 Jun 14
Title Genome sequencing of the first SARS-CoV-2 reported from patients with COVID-19 in Ecuador
Author(s) nameMarquez S, Prado-Vivar B et al.
Journal medRxiv
Impact factor
- n/a -
Citation count: 1

Metagenomic Analysis of a Sample (WIV04) from Wuhan, China, revealed a new coronavirus (2019-nCoV). It caused an epidemic of acute respiratory syndrome in humans. Of the obtained total reads (10,038,758), 1,582 reads were retained after removing the reads from the human genome. Of which, 1,378 (87.1%) sequences matched the sequence of SARSr-CoV
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 		32015507
(Nature)
PMID
32015507
Date of Publishing: 2020 Mar
Title A pneumonia outbreak associated with a new coronavirus of probable bat origin
Author(s) nameZhou P, Yang XL et al.
Journal Nature
Impact factor
24.36
Citation count: 8438