# Antiviral drug discovery and development: challenges and future directions

**Authors:** Shaoqing Du, Xueping Hu, Ping Li, Shujing Xu, Meehyein Kim, Xinyong Liu, Peng Zhan

PMC · DOI: 10.1038/s41392-025-02539-7 · Signal Transduction and Targeted Therapy · 2026-02-25

## TL;DR

This review discusses progress and challenges in antiviral drug development, focusing on lessons from the COVID-19 pandemic and future strategies like AI and nanotechnology.

## Contribution

The paper provides a comprehensive overview of advancements and future directions in antiviral drug discovery, emphasizing AI and nanotechnology.

## Key findings

- Antiviral drug development has advanced significantly, with new strategies like target-based approaches and pharmacokinetic optimization.
- Artificial intelligence is increasingly used in drug discovery for protein prediction and bioactivity forecasting.
- Nanotechnology has enhanced drug delivery and vaccine development, as seen in mRNA vaccines using lipid nanoparticles.

## Abstract

The coronavirus disease 2019 (COVID-19) pandemic has stimulated extensive endeavors toward the development of therapeutic interventions targeting severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) and human proteins for viral infection control, encompassing numerous potential drugs and thousands of patients participating in clinical trials. These concerted efforts have resulted in significant advancements in antiviral drug discovery and development. In this review, we present a comprehensive timeline detailing the development of antiviral drugs, tracing the progression from early viral inhibitors to modern broad-spectrum antiviral agents. We also outline the current status of advancements in antiviral drug discovery, encompassing target-based strategies, innovative mechanism-based approaches, and pharmacokinetic optimization. Furthermore, we discuss the challenges and future prospects gained from COVID-19 and other infectious diseases, covering knowledge of artificial intelligence strategies, the utilization of medicinal chemistry tools, and advancements in nanotechnology applications. The application of artificial intelligence in drug discovery is increasingly prevalent, particularly in the areas of protein structure prediction, drug target identification, and bioactivity forecasting. Nanotechnology has played a crucial role in the delivery of antiviral drugs and the development of vaccines, exemplified by the use of lipid nanoparticles in mRNA vaccines. Additionally, we highlight potential future directions for drug discovery, such as targeting membraneless organelles (liquid‒liquid phase separation).

## Linked entities

- **Diseases:** coronavirus disease 2019 (MONDO:0100096), severe acute respiratory syndrome coronavirus 2 (MONDO:0100096)

## Full-text entities

- **Genes:** EPRS1 (glutamyl-prolyl-tRNA synthetase 1) [NCBI Gene 2058] {aka EARS, EPRS, GLUPRORS, HLD15, PARS, PIG32}, DKK3 (dickkopf Wnt signaling pathway inhibitor 3) [NCBI Gene 27122] {aka CRRL, REIC, RIG}, ORF6 (ORF6 protein) [NCBI Gene 43740572], PPP1R3A (protein phosphatase 1 regulatory subunit 3A) [NCBI Gene 5506] {aka GM, PP1G, PPP1R3}, BRD4 (bromodomain containing 4) [NCBI Gene 23476] {aka CAP, CDLS6, FSHRG4, HUNK1, HUNKI, MCAP}, IL6 (interleukin 6) [NCBI Gene 3569] {aka BSF-2, BSF2, CDF, HGF, HSF, IFN-beta-2}, CCR5 (C-C motif chemokine receptor 5) [NCBI Gene 1234] {aka CC-CKR-5, CCCKR5, CCR-5, CD195, CKR-5, CKR5}, ORF1ab (ORF1a polyprotein;ORF1ab polyprotein) [NCBI Gene 43740578], XPO1 (exportin 1) [NCBI Gene 7514] {aka CRM-1, CRM1, emb, exp1}, PDE5A (phosphodiesterase 5A) [NCBI Gene 8654] {aka CGB-PDE, CN5A, PDE5}, AXL (AXL receptor tyrosine kinase) [NCBI Gene 558] {aka ARK, AXL3, JTK11, Tyro7, UFO}, STAT2 (signal transducer and activator of transcription 2) [NCBI Gene 6773] {aka IMD44, ISGF-3, P113, PTORCH3, STAT113}, RIGI (RNA sensor RIG-I) [NCBI Gene 23586] {aka DDX58, RIG-I, RIG1, RLR-1, SGMRT2}, TNF (tumor necrosis factor) [NCBI Gene 7124] {aka DIF, IMD127, TNF-alpha, TNFA, TNFSF2, TNLG1F}, NQO1 (NAD(P)H quinone dehydrogenase 1) [NCBI Gene 1728] {aka DHQU, DIA4, DTD, NMOR1, NMORI, QR1}, JAK1 (Janus kinase 1) [NCBI Gene 3716] {aka AIIDE, JAK1A, JAK1B, JTK3}, ARL8B (ARF like GTPase 8B) [NCBI Gene 55207] {aka ARL10C, Gie1}, gag-pol (Gag-Pol) [NCBI Gene 155348], ALB (albumin) [NCBI Gene 213] {aka FDAHT, HSA, PRO0883, PRO0903, PRO1341}, AAK1 (AP2 associated kinase 1) [NCBI Gene 22848], N (nucleocapsid phosphoprotein) [NCBI Gene 43740575], CGAS (cyclic GMP-AMP synthase) [NCBI Gene 115004] {aka C6orf150, D4, MB21D1, h-cGAS}, VTN (vitronectin) [NCBI Gene 7448] {aka V75, VN, VNT}, RNASEL (ribonuclease L) [NCBI Gene 6041] {aka PRCA1, RNS4}, TBK1 (TANK binding kinase 1) [NCBI Gene 29110] {aka AIARV, FTDALS4, IIAE8, NAK, T2K}, DCAF7 (DDB1 and CUL4 associated factor 7) [NCBI Gene 10238] {aka AN11, HAN11, SWAN-1, WDR68}, IL1B (interleukin 1 beta) [NCBI Gene 3553] {aka IL-1, IL1-BETA, IL1F2, IL1beta}, PAK2 (p21 (RAC1) activated kinase 2) [NCBI Gene 5062] {aka KNO2, PAK65, PAKgamma}, MAVS (mitochondrial antiviral signaling protein) [NCBI Gene 57506] {aka CARDIF, IPS-1, IPS1, VISA}, ABL1 (ABL proto-oncogene 1, non-receptor tyrosine kinase) [NCBI Gene 25] {aka ABL, BCR-ABL, CHDSKM, JTK7, bcr/abl, c-ABL}, CD4 (CD4 molecule) [NCBI Gene 920] {aka CD4mut, IMD79, Leu-3, OKT4D, T4}, COL11A2 (collagen type XI alpha 2 chain) [NCBI Gene 1302] {aka DFNA13, DFNB53, FBCG2, HKE5, OSMEDA, OSMEDB}, NFKB1 (nuclear factor kappa B subunit 1) [NCBI Gene 4790] {aka CVID12, EBP-1, KBF1, NF-kB, NF-kB1, NF-kappa-B1}, LRRK2 (leucine rich repeat kinase 2) [NCBI Gene 120892] {aka AURA17, DARDARIN, PARK8, RIPK7, ROCO2}, EGFR (epidermal growth factor receptor) [NCBI Gene 1956] {aka ERBB, ERBB1, ERRP, HER1, NISBD2, NNCIS}, MAP4K4 (mitogen-activated protein kinase kinase kinase kinase 4) [NCBI Gene 9448] {aka FLH21957, HEL-S-31, HGK, MEKKK4, NIK}, DHODH (dihydroorotate dehydrogenase (quinone)) [NCBI Gene 1723] {aka DHOdehase, POADS, URA1}, S (surface glycoprotein) [NCBI Gene 43740568] {aka spike glycoprotein}, IFNA8 (interferon alpha 8) [NCBI Gene 3445] {aka IFN-alphaB}, ORF8 (ORF8 protein) [NCBI Gene 43740577], CXADRP1 (CXADR pseudogene 1) [NCBI Gene 653108] {aka CAR, CXADRP}, TLR3 (toll like receptor 3) [NCBI Gene 7098] {aka CD283, IIAE2, IMD83}, MUL1 (mitochondrial E3 ubiquitin protein ligase 1) [NCBI Gene 79594] {aka C1orf166, GIDE, MAPL, MULAN, RNF218}, TFEB (transcription factor EB) [NCBI Gene 7942] {aka ALPHATFEB, BHLHE35, TCFEB}, Mpro [NCBI Gene 8673700], BTK (Bruton tyrosine kinase) [NCBI Gene 695] {aka AGMX1, AT, ATK, BPK, IGHD3, IMD1}, CDK4 (cyclin dependent kinase 4) [NCBI Gene 1019] {aka CMM3, MCPH31, PSK-J3}, STING1 (stimulator of interferon response cGAMP interactor 1) [NCBI Gene 340061] {aka ERIS, MITA, MPYS, NET23, SAVI, STING}, TYK2 (tyrosine kinase 2) [NCBI Gene 7297] {aka IMD35, JTK1}, ASGR1 (asialoglycoprotein receptor 1) [NCBI Gene 432] {aka ASGPR, ASGPR1, CLEC4H1, HL-1}, IFNB1 (interferon beta 1) [NCBI Gene 3456] {aka IFB, IFF, IFN-beta, IFNB}, PARS2 (prolyl-tRNA synthetase 2, mitochondrial) [NCBI Gene 25973] {aka DEE75, EIEE75, MT-PRORS, proRS}, RET (ret proto-oncogene) [NCBI Gene 5979] {aka CDHF12, CDHR16, HSCR1, MEN2A, MEN2B, MTC1}, NEU1 (neuraminidase 1) [NCBI Gene 4758] {aka NANH, NEU, SIAL1}, STAT1 (signal transducer and activator of transcription 1) [NCBI Gene 6772] {aka CANDF7, IMD31A, IMD31B, IMD31C, ISGF-3, STAT91}, MAP3K7 (mitogen-activated protein kinase kinase kinase 7) [NCBI Gene 6885] {aka CSCF, FMD2, MEKK7, TAK1, TGF1a}, IL18 (interleukin 18) [NCBI Gene 3606] {aka IGIF, IL-18, IL-1g, IL1F4}, TLR7 (toll like receptor 7) [NCBI Gene 473521], IFNA1 (interferon alpha 1) [NCBI Gene 3439] {aka IFL, IFN, IFN-ALPHA, IFN-alphaD, IFNA13, IFNA@}
- **Diseases:** chronic hepatitis (MESH:D006521), liver disease (MESH:D008107), adenovirus infections (MESH:D000257), inflammation (MESH:D007249), cirrhosis (MESH:D005355), herpetic keratoconjunctivitis (MESH:D007637), warts (MESH:D014860), flu (MESH:D007251), herpes keratitis (MESH:D016849), RNA virus infections (MESH:D012327), coronavirus disease (MESH:D018352), Viral infections (MESH:D014777), inflammatory damage (MESH:D018746), infected (MESH:D007239), Alzheimer's disease (MESH:D000544), TBDD (MESH:D019292), cancer (MESH:D009369), COVID-19 (MESH:D000086382), Cytotoxicity (MESH:D064420), herpes simplex (MESH:D006561), angina pectoris (MESH:D000787), erectile dysfunction (MESH:D007172), central nervous system diseases (MESH:D002493), protein misfolding (MESH:D057165), AI (MESH:C538142), CADD (MESH:C000719218), AIDS (MESH:D000163), TPD (MESH:D055959), cytomegalovirus (MESH:D003586), chronic hepatitis B. (MESH:D019694), hepatic toxicity (MESH:D056486), microcephaly (MESH:D008831), pulmonary fibrosis (MESH:D011658), hepatocellular carcinoma (MESH:D006528), Zika virus infection (MESH:D000071243), HIV drug (MESH:D015658), malaria (MESH:D008288), herpes zoster (MESH:D006562), hematologic malignancies (MESH:D019337), monogenic disorders (MESH:D009358), ARMs (MESH:D001134), LLPS (MESH:D000210), herpes DNA viruses (MESH:C536395), infectious diseases (MESH:D003141), herpesvirus infections (MESH:D006566)
- **Chemicals:** epigallocatechin gallate (MESH:C045651), adenosine (MESH:D000241), metal (MESH:D008670), CP12TAK (-), acetic anhydride (MESH:C031800), proline (MESH:D011392), sildenafil (MESH:D000068677), sulfanilamide (MESH:D000077145), zidovudine (MESH:D015215), AT-527 (MESH:C000713067), triphosphate (MESH:C005692), Salt (MESH:D012492), p (MESH:D010758), nitriles (MESH:D009570), etravirine (MESH:C451734), adefovir dipivoxil (MESH:C106812), acids (MESH:D000143), Zanamivir (MESH:D053243), oxygen (MESH:D010100), puromycin (MESH:D011691), Zn (MESH:D015032), GS-9620 (MESH:C582524), salicylic acid (MESH:D020156), thiol (MESH:D013438), calcium hydroxide (MESH:D002126), glycans (MESH:D011134), nirmatrelvir (MESH:C000718217), cGAMP (MESH:C584311), amino acids (MESH:D000596), (-)-gallocatechin gallate (MESH:C417940), CDV (MESH:D000077404), carvedilol (MESH:D000077261), NH4Cl (MESH:D000643), EIDD-1931 (MESH:C010737), Boric acid (MESH:C032688), ketones (MESH:D007659), brentuximab vedotin (MESH:D000079963), ester (MESH:D004952), beta-lap (MESH:C014638), Halofuginone (MESH:C010176), alanine (MESH:D000409), Se (MESH:D012643), carbohydrate (MESH:D002241), sialyllactose (MESH:C000020), Remdesivir (MESH:C000606551), merafloxacin (MESH:C047718), C (MESH:D002244), arsenic trioxide (MESH:D000077237), oseltamivir (MESH:D053139), GS-441524 monophosphate (MESH:C000718587), acetylene (MESH:D000114), idoxuridine (MESH:D007065), pyridostatin (MESH:C567962), entecavir (MESH:C413685), vinyl sulfones (MESH:C009873), Selinexor (MESH:C585161), sofosbuvir (MESH:D000069474), ATP (MESH:D000255), Water (MESH:D014867), polyphenol (MESH:D059808)
- **Species:** Comamonas sp. LR01 (species) [taxon 483931], Respiratory syncytial virus (no rank) [taxon 12814], Ebola virus (no rank) [taxon 1570291], Zika virus (no rank) [taxon 64320], hepatitis C virus [taxon 11103], Human immunodeficiency virus (species) [taxon 12721], Ebola virus [taxon 186536], Rattus norvegicus (brown rat, species) [taxon 10116], Mus musculus (house mouse, species) [taxon 10090], Cricetus cricetus (black-bellied hamster, species) [taxon 10034], Homo sapiens (human, species) [taxon 9606], Human coronavirus OC43 (no rank) [taxon 31631], Dengue virus (no rank) [taxon 12637], herpesvirus [taxon 39059], Gammacoronavirus (genus) [taxon 694013], Human betaherpesvirus 5 (no rank) [taxon 10359], Betacoronavirus (genus) [taxon 694002], Severe acute respiratory syndrome coronavirus 2 (no rank) [taxon 2697049], Human alphaherpesvirus 3 (Varicella-zoster virus, no rank) [taxon 10335], flavivirus [taxon 11051], Human coronavirus 229E (no rank) [taxon 11137], Lyssavirus rabies (species) [taxon 11292], Human immunodeficiency virus 1 (no rank) [taxon 11676], Hepatitis B virus (no rank) [taxon 10407], Influenza A virus (no rank) [taxon 11320], Pan troglodytes (chimpanzee, species) [taxon 9598], Severe acute respiratory syndrome-related coronavirus (no rank) [taxon 694009], West Nile virus (no rank) [taxon 11082]
- **Mutations:** E484K, V106A, 501Y, Y181C, C481S, A2A, Y188L, Glu138, N501Y, F227L, E138K
- **Cell lines:** 293 T — Homo sapiens (Human), Transformed cell line (CVCL_0063), HepG2.2.15 — Homo sapiens (Human), Hepatoblastoma, Cancer cell line (CVCL_L855), Vero E6 — Chlorocebus sabaeus (Green monkey), Spontaneously immortalized cell line (CVCL_0574)

## Full text

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## Figures

13 figures with captions in the complete paper: https://tomesphere.com/paper/PMC12932771/full.md

## References

12 references — full list in the complete paper: https://tomesphere.com/paper/PMC12932771/full.md

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Source: https://tomesphere.com/paper/PMC12932771