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
Analysis of Clinical Characteristics and Virus Strains Variation of Patients Infected With SARS-CoV-2 in Jiangsu Province—A Retrospective Study장쑤성 SARS-CoV-2 감염 환자의 임상적 특성 및 바이러스 균주 변이 분석 - 후향적 연구Public Health Published on 2021-12-242022-09-11 Journal: Frontiers in Public Health [Category] MERS, SARS, 변종, 치료기술, [키워드] acute respiratory syndrome acute respiratory syndrome coronavirus acute respiratory syndrome coronavirus 2 age Alpha Amino acid amino acid replacement amino acid replacements amino acid substitution Analysis association Asymptomatic asymptomatic infection Beta caused change Characteristics China clinical Clinical characteristics Clinical features Clinical severity collected concern conditions confirmed case coronavirus correlated Course Delta detect diagnosed disease Diversity dominant dominant mutation Evolution Frame Genetic genomic genomic variation help hosts imported cases infected patient Infection Jiangsu Last local outbreak local outbreaks loci men Missense mutation MONITOR Mutation mutations nine nucleotide occurred Open reading frame ORF1ab oropharyngeal swab oropharyngeal swabs Patient patients patients severity patients severity SARS-CoV-2 pedigree pharyngeal swabs Phylogeny positively correlated present Recombination respiratory risk S gene SARS-CoV-2 SARS-COV-2 infection SARS-CoV-2 variant SARS-CoV-2 variants Sequencing severity significantly Single nucleotide polymorphism single nucleotide polymorphisms SNP SNPs spike glycoprotein Spread strain Surveillance the SARS-CoV-2 undergo variant variety virus virus variant viruses was performed was used were infected whole genome Whole genome sequencing women [DOI] 10.3389/fpubh.2021.791600 PMC 바로가기 [Article Type] Public Health
Computational Saturation Mutagenesis of SARS-CoV-1 Spike Glycoprotein: Stability, Binding Affinity, and Comparison With SARS-CoV-2Molecular Biosciences Published on 2021-12-092022-10-31 Journal: Frontiers in Molecular Biosciences [Category] COVID-19, [키워드] addition affinity Amino acid Analysis Antiviral binding binding affinity computational saturation mutagenesis decrease destabilized Effect enzyme example functions generate hACE2 host cell surface identify Interaction isolate Missense mutation Mutagenesis mutate Mutation mutations N-linked glycosylation predicted protein stability RBD receptor residue respiratory syndrome coronavirus RNA genome S glycoprotein S glycoproteins S protein SARS-CoV-1 SARS-CoV-2 saturation sequence similarity spike spike glycoprotein spike missense mutations stability the binding affinity the receptor-binding domain the S protein therapeutic Vaccine viral mutation weakened would increase [DOI] 10.3389/fmolb.2021.784303 PMC 바로가기 [Article Type] Molecular Biosciences
SARS-CoV-2 Variants, RBD Mutations, Binding Affinity, and Antibody EscapeArticle Published on 2021-11-092022-10-29 Journal: International Journal of Molecular Sciences [Category] COVID-19, MERS, SARS, [키워드] ACE2 acute respiratory syndrome affinity amino-acid Analysis antibodies antibody binding binding affinity binding energy Breakthrough infection changes in complex complexes Contagion coronavirus coronavirus coronavirus disease country COVID-19 delta variant detrimental docking driving ENhance enzyme escape geometric Gibbs free energy highest hydrophilic hydrophobic Immune profile L452R mechanism Missense mutation Mutation mutations notable pandemic physical prevalent preventive measures producing RBD receptor reduction residue responsible risk SARS-CoV-2 SARS-CoV-2 variant Structure the binding affinity the epidemic the RBD the receptor-binding domain the spike protein therapeutic Transmissibility understanding vaccination rates Vaccine-induced immunity Vaccines variant variants virus were used [DOI] 10.3390/ijms222212114 PMC 바로가기 [Article Type] Article
Molecular characterization of SARS-CoV-2 from Bangladesh: implications in genetic diversity, possible origin of the virus, and functional significance of the mutationsResearch Article Published on 2021-08-212022-10-31 Journal: Heliyon [Category] COVID-19, [키워드] accompanied Analysis ancestor B-cell Bangladesh China Chittagong circulating clade Clinical data Complete country COVID-19 COVID-19 pandemic CpG D614G Deletion Diagnosis downloaded Epidemiology epitope European country evade event Evolution functional genetic diversity Genome genome sequence Genome sequencing genomic change GISAID GISAID database Host immune response implication include India insertions isolate isolates less Missense Missense mutation MOST Mutation mutations Nextstrain nucleotide occurred ORF7a ORF8 gene P323L Pathogenesis PCR Phylogeny predict predicted prevalent RdRP reduce reference sequence Region reported reveal RT-PCR SARS-CoV-2 SARS-CoV-2 genome selective sequence severity single nucleotide variations Spike protein submitted synonymous T-cell target region the disease the SARS-CoV-2 virus unique variant viral clearance viral replication virus Wuhan [DOI] 10.1016/j.heliyon.2021.e07866 PMC 바로가기 [Article Type] Research Article
Emergence of Resistance to Novel Cephalosporin-β-Lactamase Inhibitor Combinations through the Modification of the Pseudomonas aeruginosa MexCD-OprJ Efflux Pump녹농균 MexCD-OprJ 유출 펌프의 변형을 통한 새로운 Cephalosporin-β-Lactamase 억제제 조합에 대한 내성의 출현Article Published on 2021-07-162022-09-11 Journal: Antimicrobial Agents and Chemotherapy [Category] SARS, 변종, [키워드] avibactam Azithromycin carbapenem caused ceftolozane ceftolozane-tazobactam cephalosporin Combination construction COVID-19 infection efflux efflux pumps. emergence evidenced inhibitor meropenem MexCD-OprJ Missense mutation Modification mutant Mutation nonsense mutation novel Patient periplasmic Pseudomona Pseudomonas aeruginosa pump resistance Sequencing specificity strain tazobactam Treatment Ventilator-associated pneumonia whole-genome sequencing wild-type [DOI] 10.1128/AAC.00089-21 PMC 바로가기 [Article Type] Article
Pathogenic perspective of missense mutations of ORF3a protein of SARS-CoV-2SARS-CoV-2의 ORF3a 단백질의 미스센스 돌연변이의 병원성 관점Article Published on 2021-07-152022-09-11 Journal: Virus research [Category] SARS, 변종, 치료기술, [키워드] Amino acid among others Cluster coded Complete coronavirus COVID-19 COVID-19 pathogenesis Critical disease Effect function functions Genetic variations Genome include ion channel K-means clustering knowledge life-threatening Missense mutation Missense mutations morphogenesis Mutation mutations NCBI database Neutral Non-synonymous mutation ORF3 ORF3a ORF3a protein pathogenic pathogenicity Perspective Protein SARS-CoV-2 SARS-CoV-2 genome Shannon entropy Shannon entropy. stability the SARS-CoV-2 genome timeline virulence virus [DOI] 10.1016/j.virusres.2021.198441 PMC 바로가기 [Article Type] Article
The interplay of SARS-CoV-2 evolution and constraints imposed by the structure and functionality of its proteinsResearch Article Published on 2021-07-082022-10-28 Journal: PLoS Computational Biology [Category] COVID-19, SARS, [키워드] 3D structure accumulate amino acid changes Analysis antibodies avoidance coded conserved correlated COVID-19 test develop dominant driving drugs encoded proteins epitope example explained Factor faster feature Features function functional Genetic genetic change Genome genomic region high mutation rate high variability host immunity implication in viral information less Missense mutation mutated Mutation natural selection Neutral observation Organisms pandemic pathogen PCR probes Protein protein-coding genes protein-protein interaction provide Region regions Requirement resulting risk RNA viruses SARS-CoV-2 SARS-CoV-2 evolution SARS-CoV-2 proteins Sequencing specific antibody Taking target region the SARS-CoV-2 virus three-dimensional structure unique Vaccine Vaccine design viral evolution Viral genetics viral genome virulent virus while [DOI] 10.1371/journal.pcbi.1009147 PMC 바로가기 [Article Type] Research Article
Notable sequence homology of the ORF10 protein introspects the architecture of SARS-CoV-2ORF10 단백질의 주목할만한 서열 상동성은 SARS-CoV-2의 구조를 내부 조사합니다Article Published on 2021-06-302022-09-11 Journal: International journal of biological macromolecules [Category] Coronavirus, MERS, SARS, 변종, 진단, [키워드] acute respiratory syndrome Amino acid amino acids analysis antigenicity carried caused change clone coil convalescent patient Convalescent patients coronavirus coronavirus disease COVID-19 CTL cytotoxic T lymphocyte decrease epitope Epitopes expressed Fatality rate homology in silico in vivo Intrinsic disorder lymphocyte MERS Missense mutation Missense mutations Mutation mutations nine Open reading frame ORF10 ORF10 protein pandemic pangolin pangolin-CoV Pangolin-CoV-2020 Pathogenesis pathogenesis of COVID-19 pathology physicochemical predicted Protein Proteins reactive respiratory SARS-CoV SARS-CoV-2 SARS-CoV-2. sequence sequence homology Severe acute respiratory syndrome severe acute respiratory syndrome Coronavirus severe acute respiratory syndrome coronavirus-2 shift similarity solubility stability strand T cell tyrosine unique variant [DOI] 10.1016/j.ijbiomac.2021.03.199 PMC 바로가기 [Article Type] Article
Identification of a High-Frequency Intrahost SARS-CoV-2 Spike Variant with Enhanced Cytopathic and Fusogenic Effects세포변성 및 융합생성 효과가 강화된 고주파수 인트라호스트 SARS-CoV-2 스파이크 변이체 식별Research Article Published on 2021-06-292022-09-10 Journal: mBio [Category] MERS, SARS, 변종, 진단, [키워드] acute respiratory syndrome acute respiratory syndrome coronavirus acute respiratory syndrome coronavirus 2 Amino acid amino acids analyzed coronavirus COVID-19 cytopathic effects data sets disease Diversity Effect enhanced Evolution exhibit exonuclease Factors Frequency gene encoding genetic diversity Genetic variant genetic variants High-throughput sequencing Host hosts identification infected cell infected individual infected individuals involved M protein Missense mutation molecular molecular evolution MOST Mutation Neutral produced Proofreading Protein Quasispecies Replication respiratory resulting RNA-dependent RNA polymerase S protein SARS-CoV-2 SARS-CoV-2 variants sequence sequencing data severe acute respiratory syndrome Coronavirus spike Spike protein Syncytia syncytium formation the S protein transmitted Variation variations Viral viral spike virus [DOI] 10.1128/mBio.00788-21 PMC 바로가기 [Article Type] Research Article