Reassortment of Human and Animal Rotavirus Gene Segments in Emerging DS-1-Like G1P[8] Rotavirus Strains.
Reassortment of Human and Animal Rotavirus Gene Segments in Emerging DS-1-Like G1P[8] Rotavirus Strains.
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DOI：
10.1371/journal.pone.0148416
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发表时间：
2016
期刊：
影响因子：
3.7
通讯作者：
Taniguchi K
中科院分区：
文献类型：
--
作者：
Komoto S;Tacharoenmuang R;Guntapong R;Ide T;Tsuji T;Yoshikawa T;Tharmaphornpilas P;Sangkitporn S;Taniguchi K
最近报道了新型DS-1样G1 P [8]人轮状病毒在日本的出现和快速传播。最近，在泰国发现了这种基因组间重复株，这意味着不寻常的轮状病毒株正在亚洲传播。在泰国的轮状病毒监测期间，在急性胃肠炎住院儿童的粪便样本中鉴定出三种具有G3 P [8]（RVA/Human-wt/THA/SKT-281/2013/G3 P [8]和RVA/Human-wt/THA/SKT-289/2013/G3 P [8]）和G2 P [8]（RVA/Human-wt/THA/LS-04/2013/G2 P [8]）基因型的DS-1样基因组间回复株。在这项研究中，我们对SKT-281、SKT-289和LS-04菌株的完整基因组进行了测序和表征。在全基因组分析中，所有三种菌株均表现出独特的基因型星座，包括基因组1和2基因：菌株SKT-281和SKT-289的G3-P[8]-I2-R2-C2-M2-A2-N2-T2-E2-H2，菌株LS-04的G2-P[8]-I2-R2-C2-M2-A2-N2-T2-E2-H2。除G基因型外，三种菌株（P[8]-I2-R2-C2-M2-A2-N2-T2-E2-H2）的独特基因型星座通常与DS-1样G1 P [8]菌株共有。在系统发育分析中，SKT-281和SKT-289菌株的11个基因中有9个（VP 4、VP 6、VP 1 -3、NSP 1 -3和NSP 5）似乎来源于DS-1样G1 P [8]菌株，而剩余的VP 7和NSP 4基因似乎分别来源于马和牛。因此，SKT-281和SKT-289株似乎是DS-1样G1 P [8]、动物源性人和/或动物轮状病毒的耐药株。另一方面，LS-04株的11个基因中有7个（VP 7、VP 6、VP 1、VP 3和NSP 3 -5）似乎来源于局部循环的DS-1样G2 P [4]人轮状病毒，而3个基因（VP 4、VP 2和NSP 1）被认为来源于DS-1样G1 P [8]株。值得注意的是，菌株LS-04的剩余NSP 2基因似乎是牛来源的。因此，假设菌株LS-04是DS-1样G1 P [8]、局部循环DS-1样G2 P [4]、牛样人和/或牛轮状病毒的多重重配菌株。总体而言，DS-1样G1 P [8]菌株之间的巨大基因组多样性似乎是通过涉及人类和动物菌株的重配产生的。据我们所知，这是第一份关于在泰国出现的具有G3 P [8]和G2 P [8]基因型的DS-1样基因组间抗性菌株的全基因组表征的报告。我们的观察将为新出现的DS-1样G1 P [8]菌株和相关的抗性菌株的进化动力学提供重要的见解。
The emergence and rapid spread of novel DS-1-like G1P[8] human rotaviruses in Japan were recently reported. More recently, such intergenogroup reassortant strains were identified in Thailand, implying the ongoing spread of unusual rotavirus strains in Asia. During rotavirus surveillance in Thailand, three DS-1-like intergenogroup reassortant strains having G3P[8] (RVA/Human-wt/THA/SKT-281/2013/G3P[8] and RVA/Human-wt/THA/SKT-289/2013/G3P[8]) and G2P[8] (RVA/Human-wt/THA/LS-04/2013/G2P[8]) genotypes were identified in fecal samples from hospitalized children with acute gastroenteritis. In this study, we sequenced and characterized the complete genomes of strains SKT-281, SKT-289, and LS-04. On whole genomic analysis, all three strains exhibited unique genotype constellations including both genogroup 1 and 2 genes: G3-P[8]-I2-R2-C2-M2-A2-N2-T2-E2-H2 for strains SKT-281 and SKT-289, and G2-P[8]-I2-R2-C2-M2-A2-N2-T2-E2-H2 for strain LS-04. Except for the G genotype, the unique genotype constellation of the three strains (P[8]-I2-R2-C2-M2-A2-N2-T2-E2-H2) is commonly shared with DS-1-like G1P[8] strains. On phylogenetic analysis, nine of the 11 genes of strains SKT-281 and SKT-289 (VP4, VP6, VP1-3, NSP1-3, and NSP5) appeared to have originated from DS-1-like G1P[8] strains, while the remaining VP7 and NSP4 genes appeared to be of equine and bovine origin, respectively. Thus, strains SKT-281 and SKT-289 appeared to be reassortant strains as to DS-1-like G1P[8], animal-derived human, and/or animal rotaviruses. On the other hand, seven of the 11 genes of strain LS-04 (VP7, VP6, VP1, VP3, and NSP3-5) appeared to have originated from locally circulating DS-1-like G2P[4] human rotaviruses, while three genes (VP4, VP2, and NSP1) were assumed to be derived from DS-1-like G1P[8] strains. Notably, the remaining NSP2 gene of strain LS-04 appeared to be of bovine origin. Thus, strain LS-04 was assumed to be a multiple reassortment strain as to DS-1-like G1P[8], locally circulating DS-1-like G2P[4], bovine-like human, and/or bovine rotaviruses. Overall, the great genomic diversity among the DS-1-like G1P[8] strains seemed to have been generated through reassortment involving human and animal strains. To our knowledge, this is the first report on whole genome-based characterization of DS-1-like intergenogroup reassortant strains having G3P[8] and G2P[8] genotypes that have emerged in Thailand. Our observations will provide important insights into the evolutionary dynamics of emerging DS-1-like G1P[8] strains and related reassortant ones.