Intact provirus and integration sites analysis in acute HIV-1 infection and changes after one year of early antiviral therapy

Rozera, Gabriella; Sberna, Giuseppe; Berno, Giulia; Gruber, Cesare Ernesto Maria; Giombini, Emanuela; Spezia, Pietro Giorgio; Orchi, Nicoletta; Puro, Vincenzo; Mondi, Annalisa; Girardi, Enrico; Vaia, Francesco; Antinori, Andrea; Maggi, Fabrizio; Abbate, Isabella

doi:10.1016/j.jve.2022.100306

Cited by 1 publication

(1 citation statement)

References 27 publications

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“…Recent studies have significantly advance our knowledge of latent HIV-1 reservoirs, emphasizing the diverse strengths of immune-mediated selection forces acting on reservoir cells harboring intact and defective proviruses. This diversity results in distinct configurations of reservoirs between each other (Pinzone et al, 2019; Einkauf et al, 2019; Antar et al, 2020; Gandhi et al, 2021; Rozera et al, 2022; Einkauf et al, 2022; Duette et al, 2022; Cho et al, 2022; Lian et al, 2023; Sun et al, 2023; Dufour et al, 2023). The impact of immune selection pressure in elite controllers appears more pronounced than in post-treatment controllers (Jiang et al, 2020; Lian et al, 2021).…”

Section: Introductionmentioning

confidence: 99%

Distinguishable topological properties of functional genome networks in HIV-1 reservoirs

Wiśniewski,

Więcek,

Ali

et al. 2024

Preprint

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HIV-1 reservoirs display heterogeneous nature, lodging both intact and defective proviruses. Recent evidence has shed light on their difference, particularly in the context of immune-mediated selection. To deepen our understanding of such heterogeneous HIV-1 reservoirs and their functional implications, we pioneered the integration of basic concepts of graph theory to characterize the composition of HIV-1 reservoirs. Our analysis revealed noticeable topological properties in networks, featuring immunologic signatures enriched by genes harboring intact and defective proviruses, when comparing antiretroviral therapy (ART)-treated HIV-1-infected individuals and elite controllers. The key variable, the rich factor, played a pivotal role in classifying distinct topological properties in networks. The host gene expression strengthened the accuracy of classification between elite controllers and ART-treated patients. Overall, our work provides a prime example of leveraging genomic approaches alongside mathematical tools to unravel the complexities of HIV-1 reservoirs.

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