Complete genome analyses of G12P[8] rotavirus strains from hospitalized children in Surabaya, Indonesia, 2017-2018
Complete genome analyses of G12P[8] rotavirus strains from hospitalized children in Surabaya, Indonesia, 2017-2018
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2017-2018 年印度尼西亚泗水住院儿童 G12P[8] 轮状病毒株的完整基因组分析
DOI：
10.1002/jmv.28485
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发表时间：
2023
影响因子：
12.7
通讯作者：
Rheza Gandi Bawono,
中科院分区：
文献类型：
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作者：
Laura Navika Yamani;Takako Utsumi;Yen Hai Doan;Yoshiki Fujii;Zayyin Dinana;Rury Mega Wahyuni;Emily Gunawan;Soegeng Soegijanto;Alpha Fardah Athiyyah;Subijanto Marto Sudarmo;Reza Gunadi Ranuh;Andy Darma;Soetjipto;Juniastuti;Rheza Gandi Bawono,
轮状病毒A(RVA)是世界范围内引起急性胃肠炎(AGE)的主要病毒。自2007年以来，全球出现了G12 RVA毒株。在印度尼西亚还没有关于G12 RVA全基因组序列的报道。我们通过对2017年至2018年泗水住院适龄儿童的5株G12菌株进行下一代测序，进行了完整的基因组分析。5株G12毒株均为Wa样毒株(G12-P[8]-I1-R1-C1-M1-A1-N1-T1-E1-H1)，聚为VP7基因系统发育树的谱系III。STM430为G12和G1混合感染株：G12/G1-P[8]-I1-R1-C1-M1-A1-N1-T1-E1-H1。系统进化树分析表明，5株印度尼西亚G12毒株(SOEP379、STM371、STM413、STM430和STM433)除了STM430的VP3和NSP4外，其余11个基因组片段的核苷酸同源性在98.0%~100%之间，表明这些毒株起源于相似的祖先G12 RVA。STM430-G12P[8]的VP3和NSP4基因组片段与其他4个G12毒株的VP3和NSP4基因组片段在系统发育上是分开的，这可能是由于G12和G1WA样毒株之间的基因内重组所致。从2007年的G12P[6]Lineage-II到G12P[8]Lineage-III 2017-2018年的变化表明了过去大约10年来印度尼西亚G12 RVA的演变和多样性。
Rotavirus A (RVA) is a major viral cause of acute gastroenteritis (AGE) worldwide. G12 RVA strains have emerged globally since 2007. There has been no report of the whole genome sequences of G12 RVAs in Indonesia. We performed the complete genome analysis by the next‐generation sequencing of five G12 strains from hospitalized children with AGE in Surabaya from 2017 to 2018. All five G12 strains were Wa‐like strains (G12‐P[8]‐I1‐R1‐C1‐M1‐A1‐N1‐T1‐E1‐H1) and were clustered into lineage‐III of VP7 gene phylogenetic tree. STM430 sample was observed as a mixed‐infection between G12 and G1 strains: G12/G1‐P[8]‐I1‐R1‐C1‐M1‐A1‐N1‐T1‐E1‐H1. A phylogenetic tree analysis revealed that all five Indonesian G12 strains (SOEP379, STM371, STM413, STM430, and STM433) were genetically close to each other in all 11 genome segments with 98.0%–100% nucleotide identities, except VP3 and NSP4 of STM430, suggesting that these strains have originated from a similar ancestral G12 RVA. The VP3 and NSP4 genome segments of STM430‐G12P[8] were separated phylogenetically from those of the other four G12 strains, probably due to intra‐genotype reassortment between the G12 and G1 Wa‐like strains. The change from G12P[6] lineage‐II in 2007 to G12P[8] lineage‐III 2017–2018 suggests the evolution and diversity of G12 RVAs in Indonesia over the past approximately 10 years.