Biology subjects

Pagnotta, S.

Publications and source records attributed to Pagnotta, S..

12 recordsLinked to original sources

bioRxiv2026

Zoospore-derived extracellular vesicles in the flagellated stramenopile Phytophthora parasitica

Zoospores are unicellular, wall-less and flagellated cells produced by a number of eukaryotic microorganisms. They allow microbial dispersion, enable the search and location for new sources of nutrients where they aggregate, initiate pathogen-host interactions and communication within microbiota. Little is known about their ability to release bioactive extracellular vesicles (EVs) supporting these adaptations. Here we used electron microscopy to establish that in the biflagellate zoospores of the heterokont and phytopathogenic species Phytophthora parasitica, EV biogenesis occurs from vesicles budding either at cell body plasma membrane or at the front flagellum, in particular from the tubular mastigonemes. Zoospore-conditioned water supernatant was fractionated and characterized by means of morphological, immunochemical, proteomic and lipidomic analyses. Three fractions enriched in cell body, flagella and EVs were obtained by differential ultracentrifugation at 3,000g, 31,000g and 100,000g, respectively, with the EV fraction consisting of small vesicles (100-150 nm). Using mass spectrometry, label-free proteomic analysis of the EV fraction (1,470 proteins) revealed a collection of proteins involved in lipid transport, vesicle membrane and cell wall organization, and tubular mastigoneme architecture, but not in virulence. Label-free quantitative lipidomic analysis (191 lipids) revealed enrichment of EVs in sphingolipids, particularly ceramides compared with the cell body. These findings provide a first hallmark of features characteristic of zoosporic EVs, with ceramides, mastigoneme proteins and the EV-related protein PPTG_13069 containing two tetraspanin MARVELous domains among molecular markers. They define the molecular and cellular principles in understanding zoosporic EV biogenesis within Stramenopiles and intercellular communication between self-aggregating zoospores, with host plant cells or microbiota.

molecular biology↗

bioRxiv2026

Life-stage-specific specialities in the cell atlases of the Clytia hemisphaerica planula and medusa

Jellyfish have complex life-cycles, but there has been limited exploration of how this is achieved at the cellular level. We used single-cell transcriptomics to assemble a cell atlas for the planula larva of Clytia hemisphaerica, and compared it to an updated cell atlas for the medusa (jellyfish) stage. The cells of the planula fell into the same broad categories as for the medusa: ectoderm, gastroderm, interstitial cells (i-cells), nematocytes (stinging cells), neurons and secretory cells. Although the planula cells generally showed less diversity than medusae within each category, cells with specialized features unique to their stage could be distinguished by their transcriptional profiles as well as by ultrastructure. Some planula-specific types were identified: aboral secretory cells involved in settlement, and a cell type attributed a role in immunity or post-metamorphic theca production. Distinct transcriptome profiles within different regions of the ciliated planula ectoderm reflected different post-metamorphosis fates of domains along the oral-aboral axis. Inspection of the cell clusters showing significant similarity of marker genes between planula and medusa, and inference of similarity using a statistical model of marker gene presence/absence, revealed correspondences between families of cells from planula and medusa rather than precise cell identities.

evolutionary biology↗

bioRxiv2025

MELK controls tumor metabolism to promote resistance to melanoma therapy

Melanoma is the most aggressive form of skin cancer, and despite major advances in targeted and immune therapies, durable responses remain limited due to the emergence of resistance mechanisms. Metabolic reprogramming has emerged as a key driver of therapy resistance, allowing tumor cells to adapt to environmental and therapeutic pressures. Here, we identify the maternal embryonic leucine zipper kinase (MELK) as a critical mediator of resistance in melanoma. We demonstrate that MELK stimulates intracellular accumulation of amino acids, leading to activation of mTORC1 signaling and enhanced mitochondrial metabolism and biogenesis. This metabolic shift promotes resistance to immune checkpoint blockade. Importantly, preclinical MELK inhibition sensitizes resistant melanoma cells to immunotherapy, revealing a potential combinatorial strategy to overcome resistance. Our findings establish MELK as a central regulator of metabolic adaptation and therapeutic resistance in melanoma, highlighting its potential as a promising therapeutic target.

cancer biology↗

bioRxiv2025

Biliverdin Reductase Catalytic Activity Is Essential for Malaria Resistance

Jaundice, a condition characterized by elevated levels of circulating bilirubin, is an adaptive response to malaria sustained through bilirubin production by biliverdin reductase A (BVRA). Beyond its enzymatic activity, BVRA acts as a protein kinase and as a transcription factor. To disentangle the contribution of BVRA catalytic activity over its non-canonical functions we generated BlvraG17A and BlvraE97A mice harboring G17A and E97A missense mutations in the BVRA NAD(P)H-binding domain and reductase motif, respectively. Both BlvraG17A and BlvraE97Amice presented a reduction in enzymatic activity and succumbed to malaria, otherwise non-lethal to wild-type (BlvraWT) mice. Quantification of circulating unconjugated bilirubin revealed a dose response effect whereby the mutant strains failed to reach a threshold of circulating bilirubin required to support its protective effect. These findings establish the antimalarial effect of the enzymatic activity of BVRA and define a concentration threshold of bilirubin required for malaria protection, informing therapeutic development and biomarker-guided malaria treatment strategies. Highlights- Establishment of catalytic deficient BVRA mouse mutants; - Anti-malarial effect of BVRA relies on its catalytic activity; - A minimal bilirubin threshold for parasite control; - A minimal bilirubin threshold for malaria resolution;

pathology↗

bioRxiv2025

A bioenergetic basis for multiorgan dysfunction in sepsis

Sepsis is a life-threatening multiorgan dysfunction that develops from a maladaptive host response to infection1. With an estimated 49 million cases per year and [~]11 million related deaths2, sepsis is a global WHO health priority3. Failure to overcome sepsis morbidity and lethality4,5 calls for alternative therapeutic approaches6-8. Here we report that adipocyte lipolysis is vital to prevent the pathogenesis of sepsis in mice. This protective response is evolutionary conserved, producing a plasma lipidomic profile9,10 that reflects on the severity of clinical sepsis. Mechanistically, adipocyte lipolysis fuels energy metabolism to sustain adaptive thermoregulation to infection, via insulin production and insulin receptor (INSR) signaling in adipocytes. This metabolic-based defense strategy does not impact on bacterial burden, establishing disease tolerance to infection11-14. In conclusion, adipocyte lipolysis induces insulin to rewire energy metabolism and support organ function in response to infection.

pathology↗

bioRxiv2025

Perilipin 4 repetitive region forms amyloid fibrils promoted by a genetic expansion found in myopathy patients

Lipid-binding amphipathic proteins play key roles in cellular organization, yet their conformational flexibility makes them prone to aggregation. Here we study the aggregation of perilipin 4 (PLIN4), a protein of the lipid droplet (LD)-binding perilipin family. PLIN4 contains an unusually long ([~]1000 amino acid, aa) amphipathic helix composed of tandem 33-aa repeats, which folds on the LD surface. A genetic expansion that increases the number of repeats is associated with skeletal muscle dysfunction in patients suffering from a late-onset vacuolar myopathy (MRUPAV). We show that the genetic expansion and the precise sequence of the 33 aa repeats do not significantly alter PLIN4 interaction with LDs in cells. By contrast, purified fragments of the PLIN4 repetitive region form amyloid fibrils as characterized by cryo-EM and atomic force microscopy. Repeat expansion strongly accelerates fibril formation, consistent with enhanced self-assembly driven by the accumulation of identical repeats. PLIN4 aggregation is attenuated by the presence of LDs, indicating that lipid binding modulates the balance between membrane association and self-assembly. Together, these results establish PLIN4 as a previously unrecognized amyloid-forming protein and suggest that repeat expansion enhances amyloidogenic self-assembly, providing a foundation for future studies of its role in degenerative muscle disease.

biochemistry↗

bioRxiv2025

Monocyte control of organismal energy homeostasis

Multicellular organisms rely on inter-organ communication networks to maintain vital parameters within a dynamic physiological range. Macrophages are central to this homeostatic control system, sensing deviations of those parameters and responding accordingly to support tissue function and organismal homeostasis. Here we demonstrate that dysregulation of iron metabolism in parenchyma cells, imposed by the deletion of ferritin H chain, is sensed by monocyte-derived macrophages. In response, macrophages derived from circulating monocytes support tissue function, energy metabolism and thermoregulation, as demonstrated in bone marrow chimeric and parabiotic mice. This salutary effect is contingent on a transcriptional program, controlled in macrophages by the transcription factor A mitochondria. This transcriptional response acts in a non-cell autonomous manner to support the mitochondria of parenchyma cells, irrespectively of mitochondrial transfer. In conclusion, monocyte-derived macrophages cross-regulate Fe and energy metabolism to support tissue function and organismal homeostasis.

immunology↗

bioRxiv2025

A Metabolite-Based Resistance Mechanism Against Malaria

Whether jaundice, a common presentation of Plasmodium (P.) falciparum malaria (1-3) arising from the accumulation of circulating bilirubin, represents an adaptive or maladaptive response to Plasmodium spp. infection is not understood (1-3). We found that asymptomatic P. falciparum infection was associated with a >10-fold higher ratio of unconjugated bilirubin over parasite burden, compared to symptomatic malaria. Genetic suppression of bilirubin synthesis by biliverdin reductase A (BVRA) (4) increased parasite virulence and malaria mortality in mice. Accumulation of unconjugated bilirubin in plasma, via genetic inhibition of hepatic conjugation by UDP glucuronosyltransferase family 1 member A1 (UGT1A1) (5), was protective against malaria in mice. Unconjugated bilirubin inhibited P. falciparum proliferation in red blood cells (RBC) via a mechanism that suppressed mitochondrial pyrimidine synthesis. Moreover, unconjugated bilirubin inhibited hemozoin (Hz) crystallization and compromised the parasites food vacuole. In conclusion, jaundice represents a metabolic response to Plasmodium spp. infection that limits malaria severity.

immunology↗

bioRxiv2024

Characterization of atypical BAR domain-containing proteins coded by Toxoplasma gondii

Toxoplasma gondii, the causative agent of toxoplasmosis, infects cells and replicates inside via the secretion of factors stored in specialized organelles (rhoptries, micronemes, dense granules) and the capture of host materials. The genesis of the secretory organelles and the processes of secretion and endocytosis depend on vesicular trafficking events whose molecular bases remain poorly known. Notably, there is no characterization of the BAR (Bin/Amphiphysin/Rvs) domain-containing proteins expressed by T. gondii and other apicomplexans, although such proteins are known to play critical roles in vesicular trafficking in other eukaryotes. Here, by combining structural analyses with in vitro assays and cellular observations, we have characterized TgREMIND (REgulators of Membrane Interacting Domains), involved in the genesis of rhoptries and dense granules, and TgBAR2 found at the parasite cortex. We establish that TgREMIND comprises an F-BAR domain that can bind curved neutral membranes with no strict phosphoinositide requirement and exert a membrane remodeling activity. Next, we establish that TgREMIND contains a new structural domain called REMIND, which negatively regulates the membrane-binding capacities of the F-BAR domain. In parallel, we report that TgBAR2 contains a BAR domain with an extremely basic membrane-binding interface able to deform anionic membranes into very narrow tubules. Our data show that T. gondii codes for two atypical BAR domain-containing proteins with very contrasting membrane-binding properties, allowing them to function in two distinct regions of the parasite trafficking system.

biochemistry↗

bioRxiv2022

A mechanical wave travels along a genetic guide to drive the formation of an epithelial furrow

Epithelial furrowing is a morphogenetic process that is pivotal during embryo gastrulation, neurulation and the shaping of the animal body. A furrow often results from a fold that propagates along a line. How fold formation and propagation are initiated, driven and controlled is still poorly understood. To shed new light on this fundamental morphogenetic process, we study the formation of the cephalic furrow: a fold that runs along the dorsal-ventral axis of the embryo during early Drosophila gastrulation and the developmental role of which is still unknown. Here, we provide evidence of its function and show that the cephalic furrow is initiated by two groups of cells located on the left and right lateral sides of the embryo. These cellular clusters work as a pacemaker triggering a bi-directional morphogenetic wave powered by actomyosin contractions and sustained by de novo medial apex-to-apex cell adhesion. The Cartesian position of the pacemakers is under the cross-control of the embryo anterior-posterior and dorsal-ventral gene patterning systems. Thus, furrow initiation and propagation are driven by a mechanical trigger wave that travels under the control of a multidimensional genetic guide.

developmental biology↗

bioRxiv2019

An oomycete effector impairs autophagy in evolutionary distant organisms and favors host infection

An arsenal of effector proteins from plant pathogenic Phytophthora species manipulates their host from inside the cells. Phytophthora parasitica produces the effector AVH195 during an initial, biotrophic phase of infection. The protein transiently impairs plant immune-associated hypersensitive cell death in Nicotiana. ATG8 Interaction Motifs in the protein indicate that the effector targets the autophagic core machinery. We selected a photosynthetic microalga with a single copy ATG8 gene as an alternative model to dissect AVH195-induced autophagic perturbation. AVH195 slows down autophagic flux in Chlamydomonas reinhardtii thus promoting the accumulation of cargo-rich vesicles. In yeast, membrane-associated AVH195 interacts with ATG8 from Chlamydomonas and with different ATG8 isoforms from Arabidopsis thaliana. The overexpression of Avh195 in Arabidopsis promotes growth of both infecting P. parasitica and Hyaloperonospora arabidopsidis, an obligate biotroph. To our knowledge, this report provides first evidence that an oomycete effector non-selectively targets ATG8 in different organisms from the green lineage to slow down autophagic flux for infection.

plant biology↗

bioRxiv2018

A giant amphipathic helix from a perilipin that is adapted for coating lipid droplets

How proteins are targeted to lipid droplets (LDs) and distinguish the LD surface from the surfaces of other organelles is poorly understood, but many contain predicted amphipathic helices (AHs) that are involved in targeting. We have focused on human perilipin 4 (Plin4), which contains an AH that is exceptional in terms of length and repetitiveness. Using model cellular systems, we show that AH length, hydrophobicity, and charge are important for AH targeting to LDs and that these properties can compensate for one another, albeit at a loss of targeting specificity. Using synthetic lipids, we show that purified Plin4 AH binds poorly to lipid bilayers but strongly interacts with pure triglycerides, acting as a coat and forming small oil droplets. Because Plin4 overexpression alleviates LD instability under conditions where their coverage by phospholipids is limiting, we propose that the Plin4 AH replaces the LD lipid monolayer, for example during LD growth.

cell biology↗