Novel and extendable genotyping system for human respiratory syncytial virus based on whole-genome sequence analysis.
Novel and extendable genotyping system for human respiratory syncytial virus based on whole-genome sequence analysis.
复制标题
DOI：
10.1111/irv.12936
复制
发表时间：
2022-05
影响因子：
4.4
通讯作者：
Bahl J
中科院分区：
文献类型：
--
作者：
Chen J;Qiu X;Avadhanula V;Shepard SS;Kim DK;Hixson J;Piedra PA;Bahl J
Human respiratory syncytial virus (RSV) is one of the leading causes of respiratory infections, especially in infants and young children. Previous RSV sequencing studies have primarily focused on partial sequencing of G gene (200–300 nucleotides) for genotype characterization or diagnostics. However, the genotype assignment with G gene has not recapitulated the phylogenetic signal of other genes, and there is no consensus on RSV genotype definition. We conducted maximum likelihood phylogenetic analysis with 10 RSV individual genes and whole‐genome sequence (WGS) that are published in GenBank. RSV genotypes were determined by using phylogenetic analysis and pair‐wise node distances. In this study, we first statistically examined the phylogenetic incongruence, rate variation for each RSV gene sequence and WGS. We then proposed a new RSV genotyping system based on a comparative analysis of WGS and the temporal distribution of strains. We also provide an RSV classification tool to perform RSV genotype assignment and a publicly accessible up‐to‐date instance of Nextstrain where the phylogenetic relationship of all genotypes can be explored. This revised RSV genotyping system will provide important information for disease surveillance, epidemiology, and vaccine development.
登录
查看更多内容
影响因子：
4.6
作者：
Schobel SA;Stucker KM;Moore ML;Anderson LJ;Larkin EK;Shankar J;Bera J;Puri V;Shilts MH;Rosas-Salazar C;Halpin RA;Fedorova N;Shrivastava S;Stockwell TB;Peebles RS;Hartert TV;Das SR
通讯作者：
Das SR
影响因子：
6.6
作者：
Castiglione, Silvia;Tesone, Gianmarco;Raia, Pasquale
通讯作者：
Raia, Pasquale
影响因子：
5.3
作者：
Sagulenko P;Puller V;Neher RA
通讯作者：
Neher RA
影响因子：
3.7
作者：
Ahmed A;Haider SH;Parveen S;Arshad M;Alsenaidy HA;Baaboud AO;Mobaireek KF;AlSaadi MM;Alsenaidy AM;Sullender W
通讯作者：
Sullender W
影响因子：
4.6
作者：
Carlos Munoz-Escalante, Juan;Comas-Garcia, Andreu;Noyola, Daniel E.
通讯作者：
Noyola, Daniel E.