Genomic surveillance of Nevada patients revealed prevalence of unique SARS-CoV-2 variants bearing mutations in the RdRp gene

作     者：Paul D.Hartley Richard L.Tillett David P.AuCoin Joel R.Sevinsky Yanji Xu Andrew Gorzalski Mark Pandori Erin Buttery Holly Hansen Michael A.Picker Cyprian C.Rossetto Subhash C.Verma Paul D.Hartley;Richard L.Tillett;David P.AuCoin;Joel R.Sevinsky;Yanji Xu;Andrew Gorzalski;Mark Pandori;Erin Buttery;Holly Hansen;Michael A.Picker;Cyprian C.Rossetto;Subhash C.Verma

作者机构：Nevada Genomics CenterRenoNV 89557USA University of NevadaRenoRenoNV 89557USA Nevada Institute of Personalized MedicineUniversity of NevadaLas VegasNV 89154USA Department of Microbiology&ImmunologyUniversity of NevadaReno School of MedicineRenoNV 89557USA Theiagen ConsultingLLCHighlands RanchCO 80128USA Nevada Center for BioinformaticsRenoNV 89557USA Nevada State Public Health LaboratoryRenoNV 89503USA Southern Nevada Public Health Laboratory of the Southern Nevada Health DistrictLas VegasNV 89107USA 

出 版 物：《Journal of Genetics and Genomics》 (遗传学报（英文版）)

年 卷 期：2021年第48卷第1期

页      面：40-51页

核心收录：

学科分类：0710[理学-生物学] 100208[医学-临床检验诊断学] 1002[医学-临床医学] 1001[医学-基础医学(可授医学、理学学位)] 100201[医学-内科学(含：心血管病、血液病、呼吸系病、消化系病、内分泌与代谢病、肾病、风湿病、传染病)] 10[医学] 

基　　金：supported by University of Nevada, Reno Department of Microbiology & Immunology, UNR School of Medicine Nevada IDeA Network of Biomedical Research Excellence (INBRE) from the National Institute of General Medical Sciences (GM 103440 and GM 104944) and from the National Institutes of Health 

主　　题：SARS-CoV-2 COVID-19 Genome enrichment nsp12 RdRp orf1b 314 

摘      要：Patients with signs of COVID-19 were tested through diagnostic RT-PCR for SARS-CoV-2 using RNA extracted from the nasopharyngeal/nasal *** determine the variants of SARS-CoV-2 circulating in the state of Nevada,specimens from 200 COVID-19 patients were sequenced through our robust sequencing platform,which enabled sequencing of SARS-CoV-2 from specimens with even very low viral loads,without the need of culture-based *** genome coverage allowed the identification of single and multi-nucleotide variants in SARS-CoV-2 in the community and their phylogenetic relationships with other variants present during the same period of the *** report the occurrence of a novel mutation at 323aa (314aa of orf1b) of nsp12 (RNA-dependent RNA polymerase) changed to phenylalanine(F) from proline (P),in the first reported isolate of SARS-CoV-2,*** 323F variant was present at a very high frequency in Northern *** modeling determined this mutation in the interface domain,which is important for the association of accessory proteins required for the *** conclusion,we report the introduction of specific SARS-CoV-2 variants at very high frequency in distinct geographic locations,which is important for understanding the evolution and circulation of SARS-CoV-2variants of public health importance,while it circulates in humans.