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10.1016/j.cmi.2020.07.032 http://scihub22266oqcxt.onion/10.1016/j.cmi.2020.07.032 32717416!7378485!32717416     free     free     free Deprecated: Implicit conversion from float 231.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534       Clin+Microbiol+Infect 2020 ; 26 (11): 1560.e1-1560.e4 Nephropedia Template TP {{tp|p=32717416|t=2020. Evolution of viral quasispecies during SARS-CoV-2 infection |pdf=|usr=}}{{32717416}} gab.com Text Evolution of viral quasispecies during SARS-CoV-2 infection JO: Clin Microbiol Infect http://www.kidney.de/pget.php?&tw=1&pmid=32717416 #FOAvip OBJECTIVES: Studies are needed to better understand the genomic evolution of the recently emerged severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). This study aimed to describe genomic diversity of SARS-CoV-2 by next-generation sequencing (NGS) in a patient with longitudinal follow-up for SARS-CoV-2 infection. METHODS: Sequential samples collected between January 29th and February 4th, 2020, from a patient infected by SARS-CoV-2 were used to perform amplification of two genome fragments-including genes encoding spike, envelope, membrane and nucleocapsid proteins-and NGS was carried out with Illumina(R) technology. Phylogenetic analysis was performed with PhyML and viral variant identification with VarScan. RESULTS: Majority consensus sequences were identical in most of the samples (5/7) and differed in one synonymous mutation from the Wuhan reference sequence. We identified 233 variants; each sample harboured in median 38 different minority variants, and only four were shared by different samples. The frequency of mutation was similar between genes and correlated with the length of the gene (r = 0.93, p = 0.0002). Most of mutations were substitution variations (n = 217, 93.1%) and about 50% had moderate or high impact on gene expression. Viral variants also differed between lower and upper respiratory tract samples collected on the same day, suggesting independent sites of replication of SARS-CoV-2. CONCLUSIONS: We report for the first time minority viral populations representing up to 1% during the course of SARS-CoV-2 infection. Quasispecies were different from one day to the next, as well as between anatomical sites, suggesting that in vivo this new coronavirus appears as a complex and dynamic distributions of variants. Twit Text FOAVip Evolution of viral quasispecies during SARS-CoV-2 infection ????Clin Microbiol Infect http://www.kidney.de/pget.php?&tw=1&pmid=32717416 #FOAvip Twit Text # Free Paper on # # # # # LINK http://www.kidney.de/pget.php?&tw=1&pmid=32717416 #FOAvip English Wikipedia <ref>{{Cite pmid|32717416}}</ref> Evolution of viral quasispecies during SARS-CoV-2 infection #MMPMID32717416 Jary A; Leducq V; Malet I; Marot S; Klement-Frutos E; Teyssou E; Soulie C; Abdi B; Wirden M; Pourcher V; Caumes E; Calvez V; Burrel S; Marcelin AG; Boutolleau D Clin Microbiol Infect 2020[Nov]; 26 (11): 1560.e1-1560.e4 PMID32717416show ga OBJECTIVES: Studies are needed to better understand the genomic evolution of the recently emerged severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). This study aimed to describe genomic diversity of SARS-CoV-2 by next-generation sequencing (NGS) in a patient with longitudinal follow-up for SARS-CoV-2 infection. METHODS: Sequential samples collected between January 29th and February 4th, 2020, from a patient infected by SARS-CoV-2 were used to perform amplification of two genome fragments-including genes encoding spike, envelope, membrane and nucleocapsid proteins-and NGS was carried out with Illumina(R) technology. Phylogenetic analysis was performed with PhyML and viral variant identification with VarScan. RESULTS: Majority consensus sequences were identical in most of the samples (5/7) and differed in one synonymous mutation from the Wuhan reference sequence. We identified 233 variants; each sample harboured in median 38 different minority variants, and only four were shared by different samples. The frequency of mutation was similar between genes and correlated with the length of the gene (r = 0.93, p = 0.0002). Most of mutations were substitution variations (n = 217, 93.1%) and about 50% had moderate or high impact on gene expression. Viral variants also differed between lower and upper respiratory tract samples collected on the same day, suggesting independent sites of replication of SARS-CoV-2. CONCLUSIONS: We report for the first time minority viral populations representing up to 1% during the course of SARS-CoV-2 infection. Quasispecies were different from one day to the next, as well as between anatomical sites, suggesting that in vivo this new coronavirus appears as a complex and dynamic distributions of variants. |Betacoronavirus/classification/*genetics/*isolation & purification[MESH] |COVID-19[MESH] |Coronavirus Infections/*virology[MESH] |Follow-Up Studies[MESH] |Genome, Viral/genetics[MESH] |Humans[MESH] |Mutation[MESH] |Pandemics[MESH] |Phylogeny[MESH] |Pneumonia, Viral/*virology[MESH] |Quasispecies/*genetics[MESH] |SARS-CoV-2[MESH]Evolution of viral quasispecies during SARS-CoV-2 infection (epmc).pdf DeepDyve Pubget Overpricing