# The gut and circulating virome: emerging players in aging and longevity

**Authors:** Gretta Veronica Badillo-Pazmay, Carlo Fortunato, Laura Cianfruglia, Federica Novazzi, Pietro Giorgio Spezia, Luigi Rosa, Dolores Limongi, Carla Prezioso, Valeria D’Argenio, Olga Scudiero, Lisa Bevilacqua, Marco Malavolta, Patrizia Russo, Fabrizio Maggi, Marta Balietti, Robertina Giacconi

PMC · DOI: 10.3389/fragi.2025.1731621 · Frontiers in Aging · 2026-02-09

## TL;DR

The human virome, especially in the gut and bloodstream, influences aging and longevity by affecting immunity, inflammation, and metabolism.

## Contribution

The paper highlights the unique virome signature in centenarians and its potential role in promoting extreme longevity.

## Key findings

- Age-related shifts in the virome include expansion of bacteriophages and reactivation of latent viruses.
- Centenarians exhibit increased viral diversity and phage-encoded metabolic functions linked to longevity.
- Challenges in virome profiling include technical biases and viral dark matter.

## Abstract

A growing body of evidence indicates that the human virome, comprising both the gut and circulating viral communities, plays a critical role in shaping host physiology across the lifespan. In the context of aging, this complex viral ecosystem is increasingly recognized as a key modulator of immune function, inflammation, and metabolic balance, with direct implications for healthspan and longevity. While much attention has traditionally focused on bacterial components of the microbiota, recent advances in metagenomics have uncovered age-related shifts in the composition and function of the virome, including expansion of specific bacteriophage families, reactivation of latent viruses, and the persistence of commensal viral pathobionts. These changes are tightly linked to immunosenescence, chronic inflammation, and neurodegeneration, hallmarks of unhealthy aging. Notably, centenarians appear to harbor a unique virome signature marked by increased viral diversity, enhanced lytic activity, and the enrichment of phage-encoded metabolic functions, suggesting a potential protective role in extreme longevity. Despite these insights, significant challenges remain in virome profiling, including technical biases, database limitations, and the vast proportion of taxonomically unassigned sequences known as “viral dark matter”. This review highlights emerging data on the aging virome, underscores its relevance within the Geroscience framework, and discusses current barriers and future directions for translating virome research into clinical aging studies.

## Full-text entities

- **Genes:** SNCA (synuclein alpha) [NCBI Gene 6622] {aka NACP, PARK1, PARK4, PD1}, MAPT (microtubule associated protein tau) [NCBI Gene 4137] {aka DDPAC, FTD1, FTDP-17, MAPTL, MSTD, MTBT1}, PARP1 (poly(ADP-ribose) polymerase 1) [NCBI Gene 142] {aka ADPRT, ADPRT 1, ADPRT1, ARTD1, PARP, PARP-1}, B3GAT1 (beta-1,3-glucuronyltransferase 1) [NCBI Gene 27087] {aka CD57, GLCATP, GLCUATP, HNK1, LEU7, NK-1}, APOBEC3B (apolipoprotein B mRNA editing enzyme catalytic subunit 3B) [NCBI Gene 9582] {aka A3B, APOBEC1L, ARCD3, ARP4, DJ742C19.2, PHRBNL}, PGR (progesterone receptor) [NCBI Gene 5241] {aka NR3C3, PR}, KLRG1 (killer cell lectin like receptor G1) [NCBI Gene 10219] {aka 2F1, CLEC15A, MAFA, MAFA-2F1, MAFA-L, MAFA-LIKE}, CD4 (CD4 molecule) [NCBI Gene 920] {aka CD4mut, IMD79, Leu-3, OKT4D, T4}, IFNG (interferon gamma) [NCBI Gene 3458] {aka IFG, IFI, IMD69}, CTCF (CCCTC-binding factor) [NCBI Gene 10664] {aka CFAP108, FAP108, MRD21}, CRP (C-reactive protein) [NCBI Gene 1401] {aka PTX1}, CD8A (CD8 subunit alpha) [NCBI Gene 925] {aka CD8, CD8alpha, IMD116, Leu2, p32}, TLR8 (toll like receptor 8) [NCBI Gene 51311] {aka CD288, IMD98, TLR-8, hTLR8}, CD28 (CD28 molecule) [NCBI Gene 940] {aka IMD123, Tp44}
- **Diseases:** CMV (MESH:D003586), infectious mononucleosis (MESH:D007244), obesity (MESH:D009765), lesions (MESH:D009059), viremia (MESH:D014766), postherpetic neuralgia (MESH:D051474), stroke (MESH:D020521), Merkel cell polyomavirus (MESH:D015266), metabolic dysregulation (MESH:D021081), autoimmune flares (MESH:D000067251), herpesvirus infections (MESH:D006566), autoimmune or inflammatory disorders (MESH:D007249), gastrointestinal symptoms (MESH:D012817), hepatic disorders (MESH:D008107), cardiovascular, oncological, and neurodegenerative diseases (MESH:D019636), lung infections (MESH:D012141), EBV- (MESH:D020031), prostate cancer (MESH:D011471), autoimmune, and neurological diseases (MESH:D020274), PD (MESH:D010300), neurotoxic (MESH:D020258), AD (MESH:D000544), MCI (MESH:D060825), transplant failure (MESH:D051437), malignancies (MESH:D009369), dysbiosis (MESH:D064806), sensory deficits (MESH:D012678), neutropenic (MESH:D044504), neuroinflammation (MESH:D000090862), chronic kidney disease (MESH:D051436), Type 2 Diabetes Mellitus (MESH:D003924), neuronal injury (MESH:D009410), lymphoproliferative disorders (MESH:D008232), post-herpetic neuralgia (MESH:D009437), Kawasaki disease (MESH:D009080), roseola (MESH:D005077), MS (MESH:D009103), hepatocellular carcinoma (MESH:D006528), immune dysregulation (OMIM:614878), HZ (MESH:D006562), cell (MESH:D002292), Cognitively impaired (MESH:D003072), chronic (MESH:D002908), rheumatoid arthritis (MESH:D001172), hematologic (MESH:D006402), encephalitis (MESH:D004660), genital infections (MESH:D007239), myocardial infarction (MESH:D009203), immune dysfunction (MESH:D007154), ischemic heart disease (MESH:D017202), toxicity (MESH:D064420), age-related diseases (MESH:D010024)
- **Chemicals:** Maribavir (MESH:C400401), ascorbic acid (MESH:D001205), acetic acid (MESH:D019342), propionyl-CoA (MESH:C009061), pyruvate (MESH:D019289), acid (MESH:D000143), L-lactate (MESH:D019344), inosine monophosphate (MESH:D007291), ADP (MESH:D000244), tricarboxylic acid (MESH:D014233), ATP (MESH:D000255), Fructose (MESH:D005632), Letermovir (MESH:C000588473), sucrose (MESH:D013395), lipid (MESH:D008055), NAD (MESH:D009243), dopamine (MESH:D004298), flavonoids (MESH:D005419), SCFA (MESH:D005232), D-lactate (-), sulfur (MESH:D013455), carbohydrate (MESH:D002241)
- **Species:** Enterococcus faecalis (species) [taxon 1351], African swine fever virus (no rank) [taxon 10497], Herpesvirus [taxon 39059], Human papillomavirus 178 (serotype) [taxon 1478160], Betapolyomavirus macacae (species) [taxon 1891767], Human alphaherpesvirus 3 (Varicella-zoster virus, no rank) [taxon 10335], Human betaherpesvirus 7 (no rank) [taxon 10372], Human immunodeficiency virus 1 (no rank) [taxon 11676], Hepatitis B virus (no rank) [taxon 10407], TTV-like mini virus (no rank) [taxon 93678], [Clostridium] innocuum (species) [taxon 1522], Bacteroides thetaiotaomicron (species) [taxon 818], Lahndsivirus rarus (species) [taxon 2956099], Torque teno virus (species) [taxon 68887], Human alphaherpesvirus 1 (Herpes simplex virus type 1, no rank) [taxon 10298], Hepatitis C virus [taxon 11103], Escherichia coli (E. coli, species) [taxon 562], Mus musculus (house mouse, species) [taxon 10090], Torque teno midi virus (species) [taxon 432261], Human papillomavirus (species) [taxon 10566], Human immunodeficiency virus 2 (no rank) [taxon 11709], Suid alphaherpesvirus 1 (no rank) [taxon 10345], Lactobacillus (genus) [taxon 1578], Teseptimavirus (genus) [taxon 110456], Human gammaherpesvirus 8 (no rank) [taxon 37296], Bacillota (clostridial firmicutes, phylum) [taxon 1239], Microviricetes (isometric ssDNA phages, class) [taxon 10841], GB virus C (no rank) [taxon 54290], Akkermansia (genus) [taxon 239934], Human betaherpesvirus 6 (species) [taxon 10368], Human parvovirus B19 (no rank) [taxon 10798], Alphatorquevirus (genus) [taxon 687331], Bacteriophage sp. (species) [taxon 38018], Anelloviridae (family) [taxon 687329], Merkel cell polyomavirus (no rank) [taxon 493803], Cytomegalovirus (genus) [taxon 10358], Human alphaherpesvirus 2 (no rank) [taxon 10310], Papillomaviridae (family) [taxon 151340], Macaca fascicularis (crab eating macaque, species) [taxon 9541], Helicotylenchus sp. GV (species) [taxon 931558], Gammatorquevirus (genus) [taxon 687333], Human immunodeficiency virus (species) [taxon 12721], Stevia (genus) [taxon 55669], Human endogenous retrovirus (species) [taxon 11827], Betatorquevirus (genus) [taxon 687332], human astrovirus [taxon 12702], Betapolyomavirus hominis (species) [taxon 1891762], human gammaherpesvirus 4 (Epstein Barr virus, no rank) [taxon 10376], Alistipes (genus) [taxon 239759], Lactococcus (lactic streptococci, genus) [taxon 1357], Ruthenibacterium (genus) [taxon 1905344], Human endogenous retroviruses (clade) [taxon 206037], Clostridium (genus) [taxon 1485], Candidatus Cenarchaeum symbiosum (species) [taxon 46770], Homo sapiens (human, species) [taxon 9606], Cosavirus F (no rank) [taxon 2003652], Bifidobacterium (genus) [taxon 1678]
- **Mutations:** 3020insC

## Full text

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## Figures

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## References

191 references — full list in the complete paper: https://tomesphere.com/paper/PMC12926466/full.md

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Source: https://tomesphere.com/paper/PMC12926466