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Palma, R.

Publications and source records attributed to Palma, R..

2 recordsLinked to original sources

Cross-Frequency Coupling as a Neural Substrate for Prediction Error Evaluation: A Laminar Neural Mass Modeling Approach

Predictive coding frameworks suggest that neural computations rely on hierarchical error minimization, where sensory signals are evaluated against internal model predictions. However, the neural implementation of this inference process remains unclear. We propose that cross-frequency coupling (CFC) furnishes a fundamental mechanism for this form of inference. We first demonstrate that our previously described Laminar Neural Mass Model (LaNMM) supports two key forms of CFC: (i) Signal-Envelope Coupling (SEC), where lowfrequency rhythms modulate the amplitude envelope of higher-frequency oscillations and (ii) Envelope-Envelope Coupling (EEC), where the envelopes of slower oscillations modulate the envelopes of higher-frequency rhythms. Then, we propose that, by encoding information in signals and their envelopes, these processes instantiate a hierarchical "Comparator" mechanism at the columnar level. Specifically, SEC generates fast prediction-error signals by subtracting top-down predictions from bottom-up oscillatory envelopes, while EEC operates at slower timescales to instantiate gating--a critical computational mechanism for precision-weighting and selective information routing. To establish the face validity and clinical implications of this proposal, we model perturbations of these CFC mechanisms to investigate their roles in pathophysiological and altered neuronal function. We illustrate how, in disorders such as Alzheimers disease, disruptions in gamma oscillations following dysfunction in fast-spiking inhibitory interneurons impact Comparator function with an aberrant amplification of prediction errors in the early stages and a drastic attenuation in late phases of the disease. In contrast, by increasing excitatory gain, serotonergic psychedelics diminish the modulatory effect of predictions, resulting in a failure to attenuate prediction error signals (c.f., a failure of sensory attenuation). Collectively, these findings implicate cross-frequency coupling across multiple temporal scales as a key computational mechanism supporting predictive coding and suggest that disruptions in these processes play a central role in disease. HighlightsO_LIUsing an encoding scheme where information is encoded in signals, their envelopes, and envelopes of envelopes, we show how to implement prediction error and precision modulation in a neural mass model through cross-frequency coupling (CFC). C_LIO_LIWe use the laminar neural mass model (LaNMM), which integrates Jansen-Rit and pyramidal interneuron gamma (PING) submodels to display fast and slow rhythms and provides mechanisms for a) Signal-Envelope Coupling (SEC), where slow-wave activity modulates the amplitude envelope of fast oscillations (analogous to phase-amplitude coupling), and b) Envelope-Envelope Coupling (EEC), where the envelopes of slower oscillations modulate the envelopes of higher-frequency rhythms. C_LIO_LIWe show how to use the LaNMM to implement information-based prediction-error evaluation (as used in Active Inference and Kolmogorov Theory), computing the approximate precision-weighted difference between incoming sensory data (envelopes) and internal model predictions (signals or envelopes). C_LIO_LIWe show that using these mechanisms, the Comparator mechanism can operate at multiple levels and timescales, generating fast prediction-error signals (via SEC) and slower gating signals that encode context (e.g., precision) (via EEC). C_LIO_LIOur model provides insights into the physiological and cognitive consequences of mesoscale circuital alterations in the context of predictive coding. First, we study disorders of fast-spiking interneurons, such as Alzheimers Disease (AD). In the early stages of AD, error evaluation and precision are disrupted (inflated error and reduced gating/weight of predictions), leading to higher prediction errors. In later stages, prediction errors are suppressed regardless of predictions or their precision. C_LIO_LIThen, we show how serotonergic psychedelics increase the effective weight of inputs and diminish that of predictions, resulting in higher prediction error signals. C_LIO_LIThese observations link oscillatory mechanisms and predictive coding alterations, and potentially with the subjective phenomena in each condition--including cognitive decline in AD and hallucinatory states under psychedelics. C_LI

neuroscience↗

Modeling the emergent metabolic potential of soil microbiomes in Atacama landscapes

Soil microbiomes harbor complex communities and exhibit important ecological roles resulting from biochemical transformations and microbial interactions. Difficulties in characterizing the mechanisms and consequences of such interactions together with the multidimensionality of niches hinder our understanding of these ecosystems. The Atacama Desert is an extreme environment that includes unique combinations of stressful abiotic factors affecting microbial life. In particular, the Talabre Lejia transect has been proposed as a unique natural laboratory for understanding adaptation mechanisms. We propose a systems biology-based computational framework for the reconstruction and simulation of community-wide and genome-resolved metabolic models, in order to provide an overview of the metabolic potential as a proxy of how microbial communities are prepared to respond to the environment. Through a multifaceted approach that includes taxonomic and functional profiling of microbiomes, simulation of the metabolic potential, and multivariate analyses, we were able to identify key species and functions from six contrasting soil samples across the Talabre Lejia transect. We highlight the functional redundancy of whole metagenomes, which act as a gene reservoir from which site-specific functions emerge at the species level. We also link the physicochemistry from the puna and the lagoon samples to specific metabolic machineries that could be associated with their adaptation to the unique environmental conditions found there. We further provide an abstraction of community composition and structure for each site that allows to describe them as sensitive or resilient to environmental shifts through putative cooperation events. Our results show that the study of community-wide and genome-resolved metabolic potential, together with targeted modeling, may help to elucidate the role of producible metabolites in the adaptation of microbial communities. Our framework was designed to handle non-model microorganisms, making it suitable for any (meta)genomic dataset that includes nucleotide sequence data and high-quality environmental metadata for different samples.

systems biology↗