Targeted Virome Sequencing Enhances Unbiased Detection and Genome Assembly of Known and Emerging Viruses-The Example of SARS-CoV-2표적 바이롬 시퀀싱은 알려진 바이러스와 새로 출현하는 바이러스의 편견 없는 탐지 및 게놈 조립을 향상시킵니다-SARS-CoV-2의 예Article Published on 2022-06-112022-09-11 Journal: Viruses [Category] COVID19(2023년), SARS, 치료기술, 치료제, [키워드] Adenovirus assembly cDNA cDNA synthesis characterization coronavirus COVID-19 coxsackievirus cytomegalovirus depleting detection Detection sensitivity DNA and RNA dsDNA Efficiency emerging viruses equimolar evaluate followed by genetic diversity genome assembly genomic H3N2 Illumina Influenza influenza A influenza A virus less mapped Nanopore nanopore sequencing NGS NGS diagnostics OC43 pathogen Pathogens point-of-care pool positive sample proof remained respiratory syncytial virus RNA virus RNA viruses SARS-CoV-2 sequence Sequencing strain Strains synthesis target enrichment total read viral genomes virome sequencing. virus viruses was performed [DOI] 10.3390/v14061272 PMC 바로가기 [Article Type] Article
Detecting SARS-CoV-2 Omicron B.1.1.529 Variant in Wastewater Samples by Using Nanopore Sequencing나노포어 시퀀싱을 사용하여 폐수 샘플에서 SARS-CoV-2 Omicron B.1.1.529 변이체 감지Article Published on 2022-06-012022-09-11 Journal: Emerging Infectious Diseases [Category] COVID19(2023년), SARS, 변종, 치료기술, [키워드] acute respiratory syndrome acute respiratory syndrome coronavirus acute respiratory syndrome coronavirus 2 B.1.1.529 coronavirus Coronaviruses COVID-19 Denmark Denmark. Omicron emerging variants Mutation Nanopore nanopore sequencing omicron Real-time PCR respiratory infections Sample SARS-CoV-2 SARS-CoV-2 variant SARS-CoV-2 variants scenario Sequencing severe acute respiratory syndrome Coronavirus severe acute respiratory syndrome coronavirus 2 Surveillance variant variants variants of concern virus viruses wastewater wastewater surveillance zoonoses [DOI] 10.3201/eid2806.220194 PMC 바로가기 [Article Type] Article
Molecular Analysis of SARS-CoV-2 Lineages in Armenia아르메니아에서 SARS-CoV-2 계통의 분자 분석Article Published on 2022-05-172022-09-11 Journal: Viruses [Category] COVID19(2023년), MERS, SARS, 변종, 진단, [키워드] (Alpha) affected Alpha Analysis Armenia caused circulation clade coronavirus COVID-19 Delta Epidemiology epitope Epitopes functional Genome genomic HLA Illumina Illumina sequencing information Lineage loci molecular Molecular epidemiology Mutation N gene N genes Nanopore nanopore sequencing omicron ORF1 ORF1ab PCR test PCR tests performed positive Protective provide Research RT-PCR SARS-CoV-2 SARS-CoV-2 variant SARS-CoV-2 variants sequence sequences Sequencing short-read sequencing signal specific clade specific clades Surveillance Transmission utility variants Viral viral evolution virus whole-genome sequencing [DOI] 10.3390/v14051074 PMC 바로가기 [Article Type] Article
SARS-CoV-2 Variants in Paraguay: Detection and Surveillance with an Economical and Scalable Molecular Protocol파라과이의 SARS-CoV-2 변종: 경제적이고 확장 가능한 분자 프로토콜을 통한 탐지 및 감시Article Published on 2022-04-222022-09-11 Journal: Viruses [Category] Coronavirus, COVID19(2023년), SARS, 변종, 치료기술, 치료제, [키워드] Alpha Amplicon B.1.1.7 detect detection develop Genotype IMPROVE K417 Lambda Lineage lineages Mutation Nanopore nanopore sequencing nasopharyngeal sample P.1 P.2 Paraguay positive protocol real-time RT-PCR resources rRT-PCR Sample Sanger sequencing SARS-CoV-2 SARS-CoV-2 variant SARS-CoV-2 variants Sequencing SNP spike spike mutation spike mutations subset Surveillance tested the SARS-CoV-2 the Spike variant variant call variant calls variants whole-genome whole-genome sequencing Zeta [DOI] 10.3390/v14050873 PMC 바로가기 [Article Type] Article
Genetic Surveillance of Five SARS-CoV-2 Clinical Samples in Henan Province Using Nanopore Sequencing나노포어 시퀀싱을 사용한 허난성 5개 SARS-CoV-2 임상 샘플의 유전적 감시Article Published on 2022-04-042022-09-11 Journal: Frontiers in Immunology [Category] COVID19(2023년), SARS, 변종, [키워드] acute respiratory syndrome acute respiratory syndrome coronavirus Amplicon Analysis B.1.617.2 cDNA synthesis China circulating clinical coronavirus Coverage COVID-19 dataset FIVE Frequency Genetic Genome genome sequence Government Missense multiplex Multiplex PCR Mutation Nanopore nanopore sequencing Nasopharyngeal swab nasopharyngeal swab sample Nasopharyngeal swab samples nsp14 NSP2 Nsp3 nucleotide nucleotide mutation occurred ORF10 overlapped Patient Phylogenetic Phylogenetic analysis platform Prevention and control primer profiles provided public health Region RNA extraction Sample SARS-CoV-2 Sequencing sequencing coverage severe acute respiratory syndrome Coronavirus severe acute respiratory syndrome coronavirus 2 Spread subclade subclades Support Surveillance variant variants viral genome viral genomes Viral transmission virus virus surveillance was performed whole genome Whole genome sequencing Zhengzhou [DOI] 10.3389/fimmu.2022.814806 PMC 바로가기 [Article Type] Article
Both simulation and sequencing data reveal coinfections with multiple SARS-CoV-2 variants in the COVID-19 pandemicResearch article Published on 2022-03-182022-10-05 Journal: Computational and Structural Biotechnology Journal [Category] 변종, 유전자 메커니즘, [키워드] accumulations analyses average Betacoronavirus Coinfection index collected COVID-19 case COVID-19 pandemic COVID-19 patient datasets demonstrated GISAID database heterozygous Heterozygous single-nucleotide polymorphisms high mutation rate linear relationship loci nanopore sequencing patients performed polymorphism reported RNA SARS-CoV-2 SARS-CoV-2 genome SARS-CoV-2 lineage SARS-CoV-2 variant SARS-CoV-2 variant coinfection sequencing data single-nucleotide single-stranded SNP SNV Transmissibility transmission route Vaccine variant variants Viral transmission simulation [DOI] 10.1016/j.csbj.2022.03.011 [Article Type] Research article
High-Integrity Sequencing of Spike Gene for SARS-CoV-2 Variant DeterminationSARS-CoV-2 변이체 결정을 위한 스파이크 유전자의 높은 무결성 시퀀싱Article Published on 2022-03-172022-09-11 Journal: International Journal of Molecular Sciences [Category] SARS, 변종, 유전자 메커니즘, 치료기술, [키워드] amplicons approach ARTIC Network consensus sequence Coverage datasets demonstrated detect detection rate Determination determine Disadvantages evaluated Express FASTQ in silico mutations Nanopore nanopore sequencing overcome Oxford PCR PCR primer PCR primers primer primer set primer sets Primers protocol provided Region robustness SARS-CoV-2 SARS-CoV-2 genome sequence sequenced sample sequenced samples Sequencing spike spike gene Spike protein the SARS-CoV-2 genome variant variants [DOI] 10.3390/ijms23063257 PMC 바로가기 [Article Type] Article
Characterization of Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Infection Clusters Based on Integrated Genomic Surveillance, Outbreak Analysis and Contact Tracing in an Urban SettingArticle Published on 2022-03-152023-06-15 Journal: Clinical Infectious Diseases: An Official Publicat [Category] MERS, SARS, [키워드] community transmission Genomic epidemiology infection chain nanopore sequencing Rapid sequencing [DOI] 10.1093/cid/ciab588 PMC 바로가기
Rescuing low frequency variants within intra-host viral populations directly from Oxford Nanopore sequencing dataArticle Published on 2022-03-142022-10-04 Journal: Nature Communications [Category] MERS, SARS, 변종, 치료기술, [키워드] allele frequency approach Computational biology and bioinformatics dataset datasets disease error rate evaluate Frequency Genetic variation identify Infectious-disease diagnostics Intra-host variant nanopore sequencing offer ONT Oxford Oxford Nanopore Technology Patient platform Population provide SARS-CoV-2 Sequencing Transmission turnaround time variant viral population dynamics [DOI] 10.1038/s41467-022-28852-1 PMC 바로가기 [Article Type] Article
The dynamic change of SARS-CoV-2 variants in Sierra Leone시에라리온에서 SARS-CoV-2 변종의 동적 변화Article Published on 2022-03-012022-09-11 Journal: Infection, genetics and evolution : journal of mol [Category] SARS, 변종, [키워드] B.1.617.2 caused collected country COVID-19 COVID-19 case COVID-19 cases Delta delta variant genomic Genomic surveillance global public health highlight implementation increased risk Lineage Local measure Nanopore nanopore sequencing nasal swab pandemic Phylogenetic analysis public health SARS-CoV-2 SARS-CoV-2 pandemic SARS-CoV-2 variant SARS-CoV-2 variants second wave Sierra Leone. Spread subsequent suggested Surveillance the SARS-CoV-2 Transmission variant variants variants of concern virus variants VOCs whole genomes [DOI] 10.1016/j.meegid.2022.105208 PMC 바로가기 [Article Type] Article