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Guevara, R.

Publications and source records attributed to Guevara, R..

11 recordsLinked to original sources

Brain-tuning near criticality in newborns by prenatal experience with language

Language development starts early, possibly even in the womb. Recent results suggest that newborns neural responses to speech in the prenatally heard language are already different from those to unfamiliar languages. However, the neural dynamics of how these differential responses emerge remains little understood. Here, we hypothesize that they are supported by a functional tuning to criticality--a state that maximizes information transmission, dynamic range, and flexibility--, induced in newborns by the prenatally experienced language. To test this hypothesis, we study resting-state brain activity before and after stimulation with naturally spoken sentences in the prenatal language, French, in a rhythmically similar unfamiliar language, Spanish, as well as in a rhythmically different unfamiliar language, English. We show that the native language elicits brain tuning near criticality, balancing network activity and enhancing temporal correlations. Importantly, we find that the network state is not sensitive to the rhythmically different language, and only partially responds to the rhythmically similar language. These results indicate a stimulus-driven tuning to criticality in newborns, a potential foundation for early neuroplasticity, which relies on prenatal experience and may respond to early functional and developmental needs.

neuroscience↗

The somatosensory barrel cortex controls the spindlethalamocortical oscillation by frequency locking

The sleep spindle is a characteristic oscillation typically observed in NREM sleep and anesthesia. It is generated by a closed-loop thalamocortical circuit that is allegedly contributing to thalamocortical gating, sensory processing and memory consolidation. Yet, the circuit intricacy in terms of electrophysiological neuronal properties and connectivity has so far contributed to hinder a clear understanding of its regulation and function. In this study, we experimentally demonstrate that, when driven by the somatosensory cortex, the spindle circuit behaves as a macroscopic single-frequency self-sustained oscillator. We frequency-modulated cortical inputs to the thalamocortical spindle circuit by periodic microstimulation of the barrel cortex in the anesthetized rat. Cortical spindles exhibited synchronization by frequency locking and not resonance, displaying a characteristic Arnold tongue, a hallmark of the self-sustained oscillator. With a rate model of the barrel cortex-thalamus circuit reproducing the oscillator behavior we show that frequency-locking can govern synchronization under whisking. Significance statementTemporal coordination across neurons (neural synchronization) is believed to be a fundamental mechanism underlying brain information processing. Neural synchornization generates oscillatory signals such as waxing and waning, approximately 10 Hz oscillations occurring during sleep and anaesthesia and known as brain spindles. Spindles are generated by a closed-loop circuit between thalamus and cortex but their function remains unknown. We demonstrate that, similarly to a methronome that adjusts its frequency to the one of an external forcing oscillator, the spindle circuit is controlled by the sensory cortex according to a frequency-locking mechanism. We suggest that frequency-locking within the thalmocortical circuitry represents a flexible frequency-adjustable mechanism tuning the processing of sensory inputs by neural synchronization.

neuroscience↗

Whisker stimulation reinforces a resting-state network in the barrel cortex: nested oscillations and avalanches

The cerebral cortex operates in a state of restless activity, even in the absence of external stimuli. Collective neuronal activities, such as neural avalanches and synchronized oscillations, are also found under rest conditions, and these features have been suggested to support sensory processing, brain readiness for rapid responses, and computational efficiency. The rat barrel cortex and thalamus circuit, with its somatotopic organization for processing sensory inputs from the whiskers, provides a powerful system to explore such interplay. To characterize these resting state circuits, we perform simultaneous multi-electrode recordings in rats barrel cortex and thalamus. During spontaneous activity, oscillations with frequencies centered around 11 Hz are detected concomitantly with slow oscillations below 4 Hz, as well as power-law distributed avalanches. The phase of the lower-frequency oscillation appears to modulate the higher-frequency amplitude, and it has a role in gating avalanche occurrences. We then record neural activity during controlled whisker movements and observe that the 11 Hz barrel circuit active at rest is indeed the one involved in response to whisker stimulation. We finally show how a thalamic-driven firing-rate model can describe the entire phenomenology observed at resting state and predict the response of the barrel cortex to controlled whisker movement, suggesting that the same intrinsic dynamics underlying resting-state activity also shape sensory responses. Author SummaryThe brain is active even in the absence of external stimuli, generating complex patterns of activity that are thought to prepare it for processing incoming information. Two prominent features of this spontaneous activity are rhythmic oscillations and neuronal avalanches--bursts of activity that span a wide range of sizes and durations. However, how these patterns relate to actual sensory processing remains unclear. In this study, we investigated the rat barrel cortex, a well-characterized system for processing tactile information from whiskers. By combining electrophysiological recordings and computational modeling, we found that specific transient oscillations centered around 11 Hz are present during rest and become significantly stronger when the whiskers are stimulated. At the same time, spontaneous activity displays a rich dynamical regime with neuronal avalanches, whose timing is modulated by slower brain rhythms. Importantly, we show that a simple thalamus-driven computational model can reproduce these observations. We thus provide a minimal yet powerful model that suggests that the same rich, intrinsic dynamics underlying resting-state activity also shape sensory responses. Our results support the idea that spontaneous brain activity is not idle, but instead reflects an organized dynamical regime that facilitates efficient processing of sensory inputs.

neuroscience↗

Mapping a Toxoplasma gondii interactome by crosslinking mass spectrometry and machine learning

Toxoplasma gondii, a widespread human parasite, persists in hosts through complex molecular interactions. Protein-protein interactions (PPIs) underpin essential biological processes, including parasite-host interactions and cellular invasion. Herein, we utilized advanced crosslinking mass spectrometry (XL-MS) techniques to map a T. gondii tachyzoite cytosolic extract interactome. By integrating MS-cleavable and non-cleavable analysis, we identified a total of 405 unique PPIs at medium confidence (FDR < 5%) and 226 at high confidence (FDR < 1%), revealing both known and novel interactions within critical cellular complexes such as the ribosome, proteasome, and dense granule proteins. Structural validation confirmed spatial proximity of crosslinked residues, while comparative analyses against existing datasets (hyperLOPIT, ToxoNET, STRING) corroborated the biological relevance of identified interactions. Furthermore, we introduced a machine learning approach leveraging biological annotations and experimental data to significantly enhance the detection and validation of PPIs. Our findings not only provide a refined view of T. gondiis molecular architecture, but also highlight the utility of XL-MS coupled with computational tools in dissecting complex parasite proteomes. The XL-MS interactome map provides a new valuable resource for understanding parasite biology and developing targeted therapeutic strategies.

microbiology↗

The Role of Syllabic Rhythm in Speech Perception Across Languages

The insertion of silences at regular intervals restores the intelligibility of English utterances that have been accelerated beyond comprehension, as long as the duration of the resulting speech-silence chunks falls within the theta rhythm of natural speech, i.e. the temporal modulation associated to the syllabic rate. We test whether such a rhythmic strategy works in languages rhythmically different from English, a stress-timed language. Thus, we assess whether comprehension of time-compressed Semantically Unpredictable Sentences (SUS) is restored in the syllable-timed language French and the mora-timed language Japanese, when silences re-establishing theta rhythm are inserted. Restoring the theta rhythm also improved intelligibility in French, but not in Japanese, in which best performance was instead achieved at faster rhythms, which suggests that modulation at the rate of a languages basic rhythmic unit plays a key role in understanding speech. In a second experiment, French speakers listened to SUS with speech-silence chunks adapted to the range of the temporal modulations of the delta, gamma, and high gamma rhythms, which correspond to the rate of prosodic phrases, phonemes, and subsegmental features, respectively. Unlike the theta rhythm, we found no restorative effects, providing further evidence for the special status of the theta rhythm in speech comprehension.

neuroscience↗

ARTIC RSV amplicon sequencing reveals global RSV genotype dynamics.

Respiratory syncytial virus (RSV) is a leading cause of lower respiratory tract infections (LTRIs) in young children and adults over 65, contributing significantly to global healthcare burdens. With the recent approval of multiple pharmacological interventions for RSV, there is an increased demand for efficient, high-throughput sequencing methods to monitor RSV genetic diversity and any potential impact these interventions may have. Here we introduce two novel amplicon-based sequencing schemes designed for RSV A and B, optimised for integration with widespread existing ARTIC sequencing workflows. We demonstrate that these primer schemes can produce high quality genomes from RSV samples across the globe, with eight laboratories in five countries generating complete genomes on both Nanopore and Illumina sequencing platforms. The ability to effectively multiplex these RSV A and B primer schemes, enables streamlined, high-throughput sequencing without prior subtyping. Furthermore, these results provide a snapshot of the circulating diversity of RSV. Phylogenetic analysis of the 882 samples sequenced for this study suggests only minimal geographic clustering of RSV sequences, underscoring the global nature of RSV spread. It also highlights the distinct lineage dynamics seen between RSV A and B. This study represents an advancement in RSV genomics, providing robust tools for global sequencing efforts aimed at tracking RSV evolution and assessing the efficacy of new therapeutic interventions both rapidly and at scale.

genomics↗

Integrity and miss grouping as support for clusters in agglomerative hierarchical methods: the R-package octopucs

The hierarchical clustering of communities based on speciescompositional similarity (and abundance or frequency) is standard in community ecology to unveil large-scale patterns and underlay environmental causes of differentiation among communities. Often, the threshold to discretize clusters is arbitrary despite the existence of methods that minimize this bias. Most available techniques use the exact repeatability of clusters memberships under resampling protocols to define robust groups. Here, we propose a novel method to yield cluster support throughout the topology of hierarchical analyses. We acknowledge that the observed dataset may be biased. Instead of using the observed topology as a reference to work out the groups support, we compiled a consensus topology. Then, we borrowed the ecological concepts of reciprocal complementarities between a pair of communities and translated them into cluster integrity and contamination. This procedure allows for building support for groups even when there is a partial membership match after resampling the dataset. In addition, we present the R package octopucs in which we implemented the method reported here. Compared with other methods, the new proposal robustly detected changes in the group memberships, resulting in considerable differences in the pattern of supported clusters.

bioinformatics↗

Ongoing local adaptation to climate change in yarrow (Achillea millefolium L.)

Climate change threatens biodiversity as populations can persist if they migrate or adapt to the rapidly changing conditions of the Anthropocene. However, little is known about the persistence of plant populations under the long-term trends of increasing temperature and drought. We explore whether historical populations of yarrow (Achillea millefolium L.) surveyed in the 1920s have persisted locally or undergone local extinction after 100 years. We resurveyed historical sites spanning a broad climatic gradient (from 1 m to 3,200 m a.s.l.), examined to what extent plant growth signature (height) has changed over time, and analyzed metabolic diversity. Nine out of ten populations persisted locally and showed phenotypic and metabolic differentiation. The only population potentially extirpated is that of the hottest and driest site. Populations from warm sites in coastal and mountain regions had grown taller than 100 years ago. In contrast, populations from dry sites in lowlands and foothills became shorter. Furthermore, we document differentiation in metabolic diversity involving plant defenses and signaling. Ongoing local adaptation is constrained by changing both temperature and precipitation as well as by biotic interactions. Preserving locally adapted populations and metabolic diversity is key for conservation efforts.

evolutionary biology↗

Prenatal experience with language shapes the brain

Human infants acquire language with striking ease compared to adults, but the neural basis of their remarkable brain plasticity for language remains little understood. Applying a scaling analysis of neural oscillations for the first time to address this question, we show that newborns electrophysiological activity exhibits increased long-range temporal correlations after stimulation with speech, particularly in the prenatally heard language, indicating the early emergence of brain specialization for the native language.

neuroscience↗

Toxoplasma scavenges mammalian host organelles through usurpation of host ESCRT-III and Vps4

Intracellular pathogens exploit cellular resources through host cell manipulation. Within its nonfusogenic parasitophorous vacuole (PV), Toxoplasma targets host nutrient-filled organelles and sequesters them into the PV through deep invaginations of the PV membrane (PVM) that ultimately detach from this membrane. Some of these invaginations are generated by an intravacuolar network (IVN) of parasite-derived tubules fusing with the PVM. Here, we examine the parasite usurpation of host ESCRT-III and Vps4 to create PVM buds and vesicles. CHMP4B associates with the PVM/IVN and dominant negative (DN) CHMP4B forms many long PVM invaginations containing CHMP4B filaments; the invaginations are shorter in IVN-deficient parasites, suggesting cooperation between IVN and ESCRT. In infected cells expressing Vps4-DN, enlarged intra-PV structures containing host endo-lysosomes accumulate, reflecting defects in PVM scission. Parasite mutants lacking TgGRA14 or TgGRA64 that interact with ESCRT have reduced CHMP4B-DN-induced PVM invaginations and intra-PV host organelles, with greater defects in a double-knockout, revealing the exploitation of ESCRT to scavenge host organelles by Toxoplasma. SummaryThe parasite Toxoplasma sequesters host nutrient-filled organelles into its parasitophorous vacuole through its exploitation of host ESCRT-III and Vps4 for vacuolar membrane-remodeling and fission processes utilizing the parasite proteins TgGRA14 and TgGRA64 that interact with ESCRT.

microbiology↗

Complexity of brain dynamics as a correlate of consciousness in anaesthetized monkeys

The use of anaesthesia is a fundamental tool in the investigation of consciousness. Anesthesia procedures allow to investigate different states of consciousness from sedation to deep anesthesia within controlled scenarios. In this study we use information quantifiers to measure the complexity of electrocorticogram recordings in monkeys. We apply these metrics to compare different stages of general anesthesia for evaluating consciousness in several anesthesia protocols. We find that the complexity of brain activity can be used as a correlate of consciousness. For two of the anaesthetics used, propofol and medetomidine, we find that the anaesthetised state is accompanied by a reduction in the complexity of brain activity. On the other hand we observe that use of ketamine produces an increase in complexity measurements. We relate this observation with increase activity within certain brain regions associated with the ketamine used doses. Our measurements indicate that complexity of brain activity is a good indicator for a general evaluation of different levels of consciousness awareness, both in anesthetized and non anesthetizes states.

neuroscience↗