Transcriptomic analysis of COVID‑19 lungs and bronchoalveolar lavage fluid samples reveals predominant B cell activation responses to infection
- Authors:
- Eugenio Cavalli
- Maria Cristina Petralia
- Maria Sofia Basile
- Alessia Bramanti
- Placido Bramanti
- Ferdinando Nicoletti
- Demetrios A. Spandidos
- Yehuda Shoenfeld
- Paolo Fagone
-
Affiliations: Department of Biomedical and Biotechnological Sciences, University of Catania, I‑95123 Catania, Italy, IRCCS (Scientific Institute for Research, Hospitalization and Healthcare) Centro Neurolesi ‘Bonino‑Pulejo’, I‑98124 Messina, Italy, Laboratory of Clinical Virology, Medical School, University of Crete, 71003 Heraklion, Greece, Zabludowicz Center for Autoimmune Diseases, Sheba Medical Center (Affiliated to Tel‑Aviv University), Tel-Hashomer 5265601, Israel - Published online on: August 12, 2020 https://doi.org/10.3892/ijmm.2020.4702
- Pages: 1266-1273
-
Copyright: © Cavalli et al. This is an open access article distributed under the terms of Creative Commons Attribution License.
This article is mentioned in:
Abstract
Zhu N, Zhang D, Wang W, Li X, Yang B, Song J, Zhao X, Huang B, Shi W, Lu R, et al: China Novel Coronavirus Investigating and Research Team: A Novel Coronavirus from Patients with Pneumonia in China, 2019. N Engl J Med. 382:727–733. 2020. View Article : Google Scholar : PubMed/NCBI | |
Xu J, Zhao S, Teng T, Abdalla AE, Zhu W, Xie L, Wang Y and Guo X: Systematic comparison of two animal-to-human trans-mitted human Coronaviruses: SARS-CoV-2 and SARS-CoV. Viruses. 12:122020. View Article : Google Scholar | |
Cucinotta D and Vanelli M: WHO Declares COVID-19 a Pandemic. Acta Biomed. 91:157–160. 2020.PubMed/NCBI | |
Chen L, Jin Q, Zhou Y, Yang J, Wang Z, Ge K, Yang J and Wang H: Clinical characteristics of 2019 novel coronavirus pneumonia in Zhejiang province, China. Mol Med Rep. 22:2583–2587. 2020. View Article : Google Scholar : PubMed/NCBI | |
Kanduc D and Shoenfeld Y: On the molecular determinants of the SARS-CoV-2 attack. Clin Immunol. 215:1084262020. View Article : Google Scholar : PubMed/NCBI | |
He J, Guo Y, Mao R and Zhang J: Proportion of asymptomatic coronavirus disease 2019 (COVID-19): A systematic review and meta-analysis. J Med Virol. jmv263262020. View Article : Google Scholar | |
Chen N, Zhou M, Dong X, Qu J, Gong F, Han Y, Qiu Y, Wang J, Liu Y, Wei Y, et al: Epidemiological and clinical characteristics of 99 cases of 2019 novel coronavirus pneumonia in Wuhan, China: A descriptive study. Lancet. 395:507–513. 2020. View Article : Google Scholar : PubMed/NCBI | |
Docea AO, Tsatsakis A, Albulescu D, Cristea O, Zlatian O, Vinceti M, Moschos SA, Tsoukalas D, Goumenou M, Drakoulis N, et al: A new threat from an old enemy: Re-emergence of coronavirus (Review). Int J Mol Med. 45:1631–1643. 2020.PubMed/NCBI | |
Kostoff RN, Briggs MB, Porter AL, Aschner M, Spandidos DA and Tsatsakis A: [Editorial] COVID-19: Post-lockdown guidelines. Int J Mol Med. 46:463–466. 2020. View Article : Google Scholar : PubMed/NCBI | |
Shoenfeld Y: Corona (COVID-19) time musings: Our involvement in COVID-19 pathogenesis, diagnosis, treatment and vaccine planning. Autoimmun Rev. 19:1025382020. View Article : Google Scholar : PubMed/NCBI | |
Mehta P, McAuley DF, Brown M, Sanchez E and Tattersall RS: COVID-19: Consider cytokine storm syndromes and immuno-suppression. Lancet. 395:1033–1034. 2020. View Article : Google Scholar : PubMed/NCBI | |
Stancioiu F, Papadakis GZ, Kteniadakis S, Izotov BN, Coleman MD, Spandidos DA and Tsatsakis A: A dissection of SARS-CoV-2 with clinical implications (Review). Int J Mol Med. 46:489–508. 2020. View Article : Google Scholar : PubMed/NCBI | |
Kerslake R, Hall M, Randeva HS, Spandidos DA, Chatha K, Kyrou I and Karteris E: Co-expression of peripheral olfactory receptors with SARS-CoV-2 infection mediators: Potential implications beyond loss of smell as a COVID-19 symptom. Int J Mol Med. 46:949–956. 2020. View Article : Google Scholar : PubMed/NCBI | |
Tang N, Li D, Wang X and Sun Z: Abnormal coagulation parameters are associated with poor prognosis in patients with novel coronavirus pneumonia. J Thromb Haemost. 18:844–847. 2020. View Article : Google Scholar : PubMed/NCBI | |
Ruscitti P, Berardicurti O, Di Benedetto P, Cipriani P, Iagnocco A, Shoenfeld Y and Giacomelli R: Severe COVID-19, Another Piece in the Puzzle of the Hyperferritinemic Syndrome. An Immunomodulatory Perspective to Alleviate the Storm. Front Immunol. 11:11302020. View Article : Google Scholar : PubMed/NCBI | |
Perricone C, Bartoloni E, Bursi R, Cafaro G, Guidelli GM, Shoenfeld Y and Gerli R: COVID-19 as part of the hyperferritinemic syndromes: The role of iron depletion therapy. Immunol Res. 68:213–224. 2020. View Article : Google Scholar : PubMed/NCBI | |
Blanco-Melo D, Nilsson-Payant BE, Liu WC, Møller R, Panis M, Sachs D and Albrecht RA: tenOever BR:SARS-CoV-2 launches a unique transcriptional signature from in vitro, ex vivo, and in vivo systems. bioRxiv: https://doi.org/10.1101/2020.03.24.004655. | |
Fagone P, Ciurleo R, Lombardo SD, Iacobello C, Palermo CI, Shoenfeld Y, Bendtzen K, Bramanti P and Nicoletti F: Transcriptional landscape of SARS-CoV-2 infection dismantles pathogenic pathways activated by the virus, proposes unique sex-specific differences and predicts tailored therapeutic strategies. Autoimmun Rev. 19:1025712020. View Article : Google Scholar : PubMed/NCBI | |
Zhou Y, Zhou B, Pache L, Chang M, Khodabakhshi AH, Tanaseichuk O, Benner C and Chanda SK: Metascape provides a biologist-oriented resource for the analysis of systems-level datasets. Nat Commun. 10:15232019. View Article : Google Scholar : PubMed/NCBI | |
Aran D, Hu Z and Butte AJ: xCell: Digitally portraying the tissue cellular heterogeneity landscape. Genome Biol. 18:2202017. View Article : Google Scholar : PubMed/NCBI | |
Cheng Y, Luo R, Wang K, Zhang M, Wang Z, Dong L, Li J, Yao Y, Ge S and Xu G: Kidney disease is associated with in-hospital death of patients with COVID-19. Kidney Int. 97:829–838. 2020. View Article : Google Scholar : PubMed/NCBI | |
Wu Y, Xu X, Chen Z, Duan J, Hashimoto K, Yang L, Liu C and Yang C: Nervous system involvement after infection with COVID-19 and other coronaviruses. Brain Behav Immun. 87:18–22. 2020. View Article : Google Scholar : PubMed/NCBI | |
Han H, Yang L, Liu R, Liu F, Wu KL, Li J, Liu XH and Zhu CL: Prominent changes in blood coagulation of patients with SARS-CoV-2 infection. Clin Chem Lab Med. 58:1116–1120. 2020. View Article : Google Scholar : PubMed/NCBI | |
Cavalli E, Bramanti A, Ciurleo R, Tchorbanov AI, Giordano A, Fagone P, Belizna C, Bramanti P, Shoenfeld Y and Nicoletti F: Entangling COVID-19 associated thrombosis into a secondary antiphospholipid antibody syndrome: Diagnostic and therapeutic perspectives (Review). Int J Mol Med. 46:903–912. 2020. View Article : Google Scholar : PubMed/NCBI | |
Ehrenfeld M, Tincani A, Andreoli L, Cattalini M, Greenbaum A, Kanduc D, Alijotas-Reig J, Zinserling V, Semenova N, Amital H, et al: Covid-19 and autoimmunity. Autoimmun Rev. 19:1025972020. View Article : Google Scholar : PubMed/NCBI | |
Zhang Y, Xiao M, Zhang S, Xia P, Cao W, Jiang W, Chen H, Ding X, Zhao H, Zhang H, et al: Coagulopathy and antiphos-pholipid antibodies in patients with Covid-19. N Engl J Med. 382:e382020. View Article : Google Scholar | |
Beyrouti R, Adams ME, Benjamin L, Cohen H, Farmer SF, Goh YY, Humphries F, Jäger HR, Losseff NA, Perry RJ, et al: Characteristics of ischaemic stroke associated with COVID-19. J Neurol Neurosurg Psychiatry. 91:889–891. 2020. View Article : Google Scholar : PubMed/NCBI | |
Harzallah I, Debliquis A and Drenou B: Lupus anticoagulant is frequent in patients with Covid-19. J Thromb Haemost. 18:2064–2065. 2020. View Article : Google Scholar : PubMed/NCBI | |
Zayet S, Klopfenstein T, Kovacs R, Stancescu S and Hagenkötter B: Acute cerebral stroke with multiple infarctions and COVID-19, France, 2020. Emerg Infect Dis. 26:262020. View Article : Google Scholar | |
Helms J, Tacquard C, Severac F, Leonard-Lorant I, Ohana M, Delabranche X, Merdji H, Clere-Jehl R, Schenck M, Fagot Gandet F, et al: CRICS TRIGGERSEP Group (Clinical Research in Intensive Care and Sepsis Trial Group for Global Evaluation and Research in Sepsis): High risk of thrombosis in patients with severe SARS-CoV-2 infection: A multicenter prospective cohort study. Intensive Care Med. 46:1089–1098. 2020. View Article : Google Scholar : PubMed/NCBI | |
Sieiro Santos C, Nogal Arias C, Moriano Morales C, Ballesteros Pomar M, Diez Alvarez E and Perez Sandoval T: Antiphospholipid antibodies in patient with acute lower member ischemia and pulmonary thromboembolism as a result of infection by SARS-CoV2. Clin Rheumatol. 39:2105–2106. 2020. View Article : Google Scholar : PubMed/NCBI | |
Fagone P, Mangano K, Quattrocchi C, Motterlini R, Di Marco R, Magro G, Penacho N, Romao CC and Nicoletti F: Prevention of clinical and histological signs of proteolipid protein (PLP)-induced experimental allergic encephalomyelitis (EAE) in mice by the water-soluble carbon monoxide-releasing molecule (CORM)-A1. Clin Exp Immunol. 163:368–374. 2011. View Article : Google Scholar : PubMed/NCBI | |
Fagone P, Mangano K, Coco M, Perciavalle V, Garotta G, Romao CC and Nicoletti F: Therapeutic potential of carbon monoxide in multiple sclerosis. Clin Exp Immunol. 167:179–187. 2012. View Article : Google Scholar : PubMed/NCBI | |
Cavalli E, Mazzon E, Basile MS, Mangano K, Di Marco R, Bramanti P, Nicoletti F, Fagone P and Petralia MC: Upregulated expression of macrophage migration inhibitory factor, its analogue D-Dopachrome Tautomerase, and the CD44 receptor in peripheral CD4 T cells from clinically isolated syndrome patients with rapid conversion to clinical defined multiple sclerosis. Medicina (Kaunas). 55:6672019. View Article : Google Scholar | |
Rothweiler F, Michaelis M, Brauer P, Otte J, Weber K, Fehse B, Doerr HW, Wiese M, Kreuter J, Al-Abed Y, et al: Anticancer effects of the nitric oxide-modified saquinavir derivative saquinavir-NO against multidrug-resistant cancer cells. Neoplasia. 12:1023–1030. 2010. View Article : Google Scholar : PubMed/NCBI | |
Nicoletti F, Fagone P, Meroni P, McCubrey J and Bendtzen K: mTOR as a multifunctional therapeutic target in HIV infection. Drug Discov Today. 16:715–721. 2011. View Article : Google Scholar : PubMed/NCBI | |
Lombardo SD, Mazzon E, Basile MS, Cavalli E, Bramanti P, Nania R, Fagone P, Nicoletti F and Petralia MC: Upregulation of IL-1 receptor antagonist in a mouse model of migraine. Brain Sci. 9:1722019. View Article : Google Scholar : | |
Petralia MC, Mazzon E, Fagone P, Falzone L, Bramanti P, Nicoletti F and Basile MS: Retrospective follow-up analysis of the transcriptomic patterns of cytokines, cytokine receptors and chemokines at preconception and during pregnancy, in women with post-partum depression. Exp Ther Med. 18:2055–2062. 2019.PubMed/NCBI | |
Lombardo SD, Mazzon E, Mangano K, Basile MS, Cavalli E, Mammana S, Fagone P, Nicoletti F and Petralia MC: Transcriptomic analysis reveals involvement of the macrophage migration inhibitory factor gene network in Duchenne Muscular Dystrophy. Genes (Basel). 10. pp. 9392019, View Article : Google Scholar | |
Kosiewicz MM, Auci DL, Fagone P, Mangano K, Caponnetto S, Tucker CF, Azeem N, White SK, Frincke JM, Reading CL, et al: HE3286, an orally bioavailable synthetic analogue of an active DHEA metabolite suppresses spontaneous autoimmune diabetes in the non-obese diabetic (NOD) mouse. Eur J Pharmacol. 658:257–262. 2011. View Article : Google Scholar : PubMed/NCBI | |
Lombardo SD, Presti M, Mangano K, Petralia MC, Basile MS, Libra M, Candido S, Fagone P, Mazzon E, Nicoletti F, et al: Prediction of PD-L1 expression in neuroblastoma via computational modeling. Brain Sci. 9:2212019. View Article : Google Scholar : | |
Basile MS, Mazzon E, Russo A, Mammana S, Longo A, Bonfiglio V, Fallico M, Caltabiano R, Fagone P, Nicoletti F, et al: Differential modulation and prognostic values of immuneescape genes in uveal melanoma. PLoS One. 14:e02102762019. View Article : Google Scholar | |
Vabret N, Britton GJ, Gruber C, Hegde S, Kim J, Kuksin M, Levantovsky R, Malle L, Moreira A, Park MD, et al: Sinai Immunology Review Project: Immunology of COVID-19: Current State of the Science. Immunity. 52:910–941. 2020. View Article : Google Scholar : PubMed/NCBI | |
Bao L, Deng W, Gao H, Xiao C, Liu J, Xue J, Lv Q, Liu J, Yu P, Xu Y, et al: Reinfection could not occur in SARS-CoV-2 infected rhesus macaques. bioRxiv: https://doi.org/10.1101/2020.03.13990226. | |
Okba NMA, Müller MA, Li W, Wang C, Geurts van Kessel CH, Corman VM, Lamers MM, Sikkema RS, de Bruin E, Chandler FD, et al: Severe acute respiratory syndrome coronavirus 2-specific antibody responses in coronavirus disease patients. Emerg Infect Dis. 26:1478–1488. 2020. View Article : Google Scholar : PubMed/NCBI | |
Zhao J, Yuan Q, Wang H, Liu W, Liao X, Su Y, Wang X, Yuan J, Li T, Li J, et al: Antibody responses to SARS-CoV-2 in patients of novel coronavirus disease 2019. Clin Infect Dis. March 28–2020.Epub ahead of print. View Article : Google Scholar | |
Zhou F, Yu T, Du R, Fan G, Liu Y, Liu Z, Xiang J, Wang Y, Song B, Gu X, et al: Clinical course and risk factors for mortality of adult inpatients with COVID-19 in Wuhan, China: A retro-spective cohort study. Lancet. 395:1054–1062. 2020. View Article : Google Scholar : PubMed/NCBI | |
Tetro JA: Is COVID-19 receiving ADE from other coronaviruses? Microbes Infect. 22:72–73. 2020. View Article : Google Scholar : PubMed/NCBI | |
Cao X: COVID-19: Immunopathology and its implications for therapy. Nat Rev Immunol. 20:269–270. 2020. View Article : Google Scholar : PubMed/NCBI | |
Iwasaki A and Yang Y: The potential danger of suboptimal antibody responses in COVID-19. Nat Rev Immunol. 20:339–341. 2020. View Article : Google Scholar : PubMed/NCBI | |
Huang A, Garcia-Carreras B, Hitchings M, Yang B, Katzelnick LC, Rattigan SM, Borgert BA, Moreno CA, Solomon BD, Rodriguez-Barraquer I, et al: A systematic review of antibody mediated immunity to coronaviruses: antibody kinetics, correlates of protection, and association of antibody responses with severity of disease. medRxiv. View Article : Google Scholar | |
Zheng Y, Li R and Liu S: Immunoregulation with mTOR inhibitors to prevent COVID-19 severity: A novel intervention strategy beyond vaccines and specific antiviral medicines. J Med Virol. May 22–2020.Epub ahead of print. | |
Raybuck AL, Cho SH, Li J, Rogers MC, Lee K, Williams CL, Shlomchik M, Thomas JW, Chen J, Williams JV, et al: B cell-intrinsic mTORC1 promotes germinal center-defining transcription factor gene expression, somatic hypermutation, and memory B cell generation in humoral immunity. J Immunol. 200:2627–2639. 2018. View Article : Google Scholar : PubMed/NCBI | |
Kindrachuk J, Ork B, Hart BJ, Mazur S, Holbrook MR, Frieman MB, Traynor D, Johnson RF, Dyall J, Kuhn JH, et al: Antiviral potential of ERK/MAPK and PI3K/AKT/mTOR signaling modulation for Middle East respiratory syndrome coronavirus infection as identified by temporal kinome analysis. Antimicrob Agents Chemother. 59:1088–1099. 2015. View Article : Google Scholar : | |
Kuss-Duerkop SK, Wang J, Mena I, White K, Metreveli G, Sakthivel R, Mata MA, Muñoz-Moreno R, Chen X, Krammer F, et al: Influenza virus differentially activates mTORC1 and mTORC2 signaling to maximize late stage replication. PLoS Pathog. 13:e10066352017. View Article : Google Scholar : PubMed/NCBI | |
Nicoletti F, Lapenta C, Donati S, Spada M, Ranazzi A, Cacopardo B, Mangano K, Belardelli F, Perno C and Aquaro S: Inhibition of human immunodeficiency virus (HIV-1) infection in human peripheral blood leucocytes - SCID reconstituted mice by rapamycin. Clin Exp Immunol. 155:28–34. 2009. View Article : Google Scholar : | |
Donia M, McCubrey JA, Bendtzen K and Nicoletti F: Potential use of rapamycin in HIV infection. Br J Clin Pharmacol. 70:784–793. 2010. View Article : Google Scholar : PubMed/NCBI | |
Wang CH, Chung FT, Lin SM, Huang SY, Chou CL, Lee KY, Lin TY and Kuo HP: Adjuvant treatment with a mammalian target of rapamycin inhibitor, sirolimus, and steroids improves outcomes in patients with severe H1N1 pneumonia and acute respiratory failure. Crit Care Med. 42:313–321. 2014. View Article : Google Scholar | |
Cai H: Sex difference and smoking predisposition in patients with COVID-19. Lancet Respir Med. 8:e202020. View Article : Google Scholar : PubMed/NCBI | |
Li L, Huang T and Wang Y, Wang ZP, Liang Y, Huang TB, Zhang HY, Sun W and Wang Y: COVID-19 patients' clinical characteristics, discharge rate, and fatality rate of meta-analysis. J Med Virol. 92:577–583. 2020. View Article : Google Scholar : PubMed/NCBI | |
Lai JJ, Lai KP, Zeng W, Chuang KH, Altuwaijri S and Chang C: Androgen receptor influences on body defense system via modulation of innate and adaptive immune systems: Lessons from conditional AR knockout mice. Am J Pathol. 181:1504–1512. 2012. View Article : Google Scholar : PubMed/NCBI | |
Gubbels Bupp MR and Jorgensen TN: Androgen-induced immunosuppression. Front Immunol. 9:7942018. View Article : Google Scholar : PubMed/NCBI | |
Kovats S: Estrogen receptors regulate innate immune cells and signaling pathways. Cell Immunol. 294:63–69. 2015. View Article : Google Scholar : PubMed/NCBI | |
Zhou Y, Hou Y, Shen J, Huang Y, Martin W and Cheng F: Network-based drug repurposing for novel coronavirus 2019-nCoV/SARS-CoV-2. Cell Discov. 6:142020. View Article : Google Scholar : PubMed/NCBI |