Molecular Characterization of the VP1 Region of Coxsackievirus 16 in Kunming，Yunnan in 2022

Lei ZHANG; Ru SHEN; Zhaoyang CHU; Shaohui MA; Li LI

doi:10.12259/j.issn.2095-610X.S20240711

Volume 45 Issue 7

Jul. 2024

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Lei ZHANG, Ru SHEN, Zhaoyang CHU, Shaohui MA, Li LI. Molecular Characterization of the VP1 Region of Coxsackievirus 16 in Kunming，Yunnan in 2022[J]. Journal of Kunming Medical University, 2024, 45(7): 73-78. doi: 10.12259/j.issn.2095-610X.S20240711

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Molecular Characterization of the VP1 Region of Coxsackievirus 16 in Kunming，Yunnan in 2022

doi: 10.12259/j.issn.2095-610X.S20240711

1.
Dept. of Clinical Laboratory，Kunming Maternal and Child Health hospital，Kunming Yunnan 650031
2.
Institute of Medical Biology，Chinese Academy of Medical Sciences and Peking Union Medical College，Key Laboratory for Research and Development of Major Infectious Diseases Vaccine in Yunnan，Kunming Yunnan 650118，China

Received Date: 2024-01-22
Available Online: 2024-06-14
Publish Date: 2024-07-25

Abstract

Abstract

Objective To analyze the molecular characteristics of the whole VP1 gene region of coxsackievirus A16 （CVA16） isolated from children with hand, foot and mouth disease （HFMD） in 2022 from a hospital in Kunming, Yunnan. Methods Two hundreds fecal specimens of HFMD clinical samples from 2022 in a hospital in kunming, were processed and isolated by RD cells and Vero cells, respectively, and viral nucleic acids were extracted from the cell cultures that still produced cytopathogenic effect （CPE） after three times of incubation, then amplified and sequenced by RT- PCR using universal primers 222/224, and sequenced, and the sequences were compared by BLAST to determine the serotypes, and then the full VP1 region of CVA16 was amplified with specific primers CA16VP1F/CA16VP1R , then sequenced and spliced. The standard sequences of CVA16 virus were downloaded, and the nucleotide and amino acid sequences of the whole VP1 region of CVA16 in this study were analyzed using software such as Geneious 5.4.1 and Mega 6.05. Results 22 strains of CVA16 isolated from Vero cells and 6 strains isolated from RD cells were detected by RT-PCR using universal primers, and the available sequences of 21 strains of full-length CVA16 VP1 region were further amplified by the specific primers of CVA16, and the nucleotide and amino acid sequences of the 21 strains of full-length CVA16 VP1 genes were highly homologous to each other, with 91.9%～99.6% and 89.2%～99.3%, respectively. The nucleotide and amino acid sequence homology with other strains of the chinese B1a genotype ranged from 89.7%～96.3% and 94.6%～99.0%, respectively; and nucleotide and amino acid sequence homology was in the range of 84.3%～87.2% and 89.2%～97.0%, respectively, when compared with the other reference strains of B1b. The phylogenetic analysis showed that all 21 CVA16 strains belonged to the B1a genotype. The 21 mutations were found by compared with that of other B1a strains. Conclusions The CVA16 strain that caused HFMD in a hospital in Kunming, Yunnan Province, China in 2022 belongs to the B1a genotype. Surveillance should be continued to clarify its epidemiological characteristics.
- Coxsackievirus A16,
- Complete VP1 gene,
- Sequence analysis

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References

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