Biology subjects

Sarkar, S.

Publications and source records attributed to Sarkar, S..

At least 55 records · Page 3Linked to original sources

bioRxiv2025

Single-Islet Proteomics Maps Pseudo-Temporal Islet Immune Responses and Dysfunction in Stage 1 Type 1 Diabetes

Progressive {beta}-cell dysfunction precedes the onset of type 1 diabetes (T1D), yet the molecular mechanisms driving early T1D development remain poorly understood. Although single-cell RNA-sequencing has uncovered transcript-level changes in human islet cells, it offers limited insight into the heterogeneity of distinct islet microenvironments. Here, we applied a single-islet proteomics workflow to profile intra-donor islet heterogeneity in three stage 1 T1D cases with matched non-diabetic controls and define in situ protein signatures of pseudo-temporal islet dysfunction. Intra-donor analyses of [~]100 individual islets per donor revealed highly consistent proteomic patterns reflecting pseudo-time progression of islet immune responses and {beta}-cell dysfunction. Several pathways, including extracellular matrix remodeling and mRNA processing, were identified as closely associated with progressive islet immune activation and loss of {beta}-cell function. These findings provide robust proteome-wide evidence of the progression of islet dysfunction, offer a valuable resource for investigating early mechanisms of T1D pathogenesis-- including novel candidates for functional studies--and underscore the utility of single-islet spatial proteomics for examining islet heterogeneity in T1D.

systems biology↗

bioRxiv2025

Glassy dynamics in active epithelia emerge from an interplay of mechanochemical feedback and crowding.

Glassy dynamics in dense epithelial cells remain a subject of debate, as theory predicts its emergence only at unrealistically low cellular activity, yet experimental studies have shown glassy dynamics at physiologically active conditions. In this study, we address this paradox by integrating experimental observations in epithelial monolayers with an active vertex model. We demonstrate that while crowding is essential, it is not sufficient for glassy dynamics to emerge. A mechanochemical feedback loop (MCFL-1), mediated by cell shape changes through the contractile actomyosin network is required to drive glass transition in dense epithelial tissues. Such mechanochemical feedback is captured experimentally via a crosstalk between actin-based cell clustering and dynamic heterogeneity, as well as via force induced actin reorganization in epithelial cells. Incorporating MCFL into the vertex model reveals contrasting results from those previously predicted by theories-we show that the MCFL can counteract cell division-induced fluidisation and enable glassy dynamics to emerge through active cell-to-cell communication. Furthermore, our analysis reveal, for the first time, the existence of novel collective mechanochemical oscillations that arise from the crosstalk of MCFL-1 with oscillatory MCFL-2, capturing ERK mediated cell shape changes. Together, we demonstrate that an interplay between crowding and active mechanochemical feedback enables the emergence of glass-like traits and collective biochemical oscillations in epithelial tissues with active cell-to-cell contacts.

biophysics↗

bioRxiv2025

Automated Seizure Detection in Animal EEG Signals

Automated seizure detection in animal electroencephalography (EEG) is crucial for accelerating epilepsy research. While machine learning (ML) and deep learning (DL) techniques have shown promise in seizure detection for human EEG and some rodent models, their application to chemically diverse animal data remains limited. In particular, no prior work has explored deep learning approaches for EEG data where seizure/epilepsy was induced by exposure to Soman (GD), a potent agent known to generate complex and variable seizure dynamics. In this work, we evaluate deep recurrent neural networks--Gated Recurrent Units (GRU) and Long Short-Term Memory networks (LSTM)--for seizure detection in EEG signals acquired by single channel (bipotential electrodes) from the rats exposed to either kainate or GD, which later animals developed epilepsy (measured by spontaneously recurring seizures). We benchmark these models against classical baselines including Random Forest and XGBoost, using intracranial EEG data from eight animals. Our results show that GRU and LSTM substantially outperform other shallow models in both accuracy and robustness across EEG traces.

animal behavior and cognition↗

bioRxiv2025

Bayesian Cooperative Learning for Multimodal Integration

Bayesian multimodal models that integrate data from multiple sources, studies, or modalities have garnered considerable attention in recent years. However, existing methods either rely on computationally expensive Markov chain Monte Carlo (MCMC) schemes or adopt variational approaches that forgo principled uncertainty quantification. To address this limitation and cater to practical needs, we abandon the MCMC framework and turn to resampling-based posterior inference for multimodal integration. Our method, Bayesian Cooperative Learning (BayesCOOP), embeds fast maximum a posteriori (MAP) estimation within a Bayesian bootstrap, combining a novel jittered group spike-and-slab prior with an efficient expectation-maximization (E M) coordinate descent algorithm under randomly weighted data perturbations. Averaging posterior summaries (MAP estimates) across bootstrap replicates yields approximate posterior samples that retain Bayesian interpretability while avoiding the computational burden of traditional sampling-based inference. We establish theoretical connections between BayesCOOPs pseudo-posterior averaging and posterior contraction principles, demonstrating near-optimal posterior consistency under sparsity. Extensive simulation studies and analyses of pregnancy multi-omics datasets demonstrate that BayesCOOP substantially outperforms state-of-the-art early, intermediate, and late fusion approaches in estimation, prediction, and uncertainty assessment. The open-source implementation of BayesCOOP is available at https://github.com/himelmallick/BayesCOOP.

bioinformatics↗

bioRxiv2025

Structural Insights into Zn2+ and Ca2+ binding to Human Protein Z and Their Impact on Membrane Association

Calcium ions (Ca{superscript 2}) bound to the {gamma}-carboxy glutamic acid-rich (Gla) domain of coagulation proteins are essential for their membrane anchoring. Zinc ions (Zn{superscript 2}), abundant in plasma, also bind coagulation proteins and modulate their activity. However, their role in membrane-protein interactions remains less understood. The current study examines how Ca{superscript 2} and Zn{superscript 2} influence the structure and function of human protein Z (PZ), a cofactor of protein Z-dependent protease inhibitor (ZPI) that inhibits factor Xa on phospholipid surfaces. Zn2+ was found to substitute for Ca2+ in the Gla domain of PZ and promote its membrane binding by inducing conformational changes like Ca2+. Additionally, a Zn2+ located in the epidermal growth factor1 (EGF1) domain of PZ appeared to synergize with Ca2+ to enhance the membrane affinity of PZ. Furthermore, both Ca2+ and Zn2+ were suggested to destabilize PZ-ZPI complex, thereby modulating the cofactor activity of PZ, a finding that warrants further experimental investigations. Collectively, this study provides the first structural and functional characterization of Zn{superscript 2}-bound PZ, offering new insights into metal ion driven structural dynamics of PZ and their implications in coagulation regulation.

biophysics↗

bioRxiv2025

Brief report on differential toxicity of legacy and second-generation PFAS on dopaminergic neurons and mitochondria

Per/polyfluoroalkyl substances (PFAS) are anthropogenic chemicals that have shown extensive usage. Owing to widespread use and resistance to environmental degradation, they have become a hazard with respect to the environment and human health. While the legacy PFAS are being phased out, they are being replaced by second-generation PFAS that are considered safer alternatives. However, the lack of information pertaining to the underlying mechanisms for legacy and especially second-generation PFAS exacerbates the risk. This study investigates legacy and second-generation PFAS to determine their individual effects on neurotoxicity and mitochondrial respiration. Legacy PFAS, perfluorooctanoic acid (PFOA), perfluorononanoic acid (PFNA), perfluorodecanoic acid (PFDA), and second-generation PFAS, GenX, and ADONA were employed, and studies were conducted using Caenorhabditis elegans and mitochondria isolated from Rat brain for Complex I to IV. It was found that legacy PFAS, PFNA, and PFDA were neurotoxic, with neurotoxicity proportional to chain length. PFOA, PFNA, and PFDA also exhibited significant inhibition to most of the mitochondrial complexes. Whereas in the case of second-generation PFAS ADONA, and GenX, it was only limited to the inhibition of Complex IV. GenX only exhibited neurodegeneration at very high doses. Our findings conclude that the legacy and second-generation PFAS might have significant neurotoxic implications. While the targets are similar to some extent, the mechanisms between the two classes are distinct. Our study the sets the stage to evaluate further the combined effect of PFAS (legacy and emergent) to fill in informational gaps pertaining to their safety.

pharmacology and toxicology↗

bioRxiv2025

Islet-intrinsic sex differences in inflammatory signaling contribute to autoimmune diabetes susceptibility

Whereas most autoimmune diseases exhibit female predominance, type 1 diabetes (T1D) occurs more frequently in males after puberty, suggesting a role for sex hormones in disease modification. Because islet {beta} cells actively shape local immune responses, we hypothesized that sex-specific islet responses to inflammation contribute to this disparity. Using transcriptomic and proteomic analyses of human islets from male and female donors, we found that male islets exhibit a more aggressive response to proinflammatory cytokines, characterized by greater induction of interferon signaling and suppression of developmental signaling compared to female islets. Treatment of human islets and mouse {beta} cells with the sex hormone 17{beta}-estradiol (E2) suppressed inflammatory signaling and markers of {beta}-cell maturity while enhancing developmental gene programs. Complementary studies in non-obese diabetic (NOD) mice showed that E2 treatment reduces diabetes incidence and limits progression to severe insulitis. Islet single-cell RNA sequencing revealed that E2 treatment of NOD mice suppresses interferon signaling, chemokine production, and antigen presentation in {beta} cells, while reducing activation and cytotoxicity pathways in immune cells. In co-culture studies in vitro, E2 pretreatment of mouse islets reduces subsequent activation of T cells, and in an aggressive adoptive transfer model in vivo, E2 pretreatment of the recipient mice was found to attenuate hyperglycemia. These findings support a model in which E2-mediated {beta}-cell reprogramming reduces {beta}-cell immunogenicity and promotes local immune tolerance, offering mechanistic insight into sex-biased T1D susceptibility.

cell biology↗

bioRxiv2025

ADAPTATION AGAINST LONG-TERM PROTEIN DEPRIVATION TRADES OFF WITH IMMUNOCOMPETENCE AND THE ABILITY TO SURVIVE PATHOGENIC INFECTIONS

Insufficient protein intake, leading to malnutrition, is a major global health concern that compromises the immune system and increases susceptibility to diseases. In scenarios where protein availability is constrained, organisms may experience strong selection to efficiently allocate their resources between immunity vs other energy-demanding processes, such as reproduction, resulting in evolutionary trade-offs. Additionally, in many species, protein deficiency has a more significant impact on female reproduction than on males, potentially leading to pronounced sexually dimorphic trade-offs involving immunity and infection outcomes. However, there are no experiments to test these possibilities. In this work, we demonstrate that in Drosophila melanogaster populations selected for increased early-life reproduction under protein limitations, evolved virgin females indeed suffered a greater reduction in their resistance to the pathogen Providencia rettgeri and showed lower survival following infection than males, corroborating our expectations. However, mating resulted in a loss of sexually dimorphic infection outcomes, causing both sexes to exhibit nearly identical infection costs and reduced infection tolerance compared to their ancestral, unselected populations. Moreover, several immune components, including the Toll- and IMD-mediated inducible immune pathways, were either less upregulated or more downregulated in the selected flies, which may contribute to their heightened susceptibility to pathogens. Downregulation in key metabolic pathways and genes related to phagocytosis, melanisation and ROS-mediated defence after infection in selected flies can also be associated with their increased pathogen vulnerability. Taken together, our work thus reveals the reproductive status- and sex-specific plasticity of immune investments and post-infection health in response to evolutionary constraints under chronic protein deprivation.

evolutionary biology↗

bioRxiv2025

Prokineticin-2 Upregulates GDNF in Astrocytes and Pharmacological Modulation of PK2 Receptors offers Neuroprotection in Experimental Models of Parkinson's Disease

Despite a wealth of preclinical studies establishing neuroprotective and neurorestorative properties of glial cell-line-derived neurotrophic factor (GDNF) in animal models of Parkinsons disease (PD), clinical trials utilizing direct intracranial infusion of GDNF protein, or adeno-associated virus (AAV)-mediated GDNF gene transfer has not achieved the desired efficacy, largely due to challenges in delivery methods. Given GDNFs strong potential for neuroprotection, alternative strategies to elevate its expression by beyond invasive injection or genetic manipulation remain a promising therapeutic avenue for PD. We previously reported that prokineticin signaling provides a compensatory protective response against dopaminergic neuronal degeneration in cell and animal models of PD. Herein, we report a novel finding that PK2 regulates GDNF gene expression in astrocytes, suggesting that PK2 signaling can be harnessed for neuroprotection in PD. Treatment of cultured astrocytes with the PK2 protein, PK2 gene overexpression or prokineticin receptor 1 (PKR1) agonist IS20 significantly induced the GDNF gene expression and the protein secretion, resulting in enhanced dopaminergic cell survival in cell culture models of PD. Importantly, systemic administration of IS20 through intraperitoneal or intranasal routes elevated GDNF levels in the mouse brain, including the nigrostriatal system. Furthermore, IS20 treatment conferred significant neuroprotective effects in both 1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine (MPTP)-induced and MitoPark transgenic mouse models of PD. Collectively, our translational findings suggest that pharmacological modulation PK2 signaling may unlock the full clinical benefit of GDNF, offering a novel and non-invasive therapeutic strategy for Parkinsons disease.

pharmacology and toxicology↗

bioRxiv2025

Repurposing Melatonin in dual-mode for Wilson disease therapy as a Copper Chelator and an antioxidant agent

Loss-of-function mutations in copper-ATPase ATP7B underlie Wilson disease (WD), a disorder characterized by hepatic copper accumulation and severe hepato-neuropathology. Existing chelation therapeutics remove excess copper but lack intrinsic antioxidant capacity and frequently cause systemic toxicity. Here we evaluate melatonin, an FDA-approved indoleamine with antioxidant and putative metal-chelating activity, as a candidate therapeutic for WD. In ATP7B-/- hepatocytes, melatonin restored copper-induced reactive oxygen species (ROS) to basal levels, reduced apoptosis twofold, and attenuated Nrf2 nuclear translocation leading to reduction of Hemoxygenase-1 abundance. Live-cell ratiometric analysis of GSSG/GSH using GRX1-roGFP2 expressed in melatonin-treated ATP7B-/- hepatocytes revealed a significant reduction in intensity-ratio, indicating an effective mitigation of copper-induced glutathione oxidation. Isothermal calorimetric titration revealed moderate Cu2+ affinity (K ITC=4.54 x 103 M-{superscript 1}), rationalized by MD-simulations showing an interaction energy of 18.5 x 10-3 kcal{middle dot}mol-{superscript 1} via amide-Cu{superscript 2} coordination. In-cellulo studies also revealed that copper-induced vesicularized ATP7B reinstates to Golgi in melatonin-treated hepatocytes. In vivo, melatonin treatment reduced copper-induced oxidative stress in zebrafish embryos and lowered copper burden in Caenorhabditis elegans WD model. Our studies revealed that encapsulation of melatonin within an engineered polymeric nanocapsules having dithiol linkers, susceptible to cleavage by GSH, extended melatonins circulatory half-life ten-fold and enhanced its ROS-scavenging efficacy three-fold relative to free melatonin. This work introduces a unique dual-function therapeutic strategy that integrates antioxidant activity with copper chelation, simultaneously addressing copper overload and redox imbalance. Repurposing melatonin, with its established clinical safety, offers rapid and cost-effective translational pathway toward WD-therapy while providing a generalizable platform for redox- and metal-associated disorders.

cell biology↗

bioRxiv2025

ProteoMeter: A pipeline for integrating multi-PTM and limited proteolysis data to reveal modification-structure coupling at the residue level

Systemic perturbations trigger extensive changes across the proteome-altering protein abundance, post-translational modifications (PTMs), conformational states, and complex assembly. Interpreting these effects demands computational pipelines capable of integrating diverse proteomics modalities, such as multi-PTM profiling, limited proteolysis mass spectrometry (LiP-MS), and cross-linking mass spectrometry (XL-MS), within a unified and interoperable framework. Because instrument data are quantified at the peptide level, mapping these measurements to individual residue or modification site is essential for biologically meaningful interpretation. We introduce ProteoMeter, an open-source Python library designed to integrate multi-modal proteomics datasets and map them to single-residue resolution using a standardized coordinate framework. We showcase its capabilities in a combined multi-PTM and LiP-MS analysis profiling the proteomic response to human coronavirus 229e (HCoV-229E) infection.ProteoMeteris actively maintained and is freely available-including all source code and figure-generation scripts-at the following repository: https://github.com/PNNL-Predictive-Phenomics/ProteoMeter.

systems biology↗

bioRxiv2025

Matrix compliance regulates cellular and nuclear confinement of fibroblasts in tunable protein-based hydrogel microenvironments

The extracellular matrix (ECM) influences cellular behavior, fate, and various mechanisms underlying homeostasis, development, and disease. Biophysical and biochemical properties of the ECM are known to affect three-dimensional (3D) cellular behavior, and phenotype that regulate a wide range of pathological conditions. Tunable biomimetic hydrogels are extensively employed to regulate cellular dynamics in defined 3D microenvironments, enabling detailed investigation of cell-matrix interactions. This study aims to establish the relationship between varying hydrogel properties (adhesivity, degradability, porosity, and stiffness, hereby collectively referred to as matrix compliance) and fibroblast morphology at the cellular and nuclear levels. Poly(ethylene glycol diacrylate)-fibrinogen (PF)-based hydrogels were fabricated and their matrix properties were tuned using two different non-degradable co-monomers of varying molecular weights and concentrations. NIH3T3 mouse fibroblasts were cultured in 3D hydrogels for 10 days and their cellular and nuclear morphology was analyzed via confocal imaging. Cells in degradable, soft, porous, and adhesive hydrogels displayed higher degree of spreading, higher cell density, longer protrusions, and elongated and larger nuclei compared to those in less degradable, stiffer, less porous, and less adhesive hydrogels. Matrix compliance conjointly regulated cell density, protrusion length, and protrusion frequency (collectively referred to as cellular confinement) and nuclear volume (referred to as nuclear confinement). These results highlight the complex interplay and interdependence of these cellular and nuclear morphological features as regulated by engineered tunable matrices, providing guidance for future studies of 3D cell behavior in novel biomaterials. Statement of significanceBiomimetic tunable hydrogels are commonly used to support, and control, three-dimensional (3D) cellular behavior to recapitulate various developmental processes and disease states. Specific biophysical and biochemical characteristics of the extracellular matrix (ECM) can be modeled using these hydrogels by controlling the compositions and crosslinking mechanisms. Using this approach, the behavior of cells in 3D hydrogel matrices can be correlated with the matrix properties, thereby providing mechanistic insights into cell-matrix interactions. This study assesses the variations in the morphological features of fibroblasts encapsulated in 3D protein-based hydrogel matrices with varying crosslinking mechanisms. Our results reveal the combinatorial role of matrix adhesivity, degradability, porosity, and stiffness in regulating cellular and nuclear confinement of fibroblasts in 3D microenvironments. Overall, this study elucidates how matrix characteristics influence cellular behavior, serving as a practical guide for researchers developing innovative biomaterial matrices for 3D cell culture applications.

bioengineering↗

bioRxiv2025

Actin waves guide an outward movement of microclusters in the lymphocyte immunological synapse

The lymphocyte immune response begins with antigen recognition on antigen-presenting cells, leading to the formation of the immunological synapse--a specialized interface for biochemical and biophysical exchange. At the synapse, most antigen-engaged receptor microclusters move inward toward the central supramolecular activation cluster (cSMAC) via retrograde F-actin flow, eventually clearing from the cell surface. This retrograde movement and receptor downregulation maintain antigen receptor homeostasis, critical for adaptive immunity, though its regulation remains unclear. Using live T cells, we identified a significant pool of antigen-engaged microclusters moving anterogradely toward the cell periphery, rather than the cSMAC. This movement was driven by actin waves propagating outward and coupling to microclusters through the Wiskott-Aldrich Syndrome Protein. These findings reveal a previously unrecognized mode of actin dynamics--anterograde actin waves--that co-exist with retrograde flow and direct microclusters away from the downregulation zone. This dual actin behavior underscores the complex cytoskeletal mechanisms T cells employ to regulate receptor distribution and maintain signaling homeostasis during immune activation.

immunology↗

bioRxiv2025

Divergent effects of a Treg selective IL-2 mutein on Influenza-specific T cell responses

Enhancing regulatory T cell (Treg) function offers a compelling therapeutic strategy for autoimmune disease. Engineered IL-2 muteins selectively expand functional Tregs with minimal impact on other immune cells, but their potential to compromise antiviral immunity remains largely unexplored. Here, we used a murine model of Influenza A virus (Flu) infection to determine how IL-2 mutein shapes T cell responses to respiratory virus infection. IL-2 mutein administration prior to infection suppressed Flu-specific (Flu-sp) CD8 T cell responses and altered their localization and phenotype within the lungs, without affecting bystander CD8 T cells. This suppression correlated with reduced antigen presentation molecule expression on conventional dendritic cells (cDCs) early after infection but did not impact Flu-sp CD8 T cell priming. In contrast, administering IL-2 mutein during infection exacerbated disease and drove CD25-dependent expansion of Flu-sp CD8 T cells. Despite these opposing effects on effector responses, Fc.Mut24-treated mice generated robust antibody responses and protective T cell memory which were maintained for at least 170 days. These findings reveal that Fc.Mut24 has temporally distinct effects on antiviral immunity, dampening early effector responses when given before infection, but enhancing effector expansion and disease severity when delivered during infection. Our results provide critical context for the therapeutic application of IL-2 muteins and highlight the importance of treatment timing in balancing immune modulation with protective immunity.

immunology↗

bioRxiv2025

An ultrasensitive and modular platform to detect Siglec ligands and control immune cell function

Siglecs are immunomodulatory receptors that regulate immune cell function. A fundamental challenge in studying Siglec-ligand interactions is the low affinity of Siglecs for their ligands. Inspired by how nature uses multivalency, we developed Siglec-liposomes as a highly multivalent and versatile platform for detecting Siglec glycan ligands in which recombinant Siglecs were conjugated to liposomes using the SpyCatcher-SpyTag system. Siglec-liposomes offer tunable multivalency and a modular assembly, enabling presentation of different Siglecs on the same liposome. Using Siglec-liposomes, we profiled Siglec ligands on human leukocytes, revealing new insights into Siglec ligands. Moreover, Siglec-liposomes are in vivo compatible, where we demonstrated that Siglec-7-liposomes bind to the brain vasculature in a mucin-dependent manner. Given the abundance of Siglec ligands on T cells, we investigated whether Siglec-liposomes modulate T cell function and find that Siglec-7-liposomes increase T cell proliferation in a ST3Gal1-dependent and CD43-independent manner. Taken together, Siglec-liposomes are a versatile and sensitive tool for detecting Siglec ligands and immunomodulation.

biochemistry↗

bioRxiv2025

Time Series GWAS for Iron Deficiency Chlorosis Tolerance in Soybean using Aerial Imagery

AbstractThe use of drones has become a commonly used tool by plant scientists to aid in plant phenotyping endeavors. Iron deficiency chlorosis (IDC) is a commonly observed abiotic stress in soybean fields with high soil pH levels. IDC severity is visually classified, and recent work has shown that digital imaging techniques using both ground and UAS-acquired imagery can be utilized for automated severity ratings. In our study, we compared the classification accuracy of two flight altitudes to determine the optimal flight parameters for IDC phenotyping. In addition to this, we investigated the ability to use image-predicted scores for genome wide association study (GWAS), as well as the effect of IDC on traits such as canopy area and canopy growth and development. We also report a tool for semi-automated plot extraction from orthomosaic images that can be easily integrated with UAS. We noted that 43 days after planting was an ideal time for IDC severity ratings as the highest number of significant SNPs were reported at this timepoint.

genetics↗

bioRxiv2025

Let-7b-5p loaded Mesenchymal Stromal Cell Extracellular Vesicles reduce Pseudomonas- biofilm formation and inflammation in CF Bronchial Epithelial Cells

Cystic Fibrosis (CF) is a multiorgan disease caused by mutations in the CFTR gene, leading to chronic pulmonary infections and hyperinflammation. Among pathogens colonizing the CF lung, Pseudomonas aeruginosa is predominant, infecting over 50% of adults with CF, and becoming antibiotic-resistant over time. Current therapies for CF, while providing tremendous benefits, fail to eliminate persistent bacterial infections, chronic inflammation, and irreversible lung damage, necessitating novel therapeutic strategies. Our group engineered mesenchymal stromal cell derived extracellular vesicles (MSC EVs) to carry the microRNA let-7b-5p as a dual anti-infective and anti-inflammatory treatment. MSC EVs are low-immunogenicity platforms with innate antimicrobial and immunomodulatory properties, while let-7b-5p reduces biofilm formation and inflammation. In a preclinical CF mice model, we reported that let-7b-5p-loaded MSC EVs reduced P. aeruginosa burden, immune cells, and proinflammatory cytokines in the lungs. We hypothesize four complementary mechanisms for the observed in-vivo effects of the let-7b-5p loaded MSC EVs: antimicrobial activity, anti-inflammatory properties, inhibition of antibiotic-resistant P. aeruginosa biofilm formation in CF airways, and stimulation of anti-inflammatory macrophage behaviors. This study focused on the second and third mechanisms and demonstrates that MSC EVs engineered to contain let-7b-5p effectively blocked the formation of antibiotic-resistant P. aeruginosa biofilms on primary human bronchial epithelial cells (pHBECs) while also reducing P. aeruginosa-induced inflammation. This approach holds promise for improving outcomes for people with CF. Future work will focus on optimizing delivery strategies and expanding the clinical applicability of MSC EVs to target other CF-associated pathogens. NEW AND NOTEWORTHYThis is the first study demonstrating that let-7b-5p loaded Mesenchymal Stromal Cell Extracellular Vesicles (MSC EVs) block antibiotic-resistant P. aeruginosa biofilm formation and reduce inflammation in CF primary human bronchial epithelial cells. GRAPHICAL ABSTRACT O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=117 SRC="FIGDIR/small/656674v1_ufig1.gif" ALT="Figure 1"> View larger version (19K): org.highwire.dtl.DTLVardef@3754b3org.highwire.dtl.DTLVardef@99dadcorg.highwire.dtl.DTLVardef@efc4b3org.highwire.dtl.DTLVardef@15aed48_HPS_FORMAT_FIGEXP M_FIG C_FIG

microbiology↗

bioRxiv2025

Heterologous expression in Saccharomyces and Chlamydomonas reveals host-dependent activity of Brassica juncea fatty acid elongase1 isozymes

The fatty acid elongase1 (FAE1) genes of tetraploid Brassica juncea are the key determinant of high erucic acid (EA, C22:1) accumulation in its seed oil. While our previous work demonstrated near-zero EA content in mustard oil via CRISPR/Cas9 knockout of the two homeoalleles, BjFAE1.1 and BjFAE1.2; the contributory function of each isozymes towards EA biosynthesis remains elusive. This study investigated the heterologous expression of BjFAE1.1 and BjFAE1.2 from high EA B. juncea cultivar JD6 in two metabolically distinct eukaryotic microbial hosts: the green microalga Chlamydomonas reinhardtii and the budding yeast Saccharomyces cerevisiae. Despite confirmed protein expression, neither BjFAE1 isozyme produced detectable C20:1 or C22:1 very-long-chain fatty acids (VLCFAs) in transgenic lines of C. reinhardtii. In contrast, expression in S. cerevisiae resulted in significant de novo biosynthesis of VLCFAs, C20:1 ([~]9-11%) and C22:1 ([~]17-19%), confirming their enzymatic activity as functional {beta}-ketoacyl-CoA synthase. Substrate feeding experiments in yeast further validated their capability to elongate oleoyl-CoA (C18:1-CoA) to erucoyl-CoA (C22:1-CoA) via eicosenoyl-CoA (C20:1-CoA), with BjFAE1.1 showing slightly higher activity, as indicated by the enhanced VLCFAs accumulation. These findings highlight the critical influence of the heterologous hosts cellular environment on the enzyme functionality of plant genes involved in lipid metabolism, underscoring challenges for VLCFA production in microalgal platform.

plant biology↗