Comparative Transcriptomic and Molecular Pathway Analyses of HL-CZ Human Pro-Monocytic Cells Expressing SARS-CoV-2 Spike S1, S2, NP, NSP15 and NSP16 Genes

The ongoing COVID-19 pandemic is a clear and present threat to global public health. Research into how the causative SARS-CoV-2 virus together with its individual constituent genes and proteins interact with target host cells can facilitate the development of improved strategies to manage the acute...

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Published in:	Microorganisms (Basel) Vol. 9; no. 6; p. 1193
Main Authors:	Sharma, Anshika, Ong, Joe W., Loke, Mun Fai, Chua, Eng Guan, Lee, Joseph J., Choi, Hyung Won, Tan, Yee Joo, Lal, Sunil K., Chow, Vincent T.
Format:	Journal Article
Language:	English
Published:	Basel MDPI AG 31-05-2021 MDPI
Subjects:	1-Phosphatidylinositol 3-kinase Adenosylmethionine Antigen presentation Antigen processing Antigens Bioinformatics Coronaviruses COVID-19 Cytokines Degranulation Disease transmission Down-regulation Endoplasmic reticulum endoribonuclease (NSP15) Gene expression Gene regulation Gene sequencing Gene set enrichment analysis Genes Genomes Heat shock proteins Insulin Interferon Kinases Leukocytes (neutrophilic) Monocytes Nervous system Neurodegeneration Neurogenesis Nucleocapsid (NP) Nucleocapsids Oxidative phosphorylation Pandemics Pathogenesis Phosphorylation Plasmids Polyclonal antibodies Proteins Public health Ribose RNA-sequencing S-Adenosylmethionine SARS-CoV-2 Severe acute respiratory syndrome coronavirus 2 Signal transduction Signaling Spike S1 Spike S2 Spikes Transcriptomics Transfection Viral diseases Viral infections Viruses γ-Interferon Beijing China United States > US China
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Summary:	The ongoing COVID-19 pandemic is a clear and present threat to global public health. Research into how the causative SARS-CoV-2 virus together with its individual constituent genes and proteins interact with target host cells can facilitate the development of improved strategies to manage the acute and long-term complications of COVID-19. In this study, to better understand the biological roles of critical SARS-CoV-2 proteins, we determined and compared the host transcriptomic responses of the HL-CZ human pro-monocytic cell line upon transfection with key viral genes encoding the spike S1 subunit, S2 subunit, nucleocapsid protein (NP), NSP15 (endoribonuclease), and NSP16 (2′-O-ribose-methyltransferase). RNA sequencing followed by gene set enrichment analysis and other bioinformatics tools revealed that host genes associated with topologically incorrect protein, virus receptor activity, heat shock protein binding, endoplasmic reticulum stress, antigen processing and presentation were up-regulated in the presence of viral spike S1 expression. With spike S2 expression, pro-monocytic genes associated with the interferon-gamma-mediated signaling pathway, regulation of phosphatidylinositol 3-kinase activity, adipocytokine signaling pathway, and insulin signaling pathway were down-regulated, whereas those associated with cytokine-mediated signaling were up-regulated. The expression of NSP15 induced the up-regulation of genes associated with neutrophil degranulation, neutrophil-mediated immunity, oxidative phosphorylation, prion disease, and pathways of neurodegeneration. The expression of NSP16 resulted in the down-regulation of genes associated with S-adenosylmethionine-dependent methyltransferase activity. The expression of NP down-regulated genes associated with positive regulation of neurogenesis, nervous system development, and heart development. Taken together, the complex transcriptomic alterations arising from these viral-host gene interactions offer useful insights into host genes and their pathways that potentially contribute to SARS-CoV-2 pathogenesis.
Bibliography:	ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 23
ISSN:	2076-2607 2076-2607
DOI:	10.3390/microorganisms9061193