SARS-CoV-2 Pandemic Tracing in Italy Highlights Lineages with Mutational Burden in Growing Subsets이탈리아의 SARS-CoV-2 전염병 추적, 증가하는 하위 집합에서 돌연변이 부담이 있는 계보 강조Article Published on 2022-04-092022-09-11 Journal: International Journal of Molecular Sciences [Category] COVID19(2023년), SARS, 변종, 치료기술, [키워드] Amino acid amino acid change analysed analysis appearance burden clades country COVID-19 pandemic database detect develop Evolution genomic Helicase help Italian patient Italian patients Italy management methyltransferase modulation MONITOR mutated Nsp12 Nsp3 nsp4 NSP6 ORF1ab ORF3a ORF8 pandemic Positive selection RdRP SARS-CoV-2 selection pressure Spike proteins Spread spreading Structural variation subpopulation tracing trees variant variant of concern (VOC) variants Viral proteins viral sequence viral sequences viral variant viral variants tracing. virus variant virus variants VoC [DOI] 10.3390/ijms23084155 PMC 바로가기 [Article Type] Article
Comparative Analysis of SARS-CoV-2 Variants of Concern, Including Omicron, Highlights Their Common and Distinctive Amino Acid Substitution Patterns, Especially at the Spike ORF오미크론을 포함한 우려되는 SARS-CoV-2 변이체의 비교 분석은 특히 스파이크 ORF에서 공통적이고 독특한 아미노산 치환 패턴을 강조합니다Comparative Study Published on 2022-03-292022-09-11 Journal: Viruses [Category] SARS, 변종, [키워드] acid Alpha Amino acid amino acid substitution amino acid substitutions analysis Beta common Comparative concern COVID-19 Delta dN/dS Evolution Gamma highest homologous hotspot human host Hypothesis Including introduced investigated Lambda Lineage lineages mutated mutations omicron ORF phylogenetic distribution Point mutation Positive selection RBD Receptor binding domain Recombination recurrent mutations residue Sarbecoviruses SARS-CoV-2 significantly higher spike Substitution the Spike vaccination variant variants variants of concern variants of concern. was performed [DOI] 10.3390/v14040707 PMC 바로가기 [Article Type] Comparative Study
Selection Analysis Identifies Clusters of Unusual Mutational Changes in Omicron Lineage BA.1 That Likely Impact Spike FunctionArticle Published on 2022-03-242023-07-02 Journal: Molecular Biology and Evolution [Category] COVID19(2023년), SARS, [키워드] coevolution epistasis negative selection Positive selection [DOI] 10.1093/molbev/msac061 PMC 바로가기
Analyses of Long-Term Epidemic Trends and Evolution Characteristics of Haplotype Subtypes Reveal the Dynamic Selection on SARS-CoV-2일배체형 하위유형의 장기 전염병 경향 및 진화 특성 분석은 SARS-CoV-2에 대한 동적 선택을 보여줍니다Article Published on 2022-02-232022-09-11 Journal: Viruses [Category] COVID19(2023년), MERS, SARS, 변종, 진단, 치료기술, [키워드] analyzed B.1 B.1.1 change Characteristics country death dominant dramatic increase dynamic Epidemic epidemic trends Evolution genome sequence greater H1-5 Haplotype haplotype subtypes help highest Immune escape Ka/K Ka/Ks missing molecular Non-synonymous North America Outbreaks pandemic Positive selection Prevalence Region respond SARS-CoV-2 SARS-CoV-2 genomic data SARS-COV-2 infection Selection substitution rate. subtype synonymous the epidemic the United State Transmissibility trend United States [DOI] 10.3390/v14030454 PMC 바로가기 [Article Type] Article
Comparative Genomics and Characterization of SARS-CoV-2 P.1 (Gamma) Variant of Concern From Amazonas, BrazilMedicine Published on 2022-02-152022-10-31 Journal: Frontiers in Medicine [Category] COVID-19, [키워드] addition analysis Analysis analyzed applied B.1.1.28 Brazil characteristic characterization Comparative concern conducted COVID-19 demonstrated described Efficacy evaluate events Evidence Evolution Gamma Genome Genomic epidemiology Genomics gold standard human SARS-CoV-2 Illumina Miseq immune evasion Laboratory lack likelihood Lineage molecular Mortality Multiple Mutation mutations Neutralizing antibodies no evidence of non-structural protein NSP ORF1a P.1 pathway Patient performed phylogenetic analysis Phylogenomics platform positive Positive selection Recombination reduced Reinfection Result SARS-CoV-2 selective pressures sequenced sequenced genome Sequencing shown SLAC spike state unique Vaccine variant VoC [DOI] 10.3389/fmed.2022.806611 PMC 바로가기 [Article Type] Medicine
From Free Binding Energy Calculations of SARS-CoV-2—Receptor Interactions to Cellular Immune ResponsesSARS-CoV-2의 자유 결합 에너지 계산 - 수용체 상호 작용에서 세포 면역 반응까지Brief Report Published on 2022-02-022022-09-10 Journal: Medicina [Category] COVID19(2023년), MERS, SARS, 변종, [키워드] angiotensin angiotensin converting enzyme Antigen assumed binding calculation change clinically computational analysis Computational biology danger signal danger signals disease severity energy enzyme expected Free free energy Free energy calculation Free energy calculations hACE2 HLA type Host human angiotensin converting enzyme 2 human leukocyte antigen immune responses infected cell Infection inflammatory immune responses Interaction leukocyte Lower respiratory tract molecular Occurrence omicron partial immunity pathogenicity Positive selection predicted produced RBM receptor Receptor binding Receptor binding domain receptor interaction reduced required respiratory response resulting SARS-CoV-2 SARS-CoV-2 Omicron SARS-CoV-2 spike protein Spike protein trade-off Transmissibility upper respiratory tract Vaccinations variants variants of concern virus viruses VOCs wild type [DOI] 10.3390/medicina58020226 PMC 바로가기 [Article Type] Brief Report
RNA structure-altering mutations underlying positive selection on Spike protein reveal novel putative signatures to trace crossing host-species barriers in BetacoronavirusArticle Published on 2022-01-012022-11-16 Journal: RNA Biology [Category] 변종, [키워드] analysed analysis Antiviral bat bat virus bats Betacoronavirus build changes in coding complement conserved cross-species horizontal transmission D614G develop disrupt events Factor function Genome genome-wide analysis Health hosts hotspot Human Impact in viral information investigated jumping the species barrier MERS-CoV Missense mutation molecular molecular evolution Mutation natural selection overlap Positive selection Protein Proteins Research reservoir RNA RNA genome RNA structure RNA structures RNA viruses S protein SARS-CoV SARS-CoV-2 secondary RNA structures selected small RNA spike Surveillance the Betacoronavirus the S protein Therapeutic strategies Transmission viral genome Viral proteins viral RNA genome viral RNA genome. Viral transmission [DOI] 10.1080/15476286.2022.2115750 PMC 바로가기
Genomic diversity and molecular dynamics interaction on mutational variances among RB domains of SARS-CoV-2 interplay drug inactivationSARS-CoV-2 상호 작용 약물 비활성화의 RB 도메인 간의 돌연변이 변이에 대한 게놈 다양성 및 분자 역학 상호 작용Article Published on 2022-01-012022-09-11 Journal: Infection, genetics and evolution : journal of mol [Category] SARS, 변종, 유전자 메커니즘, 치료제, [키워드] America Analysis Asia binding affinity conformational change country docking domain drug and vaccine development effective Efficiency Europe facilitate Genome genomes genomic genomic sequence inactivation Interaction investigated lowest molecular molecular docking molecular dynamics Molecular dynamics simulation molecular feature molecular features Mutation mutational analysis mutations nucleotide nucleotide substitution occurred performed Phylogenomic diversity Positive selection predicted prevalent Protein RBD RBD domain reference sequence Region Remdesivir Research retrieved S protein SARS-CoV-2 SARS-CoV-2 genomes SARS-CoV-2. Scientific community similarity spike the RBD the SARS-CoV-2 the SARS-CoV-2 genome USA Vaccine development [DOI] 10.1016/j.meegid.2021.105128 PMC 바로가기 [Article Type] Article
Two-step fitness selection for intra-host variations in SARS-CoV-2Article Published on 2021-12-162023-07-01 Journal: Cell Reports [Category] SARS, [키워드] dynamic genetic divergence intra-host variation Positive selection SARS-CoV-2 [DOI] 10.1016/j.celrep.2021.110205 PMC 바로가기 [Article Type] Article
Evidence for a mouse origin of the SARS-CoV-2 Omicron variantSARS-CoV-2 오미크론 변이체의 마우스 기원에 대한 증거Article Published on 2021-12-012022-09-11 Journal: Journal of genetics and genomics = Yi chuan xue ba [Category] SARS, 변종, [키워드] accumulated mutation adaptation B.1.1 lineage base substitutions binding affinity cell entry receptor cellular Divergence Evolution Evolutionary origins Frequency Host hosts Human humans infecting Interaction mammalian mice molecular Molecular spectrum of mutations Mutation occurred omicron outbreak overlapped Patient Point mutation Positive selection progenitor promote Protein binding proximal question raise Receptor-binding domain relative frequency reported SARS-CoV-2 SARS-CoV-2 mutation SARS-CoV-2 mutations SARS-CoV-2 variant SARS-CoV-2 variants significantly Spectrum Spike protein Spike protein sequence spike-ACE2 Spike-ACE2 interaction. the SARS-CoV-2 trajectory variant virus virus Virus evolution [DOI] 10.1016/j.jgg.2021.12.003 PMC 바로가기 [Article Type] Article