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Suarez, L.

Publications and source records attributed to Suarez, L..

5 recordsLinked to original sources

SHIELD: Skull-shaped hemispheric implants enabling large-scale-electrophysiology datasets in the mouse brain

To understand the neural basis of behavior, it is essential to measure spiking dynamics across many interacting brain regions. While new technologies, such as Neuropixels probes, facilitate multi-regional recordings, significant surgical and procedural hurdles remain for these experiments to achieve their full potential. Here, we describe a novel 3D-printed cranial-replacement implant (SHIELD) enabling electrophysiological recordings from distributed areas of the mouse brain. This skull-shaped implant is designed with customizable insertion holes, allowing dozens of cortical and subcortical structures to be recorded in a single mouse using repeated multi-probe insertions over many days. We demonstrate the procedures high success rate, biocompatibility, lack of adverse effects on behavior, and compatibility with imaging and optogenetics. To showcase the scientific utility of the SHIELD implant, we use multi-probe recordings to reveal novel insights into how alpha rhythms organize spiking activity across visual and sensorimotor networks. Overall, this method enables powerful large-scale electrophysiological measurements for the study of distributed brain computation.

neuroscience↗

Protective Role of RIPK1 Scaffolding against HDV-Induced Hepatocyte cell death and the Significance of Cytokines in Mice

Hepatitis delta virus (HDV) infection represents the most severe form of human viral hepatitis; however, the mechanisms underlying its pathology remain incompletely understood. We recently developed an HDV mouse model by injecting adeno-associated viral vectors (AAV) containing replication-competent HBV and HDV genomes. This model replicates many features of human infection, including liver injury. Notably, the extent of liver damage can be diminished with anti-TNF- treatment. In the present study, we found that TNF- is mainly produced by macrophages. Downstream of the TNF- receptor (TNFR), the receptor-interacting serine/threonine-protein kinase 1 (RIPK1) serves as a cell fate regulator, playing roles in both cell survival and death pathways. In this study, we explored the function of RIPK1 and other host factors in HDV-induced cell death. We determined that the scaffolding function of RIPK1, and not its kinase activity, offers partial protection against HDV-induced apoptosis. A reduction in RIPK1 expression in hepatocytes through Cas9-mediated gene editing significantly intensifies HDV-induced damage. Contrary to our expectations, the protective effect of RIPK1 was not linked to TNF- or macrophage activation, as their absence did not alter the extent of damage. Intriguingly, in the absence of RIPK1, macrophages confer a protective role. However, in animals unresponsive to type-I IFNs, RIPK1 downregulation did not exacerbate the damage, suggesting RIPK1s role in shielding hepatocytes from type-I IFN-induced cell death. Interestingly, while the damage extent is similar between IFNAR KO and WT mice in terms of transaminase elevation, their cell death mechanisms differ. In conclusion, our findings reveal that HDV-induced type-I IFN production is central to inducing hepatocyte death, and RIPK1s scaffolding function offers protective benefits. Thus, type-I IFN together with TNF-, contribute to HDV-induced liver damage. These insights may guide the development of novel therapeutic strategies to mitigate HDV-induced liver damage and halt disease progression. Author summaryHepatitis D is the most aggressive form of viral hepatitis. Our manuscript underscores the complexity of HDV-induced liver damage, where both viral and host factors play significant roles. Previously, we demonstrated that pharmacological inhibition of TNF- reduced HDV-induced liver damage. This result was corroborated in the present study using TNF--deficient mice. Moreover, we reported that the expression of the HDV antigen might have a cytotoxic effect, and HDV replication induces a strong activation of the innate immune system, accompanied by a substantial production of IFN-{beta}. In this study, we discovered that RIPK1, a molecule described as a cell fate modulator acting downstream of TNF-, plays a protective role during HDV replication. Contrary to our expectations, neither TNF- nor macrophages, the primary producers of TNF-, contributed to this protective effect. Instead, it seems type I IFN was involved. Interestingly, the role of type I IFN in HBV-induced liver damage has recently been proposed. Furthermore, our data reveals that several mechanisms of hepatocyte death are at play simultaneously during HDV replication, with apoptosis being one of them. Additional studies are needed to identify other mechanisms involved. Finally, these findings suggest that therapies targeting TNF- and type-I IFN, or those increasing RIPK1 levels, might be effective in preventing or treating HDV-induced liver damage.

pathology↗

Peanut Smut: A scientometric analysis for a pathosystem that concerns the Argentine peanut industry.

Since its first report in commercial batches in 1995, the prevalence and yield impact caused by smut disease have increased rapidly in peanut fields. At the same time, various working groups have studied this pathosystem using different approaches, contributing to the scientific knowledge of the disease. By recognizing the importance of a thorough bibliographic review and meticulous organization of information, the process of initiating new research projects becomes more effective. In light of this, the aim of this work was to provide a comprehensive scientometric analysis of the evolution of peanut smut research, spanning from its inception to the current day. For this purpose, we compiled bibliographic data about the disease and extracted information to calculate metrics. We observed that a smaller proportion of the scientific production was presented in peer-reviewed journals, the prevalent topics were epidemiology and breeding, and the collaborative endeavors were crucial for the scientific advancement in the study of this pathosystem. Additionally, the researchers with the most significant presence in the publications, the involved institutions, and the impact of the produced papers, among other trends were identified. Although there have been many scientific-technological advances in peanut smut over the years, this information is not reflected in scientific papers in peer-reviewed journals, which represents a great challenge for researchers involved in this topic. It is crucial to continue generating knowledge that contributes to the integrated management of this complex pathosystem. This will prevent further yield losses and the spread of the pathogen to new production areas.

plant biology↗

Recurrent pattern completion drives the neocortical representation of sensory inference

When sensory information is incomplete or ambiguous, the brain relies on prior expectations to infer perceptual objects. Despite the centrality of this process to perception, the neural mechanism of sensory inference is not known. Illusory contours (ICs) are key tools to study sensory inference because they contain edges or objects that are implied only by their spatial context. Using cellular resolution, mesoscale two-photon calcium imaging and multi-Neuropixels recordings in the mouse visual cortex, we identified a sparse subset of neurons in the primary visual cortex (V1) and higher visual areas that respond emergently to ICs. We found that these highly selective IC-encoders mediate the neural representation of IC inference. Strikingly, selective activation of these neurons using two-photon holographic optogenetics was sufficient to recreate IC representation in the rest of the V1 network, in the absence of any visual stimulus. This outlines a model in which primary sensory cortex facilitates sensory inference by selectively strengthening input patterns that match prior expectations through local, recurrent circuitry. Our data thus suggest a clear computational purpose for recurrence in the generation of holistic percepts under sensory ambiguity. More generally, selective reinforcement of top-down predictions by pattern-completing recurrent circuits in lower sensory cortices may constitute a key step in sensory inference.

neuroscience↗

Whole genome sequencing evidences higher rates of relapse in Clostridioides difficile infection caused by PCR ribotype 106

Increasing prevalence and widespread of Clostridioides difficile infection (CDI) caused by the epidemic DH/NAP11/106/ST-42 has been observed worldwide, probably fostered by its great capacity to produce spores or the higher resistance rates found in some strains. Previous studies have also attributed higher recurrence rates to RT106 as compared to others. This study describes the genetic analysis by whole genome sequencing (WGS) of primary and recurrent isolates of RT106 to determine if the higher rate of recurrence associated to RT106 is due to relapses, caused by the same strain, or reinfections, caused by different strains. The whole-genome sequences of ten primaries and fourteen recurrent RT106 isolates from ten patients were obtained to determine MLST profiles, resistance mutations and phylogenetic relatedness between the different isolates by comparative single nucleotide variants (SNV) analysis using the C. difficile DH/NAP11/106/ST-42 genome as reference (GenBank accession: GCA_002234355.1). All isolates were classified as ST42 and SNVs comparative analysis showed that those belonging to the same patient were isogenic (differed by [≤]3 SNVs), with one exception (6 SNVs); while strains belonging to different patients were not (differing by 4 to 43 SNVs) with two exceptions of isogenic isolates from different patients, suggesting putative transmission events. Phylogenetic analysis suggested the presence of similar local epidemic lineages, except for one patient whose isolates clustered with different US isolates. All the isolates, except those clustering with the US lineage, were also associated to moxifloxacin resistant since all of them were resistant by agar diffusion (MIC >32) and contained the Thr82Ile mutation in gyrA. Our results evidence that recurrent Clostridioides difficile infections caused by RT06/ST42 are mainly due to relapses, caused by primary strains, showing the great capacity of RT106/ST42 to persist and cause recurrences as compared to other ribotypes.

microbiology↗