Comparative analysis of SARS-CoV-2 quasispecies in the upper and lower respiratory tract shows an ongoing evolution in the spike cleavage site상부 및 하부 호흡기에서 SARS-CoV-2 유사종의 비교 분석은 스파이크 절단 부위에서 진행 중인 진화를 보여줍니다Article Published on 2022-07-022022-09-11 Journal: Virus research [Category] COVID19(2023년), SARS, 변종, 치료기술, [키워드] ACE2 acute respiratory syndrome acute respiratory syndrome coronavirus acute respiratory syndrome coronavirus 2 Cell cleavage site Comparative analysis coronavirus deep deep sequencing Deleterious mutations evidenced Evolution explained genomic humans incidence INDEL indels intensive care intensive care unit locus Lower respiratory tract LRT Macrophage Minority variants Mutation Next-generation sequencing Non-synonymous mutation Patient phagocytosis Quasispecies quasispecy Result S gene SARS-CoV-2 selective severe acute respiratory syndrome Coronavirus specimens spike Spike protein spillover. the Spike upper and lower respiratory tract upper respiratory tract URT variant variants viral quasispecy virus was performed [DOI] 10.1016/j.virusres.2022.198786 PMC 바로가기 [Article Type] Article
SARS-CoV-2 variants with reduced infectivity and varied sensitivity to the BNT162b2 vaccine are developed during the course of infection감염성이 감소하고 BNT162B2 백신에 대한 감도가 다양한 SARS-COV-2 변이체가 감염 과정에서 개발됩니다.Clinical Trial Published on 2022-01-122022-08-13 Journal: PLoS Pathogens [Category] Biochemistry, 변종, 임상, 치료기술, 치료법, [키워드] addition Affect Analysis analyzed Anti-spike Antibody neutralization antibody neutralization activity Author BNT162b2 BNT162b2 vaccine circulating convalescent plasma Course COVID-19 vaccine COVID-19 vaccines demonstrated elicit employment Evolution Frequency highlight Host human host human population impair in-depth analysis increase in individual infected individual infected individuals Infection infectivity capacity intra-host SARS-CoV-2 variant intra-host SARS-CoV-2 variants Intra-host variant intra-host variants L1197I mutation landscape less low frequencies mRNA mRNA-based mutated mutated variant mutated variants N gene N genes natural infection neutralization Neutralizing antibodies nose-throat swab nose-throat swabs pandemic plasma plasma neutralization activity platform Point mutation potential circulating variants Protective Quasispecies quasispecy raised reduced respiratory Respiratory system S gene S2 subunit SARS-CoV-2 SARS-CoV-2 evolution SARS-CoV-2 intra-host variability SARS-CoV-2 intra-host variant SARS-CoV-2 intra-host variants SARS-CoV-2 mutagenesis SARS-CoV-2 variant SARS-CoV-2 variants sensitivity Sequencing Sequencing database Sequencing databases single-genome sequencing Spike protein Spike proteins spike variant Spread swab sample swab samples the SARS-CoV-2 the spike protein vaccinated individuals vaccination rate variant variants variants of concern [DOI] 10.1371/journal.ppat.1010242 PMC 바로가기 [Article Type] Clinical Trial
Strategy and Performance Evaluation of Low-Frequency Variant Calling for SARS-CoV-2 Using Targeted Deep Illumina SequencingMicrobiology Published on 2021-10-132022-10-31 Journal: Frontiers in Microbiology [Category] COVID-19, [키워드] allelic Alpha Analysis anticipated approach caused circulating Co-infection competent consensus genome Continuous Coverage COVID-19 pandemic criteria curtail deep detect develop diagnostic epidemiological evaluated frequencies Frequency genomic Health Illumina Immune escape in silico Infection Lineage B.1.1.7 measure mutant Mutation NGS occur pathogenicity performance provide quantification Quasispecies quasispecy raw sequencing data recommendation SARS-CoV-2 SARS-CoV-2 sequencing SARS-CoV-2 variant sensitivity sequence Sequencing sequencing coverage sequencing data strain Strategy Surveillance the SARS-CoV-2 Transmissibility Variability variant variant of concern variants of concern Variation virus virus spread wastewater surveillance WGS whole genome wild-type [DOI] 10.3389/fmicb.2021.747458 PMC 바로가기 [Article Type] Microbiology
Reduced subgenomic RNA expression is a molecular indicator of asymptomatic SARS-CoV-2 infection Research Published on 2021-09-222022-10-05 Journal: Communications Medicine [Category] 유전자 메커니즘, 진단, 치료제, [키워드] absence acute respiratory syndrome analysis Asymptomatic asymptomatic infections asymptomatic patient caused changes in Clinical severity collected conducted coronavirus correlated correlation defined Deletion disease disease severity effort expression Genetic variant genomic host responses hosts identify in viral individual induce Infection less mechanism molecular mutational burden observé quasispecy repressed Result RNA expression RNA viruses RNAs robust SARS-CoV-2 SARS-CoV-2 genome SARS-CoV-2 genomes SARS-COV-2 infection SARS-CoV-2 proteome sgRNA significantly single nucleotide specimen Structural variant symptomatic and asymptomatic symptomatic individuals symptomatic infection Symptoms transcript transcriptomic treatment responses unique Vaccine development variant Variation virulence virus while widespread [DOI] 10.1038/s43856-021-00034-y [Article Type] Research
SARS-CoV-2 Quasispecies Provides an Advantage Mutation Pool for the Epidemic VariantsResearch Article Published on 2021-08-042022-10-30 Journal: Microbiology Spectrum [Category] COVID-19, MERS, SARS, [키워드] Amino acid Analysis antibody applied cell tropism Characteristics collected Consensus consensus genome consensus sequences COVID-19 D614G domain Epidemic evaluate Evolution Evolution of SARS-CoV-2 feature functional Genes Genetic genetic diversity Genome Haplotype Host host range hosts immune system independent indicated information Intervention introduced mutant mutant spectrum Mutation Nasopharyngeal swab nasopharyngeal swabs Next-generation sequencing NGS nine Patient platform pool Population Positive selection predict predominant previous study produced provided Quasispecies quasispecy replications RNA RNA virus RNA virus S2 domain SARS-CoV-2 selective sequence sequenced significantly lower spike gene spike glycoprotein sputum Sputum sample Stool Substitution suggested variant variants Variation variations [DOI] 10.1128/Spectrum.00261-21 PMC 바로가기 [Article Type] Research Article
Natural Transmission of Bat-like Severe Acute Respiratory Syndrome Coronavirus 2 Without Proline-Arginine-Arginine-Alanine Variants in Coronavirus Disease 2019 Patients코로나바이러스 질병 2019 환자에서 프롤린-아르기닌-아르기닌-알라닌 변이체가 없는 박쥐 유사 중증 급성 호흡기 증후군 코로나바이러스 2의 자연 전염Article Published on 2021-07-152022-09-11 Journal: Clinical Infectious Diseases: An Official Publicat [Category] SARS, 변종, 치료기술, [키워드] acute respiratory syndrome acute respiratory syndrome coronavirus Alanine arginine Chain Reaction cleavage Cluster Coronaviral coronavirus coronavirus 2 coronavirus disease Coronavirus disease 2019 Coronaviruses COVID-19 COVID-19 patients ENhance Evolution of SARS-CoV-2 Frequency furin furin cleavage PRRA motif hamster hamsters Human humans implication isolates motif Mutation natural natural infection organoids patients polymerase chain polymerase chain reaction Prevalence prevalence rate proline PRRA Quasispecies quasispecy respiratory S1/S2 SARS-CoV-2 severe acute respiratory syndrome Coronavirus severe acute respiratory syndrome coronavirus 2 Transmission transmitted upstream variant variants Vero VERO-E6 viral pathogenicity Viral variants Viral variants. virus wild-type zoonotic origin [DOI] 10.1093/cid/ciaa953 PMC 바로가기 [Article Type] Article
Within-Host and Between-Host Evolution in SARS-CoV-2—New Variant’s SourceSARS-CoV-2의 호스트 내 및 호스트 간 진화 - 새로운 변종 소스Opinion Published on 2021-04-252022-09-10 Journal: Viruses [Category] MERS, SARS, 변종, 치료기술, [키워드] antibody cocktail Asymptomatic B.1.1.7 cancer patient condition Corona coronavirus Coronavirus replication emerging variants healthcare Healthcare workers Host immune immunization Immunocompromised Immunosuppressed immunosuppressed patients Immunosuppression individual infected individuals inherent mutagenic mutate Mutation mutation rate Mutation rates mutations one patient origin pandemic passive immunization Patient prevention promote Quasispecies quasispecy replicate risk shown Source Support treated variant variants Viral viral variant virus virus viruses [DOI] 10.3390/v13050751 PMC 바로가기 [Article Type] Opinion
Profiling SARS-CoV-2 mutation fingerprints that range from the viral pangenome to individual infection quasispecies바이러스 팬게놈에서 개별 감염 유사종에 이르는 SARS-CoV-2 돌연변이 지문 프로파일링Research Published on 2021-04-192022-09-10 Journal: Genome Medicine [Category] MERS, SARS, 변종, 진단, 치료기술, 치료제, [키워드] Analysis approach clinical samples Cohort Combination conducted conserved Contact tracing COVID-19 de novo de novo mutation de novo mutations detect feature Genetic Genetic fingerprints Genome genomic identify Infection infections k-mers landscape molecular Mutation mutations occur pandemic Patient patients performed Population Prevalence primer Primers profile Profiling Quasispecies quasispecy Region Result RNA-dependent RNA polymerases SARS-CoV-2 SARS-CoV-2 genome SARS-CoV-2 genomes SARS-CoV-2 mutation sequence Sequence alignment sequenced Sequencing specific mutations strain Strains susceptible the SARS-CoV-2 Transmission utility variants Viral viral genome viral mutation Viral mutations viral pangenome Viral quasispecies viral replication viral sample viral samples viral sequences virus genomes [DOI] 10.1186/s13073-021-00882-2 PMC 바로가기 [Article Type] Research
Intra-Host Diversity of SARS-Cov-2 Should Not Be Neglected: Case of the State of Victoria, AustraliaArticle Published on 2021-01-192022-10-28 Journal: Viruses [Category] COVID-19, [키워드] acute respiratory syndrome Analysis changed changes in collected coronavirus COVID-19 pandemic dataset determine Diversity effort epidemiological Epidemiology etiological agent Evidence Factor Genes Genetic genetic bottleneck genomic sequence glycoprotein greater highlighting Host Intra-host diversity Intra-host variant iSNVs less lineages magnitude MONITOR N genes Next-generation sequencing NGS nonsynonymous nonsynonymous iSNVs nonsynonymous variant ORF1a ORF1b pathogen phylodynamic Phylogenetic Quasispecies quasispecy real time RNA virus SARS-CoV-2 SARS-CoV-2 gene single-nucleotide state Transmission variant Victoria virus [DOI] 10.3390/v13010133 PMC 바로가기 [Article Type] Article
The Coronaviruses of Animals and Birds: Their Zoonosis, Vaccines, and Models for SARS-CoV and SARS-CoV2Veterinary Science Published on 2020-09-242022-11-01 Journal: Frontiers in Veterinary Science [Category] COVID-19, [키워드] accumulated addition addressed animal animal model BCoV bovine canine carried contribute coronavirus coronavirus Coronaviruses determinant Diseases effective vaccine effort Factor family Coronaviridae FCoV human coronavirus implementation mammal MERS-CoV Model mutations New coronavirus Pathogenesis proceed quasispecy raising RNA viruses SARS-CoV SARS-CoV-2 SARS-CoV2 Treatment Trial Vaccine Vaccine development Vaccines virus zoonosis zoonotic disease [DOI] 10.3389/fvets.2020.582287 PMC 바로가기 [Article Type] Veterinary Science