Biology subjects

Lago, S.

Publications and source records attributed to Lago, S..

8 recordsLinked to original sources

bioRxiv2026

Challenging the right-hemisphere assumption in post-stroke pragmatics: largely comparable impairment profiles across lesion sides

Traditional views assume that pragmatic deficits after stroke, which compromise the interpretation of communicative intentions and non-literal meanings, follow damage to the right hemisphere (RHD), with left-hemisphere damage (LHD) primarily linked to aphasia and structural language impairment. To examine hemispheric contributions to post-stroke pragmatic profiles, we assessed 99 stroke patients (40 LHD, including 14 with aphasia of minimal-to-moderate severity; 59 RHD) and 60 healthy controls with the Assessment of Pragmatic Abilities and Cognitive Substrates (APACS). While stroke patients overall performed worse than controls, LHD and RHD profiles were largely comparable across three converging analyses: (1) permutation tests revealed no hemispheric differences except on the two tasks requiring expressive components (Interview and Figurative Language 2), which in turn lowered the composites (APACS Production and Total); (2) equivalence testing established equivalence for most measures, with only these same tasks and composites remaining inconclusive; and (3) unsupervised clustering did not group patients by lesion side. Theory of Mind was robustly associated with pragmatic performance in both groups, whereas structural language abilities related specifically to LHD performance and general cognition only to RHD. Excluding aphasic LHD patients strengthened the evidence for comparable profiles, indicating that aphasic LHD patients largely drove the residual differences. In conclusion, primary pragmatic impairment, especially in the receptive domain, emerged comparably after LHD and RHD, with the only residual LHD disadvantage limited to tasks demanding open verbal output. These findings challenge the assumption of right-hemispheric specialization for pragmatics, stressing the need for pragmatic assessment in all post-stroke patients.

neuroscience↗

bioRxiv2026

Targeting HIV at its core: A mathematical model for optimizing Tat Inhibitor-based therapies toward enhanced functional cure strategies

Human immunodeficiency virus (HIV) persistence remains a major barrier to cure due to the existence of long-lived latent reservoirs that evade immune clearance and persist despite combination antiretroviral therapy (ART). Although ART effectively suppresses viral replication, treatment interruption often leads to rapid viral rebound originating from these latent reservoirs. In this study, we develop a deterministic mathematical model describing the in vivo dynamics of HIV infection incorporating uninfected CD4+ T cells, infected cells, latent reservoirs, deep latent reservoirs, and infectious and non-infectious virions, while explicitly accounting for the therapeutic effects of reverse transcriptase inhibitors (RTIs), protease inhibitors (PIs), and Tat transcription inhibitors. Analytical results establish positivity and boundedness of solutions and derive the effective reproduction number Re using the next-generation matrix approach. Stability analysis shows that the virus-free equilibrium is locally asymptotically stable when Re < 1, while viral persistence occurs when Re > 1. Numerical simulations were performed to investigate therapy interactions, viral rebound following treatment interruption, and the impact of drug efficacy on viral set-points and latent reservoir dynamics. To further explore therapy interactions, three-dimensional viral set-point surfaces and heat maps were generated to examine how combinations of infection inhibition, viral production inhibition, and transcriptional inhibition influence viral dynamics. The simulations reveal that Tat inhibition suppresses viral transcription, thereby reducing the transition of infected cells into productive infection and limiting viral propagation when combined with conventional ART mechanisms. The therapy parameter planes further demonstrate that strong transcriptional inhibition promotes the transition of infected cells into deep latency, supporting the emerging block-and-lock strategy for functional HIV cure. In addition, a three-dimensional eradication boundary surface and therapy cube were constructed to identify regions of parameter space where Re < 1, corresponding to successful viral control. These visualizations show that viral eradication is unlikely when therapies act independently but becomes achievable when multiple therapeutic mechanisms act simultaneously. Overall, the results highlight the critical role of transcriptional inhibition through Tat-targeting therapies in complementing existing ART regimens. By simultaneously suppressing viral replication and promoting deep latency, Tat-based combination strategies may significantly reduce viral rebound and contribute to long-term functional control of HIV infection.

systems biology↗

bioRxiv2025

Education Shapes the Link Between EEG Aperiodic Components and Cognitive Aging

Healthy aging brings widespread shifts in aperiodic (non-oscillatory) electroencephalographic (EEG) components, which may underlie physiological changes in cognitive performance. Education, a known protective factor against age-related decline in cognitive performance, has been largely overlooked in studies linking aperiodic EEG components to cognition. This study addresses this gap, hypothesizing that education moderates the interplay between age, aperiodic components, and cognitive performance, as measured by Mini-Mental State Examination (MMSE) scores. We reanalyzed an open-source EEG dataset of 714 healthy individuals aged 18-91 years using Generalized Additive Mixed Models. Aperiodic exponent and offset both declined with age, but higher education levels mitigated these declines. Notably, exponent and offset interacted with age and education in predicting MMSE performance in the bilateral cingulate, left hippocampus, bilateral parietal, right occipital, and left temporal regions. Among older adults, the relationship between the aperiodic components and cognitive performance diverged by education: those with lower education showed worse cognitive outcomes with lower exponents and offsets, whereas higher-educated individuals after 60 years showed a reverse pattern, with lower exponents and offsets predicting better MMSE performance. Our findings suggest that the link between aperiodic components and cognitive aging is not straightforward but depends on moderating factors such as education. These results underscore the importance of accounting for individual differences, like educational background, when exploring age-related changes in EEG aperiodic components and cognition.

neuroscience↗

bioRxiv2024

The influence of the head model on magnetoencephalography-derived functional connectivity fingerprinting

Functional connectivity (FC)-based neural fingerprinting is an approach that promises to identify and/or differentiate subjects within a cohort on the basis of the patterns of statistical dependencies between time series recorded mostly if not always noninvasively, with electroencephalography (EEG), magnetoencephalography (MEG), or functional magnetic resonance imaging (fMRI). The message is that brain activity is what differentiates subjects, or what makes a neural fingerprint "unique". In EEG- and MEG-derived FC fingerprinting, the activity recorded at the sensors is usually projected back into cortical sources by means of an inverse model depending on head and brain shapes, sensor locations, and tissue conductivity, and further reduced in dimension to obtain time series of regional activity, used to compute FC. We think that the role of the head model in fingerprinting has been so far dismissed by means of suboptimal or incomplete tests. Here we employed a set of experiments aimed to decouple recorded activity and head model for each subject, and we found that the head model has a strong influence on both identification and differentiation.

neuroscience↗

bioRxiv2024

Chromatin condensates tune nuclear mechano-sensing in Kabuki Syndrome by constraining cGAS activation

Cells and tissue integrity is constantly challenged by the necessity to adapt and respond to mechanical loads. Among the cellular components, the nucleus possesses mechano-sensing and mechanotransduction capabilities, yet the molecular mechanisms involved remain poorly defined. We postulated that the mechanical properties of the chromatin and its compartmentalization into condensates contribute to the nuclear adaptation to external forces, while preserving its integrity. By interrogating the effects of MLL4 loss-of-function in Kabuki Syndrome, we found that the balancing of transcriptional and Polycomb condensates tunes the nuclear responsiveness to external mechanical forces. We showed that MLL4 acts as a chromatin mechano-sensor by clustering into condensates through its Prion-like domain, and its response was regulated by the chromatin context. Furthermore, the mechano-sensing activity of MLL4 condensates is instrumental to withstand the physical challenges that nuclei experience during cell confinement and migration by preserving their integrity. In Kabuki Syndrome persistent rupture of nuclear envelope triggers cGAS-STING activation, which leads to programmed cell death. Ultimately, these results demonstrate the critical role chromatin compartments play in mechano-responses and how they impact pathological conditions by stimulating cGAS-STING signaling.

molecular biology↗

bioRxiv2024

ANP32E drives vulnerability to ATR inhibitors by inducing R-loops-dependent Transcription Replication Conflicts in Triple Negative Breast Cancer

Oncogene-induced replicative stress (RS) plays a central role in tumor progression, leading to genomic instability by eliciting transcription replication conflicts (TRCs), which represent the major source of R-loops, that ultimately favors the onset of the DNA damage response (DDR). We investigated the pathogenic contribution of chromatin factors in increasing TRCs and R-loop frequencies in cancer. We found that in breast cancer patients the concomitant upregulation of MYC and the H2A.Z-specific chaperone ANP32E correlated with an increase genome instability. Genome-wide profiling revealed that the ANP32E-dependent increases turnover of H2A.Z altered RNApol II processivity, leading to accumulation of long R-loops at TRCs. We showed that ANP32E upregulation increases TRCs and activates an ATR-dependent DDR, which predispose cancer cells to R-loop-mediated genomic fragility. By exploiting the vulnerability of ANP32E-expressing cancer cells to ATR inhibitors, we found that tumors relied on this DDR pathway, whose inhibition halted their pro-metastatic capacity.

cancer biology↗

bioRxiv2020

Promoter G-quadruplexes and transcription factors cooperate to shape the cell type-specific transcriptome

Cell identity is maintained by activation of cell-specific gene programs, regulated by epigenetic marks, transcription factors and chromatin organization1-3. DNA G-quadruplex (G4)-folded regions in cells were reported to be associated with either increased or decreased transcriptional activity4,5. By G4 ChIP-seq/RNA-seq analysis on liposarcoma cells we confirmed that G4s in promoters are invariably associated with high transcription levels in open chromatin. Comparing G4 presence, location and transcript levels in liposarcoma cells to available data on keratinocytes, we showed that the same promoter sequences of the same genes in the two cell lines had different G4-folding state: high transcript levels consistently associated with high G4-folding. Transcription factors AP-1 and SP1, whose binding sites were the most significantly represented in G4-folded sequences, coimmunoprecipitated with their G4-folded promoters. Thus G4s and their associated transcription factors cooperate to determine cell-specific transcriptional programs, making G4s strongly emerge as new epigenetic regulators of the transcription machinery.

genomics↗

bioRxiv2020

Transcription factor recruitment by parallel G-quadruplexes to promote transcription: the case of herpes simplex virus-1 ICP4

G-quadruplexes (G4s), four-stranded nucleic acid structures that adopt several distinctive conformations, are abundant at gene promoters and have been proposed as transcription regulatory elements. G4s form in the herpes simplex virus-1 (HSV-1) genome during its viral cycle. Here by cross-linking/pull-down assay we identified ICP4 as the protein that most interacts with viral G4s during infection. In vitro and in infected cells, ICP4 specifically and directly bound and unfolded parallel G4s, including those present in HSV-1 immediate early gene promoters, and consequently induced transcription. This mechanism was also exploited by ICP4 to promote its own transcription. By proximity ligation assay we visualized ICP4 interaction at the single G4 in cells. G4 ligands inhibited ICP4 binding to G4s. Our results indicate the existence of a well-defined G4-viral protein network that regulates the productive HSV-1 cycle. They also point to G4s as elements that recruit transcription factors to activate transcription in cells.

microbiology↗