Acknowledgement
This study was supported by the National Research Foundation of Korea (NRF) funded by the Korean government (MSIT) (2020M3A9D5A01082439 and 2018R1A5A2025079 to H.Y.G., 2016M3A9D5A01952416 to K.T.N, and Bio & Medical Technology Development Program 2021M3H9A1038083 to K.T.N).
References
- Zhu N, Zhang D, Wang W, Li X, Yang B, Song J, Zhao X, Huang B, Shi W, Lu R, et al. A novel coronavirus from patients with pneumonia in China, 2019. N Engl J Med 2020;382:727-733. https://doi.org/10.1056/NEJMoa2001017
- Cui J, Li F, Shi ZL. Origin and evolution of pathogenic coronaviruses. Nat Rev Microbiol 2019;17:181-192. https://doi.org/10.1038/s41579-018-0118-9
- Hu B, Guo H, Zhou P, Shi ZL. Characteristics of SARS-CoV-2 and COVID-19. Nat Rev Microbiol 2021;19:141-154. https://doi.org/10.1038/s41579-020-00459-7
- Dong W, Mead H, Tian L, Park JG, Garcia JI, Jaramillo S, Barr T, Kollath DS, Coyne VK, Stone NE, et al. The k18-human ace2 transgenic mouse model recapitulates non-severe and severe covid-19 in response to an infectious dose of the SARS-CoV-2 virus. J Virol 2022;96:e0096421.
- Hijano DR, Brazelton de Cardenas J, Maron G, Garner CD, Ferrolino JA, Dallas RH, Gu Z, Hayden RT. Clinical correlation of influenza and respiratory syncytial virus load measured by digital PCR. PLoS One 2019;14:e0220908.
- Chu CM, Poon LL, Cheng VC, Chan KS, Hung IF, Wong MM, Chan KH, Leung WS, Tang BS, Chan VL, et al. Initial viral load and the outcomes of SARS. CMAJ 2004;171:1349-1352. https://doi.org/10.1503/cmaj.1040398
- Xu T, Chen C, Zhu Z, Cui M, Chen C, Dai H, Xue Y. Clinical features and dynamics of viral load in imported and non-imported patients with COVID-19. Int J Infect Dis 2020;94:68-71. https://doi.org/10.1016/j.ijid.2020.03.022
- To KK, Tsang OT, Leung WS, Tam AR, Wu TC, Lung DC, Yip CC, Cai JP, Chan JM, Chik TS, et al. Temporal profiles of viral load in posterior oropharyngeal saliva samples and serum antibody responses during infection by SARS-CoV-2: an observational cohort study. Lancet Infect Dis 2020;20:565-574. https://doi.org/10.1016/S1473-3099(20)30196-1
- Dabisch PA, Biryukov J, Beck K, Boydston JA, Sanjak JS, Herzog A, Green B, Williams G, Yeager J, Bohannon JK, et al. Seroconversion and fever are dose-dependent in a nonhuman primate model of inhalational COVID-19. PLoS Pathog 2021;17:e1009865.
- Ryan KA, Bewley KR, Fotheringham SA, Slack GS, Brown P, Hall Y, Wand NI, Marriott AC, Cavell BE, Tree JA, et al. Dose-dependent response to infection with SARS-CoV-2 in the ferret model and evidence of protective immunity. Nat Commun 2021;12:81.
- McCray PB Jr, Pewe L, Wohlford-Lenane C, Hickey M, Manzel L, Shi L, Netland J, Jia HP, Halabi C, Sigmund CD, et al. Lethal infection of K18-hACE2 mice infected with severe acute respiratory syndrome coronavirus. J Virol 2007;81:813-821. https://doi.org/10.1128/JVI.02012-06
- Winkler ES, Bailey AL, Kafai NM, Nair S, McCune BT, Yu J, Fox JM, Chen RE, Earnest JT, Keeler SP, et al. SARS-CoV-2 infection of human ACE2-transgenic mice causes severe lung inflammation and impaired function. Nat Immunol 2020;21:1327-1335. https://doi.org/10.1038/s41590-020-0778-2
- Moreau GB, Burgess SL, Sturek JM, Donlan AN, Petri WA, Mann BJ. Evaluation of K18- hACE2 mice as a model of SARS-CoV-2 infection. Am J Trop Med Hyg 2020;103:1215-1219. https://doi.org/10.4269/ajtmh.20-0762
- Yinda CK, Port JR, Bushmaker T, Offei Owusu I, Purushotham JN, Avanzato VA, Fischer RJ, Schulz JE, Holbrook MG, Hebner MJ, et al. K18-hACE2 mice develop respiratory disease resembling severe COVID-19. PLoS Pathog 2021;17:e1009195.
- Yu G, Wang LG, Han Y, He QY. clusterProfiler: an R package for comparing biological themes among gene clusters. OMICS 2012;16:284-287. https://doi.org/10.1089/omi.2011.0118
- Sturm G, Finotello F, List M. Immunedeconv: an R package for unified access to computational methods for estimating immune cell fractions from bulk RNA-sequencing data. Methods Mol Biol 2020;2120:223-232. https://doi.org/10.1007/978-1-0716-0327-7_16
- Bizzotto J, Sanchis P, Abbate M, Lage-Vickers S, Lavignolle R, Toro A, Olszevicki S, Sabater A, Cascardo F, Vazquez E, et al. SARS-CoV-2 infection boosts MX1 antiviral effector in COVID-19 patients. iScience 2020;23:101585.
- Gusev E, Sarapultsev A, Solomatina L, Chereshnev V. SARS-CoV-2-specific immune response and the pathogenesis of COVID-19. Int J Mol Sci 2022;23:1716.
- Wu D, Zhang R, Datta S. Unraveling T cell responses for long term protection of SARS-CoV-2 infection. Front Genet 2022;13:871164.
- Rha MS, Jeong HW, Ko JH, Choi SJ, Seo IH, Lee JS, Sa M, Kim AR, Joo EJ, Ahn JY, et al. PD-1-expressing SARS-CoV-2-specific CD8+ T cells are not exhausted, but functional in patients with COVID-19. Immunity 2021;54:44-52.e3. https://doi.org/10.1016/j.immuni.2020.12.002
- Kared H, Redd AD, Bloch EM, Bonny TS, Sumatoh H, Kairi F, Carbajo D, Abel B, Newell EW, Bettinotti MP, et al. SARS-CoV-2-specific CD8+ T cell responses in convalescent COVID-19 individuals. J Clin Invest 2021;131:e145476.
- Takata H, Naruto T, Takiguchi M. Functional heterogeneity of human effector CD8+ T cells. Blood 2012;119:1390-1398. https://doi.org/10.1182/blood-2011-03-343251
- Yamagata T, Benoist C, Mathis D. A shared gene-expression signature in innate-like lymphocytes. Immunol Rev 2006;210:52-66. https://doi.org/10.1111/j.0105-2896.2006.00371.x
- Iwata-Yoshikawa N, Uda A, Suzuki T, Tsunetsugu-Yokota Y, Sato Y, Morikawa S, Tashiro M, Sata T, Hasegawa H, Nagata N. Effects of Toll-like receptor stimulation on eosinophilic infiltration in lungs of BALB/c mice immunized with UV-inactivated severe acute respiratory syndrome-related coronavirus vaccine. J Virol 2014;88:8597-8614. https://doi.org/10.1128/JVI.00983-14
- An D, Li K, Rowe DK, Diaz MC, Griffin EF, Beavis AC, Johnson SK, Padykula I, Jones CA, Briggs K, et al. Protection of K18-hACE2 mice and ferrets against SARS-CoV-2 challenge by a single-dose mucosal immunization with a parainfluenza virus 5-based COVID-19 vaccine. Sci Adv 2021;7:eabi5246.
- Hama Amin BJ, Kakamad FH, Ahmed GS, Ahmed SF, Abdulla BA, Mohammed SH, Mikael TM, Salih RQ, Ali RK, Salh AM, et al. Post COVID-19 pulmonary fibrosis; a meta-analysis study. Ann Med Surg (Lond) 2022;77:103590.
- Han X, Fan Y, Alwalid O, Li N, Jia X, Yuan M, Li Y, Cao Y, Gu J, Wu H, et al. Six-month follow-up chest CT findings after severe COVID-19 pneumonia. Radiology 2021;299:E177-E186. https://doi.org/10.1148/radiol.2021203153
- Huang WJ, Tang XX. Virus infection induced pulmonary fibrosis. J Transl Med 2021;19:496.
- Fernandez IE, Eickelberg O. New cellular and molecular mechanisms of lung injury and fibrosis in idiopathic pulmonary fibrosis. Lancet 2012;380:680-688. https://doi.org/10.1016/S0140-6736(12)61144-1
- Velardi E, Tsai JJ, van den Brink MR. T cell regeneration after immunological injury. Nat Rev Immunol 2021;21:277-291. https://doi.org/10.1038/s41568-021-00349-x
- D'Abramo A, Vita S, Maffongelli G, Mariano A, Agrati C, Castilletti C, Goletti D, Ippolito G, Nicastri E; Spallanzani COVID-19 Case Investigation Team. Prolonged and severe SARS-CoV-2 infection in patients under B-cell-depleting drug successfully treated: a tailored approach. Int J Infect Dis 2021;107:247-250. https://doi.org/10.1016/j.ijid.2021.04.068