Comprehensive analysis of RNA-seq and whole genome sequencing data reveals no evidence for SARS-CoV-2 integrating into host genome

Yu-Sheng Chen; Shuaiyao Lu; Bing Zhang; Tingfu Du; Wen-Jie Li; Meng Lei; Yanan Zhou; Yong Zhang; Penghui Liu; Yong-Qiao Sun; Yong-Liang Zhao; Ying Yang; Xiaozhong Peng; Yun-Gui Yang

doi:10.1007/s13238-021-00861-8

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Protein Cell ›› 2022, Vol. 13 ›› Issue (5) : 379-385. DOI: 10.1007/s13238-021-00861-8

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Comprehensive analysis of RNA-seq and whole genome sequencing data reveals no evidence for SARS-CoV-2 integrating into host genome

Yu-Sheng Chen¹^,²^,⁴ ,
Shuaiyao Lu³ ,
Bing Zhang¹^,² ,
Tingfu Du³ ,
Wen-Jie Li¹^,² ,
Meng Lei¹^,² ,
Yanan Zhou³ ,
Yong Zhang³ ,
Penghui Liu³ ,
Yong-Qiao Sun¹^,² ,
Yong-Liang Zhao¹^,²^,⁵ ,
Ying Yang¹^,²^,⁴^,⁵ ,
Xiaozhong Peng³^,⁶ ,
Yun-Gui Yang¹^,²^,⁴^,⁵

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Yu-Sheng Chen, Shuaiyao Lu, Bing Zhang, Tingfu Du, Wen-Jie Li, Meng Lei, Yanan Zhou, Yong Zhang, Penghui Liu, Yong-Qiao Sun, Yong-Liang Zhao, Ying Yang, Xiaozhong Peng, Yun-Gui Yang. Comprehensive analysis of RNA-seq and whole genome sequencing data reveals no evidence for SARS-CoV-2 integrating into host genome. Protein Cell, 2022, 13(5): 379‒385 https://doi.org/10.1007/s13238-021-00861-8

References

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[1]	Baltimore D(1971) Expression of animal virus genomes. Bacteriol Rev 35:235–241 CrossRef Google scholar

[2]	Geis FK, Goff SP(2020) Silencing and transcriptional regulation of endogenous retroviruses: an overview. Viruses. https://doi.org/10.3390/v12080884 CrossRef Google scholar

[3]	Grandgenett DP, Aihara H(2018) Oligomerization of Retrovirus Integrases. Subcell Biochem 88:211–243 CrossRef Google scholar

[4]	Horie M, Tomonaga K(2011) Non-retroviral fossils in vertebrate genomes. Viruses 3:1836–1848 CrossRef Google scholar

[5]	Smits N, Rasmussen J, Bodea GO, Amarilla AA, Gerdes P, Sanchez-Luque FJ, Ajjikuttira P, Modhiran N, Liang B, Faivre J(2021) No evidence of human genome integration of SARSCoV-2 found by long-read DNA sequencing. Cell Rep. https://doi.org/10.1016/j.celrep.2021.109530 CrossRef Google scholar

[6]	Sultana T, Zamborlini A, Cristofari G, Lesage P(2017) Integration site selection by retroviruses and transposable elements in eukaryotes. Nat Rev Genet 18:292–308 CrossRef Google scholar

[7]	V’Kovski P, Kratzel A, Steiner S, Stalder H, Thiel V(2021) Coronavirus biology and replication: implications for SARSCoV-2. Nat Rev Microbiol 19:155–170 CrossRef Google scholar

[8]	Xia S, Zhang Y, Wang Y, Wang H, Yang Y, Gao GF, Tan W, Wu G, Xu M, Lou Z(2021) Safety and immunogenicity of an inactivated SARS-CoV-2 vaccine, BBIBP-CorV: a randomised, double-blind, placebo-controlled, phase 1/2 trial. Lancet Infect Dis 21:39–51 CrossRef Google scholar

[9]	Yan B, Chakravorty S, Mirabelli C, Wang L, Trujillo-Ochoa JL, Chauss D, Kumar D, Lionakis MS, Olson MR, Wobus CE(2021) Host-virus chimeric events in SARS-CoV2 infected cells are infrequent and artifactual. J Virol. https://doi.org/10.1128/JVI.00294-21 CrossRef Google scholar

[10]	Yin Y, Liu XZ, He X, Zhou LQ(2021) Exogenous coronavirus interacts with endogenous retrotransposon in human cells. Front Cell Infect Microbiol 11: CrossRef Google scholar

[11]	Zhang L, Richards A, Barrasa MI, Hughes SH, Young RA, Jaenisch R(2021) Reverse-transcribed SARS-CoV-2 RNA can integrate into the genome of cultured human cells and can be expressed in patient-derived tissues. Proc Natl Acad Sci USA 118: CrossRef Google scholar

[12]	Zhou F, Yu T, Du R, Fan G, Liu Y, Liu Z, Xiang J, Wang Y, Song B, Gu X(2020a) Clinical course and risk factors for mortality of adult inpatients with COVID-19 in Wuhan, China: a retrospective cohort study. Lancet 395:1054–1062 CrossRef Google scholar

[13]	Zhou P, Yang XL, Wang XG, Hu B, Zhang L, Zhang W, Si HR, Zhu Y, Li B, Huang CL(2020b) A pneumonia outbreak associated with a new coronavirus of probable bat origin. Nature 579:270–273 CrossRef Google scholar

[14]

Zhu FC, Guan XH, Li YH, Huang JY, Jiang T, Hou LH, Li JX, Yang BF, Wang L, Wang WJ(2020a) Immunogenicity and safety of a recombinant adenovirus type-5-vectored COVID-19 vaccine in healthy adults aged 18 years or older: a randomised, doubleblind, placebo-controlled, phase 2 trial. Lancet 396:479–488

CrossRef Google scholar

[15]	Zhu N, Zhang D, Wang W, Li X, Yang B, Song J, Zhao X, Huang B, Shi W, Lu R(2020b) A novel coronavirus from patients with pneumonia in China, 2019. N Engl J Med 382:727–733 CrossRef Google scholar