Whole Genome Analysis of Coxsackievirus A10 in Yunnan Province

Zhaoyang CHU; Jialing LI; Junwei CHEN; Changzeng FENG; Ming ZHANG; Li LI; Shaohui MA

doi:10.12259/j.issn.2095-610X.S20250204

Volume 46 Issue 2

Feb. 2025

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Zhaoyang CHU, Jialing LI, Junwei CHEN, Changzeng FENG, Ming ZHANG, Li LI, Shaohui MA. Whole Genome Analysis of Coxsackievirus A10 in Yunnan Province[J]. Journal of Kunming Medical University, 2025, 46(2): 23-29. doi: 10.12259/j.issn.2095-610X.S20250204

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Whole Genome Analysis of Coxsackievirus A10 in Yunnan Province

doi: 10.12259/j.issn.2095-610X.S20250204

1.
Key Laboratory of Vaccine Research and Development for Major Infectious Diseases in Yunnan Province，Institute of Medical Biology，Chinese Academy of Medical Sciences & Peking Union Medical College，Kunming Yunnan 650118
2.
Haiyuan College，Kunming Medical University，Kunming 650106
3.
School of Life Sciences，Yunnan University，Kunming Yunan 650504
4.
Department of Clinical Laboratory，Kunming Maternal and Child Health Care Hospital，Kunming Yunnan 650031，China

Received Date: 2024-09-18
Available Online: 2025-01-02
Publish Date: 2025-02-18

Abstract

Abstract

Objective To analyze the whole-genome characteristics of a coxsackievirus A10 （CVA10） isolate obtained from fecal samples of children with hand, foot, and mouth disease in 2022. Methods The isolate was obtained from human rhabdomyosarcoma （RD） cells and named 155/YN/CHN/2022. Viral RNA was extracted, and the VP1 sequence was amplified by reverse transcription polymerase chain reaction （RT-PCR） to identify the serotype. The whole genome sequence of 155/YN/CHN/2022 was amplified and assembled. Sequence analyses were performed using software such as MEGA7.0, DNAStar7.1, and Simplot3.5.1. Results The complete genomic sequence of CVA10 isolate 155/YN/CHN/2022 was 7403 nt long, with a 746 nt 5'UTR region, a 76 nt 3'UTR region, and a 6551 nt coding region. The nucleotide and amino acid sequence identities of this isolate compared to the prototype strain of CVA10 were 78.43% and 95.30%, respectively, while the identities compared to other domestic and foreign CVA10 isolates ranged from 91.18% to 95.06% for nucleotide sequences and 97.63% to 98.54% for amino acid sequences. Phylogenetic analysis revealed that 155/YN/CHN/2022 belonged to the C genotype. Phylogenetic analyses of P1, P2, and P3 regions suggested this isolate may have undergone recombination with other serotype strains in the P2 and P3 non-coding regions. Simplot recombination analysis also indicated possible recombination events in the non-coding regions of P2 and P3 for CVA10 isolate 155/YN/CHN/2022. Conclusion CVA10 isolate 155/YN/CHN/2022 belongs to the genotype C, which is consistent with recent epidemic strains in mainland China.
- Hand foot and mouth disease,
- Coxsackievirus A10,
- Complete genome,
- Evolutionary analysis

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References(18)

References

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