Virological characteristics of the novel SARS-CoV-2 Omicron variants including BA.2.12.1, BA.4 and BA.5

Kimura, I.; Yamasoba, D.; Tamura, T.; Nao, N.; Oda, Y.; Mitoma, S.; Ito, J.; Nasser, H.; Zahradnik, J.; Uriu, K.; Fujita, S.; Kosugi, Y.; Wang, L.; Tsuda, M.; Kishimoto, M.; Ito, H.; Suzuki, R.; Shimizu, R.; Begum, M. M.; Yoshimatsu, K.; Sasaki, J.; Sasaki-Tabata, K.; Yamamoto, Y.; Nagamoto, T.; Kanamune, J.; Kobiyama, K.; Asakura, H.; Nagashima, M.; Sadamasu, K.; Yoshimura, K.; Kuramochi, J.; Schreiber, G.; Ishii, K. J.; Hashiguchi, T.; The Genotype to Phenotype Japan (G2P-Japan) Consortium,; Ikeda, T.; Saito, A.; Fukuhara, T.; Tanaka, S.; Matsuno, K.; Sato, K.

doi:10.1101/2022.05.26.493539

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bioRxiv · 10.1101/2022.05.26.493539

Virological characteristics of the novel SARS-CoV-2 Omicron variants including BA.2.12.1, BA.4 and BA.5

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Abstract

After the global spread of SARS-CoV-2 Omicron BA.2 lineage, some BA.2-related variants that acquire mutations in the L452 residue of spike protein, such as BA.2.9.1 and BA.2.13 (L452M), BA.2.12.1 (L452Q), and BA.2.11, BA.4 and BA.5 (L452R), emerged in multiple countries. Our statistical analysis showed that the effective reproduction numbers of these L452R/M/Q-bearing BA.2-related Omicron variants are greater than that of the original BA.2. Neutralization experiments revealed that the immunity induced by BA.1 and BA.2 infections is less effective against BA.4/5. Cell culture experiments showed that BA.2.12.1 and BA.4/5 replicate more efficiently in human alveolar epithelial cells than BA.2, and particularly, BA.4/5 is more fusogenic than BA.2. Furthermore, infection experiments using hamsters indicated that BA.4/5 is more pathogenic than BA.2. Altogether, our multiscale investigations suggest that the risk of L452R/M/Q-bearing BA.2-related Omicron variants, particularly BA.4 and BA.5, to global health is potentially greater than that of original BA.2. HighlightsO_LISpike L452R/Q/M mutations increase the effective reproduction number of BA.2 C_LIO_LIBA.4/5 is resistant to the immunity induced by BA.1 and BA.2 infections C_LIO_LIBA.2.12.1 and BA.4/5 more efficiently spread in human lung cells than BA.2 C_LIO_LIBA.4/5 is more pathogenic than BA.2 in hamsters C_LI

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Kimura, I., Yamasoba, D., Tamura, T., Nao, N., Oda, Y., Mitoma, S., Ito, J., Nasser, H., Zahradnik, J., Uriu, K., Fujita, S., Kosugi, Y., Wang, L., Tsuda, M., Kishimoto, M., Ito, H., Suzuki, R., Shimizu, R., Begum, M. M., Yoshimatsu, K., Sasaki, J., Sasaki-Tabata, K., Yamamoto, Y., Nagamoto, T., Kanamune, J., Kobiyama, K., Asakura, H., Nagashima, M., Sadamasu, K., Yoshimura, K., Kuramochi, J., Schreiber, G., Ishii, K. J., Hashiguchi, T., The Genotype to Phenotype Japan (G2P-Japan) Consortium,, Ikeda, T., Saito, A., Fukuhara, T., Tanaka, S., Matsuno, K., Sato, K.. 2022-05-26. Virological characteristics of the novel SARS-CoV-2 Omicron variants including BA.2.12.1, BA.4 and BA.5. https://doi.org/10.1101/2022.05.26.493539

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