| Literature DB >> 33035643 |
Mansab Ali Saleemi1, Bilal Ahmad1, Khaled Benchoula2, Muhammad Sufyan Vohra2, Hing Jian Mea1, Pei Pei Chong1, Navindra Kumari Palanisamy3, Eng Hwa Wong4.
Abstract
The emergence of a new coronavirus, in around late December 2019 which had first been reported in Wuhan, China has now developed into a massive threat to global public health. The World Health Organization (WHO) has named the disease caused by the virus as COVID-19 and the virus which is the culprit was renamed from the initial novel respiratory 2019 coronavirus to SARS-CoV-2. The person-to-person transmission of this virus is ongoing despite drastic public health mitigation measures such as social distancing and movement restrictions implemented in most countries. Understanding the source of such an infectious pathogen is crucial to develop a means of avoiding transmission and further to develop therapeutic drugs and vaccines. To identify the etiological source of a novel human pathogen is a dynamic process that needs comprehensive and extensive scientific validations, such as observed in the Middle East respiratory syndrome (MERS), severe acute respiratory syndrome (SARS), and human immunodeficiency virus (HIV) cases. In this context, this review is devoted to understanding the taxonomic characteristics of SARS-CoV-2 and HIV. Herein, we discuss the emergence and molecular mechanisms of both viral infections. Nevertheless, no vaccine or therapeutic drug is yet to be approved for the treatment of SARS-CoV-2, although it is highly likely that new effective medications that target the virus specifically will take years to establish. Therefore, this review reflects the latest repurpose of existing antiviral therapeutic drug choices available to combat SARS-CoV-2.Entities:
Keywords: COVID-19; HIV; Molecular mechanisms; Origin and taxonomy; Potential therapeutics
Mesh:
Substances:
Year: 2020 PMID: 33035643 PMCID: PMC7536551 DOI: 10.1016/j.meegid.2020.104583
Source DB: PubMed Journal: Infect Genet Evol ISSN: 1567-1348 Impact factor: 3.342
Common Characteristics shared across the members of Coronaviridae.
| Characteristics | Description | References |
|---|---|---|
| Virion | Enveloped and perforated with large petal-shaped ‘spiky’ surface projections | ( |
| Nucleocapsid | Helical shaped comprising of the genome and multiple copies of a single phosphoprotein (N) | ( |
| Envelope | Made up of 2 membrane protein Integral Protein M – a 200 to 250 aa triple spanning protein Protein S – a N-glycosylated 1100 to 1600 aa class I fusion protein forming ‘Spikes’ | ( |
| Genome | Linear, unimolecular, positive-sense RNA, 26-32 kb long, capped, polyadenylated and structurally polycistronic | ( |
| Genome organization | Generally, 5’-UTR-replicase-S-M-N-UTR-3′ | ( |
| Replicase gene | Overlapped with ORFs 1a and 1b that codes two huge polyproteins, pp1a and pp1ab that are processed autoproteolytically into 16 non-structural proteins involved in genome transcription and replication. | ( |
| Morphogenesis | Assembly of virion takes place at the smooth intracellular membranes of the endoplasmic reticulum/early Golgi compartments. | ( |
Fig. 1Schematic illustration of the virion morphology of coronavirus (a) and HIV (b).
Fig. 2The general genome structure of Coronaviridae shared across the family, consisting of a positive-sense ssRNA genome of 27–32 kb in size. Starting from the 5′-terminal with approximately two-thirds of the genome encoding for polyprotein, pp1ab, which is cleaved into 16 non-structural proteins that are involved in genome transcription and replication. The 3′-terminal end possesses the primary structural genes encoding for ‘spike’ (S) protein, envelope (E) protein, membrane (M) protein and nucleocapsid (N) protein.
Fig. 3Comparison of various coronavirus members of their respective genera: NL63 associated with lower respiratory tract disease, Rhinolophus bat coronavirus HKU2, Human coronavirus OC43, HKU1 possessing the enzyme haemagglutinin-esterase, severe acute respiratory syndrome coronavirus (SARS-CoV) strain GD02, Bat (SARS)-like Virus KY417151, severe acute respiratory syndrome coronavirus (SARS-CoV-2) isolated from Wuhan in December 2019 Genbank Accession number: MN908947 (Wu et al. 2020), Middle East respiratory syndrome coronavirus (MERS-CoV), Bat coronavirus HKU 14–1, Bat coronavirus HKU9-1, Infectious bronchitis virus (IBV), Beluga whale coronavirus SW1, Bulbul coronavirus HKU11 and Sparrow coronavirus HKU17.
Fig. 4Comparison between various members of the Lentivirus genus reference genome. Human Immunodeficiency Virus 1 (HIV1), Human Immunodeficiency Virus 2 (HIV2), Simian Immunodeficiency Virus (SIV) and Feline Immunodeficiency Virus (FIV).
List of accessory genes within the HIV genome and their associated functions.
| Gene | Primary function | Secondary Function | References |
|---|---|---|---|
| vif | Counteract antiviral effects of host APOBEC3 (A3) innate immune proteins. | Forms dimer with CBFβ to alter gene expression in infected T cells, primarily on RUNX1 binding sites. Remodels cellular phosphor-proteome resulting in more than 200 cellular proteins hyperphosphorylated. | ( |
| vpr | Transactivation of LTR Nuclear import of the preintegration complex Cell cycle arrest and apoptosis. Activation of the DNA damage response. | Increase transcription from HIV-1 LTR. Induces other cellular genes mainly in the interferon-stimulated genes | ( |
| vpu | Promotes viral release from host Remove membrane-bound protein that inhibits viral replication via ubiquitination. | Deregulation of NF-kB pathway via downregulation of BST-2/Tethrerin. | ( |
| nef | Modulate signaling by tyrosine kinases. Modulate host trafficking through binding with clathrin adaptor complexes | Activates NF-kB initiate positive transcription feedback loop for Tat. | ( |
| tat | An HIV transcription factor that supports the generation of full-length viral mRNAs. | Induces transcription and secretion of chemokines which attracts T cells and monocytes increasing infectivity. | ( |
| rev | Directs exports of viral messages that are translated into viral proteins, providing genomic RNA for packaging and budding virion | Indirect regulation of HIV-1 transcription. | ( |
Fig. 5Crosstalk of the infection mechanism and cell death of COVID-19 and HIV.
Fig. 6Chemical structure of (a) chloroquine and (b) remdesivir.
Listed repurposed antiviral drugs in clinical development against COVID-19.
| Drug/cocktail | Mode of action | Status and anti-infective mechanisms | Target diseases | References |
|---|---|---|---|---|
| Chloroquine | 9-aminoquinolin | Status: approved, vet-approved, investigational; Mechanisms: the drug increasing endosomal pH, inhibitors of autophagy, and immunomodulating | Malaria, and autoimmune disease | ( |
| Remdesivir (GS-5734) | The prodrug of Nucleotide analogue | Status: experimental; Mechanisms: the drug interfering with the post-entry of virus | MERS, SARS, and Ebola | ( |
| Lopinavir/ Ritonavir | Protease inhibitors | Status: approved; Mechanisms: inhibiting the protease of HIV-1 for protein cleavage; as a result, immature or non-infectious viral particles | HIV/AIDS, MERS, and SARS | ( |
| Lopinavir/ritonavir, ASC09/ritonavir, with and without umifenovir | Protease inhibitors | Status: experimental, approved; Mechanisms: lopinavir/ritonavir are protease inhibitors; ASC09 is a protease inhibitor of HIV-1; Umifenovir is an entry inhibitor for influenza | HIV/AIDs, and influenza | ( |
| Ribavirin | Synthetic guanosine Nucleoside | Status: approved; Mechanisms: the drug interfering with the viral mRNA synthesis, also a broad-spectrum antiviral activity for both RNA and DNA | HCV, MERS, and SARS | ( |
| Different combinations of lopinavir/ritonavir and baloxavirmarboxil/favipiravir | Favipiravir is a guanine analog RNA-dependent RNA polymerase inhibitor, and baloxavirmarboxil is a Cap-dependent endonuclease inhibitor | Status: approved; Mechanisms: favipiravir is a guanine analog RNA-dependent RNA polymerase inhibitor, and baloxavirmarboxil is a Cap-dependent endonuclease inhibitor approved for influenza A and B | Influenza A, and B | ( |
| Oseltamivir | Neuraminidase inhibitor | Status: approved; Mechanisms: the drug inhibiting the viral neuraminidase activity, and also inhibiting the infectivity and viral replication | Influenza (A) viruses | ( |
| Oseltamivir, ritonavir/oseltamivir, ASC09/oseltamivir | Oseltamivir is a sialidase inhibitor | Status: approved; Mechanisms: oseltamivir is a sialidase inhibitor approved for influenza | Influenza | ( |
| Interferon α-2b alone or together with ribavirin and lopinavir/ritonavir | Interferon α-2b is a recombinant cytokine and ribavirin is a guanine derivative | Status: experimental, approved; Mechanisms: interferon α-2b is a recombinant cytokine protein with antiviral activity and ribavirin is a guanine derivative approved for viral infections | Cancer, hepatitis B, and C | ( |
| Ganciclovir | Nucleoside analog | Status: investigational, approved; Mechanisms: a potent inhibitor of family Herpesvirus, such as cytomegalovirus | HIV/AIDS-related cytomegalovirus infections | ( |
| Acyclovir/Penciclovir | Nucleoside analog | Status: approved; Mechanisms: it is a synthetic derivative of acyclic guanine, as a result of chain termination | VZV, HSV | ( |
| Favipiravir (T-705) | Nucleoside analog: polymerase inhibitor of viral RNA | Status: investigational; Mechanisms: inhibiting viral reproduction by acting on its genetic copying without influencing on host cellular nucleic acid | Influenza A(H1N1), Ebola | ( |
| Nafamostat | Synthetic inhibitor of serine protease | Status: investigational; Mechanisms: inhibiting the membrane fusion through preventing the release of cathepsin B; role as an anticoagulant activity | MERS, Ebola, MERS, and influenza | ( |
| Azvudine | Inhibitor of reverse transcriptase | Status: experimental; Mechanisms: inhibitor of reverse transcriptase against AIDS/HIV-1 | HIV-1/AIDS | ( |
| Nitazoxanide | Antiprotozoal agent | Status: approved, vet-approved, investigational; Mechanisms: modulating the growth, survival, and proliferation of intracellular and extracellular viruses, protozoa, bacteria (microaerophilic and anaerobic), and helminths | Human/animal coronaviruses | ( |
| Ivermectin | Antiparasitic agent | Status: FDA-approved, vet-approved, investigational; Mechanisms: targeting the glycine receptor subunit α-3 and gamma-aminobutyric acid receptor subunit β-3 in human | Onchocerciasis, strongyloidiasis, and scabies | ( |
| CoVs | Coronaviruses |
| CNS | Central nervous system |
| SARS-CoV-2 | Severe acute respiratory syndrome coronavirus 2 |
| ARDS | Acute respiratory distress syndrome |
| WHO | World Health Organization |
| HIVs | Human immunodeficiency viruses |
| SIV | Immunodeficiency virus |
| GP41 | Glycoprotein-41 |
| CCR5 | C-C chemokine receptor-5 |
| CXCR4 | C-C chemokine receptor-4 |
| (IFI)-16 | Interferon-gamma induced protein-16 |
| IL-1β | Interleukin-1β |
| ACE2 | Angiotensin-converting enzyme-2 |
| FGF2 | Basic fibroblast growth factor 2 |
| GCSF | Granulocyte-colony stimulating factor |
| IFNγ | Interferon-gamma |
| IP10 | IFN-γ-inducible protein-10 |
| MCP1 | Monocyte chemoattractant protein 1 |
| MIP1A | Macrophage inflammatory proteins |
| TNF-α | Tumor necrosis factor-alpha |
| TGF-β | Transforming growth factor-beta |
| NCBD | National Center for Biotechnology Development |
| FDA | Food and Drug Administration |
| LPV | Lopinavir |
| RTV | Ritonavir |
| PWH | People with HIV |