Biology subjects

Ortega, J.

Publications and source records attributed to Ortega, J..

At least 19 recordsLinked to original sources

bioRxiv2026

Novel modifications to fructose metabolism are associated with adaptation to high-sugar diets in bats

High-sugar diets in mammals are associated with a number of metabolic diseases including diabetes and obesity. However, frugivorous and nectivorous bats specialize in consuming diets high in simple sugars while remaining healthy. To investigate the metabolic adaptations in bats with high-sugar diets, we conducted targeted metabolomics on blood samples collected during the first ten minutes after glucose or fructose feeding in five bat species whose natural diets vary in sugar content. By comparing changes in blood metabolite levels over time both between feeding treatments and across dietary guild, we have been able to identify shifts in sugar processing that likely support the healthy metabolism of simple sugars mammals with high-sugar diets. Notably, despite both sugars being readily absorbed, only fructose feeding induced significant changes in other metabolites within ten minutes after feeding. Species who naturally consume more sugar showed both faster production of metabolic intermediates and lowered production of common deleterious byproducts of fructose metabolism than species with comparatively lower-sugar diets. The prioritization and refinement of fructose metabolism is therefore likely a more key aspect of how bats with high-sugar diets are able to avoid the diseases typically associated with excessive sugar consumption than modifications to glucose metabolism.

physiology↗

bioRxiv2026

Kinship, acoustic signaling, and socio-spatial structure shape shared decisions and social influence in white-nosed coatis

When individual preferences for collective outcomes diverge, cohesive animal groups often coalesce on the majority opinion. However, majority-based decision rules may be counterbalanced by other factors, particularly in heterogeneous groups with differentiated social relationships, and these factors could produce inequality in social influence. We used multi-sensor tracking collars to collect detailed and simultaneous data on the movements and vocalizations of almost all members of three wild white-nosed coati (Nasua narica) groups, and analyzed 2,401 individual decisions between conflicting travel directions. Decision-making was shared: individuals favored directions that had majority support, and we found evidence that they used acoustic signals and movement cues to infer majority support. Individuals were also more likely to choose directions favored by closer kin and by groupmates in more frontward spatial positions. Although decisions were shared, influence was not equally distributed across individuals. During directional conflicts, individuals who were more likely to form majorities or who were advantaged by frontward spatial positions had higher influence over travel direction. By explicitly linking decisions by individual followers to emergent patterns of influence among potential leaders, our results suggest that influence is a complex product of higher-order interactions that are likely dependent on group demography and socio-spatial structure.

animal behavior and cognition↗

bioRxiv2026

Non-canonical ribosome organization enables translation stalling in neuronal RNA granules.

Neuronal outgrowth to support cognitive functions relies on a timely supply of proteins to distal sites in the neuron. To meet this demand, neurons transport mRNAs and ribosomes in large assemblies called "neuronal RNA granules". Ribosomes that integrate into these granules initiate protein synthesis in the soma, stall the process, and then become packaged into clusters that are transported to distal sites, where protein synthesis can be reactivated. The exact mechanisms and structure of these ribosome clusters remain unknown. We combined cryo-electron microscopy and cryo-electron tomography to examine these dense ribosome clusters purified from rat brains, which are included in neuronal RNA granules. We found that these clusters contain ribosomes stalled at various stages of elongation and that the mRNA sequences where the ribosomes stall facilitate stalling. The ribosome clusters contain multiple polysomal units, and ribosomes from nearby polysomes interact through rRNA expansion segments, only seen before in disomes of inactive or hibernating ribosomes in neurons. The ribosomes in the clusters form unique three-dimensional arrays that evade detection by the ribosome-associated quality-control and NO-GO decay responses, which normally lead to recycling of 40S and 60S subunits, and degradation of the mRNA and arrested nascent proteins. Overall, this study helps uncover specialized mechanisms in neurons that enable local protein translation at distal sites, supporting proper protein homeostasis, both crucial for neurodevelopment and optimal neuronal function. KEY POINTSO_LIRibosomes in neurons organize into unique clusters that are incorporated into "neuronal RNA granules". C_LIO_LIApproximately half of the ribosomes in these clusters are stalled in elongation. C_LIO_LIThe mRNA sequences read by these ribosomes facilitate stalling. C_LIO_LIRibosomes within the clusters interact through rRNA expansion segments. C_LIO_LIRibosomes in the clusters form unique 3D structures that are not detected by the ribosome-associated quality-control response. C_LI

neuroscience↗

bioRxiv2026

The vocal repertoire of white-nosed coatis: structural features, temporal dynamics, and social variations

For many group living species, vocal signals are a vital form of communication needed to coordinate social behaviours. Investigating these processes first requires a detailed description of the species vocal repertoire. White-nosed coatis (Nasua narica), which forage and move together in forest habitats, are thought to rely on vocalisations to coordinate movements and maintain group cohesion. However, quantitative studies of their vocal repertoire are lacking. We examined the vocal repertoire of white-nosed coatis from wild populations in Panama and Arizona, USA, to gain a more comprehensive view of their calling behaviours. By combining traditional acoustic analyses with an unsupervised approach based on spectrogram structure, we characterised the diversity of calls in this species and described the temporal and structural features of their vocalisations. We identified 19 call types, with some of these calls emitted in multi-syllable call sequences or in fast succession. We found variability in call rates among group members, which may be driven by differences in social status within the group. In addition, our results indicate that white-nosed coatis likely have individually-recognisable vocalisations. This study provides a foundational description of the white-nosed coati vocal repertoire, laying the groundwork for future research on vocal communication in this species.

animal behavior and cognition↗

bioRxiv2026

Vocal coordination and conflict avoidance shape fission-fusion dynamics in white-nosed coatis

Many social animals exhibit fission-fusion dynamics, where group members split into subgroups and come back together. Studying these dynamics can reveal how individuals weigh the costs and benefits of sociality. Most studies infer the drivers of fission-fusion dynamics by examining subgroup association patterns, yet different underlying processes can produce similar patterns. Here we take a fundamentally different approach by focusing on subgrouping events themselves, where decision-making plays out in real time. Using multi-sensor tracking collars, we collected simultaneous movement and vocalisation data from all group members within two wild white-nosed coati groups. We developed analytical tools to extract and characterise fission and fusion events, thus establishing a framework for quantifying the spatiotemporal dynamics of these events and the use of vocalisations before, during, and after them. We found that fissions typically occurred when groups were initially stationary, indicating that splitting does not result from loss of coordination while moving.Subgrouping was associated with reduced aggression, yet aggressive vocalisations did not precede splits, supporting the hypothesis that subgrouping is a pre-emptive mechanism to manage within-group conflict. Contact calls in moving subgroups increased before fissions and fusions, indicating that vocal communication is key to the coordination of these collective movement decisions.

animal behavior and cognition↗

bioRxiv2025

Stress induces distinct social behavior states encoded by the ventral hippocampus

A single, acute traumatic experience can result in a host of negative impacts on behavior, such as increased violence, reduced sociability, and exaggerated fear responses. Despite the large body of research on the neurobiology of stress, we have a poor understanding of how trauma rewires social circuits in the brain. To identify how social circuits are re-organized by stress, we interrogated the role of the ventral hippocampus (VH), a key node for both the orchestration of emotionally-relevant behavior and the integration of sensory information. Using a footshock-based model of traumatic stress, we established that a single exposure to a series of unpredictable, inescapable footshocks was sufficient to negatively alter social behavior, resulting in increased violence and social hesitancy. Critically, we found that stress-induced changes to social behavior engaged neural ensembles in the VH, a critical node in the regulation of emotion states. Using a virally-mediated, activity-dependent cellular tagging approach to label two neural ensembles activated by temporally distinct experiences, we were surprised to find that stress-induced violence and stress-induced social hesitancy recruited largely non-overlapping populations of cells in the VH, in contrast to higher degrees of ensemble overlap in unstressed control mice, suggesting that stress biases the brain towards stronger differentiation of distinct social states. Additionally, we found that activity of VH neurons was required for stress-induced aggression. Finally, we found that stress-induced changes to social behaviors and VH activity profiles could be reversed by the introduction of social buffering post-stress. Collectively, our findings suggest that stress drives the VH to dissociably encode specific behavioral states, rather than a single state of negative valence, consistent with a role for multiple structures and distributed ensembles in the modulation of traumatic stress.

neuroscience↗

bioRxiv2025

Effects of Willow and Pine tree growth in bacterial abundance, interactions and metabolic profile in a copper mine tailing

The Cauquenes tailings is one of the largest mine tailings in Chile and represents a significant environmental hazard due to its high copper levels and acidic pH. However, there is evidence of willow and pine tree growth in these terrains, which is unexpected given the extreme conditions of this environment. Considering the importance of plants in restoration strategies, the objective of this study was to analyze the effect that willow and pine growth have on the heavy metal contents of their surrounding soil, and the abundance, interaction, metabolic profile and assembly of the bacterial community. In the Cauquenes tailing, we collected samples from willow and pine vegetated soils as well as the surrounding non-vegetated soils. We analyzed characteristics such as heavy metal concentrations and pH levels in all sampled soils, and in tree leaves and roots. Vegetated sites exhibited lower copper levels and a neutral pH, while both tree species accumulated heavy metals in their tissues. We also determined bacterial abundance in all soil samples, and co-occurrence networks were constructed to assess bacterial interactions. Both trees promoted a higher abundance of Proteobacteria and had networks with higher modularity compared to non-vegetated soils. Finally, we estimated the metabolic profile of the bacterial community using PICRUSt 2 analysis and determined carbon source utilization with BioLog Ecoplates. PICRUSt 2 predicted higher metabolic activity in vegetated soils, and BioLog Ecoplate analysis revealed the utilization of a greater number of carbon sources. The microbial communities from vegetated soils were assembled in a deterministic manner, while the community from non-vegetated soils were stochastically assembled. In conclusion, tree growth mitigated the extreme conditions of the tailing and promoted a more active and healthier bacterial community. HighlightsO_LIWillow and pine tree can grow and mitigate toxic metal conditions in the tailings C_LIO_LIBoth trees provoked a shift in bacterial abundance and interaction network C_LIO_LIThe provoked shift was tree-dependent C_LIO_LIMicrobial activity was higher in vegetated soils C_LI

microbiology↗

bioRxiv2025

Bioprospection of culturable soil-borne bacteria with biotechnological potential for use in priming defense

BackgroundThe plant root microbiome is central to disease resistance and stress resilience. In intensive tomato production, prolonged agrochemical use disrupts microbial communities, reducing their protective functions and enabling pathogen establishment. MethodsWe integrated 16S rRNA amplicon sequencing with culture-dependent isolation to analyze microbiome shifts in tomato plants across healthy, asymptomatic, and symptomatic states in a nematode-infested field. Network analysis and machine learning were used to identify key taxa. Isolates were screened for plant growth-promoting rhizobacteria (PGPR) and nematicidal activity, and selected strains were evaluated in planta under pathogen challenge. ResultsMicrobial diversity and community complexity declined with disease severity. Gaiella occulta emerged as a potential biomarker of plant health. From 223 isolates, 45 strains exhibited PGPR and nematicidal traits. Ten were tested in tomato plants, where treatments conferred systemic resistance to Pseudomonas syringae pv tomato without fitness cost. Four strains, primarily Pseudomonas and Bacillus, triggered immune priming, enhanced root development, and three of them were co-isolated from a single asymptomatic plant. ConclusionsOur findings highlight the potential of targeted bacterial consortia to restore microbiome balance and activate immune responses in tomato. These results support the rational design of synthetic microbial communities (SynComs) for sustainable, microbiome-based crop protection.

immunology↗

bioRxiv2025

Reduced glutathione levels in Enterococcus faecalis trigger metabolic and transcriptional compensatory adjustments during iron exposure.

Enterococcus faecalis, a facultative anaerobic pathogen and common constituent of the gastrointestinal microbiota, must navigate varying iron levels within the host. This study explores its response to iron supplementation in a glutathione-deficient mutant strain ({Delta}gsh). We examined the transcriptomic and metabolic responses of a glutathione synthetase mutant strain ({Delta}gsh) exposed to iron supplementation, integrating these data into a genome-scale metabolic model (GSMM). Our results show that under glutathione deficiency, E. faecalis reduces intracellular iron levels and shifts its transcriptional response to prioritize energy production genes. Notably, basal metabolites, including arginine, increase. The GSMM highlights the importance of arginine metabolism, particularly the arc operon (anaerobic arginine catabolism), as a compensatory mechanism for reduced glutathione during iron exposure. These findings provide insights into how E. faecalis adjusts metal homeostasis and transcriptional/metabolic processes to mitigate the effects of oxidative stress caused by iron. IMPORTANCEIron is essential for bacterial survival, yet its excess can be harmful through increase of oxidative stress. Enterococcus faecalis, a bacterium common member of the human gut, must carefully balance its iron levels in order to survive in changing environments. This study studies how E. faecalis compensates the reduced levels of glutathione --a key antioxidant-- when exposed to high iron concentrations. We discovered that E. faecalis lowers its intracellular iron levels under glutathione decrease and reprograms its metabolism to prioritize energy production. These findings provide valuable insights into bacterial adaptation mechanisms under oxidative stress conditions, which could influence the development of new strategies to combat bacterial infections.

systems biology↗

bioRxiv2025

FMRP Regulates Neuronal RNA Granules Containing Stalled Ribosomes, Not Where Ribosomes Stall

Local protein synthesis is a crucial process that maintains local proteostasis in neurons. A large percentage of mRNAs translated in developing neurons are associated with stalled ribosomes. FMRP, the protein lost in Fragile X syndrome, is highly enriched in RNA granules that contain stalled ribosomes. Previous examination of ribosome protected fragments (RPFs) from stalled neuronal ribosomes identified sequences that match those found in mRNAs associated with FMRP, as identified by FMRP cross-linking immunoprecipitation (CLIP) (Anadolu et al, 2023, Journal of Neuroscience doi: 10.1523/JNEUROSCI.1002-22.2023). To investigate whether FMRP recognition of these sequences is important for determining where ribosomes stall on mRNAs, we examined RPFs isolated from P5 mice of both sexes that lack the FMRP protein. We found that the loss of FMRP had no significant effect on the proteins associated with neuronal stalled ribosomes, on ribosome structure, or the stalling sites (locations where RPFs accumulated). However, we observed a small, but significant decrease in the RPF levels from mRNAs previously shown to be associated with FMRP by CLIP in stalled ribosomes. Additionally, the number of neuronal RNA granules containing stalled ribosomes, as assayed by ribopuromycylation, decreased. Unlike neuronal RNA granules in WT neurons, the remaining neuronal RNA granules were resistant to reactivation. These results suggest a role of FMRP in neuronal RNA granules that contain stalled ribosomes, though loss of FMRP does not influence where ribosomes are stalled or the formation of stalled ribosomes.

neuroscience↗

bioRxiv2024

UTX Epigenetically Imposes a Cytolytic Effector Program in Autoreactive Stem-like CD8+ T cell Progenitors

Type 1 Diabetes Mellitus (T1D) is a chronic disease caused by an unremitting autoimmune attack on pancreatic beta cells. This autoimmune chronicity is mediated by stem-like progenitor CD8+ T cells that continually repopulate the pool of beta cell-specific cytolytic effectors. Factors governing the conversion of progenitors to effectors, however, remain unclear. T1D has been linked to a chromosomal region (Xp13-p11) that contains the epigenetic regulator UTX, which suggests a key role for UTX in T1D pathogenesis. Here, we show that T cell-specific UTX deletion in NOD mice protects against T1D development. In T cells of NOD mice and T1D patients, UTX ablation resulted in the accumulation of CD8+ progenitor cells with concomitant deficiency of effectors, suggesting a key role for UTX in poising progenitors for transition to effectors. Mechanistically, UTXs role in T1D was independent of its inherent histone demethylase activity but instead relied on binding with transcription factors (TCF1 and STAT3) to co-regulate genes important in the maintenance and differentiation of progenitor CD8+ T cells. Together, these findings identify a critical role for UTX in T1D and the UTX:TCF1:STAT3 complex as a therapeutic target for terminating the long-lived autoimmune response.

immunology↗

bioRxiv2024

Polyfunctional IL-21+ IFNg+ T follicular helper cells contribute to checkpoint inhibitor diabetes mellitus and can be targeted by JAK inhibitor therapy

Immune checkpoint inhibitors (ICI) have revolutionized cancer therapy, but their use is limited by the development of autoimmunity in healthy tissues as a side effect of treatment. Such immune-related adverse events (IrAE) contribute to hospitalizations, cancer treatment interruption and even premature death. ICI-induced autoimmune diabetes mellitus (ICI-T1DM) is a life-threatening IrAE that presents with rapid pancreatic beta-islet cell destruction leading to hyperglycemia and life-long insulin dependence. While prior reports have focused on CD8+ T cells, the role for CD4+ T cells in ICI-T1DM is less understood. Here, we identify expansion CD4+ T follicular helper (Tfh) cells expressing interleukin 21 (IL-21) and interferon gamma (IFN{gamma}) as a hallmark of ICI-T1DM. Furthermore, we show that both IL-21 and IFN{gamma} are critical cytokines for autoimmune attack in ICI-T1DM. Because IL-21 and IFN{gamma} both signal through JAK-STAT pathways, we reasoned that JAK inhibitors (JAKi) may protect against ICI-T1DM. Indeed, JAKi provide robust in vivo protection against ICI-T1DM in a mouse model that is associated with decreased islet-infiltrating Tfh cells. Moreover, JAKi therapy impaired Tfh cell differentiation in patients with ICI-T1DM. These studies highlight CD4+ Tfh cells as underrecognized but critical mediators of ICI-T1DM that may be targeted with JAKi to prevent this grave IrAE. VISUAL ABSTRACT O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=92 SRC="FIGDIR/small/625710v1_ufig1.gif" ALT="Figure 1"> View larger version (26K): org.highwire.dtl.DTLVardef@ed4acdorg.highwire.dtl.DTLVardef@c9e062org.highwire.dtl.DTLVardef@1aa81eforg.highwire.dtl.DTLVardef@1388747_HPS_FORMAT_FIGEXP M_FIG C_FIG

immunology↗

bioRxiv2024

Co-existence of ST-Segment Depression and Exaggerated Blood Pressure Response in Older Runners

Exercise stress tests are typically performed on symptomatic patients and those at elevated risks of ischemic heart disease. In more recent years, these tests are increasingly recommended for masters athletes who regularly perform exercise training. In the sample of apparently healthy physically active older adults who were recruited for a research study to evaluate exercise economy, we found the coexistence of ST-segment depression and exaggerated BP response in older runners. These findings are consistent with the notion that the screening and assessment of cardiovascular risks should be extended to masters athletes who vigorously train regularly and are seemingly healthy.

physiology↗

bioRxiv2024

Profiling extremophile bacterial communities recovered from a mining tailing against soil ecosystems through comparative genome-resolved metagenomics and evolutionary analysis

Microbial communities inhabiting mining environments harbor a diverse array of bacteria with specialized metabolic capacities adapted to extreme conditions. Here, we utilized comparative genome-resolved metagenomics of a high-quality Illumina-sequenced sample from the Cauquenes copper tailing in central Chile. We investigate the metabolic roles and evolutionary behaviors of the resident microorganisms, focusing on capacities related to copper, iron, and sulfur metabolism. We recovered 44 medium and high-quality metagenome-assembled genomes (MAGs), primarily classified belonging to phylum Actinobacteriota (21), Proteobacteria (10), and Acidobacteriota (6). These MAGs were compared to the Global Soil MAGs project (SMAG catalog), which includes bacteria from conventional or natural ecosystems, to uncover specialized properties of mining bacteria. Notably, we discovered a new phylum, Nitrospirota_A, and provided insights into the unexplored taxonomic classifications at the lowest ranks such as genus and species. Functional potential analysis revealed that the mining community has enhanced molecular capabilities associated with sulfur and copper metabolism. Evolutionary analysis revealed that mining genes involved in targeted metabolism are under strong negative selection, indicating conservative evolutionary pressure within the mining environment. In particular, it was possible to identify a MAG from the genus Acidithrix with a global dN/dS ratio greater than 1, suggesting positive selection. Additionally, core proteins essential for bacterial survival, such as flagellar motors, cell cycle regulators, and biogenesis proteins, were also under positive selection. The latter points to the need for enhanced mobility in these microorganisms to locate resources efficiently. We demonstrate that copper mining communities are diverse and possess a significant metabolic repertoire under extreme conditions in sulfur and copper proteins. Those specialized genes appear to be in a conservative state rather than undergoing adaptive evolution. This study enhances our understanding of extremophile mining microbiomes, highlighting their high variability in classification, metabolic functions, evolution, and adaptation, which can be leveraged for further biotechnological applications.

genomics↗

bioRxiv2024

Behavioral sequences across multiple animal species in the wild share common structural features

Animal behavior can be decomposed into a sequence of discrete activity bouts over time. Analyzing the statistical structure of such behavioral sequences can provide insights into the drivers of behavioral decisions. Laboratory studies, predominantly in invertebrates, have suggested that behavioral sequences exhibit multiple timescales and long-range memory, but whether these results can be generalized to other taxa and to animals in natural settings remains unclear. By analyzing accelerometer-inferred predictions of behavioral states in three species of social mammals (meerkats, white-nosed coatis, and spotted hyenas) in the wild, we discovered surprisingly consistent structuring of behavioral sequences across all behavioral states, all individuals, and all study species. Behavioral bouts were characterized by decreasing hazard functions, wherein the longer a behavioral bout had progressed, the less likely it was to end within the next instant. The predictability of an animals future behavioral state as a function of its present state always decreased as a truncated power-law for predictions made farther into the future, with very similar estimates for the power law exponent across all species. Finally, the distributions of bout durations were also heavy-tailed. Why such shared structural principles emerge remains unknown, and we explore multiple plausible explanations, including environmental non-stationarity, behavioral self-reinforcement, and the hierarchical nature of behavior. The existence of highly consistent patterns in behavioral sequences across our study species suggests that these phenomena could be widespread in nature, and points to the existence of fundamental properties of behavioral dynamics that could drive such convergent patterns. Significance statementThe study of animal behavior seeks to understand how and why animals do what they do. This pursuit of general principles governing behavior across species can be approached by first understanding when animals choose to change their behavioral states (e.g., switching from walking to standing, or to running). Using accelerometer-inferred behaviors of three social mammals, we uncover common structural long timescale patterns in their sequences of behavior. We explore two explanations, involving either positive feedbacks or the interaction of several independent time-scales, about how such common patterns arise.

animal behavior and cognition↗

bioRxiv2023

Whole group tracking reveals that relatedness drives consistent subgrouping patterns in white-nosed coatis

The formation of subgroups can allow group-living animals flexibility to balance the costs and benefits of sociality over time. Subgrouping dynamics emerge from individual decisions about whether and with whom to maintain cohesion, with these decisions potentially influenced by ecological, physiological, and social factors. We GPS-tracked the movements of nearly all members of three wild white-nosed coati (Nasua narica) social groups that differed in their demographic profiles to better understand how these highly social, frugivorous carnivores weight the relative importance of these different factors in their grouping decisions. Quantifying group movements and subgrouping patterns, we found that two of the three groups we tracked exhibited fission-fusion behaviours, with groups splitting into subgroups that persisted over varying timespans from minutes to days. In contrast, the third group remained together across the entire observation period. When groups split, they did not do so randomly; instead, individuals tended to form subgroups with the same individuals consistently over time. Assessing the drivers of subgrouping patterns revealed that subgroup membership was associated with genetic relatedness, but not physiological similarity as quantified by age and sex homophily. Our results demonstrate great variation in subgrouping patterns within a single species, while also highlighting a consistent role of relatedness in driving social preferences when subgroups form.

animal behavior and cognition↗

bioRxiv2023

WRN Inhibition Leads to its Chromatin-Associated Degradation Via the PIAS4-RNF4-p97/VCP Axis

Synthetic lethality, the concept in which the co-occurrence of two genetic events leads to cell death while either single event alone does not, is an attractive strategy for targeted cancer therapies. A recent example of synthetic lethality as a therapeutic paradigm is the observation that cancer cells with high levels of microsatellite instability (MSI-H) are dependent on the Werner (WRN) RecQ helicase for survival. However, the mechanisms that regulate WRN spatiotemporal dynamics are not fully understood. In this study, we used our single molecule tracking (SMT) platform in combination with a recently disclosed WRN inhibitor to gain insights into WRNs dynamic localization within the nuclei of live cancer cells. We observe that WRN inhibition results in the helicase becoming trapped on chromatin, requiring p97/VCP for extraction and shuttling to the proteasome for degradation. Interestingly, this sequence of events resulting in WRN degradation appears to be MSI-H dependent. Using a phenotypic screen, we identify the PIAS4-RNF4 axis as the pathway responsible for WRN degradation and show that co-inhibition of WRN and SUMOylation has an additive toxic effect in MSI-H cells. Taken together, our work elucidates a novel regulatory mechanism for WRN. Gaining a deeper understanding into this regulatory pathway for WRN can aid in the identification of new high value targets for targeted cancer therapies.

molecular biology↗

bioRxiv2023

Puromycin reveals a distinct conformation of neuronal ribosomes

Puromycin is covalently added to the nascent chain of proteins by the peptidyl transferase activity of the ribosome and the dissociation of the puromycylated peptide typically follows this event. It was postulated that blocking the translocation of the ribosome with emetine could retain the puromycylated peptide on the ribosome, but evidence against this has recently been published (Hobson et al., 2020 https://doi.org/10.7554/eLife.60048; Enam et al., 2020 https://doi.org/10.7554/eLife.60303). In neurons, puromycylated nascent chains remain in the ribosome even in the absence of emetine, yet direct evidence for this has been lacking. Using biochemistry and cryo-electron microscopy, we show that the puromycylated peptides remain in the ribosome exit channel in the large subunit in a subset of neuronal ribosomes stalled in the hybrid state. These results validate previous experiments to localize stalled polysomes in neurons and provide insight into how neuronal ribosomes are stalled. Moreover, in these hybrid-state neuronal ribosomes, anisomycin, which usually blocks puromycylation, competes poorly with puromycin in the puromycylation reaction, allowing a simple assay to determine the proportion of nascent chains that are stalled in this state. In early hippocampal neuronal cultures, over 50% of all nascent peptides are found in these stalled polysomes. These results provide new insights into the stalling mechanisms of neuronal ribosomes and suggest that puromycylated peptides can be used to reveal subcellular sites of hybrid-state stalled ribosomes in neurons. Significance StatementPuromycin can be covalently linked to the nascent polypeptide chain on ribosomes, followed by dissociation of the puromycylated polypeptide. Here, we conclusively show that in stalled ribosomes isolated from neuronal RNA granules, the puromycylated peptide remains in the polypeptide exit tunnel of the ribosome. This validates previous data using this technique to localize stalled ribosomes in neurons and suggests a unique ribosomal conformation in these cells. Further evidence for the unique state of these ribosomes is the resistance of puromycylation to the inhibitor anisomycin, which prevents puromycylation in all other cellular contexts. These results provide insight into the mechanism underlying neuronal ribosome stalling and resolve a controversy about using puromycin to localize ribosome stalling in neurons.

neuroscience↗