SARS-CoV-2 Consensus-Sequence and Matching Overlapping Peptides Design for COVID19 Immune Studies and Vaccine Development.
SARS-CoV-2 Consensus-Sequence and Matching Overlapping Peptides Design for COVID19 Immune Studies and Vaccine Development.
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DOI：
10.3390/vaccines8030444
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发表时间：
2020-08-06
期刊：
影响因子：
7.8
通讯作者：
Brander C
中科院分区：
文献类型：
--
作者：
Olvera A;Noguera-Julian M;Kilpelainen A;Romero-Martín L;Prado JG;Brander C
基于代表循环病毒分离株的共有序列的合成抗原是体外免疫监测和指导免疫原设计的敏感、省时且经济高效的工具。当基于代表性序列数据库时，此类共有序列可以有效地用于在群体水平上测试暴露和感染个体的免疫反应。为了加速 SARS-CoV-2 感染的免疫研究，我们在此描述了 SARS-CoV-2 2020 共有序列 (CoV-2-cons)，该序列基于 NCBI 中的 1700 多个病毒基因组条目，涵盖所有描述的 SARS-CoV-2 开放阅读框 (ORF)，包括最近描述的移码和长度变异 ORF。基于这些序列，我们创建了精选的重叠肽 (OLP) 列表，其中包含 1500 至 3000 个长度为 15 至 18 个氨基酸、重叠 10 或 11 个残基的肽，作为评估 SARS-CoV-2 特异性 T 细胞免疫的理想工具。此外，CoV-2-cons 序列熵值与变异序列一起呈现，以增加对病毒基因组变化最大的部分的覆盖范围。冠状病毒家族中保守蛋白片段和相应 OLP 的鉴定有助于识别可能与相关病毒发生交叉反应的 T 细胞。这种新的 CoV-2-cons 序列与肽组一起，应为 SARS-CoV-2 抗原合成提供基础，以促进离体免疫分析之间的可比性，并有助于加速 SARS-CoV-2 免疫和疫苗开发的研究。
Synthetic antigens based on consensus sequences that represent circulating viral isolates are sensitive, time saving and cost-effective tools for in vitro immune monitoring and to guide immunogen design. When based on a representative sequence database, such consensus sequences can effectively be used to test immune responses in exposed and infected individuals at the population level. To accelerate immune studies in SARS-CoV-2 infection, we here describe a SARS-CoV-2 2020 consensus sequence (CoV-2-cons) which is based on more than 1700 viral genome entries in NCBI and encompasses all described SARS-CoV-2 open reading frames (ORF), including recently described frame-shifted and length variant ORF. Based on these sequences, we created curated overlapping peptide (OLP) lists containing between 1500 to 3000 peptides of 15 and 18 amino acids in length, overlapping by 10 or 11 residues, as ideal tools for the assessment of SARS-CoV-2-specific T cell immunity. In addition, CoV-2-cons sequence entropy values are presented along with variant sequences to provide increased coverage of the most variable sections of the viral genome. The identification of conserved protein fragments across the coronavirus family and the corresponding OLP facilitate the identification of T cells potentially cross-reactive with related viruses. This new CoV-2-cons sequence, together with the peptides sets, should provide the basis for SARS-CoV-2 antigen synthesis to facilitate comparability between ex-vivo immune analyses and help to accelerate research on SARS-CoV-2 immunity and vaccine development.
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影响因子：
3.8
作者：
Bansal, A;Gough, E;Goepfert, PA
通讯作者：
Goepfert, PA
影响因子：
11.8
作者：
Gallais F;Velay A;Nazon C;Wendling MJ;Partisani M;Sibilia J;Candon S;Fafi-Kremer S
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影响因子：
4.8
作者：
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影响因子：
3.8
作者：
Frahm, Nicole;Nickle, David C.;Brander, Christian
通讯作者：
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