bims-toxgon Biomed News
on Toxoplasma gondii metabolism
Issue of 2025–11–23
25 papers selected by
Lakesh Kumar, BITS Pilani



  1. bioRxiv. 2025 Oct 03. pii: 2025.10.02.679852. [Epub ahead of print]
      Toxoplasma gondii ( T. gondii ) is a single-celled Apicomplexan parasite that relies on a highly polarized endomembrane system for its invasion into and survival within host cells. Recent advancements in imaging technologies have revealed that vesicle transport and organization of organelles in the endomembrane pathway requires a highly dynamic actin cytoskeleton. These dynamics in turn rely on the activity of Myosin F (MyoF), a molecular motor unique to Alveolates. The defining characteristic of this molecular motor is a WD40 beta-propeller domain, exclusively found in this class of myosin. To understand the mechanism by which MyoF controls the dynamics and organization of actin, we studied the biophysical properties of the purified motor in vitro . A MyoF construct lacking its WD40 tail domain (MyoFΔtail) is dimeric and can bind and translocate actin in an in vitro motility assay. Single molecule studies show that the dimeric construct is non-processive however small ensembles move inefficiently on single filaments of skeletal actin. In contrast, single molecules of the full-length motor move processively on Toxoplasma actin and jasplakinolide-stabilized skeletal actin bundles. Electron microscopy of negatively stained images of MyoF and quantitative size exclusion chromatography shows that the WD40 domain oligomerizes to form a complex containing multiple dimeric molecules, which provides an explanation for why the full-length motor is processive compared to the dimeric MyoFΔtail construct. Finally, we show that MyoF binds microtubules through its WD40 domain and can slide actin filaments relative to microtubules. We propose a model whereby MyoF oligomers drive actin dynamics by translocating filaments relative to the parasite's cytoskeleton. These molecule features provide new insight into how MyoF functions in the cell to regulate actin organization during vesicle transport.
    DOI:  https://doi.org/10.1101/2025.10.02.679852
  2. Exp Parasitol. 2025 Nov 19. pii: S0014-4894(25)00173-0. [Epub ahead of print] 109068
      Toxoplasma gondii is an important zoonotic pathogen that infects nucleated cells in all warm-blooded animals, and affects about one-third of the world's population. The treatment for T. gondii relies on drugs, but there is no specific cure. The discovery, identification and understanding of key protein families of T. gondii are of great significance for candidate antigen screening, vaccine development, and novel prevention and control program. The Bin, amphiphysin and Rvs (BAR) superfamily is a category of proteins with the BAR domain, which plays an important role in membrane tubulation and constriction during vesicle formation in mammalian cells, and is essential for material transport. However, the information of BAR proteins in T. gondii is not comprehensive. In present study, we screened and identified four BAR domain-containing proteins (Bcps), including TGGT1_259720, TGGT1_320760, TGGT1_232180 and TGGT1_224070 in the T. gondii genome using HMM search and local blast. All above-mentioned Bcps contained the BAR domain, and the 3D structures present the typical crescent shaped helical dimer of BAR. The classification of BAR domains was analyzed by evolutionary tree clustering, and it was found that TGGT1_259720 belonged to F-BAR and the other three belonged to N-BAR. The phylogenetic analysis of four protozoa showed that the Bcps of T. gondii were the closest relative to those of N. caninum, which was consistent with the result of collinearity analysis among species. Moreover, conserved motif and gene composition analysis further confirmed that these closely related proteins are more similar in these structures. The prediction of interacting proteins also showed that Bcps had strong interaction with the key proteins of vesicle transport. The quantification of BAR genes by qPCR showed that these BAR genes were expressed during the growth and proliferation of T. gondii, and the expression patterns were different under different nutritional conditions with the increase of FBS concentration gradient, indicating that these genes played different roles.
    Keywords:  BAR domain; Toxoplasma gondii; bioinformatic analysis; expression pattern; nutrition
    DOI:  https://doi.org/10.1016/j.exppara.2025.109068
  3. RSC Med Chem. 2025 Nov 03.
      Toxoplasma gondii infects approximately one-third of the human population, posing a severe and potentially fatal risk to individuals with compromised immune systems. Our previous studies demonstrated that modifying the arene in the herbicidal protoporphyrinogen oxidase (PPO) inhibitor, oxadiazon, yields analogs that potently inhibit T. gondii PPO, a key enzyme in the heme biosynthesis pathway. In this study, we further investigated the structure-activity relationship of oxadiazon analogs by introducing aliphatic chains with varying functionalities, resulting in 23 new derivatives. Some of these compounds exhibited significant intracellular inhibition of wild-type T. gondii, with IC50 values ranging from 2 to 3 μM. Biochemical analysis confirmed that their mode of action is mediated by potent PPO inhibition, which further blocked heme production and damaged mitochondrial health status in the parasites. These findings enhance our understanding of oxadiazon's structural optimization and highlight its derivatives as promising early-stage candidates for developing effective therapies against toxoplasmosis in humans and other animals.
    DOI:  https://doi.org/10.1039/d5md00888c
  4. bioRxiv. 2025 Oct 03. pii: 2025.10.03.680297. [Epub ahead of print]
      The Toxoplasma gondii cytoskeleton contains an intermediate filament network, supporting a quilt of alveolar sheets forming the inner membrane complex (IMC), undergirded by 22 subpellicular microtubules (SPMTs). Embedded within the IMC are the apical annuli: 5-6 ring-shaped pores facilitating dense granule exocytosis. Here we describe a novel apical annuli protein, AAP7. AAP7 depletion causes a severe fitness defect. In stable AAP7-depleted (ATc-resistant) parasites, LMBD3 no longer traffics to the annuli, but accumulates among the secretory organelles. This suggests AAP7 is required to traffic LMDB3 to the plasma membrane through a novel route. Moreover, it indicated that AAP7 connects plasma membrane embedded LMDB3 to the AAP proteins embedded in the IMC sutures. Functionally, AAP7 depletion results in reduced secretion of dense granule proteins. Specifically, parasitophorous vacuole membrane pore forming GRA17 secretion is reduced, causing 'bubble' vacuoles. GRA17 overexpression overcomes AAP7 depletion and reduces bubble vacuoles revealing the critical defect. An additional AAP7 depletion phenotype is the accumulation of polyglutamylated SPMTs at the basal end, indicating slow turnover. Lastly, from a comparative angle, we investigated annuli in Sarcocystis neurona , revealing 6 apical annuli. This is surprising considering S. neurona 's 11 alveolar vesicles and expected 11 annuli. Ergo, annuli architecture does not take cues from IMC suture positioning. In summary, our analysis of AAP7 led to equally versatile and novel insights in apical annuli architecture, their assembly (uncovering a potentially novel trafficking process), how they interface with the IMC and impact the SPMTs, and their critical function in facilitating GRA17 secretion required for the pore across the parasitophorous vacuole membrane.
    DOI:  https://doi.org/10.1101/2025.10.03.680297
  5. Front Immunol. 2025 ;16 1683634
       Introduction: Different innate immune cell types are known to release extracellular traps (ETs) in response to invasive pathogens, including parasites. These ETs function to trap, immobilize, and eventually kill pathogens. In line with this, monocytes and macrophages have been shown to release ETs, known as monocyte/macrophage extracellular traps (METs). Toxoplasma gondii (T. gondii) is an apicomplexan zoonotic parasite that infects humans and homeothermic animals. While most studies have focused on prolonged exposure of immune cells to T. gondii, this study characterized the early innate immune reaction of mononuclear phagocytes to vital T. gondii tachyzoites.
    Methods: Primary human and bovine monocytes, monocytic THP-1 cells, and THP-1 cell-derived macrophages (M0-, M1-, and M2-like) were exposed to T. gondii tachyzoites for 4 h. Scanning electron microscopy (SEM), transmission electron microscopy (TEM), immunofluorescencemicroscopy, and confocal microscopy were used to visualize cell activation and the presence of METs. Additionally, the release of pro-inflammatory cytokines interleukin (IL)-1β and IL-6, and expression of Toll-like receptor (TLR) 2 and TLR4 were analyzed.
    Results and discussion: Microscopic analysis illustrated the activation of all cell types tested within 4 h of exposure to T. gondii tachyzoites. Numerous tachyzoites were found intracellularly in THP-1 cell-derived M1-like macrophages. Furthermore, the co-localization of extracellular DNA (extDNA) and histones in extracellular web-like fibers proved classical characteristics of extruded T. gondii-induced METs, although this was a rare event. In primary human monocytes, an increased release of IL-1β and IL-6 was observed following exposure to T. gondii tachyzoites. When co-stimulated with lipopolysaccharide (LPS), primary human monocytes showed an enhanced release of IL-1β and IL-6 in response to T. gondii. In contrast to monocytic THP-1 cells, THP-1 cell-derived M1-like macrophages released IL-1β in response to T. gondii tachyzoite exposure. When additionally stimulated by LPS, all THP-1 cell-derived macrophages showed an enhanced release of IL-1β, and monocytic THP-1 cells an increased release of IL-6 in response to T. gondii tachyzoites. This study provides insights into the early innate immune response of human and bovine mononuclear phagocytes to T. gondii. While cytokine secretion was prominent, MET formation was rare in the early response (i.e. < 4 h of exposure) to T. gondii tachyzoites.
    Keywords:  Toxoplasma gondii; cytokines; early innate immunity; extracellular traps; mononuclear phagocytes
    DOI:  https://doi.org/10.3389/fimmu.2025.1683634
  6. Autophagy Rep. 2025 ;4(1): 2580781
      Chaperone-mediated autophagy (CMA) is a selective form of lysosomal protein degradation essential for cellular proteostasis. CMA is activated during cellular stress, such as starvation, and involves the chaperone protein HSC70 (HSPA8) recognizing substrates containing KFERQ-like motifs. However, the regulatory mechanisms governing CMA activation remain poorly understood. Here, we demonstrate that the NAD+ -dependent deacetylase SIRT2 promotes CMA activation by deacetylating HSC70 at lysine 557 (K557). Our findings reveal that SIRT2 activity is upregulated during starvation, enhancing its interaction with HSC70 and facilitating the deacetylation of K557. Deacetylation of HSC70 at K557 increases its binding affinity to CMA substrates, thereby promoting their lysosomal degradation. Mutation of K557 to a deacetylation-mimetic arginine (K557R) enhances CMA activity under both nutrient-rich and starvation conditions, while the acetylation-mimetic glutamine mutant (K557Q) impairs substrate binding and CMA activation. Furthermore, the inhibition or knockdown of SIRT2 reduces CMA activity, which is rescued by HSC70 K557R expression. These findings identify SIRT2-mediated deacetylation of HSC70 as a regulatory mechanism for CMA activation during nutrient deprivation and highlight the role of protein lysine acetylation in proteostasis. This study provides insights into the interplay between SIRT2, HSC70, and CMA, with potential implications for diseases linked to proteostasis dysregulation, including neurodegenerative disorders and cancer.
    Keywords:  Chaperone-mediated autophagy; HSC70; KFERQ motif; SIRT2; amino acids starvation; deacetylation; heat shock chaperones; lysosomes; protein degradation; sirtuin
    DOI:  https://doi.org/10.1080/27694127.2025.2580781
  7. BMC Res Notes. 2025 Nov 19. 18(1): 488
       OBJECTIVE: Toxoplasmosis, caused by Toxoplasma gondii (T. gondii), is a common zoonotic disease worldwide. Novel therapeutic options are required due to the limited effectiveness and side effects of existing treatments. This study aims to evaluate the in vitro antiparasitic activity of linalool at various concentrations against tachyzoites of the T. gondii RH strain, in comparison with a positive control (saponin 0.2%) and a negative control (no treatment), using flow cytometric analysis.
    RESULTS: The flow cytometry results revealed a dose-dependent anti-Toxoplasma activity for linalool, with 18.37%, 36.77%, 38.75%, 47.57%, and 50.63% mortality rates at the concentrations of 37.5, 75, 150, 300, and 600 µg/mL, respectively. The mortality rate at the concentration of 1200 µg/mL (74.44%) was slightly higher than that of the positive control group (67.87%). Our findings provide primary evidence for the extracellular potential of linalool against T. gondii tachyzoites. This study provides a rationale for further research to evaluate linalool's intracellular and in vivo efficacy and safety.
    Keywords:   Toxoplasma gondii ; Flow cytometry; In vitro; Linalool
    DOI:  https://doi.org/10.1186/s13104-025-07555-y
  8. Drug Discov Today. 2025 Nov 13. pii: S1359-6446(25)00257-0. [Epub ahead of print] 104544
      Dysfunction of histone deacetylases (HDACs) is linked to oncogenesis and progression. The expression of classical HDACs varies across different cancers. In some cancers, isozymes of one HDAC class are overactive, whereas in others, multiple classes are involved. HDAC inhibitors (HDACi), which are promising cancer therapeutics, fine-tune the aberrant behaviour of HDACs. These inhibitors are either selective or pan-inhibitors, and it is uncertain which type is the most suitable for treatment. Herein, the optimal solution to this ambiguity is provided based on solid evidence. We suggest that the HDAC overexpression pattern in a specific cancer is key to choosing the optimal therapeutic regimen.
    Keywords:  HDACs; cancer; pan-HDAC inhibitors; selective HDAC inhibitors
    DOI:  https://doi.org/10.1016/j.drudis.2025.104544
  9. Curr Top Membr. 2025 ;pii: S1063-5823(25)00017-1. [Epub ahead of print]96 125-139
      Extracellular vesicles (EVs) are emerging as key players in the pathogenesis of malaria and toxoplasmosis, two significant infectious diseases caused by Apicomplexa parasites. This chapter investigates the multifaceted roles of EVs in the progression of these diseases, emphasizing their involvement in immune modulation, hostparasite interactions, and the regulation of disease severity. In malaria, EVs derived from infected red blood cells, platelets, and endothelial cells contribute to disease symptoms, immune response modulation, and parasite survival and have potential as biomarkers and tools for vaccine development. Similarly, in toxoplasmosis, EVs influence the modulation of immune responses and disease progression, presenting distinct profiles depending on the Toxoplasma gondii strain. Notably, EVs from both parasites contain immunogenic proteins that can be used in vaccine development, with promising results in preclinical studies. The role of EVs in these parasitic infections highlights their potential as therapeutic targets and diagnostic tools, providing new opportunities for the prevention and treatment of malaria and toxoplasmosis.
    Keywords:  Extracellular vesicles; Immune-modulation; Malaria; Toxoplasmosis
    DOI:  https://doi.org/10.1016/bs.ctm.2025.07.007
  10. Glycobiology. 2025 Nov 21. pii: cwaf078. [Epub ahead of print]
      Skp1 is an essential adaptor within the Skp1/Cul1/F-box (SCF) class of E3 polyubiquitin ligases that regulate protein degradation in all eukaryotes. Skp1 is also a target of a 5-enzyme glycosylation pathway in parasites and other unicellular eukaryotes. Glycosylation of Skp1 is contingent upon oxygen-dependent hydroxylation of a critical Pro residue by a homolog of the HIFα PHD2 oxygen sensor of animals. The resulting hydroxyproline is modified by a series of soluble, cytoplasmic, sugar nucleotide-dependent glycosyltransferases that vary among branches of protist evolution, and are evolutionarily related to counterparts in the Golgi and the cytoplasm of prokaryotes. Pair-wise gene fusions of the six enzymes occur in various protists, suggesting processing efficiency. The terminal glycosyltransferases exhibit a second site interaction with Skp1 that may modulate its function irrespective of glycosylation status. The pentasaccharide adopts a constrained fold that in turn promotes Skp1 conformations that inhibit sequestration by homodimerization and encourage binding to select F-box protein substrate receptors with varied effects on their expression levels. The occurrence of a second Skp1 copy in some protists that is resistant to modification indicates a mechanism to bypass glycoregulation. This review details evidence from the social amoeba Dictyostelium discoideum and the pathogens Toxoplasma gondii and Pythium ultimum for the specificity of the enzymes for Skp1 and their regulation, as support for a role in regulating protein turnover via E3(SCF) ubiquitin ligases, and in turn sensing oxygen at the cellular level.
    Keywords:  Dictyostelium; Skp1; nucleocytoplasmic glycosylation; toxoplasma; ubiquitin ligase
    DOI:  https://doi.org/10.1093/glycob/cwaf078
  11. Bone Res. 2025 Nov 17. 13(1): 93
      Osteoporosis is a prevalent metabolic bone disorder that develops when osteoclast-mediated bone resorption chronically exceeds osteoblast-driven bone formation. The molecular pathways that govern osteogenic dysfunction and connect cellular metabolism to differentiation regulation remain poorly characterized. Here, we identify Sirtuin 5 (Sirt5) as a pivotal osteogenic regulator through bioinformatic screening and functional validation in Sirt5-knockout mice. Mechanistically, Sirt5 governs mitochondrial homeostasis by desuccinylating Solute Carrier Family 25 Member 4 (Slc25a4) at lysine 147 (K147), as demonstrated by quantitative succinylome profiling and site-directed mutagenesis. This site-specific desuccinylation triggers Slc25a4 degradation, attenuating mitochondrial oxidative stress and promoting osteoblast differentiation. Crucially, Slc25a4-K147 succinylation drives osteoporosis progression, while Sirt5-mediated desuccinylation at this site confers protection. Our work reveals the Sirt5-Slc25a4-K147 axis as a novel regulatory mechanism coupling mitochondrial metabolism to bone homeostasis, offering a therapeutic target for osteoporosis intervention.
    DOI:  https://doi.org/10.1038/s41413-025-00464-7
  12. Mol Neurobiol. 2025 Nov 21. 63(1): 123
      Histone deacetylase inhibitors are known to influence memory consolidation, with synaptic protein acetylation playing a crucial role in plasticity processes such as long-term potentiation (LTP). In this study, we explored the role of non-histone protein acetylation in the consolidation of long-term inhibitory avoidance (IA) memory. We found that the histone deacetylase 6 (HDAC6) inhibitor, Tubastatin A, significantly enhanced memory consolidation when administered either intraperitoneally or directly into the hippocampus immediately after memory acquisition, but not when administered three hours later. Tubastatin A also preserved tubulin acetylation in hippocampal extracts in vitro and induced an increase in acetylation levels in vivo. Training in the IA task led to alterations in tubulin acetylation within synaptic extracts, specifically at residues other than lysine 40 of α-tubulin, accompanied by changes in synaptic composition. Furthermore, chemical LTP in primary hippocampal neuron cultures increased dendritic and synaptic acetylation, as well as the density of PSD95 clusters. These findings establish a role for HDAC6 in modulating tubulin acetylation during memory consolidation and provide new insights into the broader significance of non-histone protein acetylation in memory formation.
    Keywords:  Acetylation; Consolidation; Hippocampus; Long-term memory; Synapse
    DOI:  https://doi.org/10.1007/s12035-025-05385-4
  13. bioRxiv. 2025 Sep 30. pii: 2025.04.12.648511. [Epub ahead of print]
      Blood-stage Plasmodium falciparum parasites rely on a non-photosynthetic plastid, the apicoplast, for survival, making it an attractive target for antimalarial intervention. Like the mitochondrion, the apicoplast cannot be generated de novo and must be inherited by daughter parasites during cell division. This inheritance relies on coordinated apicoplast positioning and fission, but the molecular mechanisms controlling these processes remain poorly understood. Here, we identify a previously uncharacterized P. falciparum protein (Pf3D7_0613600), which we name PfAnchor, as a key regulator of apicoplast fission. Using Ultrastructure Expansion Microscopy (U-ExM), we show that PfAnchor localizes to the apicoplast throughout the asexual blood-stage. Conditional depletion disrupts apicoplast fission, leading to incomplete cytokinesis and parasite death. Notably, loss of the apicoplast's elongated branched structure via azithromycin treatment rescues these defects, underscoring Anchor's specific role in apicoplast fission. Immunoprecipitation identified an interaction with the dynamin-like GTPase PfDyn2, a key mediator of both apicoplast and mitochondrial fission, establishing PfAnchor as the first apicoplast-specific dynamin adaptor protein. Our findings define PfAnchor as an essential factor for apicoplast fission and inheritance in P. falciparum blood-stage parasites, highlighting parasite-specific organelle division as a potential vulnerability for therapeutic intervention.
    DOI:  https://doi.org/10.1101/2025.04.12.648511
  14. Prog Neuropsychopharmacol Biol Psychiatry. 2025 Nov 14. pii: S0278-5846(25)00317-3. [Epub ahead of print] 111563
      Depression, characterized by sustained low moods and even suicidal tendencies, has been intimately linked with mitochondrial dysfunction. This dysfunction is significantly connected with various psychiatric disorders, suggesting its potential role in the pathogenesis and progression of depression. Sirtuin 3 (SIRT3), a potent deacetylase enzyme primarily located within mitochondria, orchestrates mitochondrial function and mitigates various dysfunctions, e.g., insufficient cellular energy supply and oxidative stress. Insufficient cellular energy supply and oxidative stress disrupt normal neuroplasticity and neuroinflammation in the nervous system, as well as disturbances of the hypothalamic-pituitary-adrenal axis in peripheral systems. This review aims to elucidate that SIRT3 can be a potential target for depression, thereby summarizing the mechanisms by which SIRT3 is involved in the pathogenesis and progression of depression by regulating mitochondrial function.
    Keywords:  Depression; Inflammation; Mitochondrial function; Oxidative stress; Sirtuin 3
    DOI:  https://doi.org/10.1016/j.pnpbp.2025.111563
  15. Methods Mol Biol. 2026 ;2992 213-228
      A large number of novel microproteins discovered to date are nuclear encoded, mitochondrial proteins, pointing to their widespread roles in metabolic regulation. In this chapter, we provide a workflow of how to verify if a candidate microprotein is localized to the mitochondria, its submitochondrial localization (i.e., outer, inner membrane, or matrix) and how to determine its interactome in order to elucidate its molecular function.
    Keywords:  Microproteins; Mitochondria; OXPHOS
    DOI:  https://doi.org/10.1007/978-1-0716-5013-4_15
  16. bioRxiv. 2025 Oct 28. pii: 2025.09.30.679541. [Epub ahead of print]
      During its asexual cycle, Cryptosporidium parvum (C. parvum) amplifies through three rounds of nuclear division before undergoing cytokinesis to form infectious merozoites. However, chromosome organization and segregation during nuclear division remain unstudied. Here, we visualized H3-histones, including the centromeric histone H3 (CENH3), telomeres, and centrosomes during mitosis. Nuclear division was accompanied by centriole duplication and elongated microtubules that spanned synchronously dividing nuclei. Surprisingly, C. parvum centromeres detected by CENH3 showed diffuse staining throughout nuclear division, that overlapped with telomeres at the apical nuclear end. Analysis of centromeres based on CENH3 capture and DNA sequencing revealed numerous distinct binding sites scattered across all eight chromosomes, including both coding regions and intergenic regions, that were typified by GA rich repeat sequences. The unique holocentric chromosome structure of C. parvum is unlike the single regional centromeres found in related apicomplexans, suggesting it arose independently from other known examples in plants, insects and worms.
    Keywords:  Cryptosporidium; apicomplexan; centromeres; holocentric; mitosis
    DOI:  https://doi.org/10.1101/2025.09.30.679541
  17. Acta Parasitol. 2025 Nov 20. 70(6): 233
       INTRODUCTION: Toxoplasma gondii and Neospora caninum are apicomplexan protozoan parasites belonging to the family Sarcocystidae. Toxoplasma gondii is a significant zoonotic pathogen responsible for abortion and congenital infections in both humans and animals worldwide. Transmission to humans occurs through ingestion of tissue cysts (bradyzoites) in raw or undercooked meat, oocysts in felid faeces, transplacental transmission from infected mothers, or consumption of milk containing tachyzoites. Neospora caninum is a major cause of reproductive failure in cattle, manifesting as abortion, stillbirth, infertility, early foetal death, and decreased milk production. The parasite has been identified as a leading cause of bovine abortions, particularly in European dairy herds. Although N. caninum is not definitively proven to be zoonotic, its close phylogenetic and biological relationship with T. gondii raises concerns about potential human infection risk that warrant investigation.
    MATERIALS AND METHODS: This study investigated the presence of T. gondii and N. caninum DNA in milk samples from dairy animals in Samsun province, Turkey. Between September 2022 and June 2024, raw milk samples (10 ml) were collected from cattle (n = 107), sheep (n = 100), and buffaloes (n = 100) at various local dairies. DNA extraction and PCR amplification were performed using Tox4-Tox5 and Np6-Np21 primer pairs for T. gondii and N. caninum, respectively.
    RESULTS: Toxoplasma gondii DNA was detected in 21% (21/100) of buffalo, 19% (19/100) of sheep, and 14.95% (16/107) of cattle milk samples. Neospora caninum DNA was found in 16% (16/100) of sheep, 13.8% (14/107) of cattle, and 12% (12/100) of buffalo milk samples. These findings indicate a substantial prevalence of both parasites in raw milk intended for human consumption in the region.
    CONCLUSION: Given the potential viability of tachyzoites in unpasteurised milk and dairy products, consumption of raw milk may represent a significant risk factor for human infection with T. gondii and possibly N. caninum. Further comprehensive and systematic studies are needed to better characterize the public health risks associated with these parasites in raw milk and dairy products.
    Keywords:   Neosporosis ; Toxoplasmosis ; Public health; Zoonoses
    DOI:  https://doi.org/10.1007/s11686-025-01169-x
  18. Sci Adv. 2025 Nov 21. 11(47): eaea7460
      SLC25A51 is required for the replenishment of free nicotinamide adenine dinucleotide (oxidized form) (NAD+) into mammalian mitochondria. However, it is not known how SLC25A51 imports this anionic molecule to sustain elevated NAD+ concentrations in the matrix. Understanding this would reveal regulatory mechanisms used to maintain critical bioenergetic gradients for cellular respiration, oxidative mitochondrial reactions, and mitochondrial adenosine triphosphate (ATP) production. In this work, mutational analyses and localized NAD+ biosensors revealed that the mitochondrial membrane potential (ΔΨm) works in concert with charged residues in the carrier's inner pore to enable sustained import of NAD+ against its electrochemical gradient into the matrix. Dissipation of the ΔΨm or mutation of select residues in SLC25A51 led to equilibration of NAD+ from the matrix. Corroborating data were obtained with the structurally distinct mitochondrial NAD+ carrier from Saccharomyces cerevisiae (ScNdt1p) and mitochondrial ATP transport suggesting a shared mechanism of charge compensation and electrogenic transport in these mitochondrial carrier family members.
    DOI:  https://doi.org/10.1126/sciadv.aea7460
  19. bioRxiv. 2025 Oct 05. pii: 2025.10.04.680452. [Epub ahead of print]
      The ATP-driven mHsp60:mHsp10 chaperonin system assists protein folding within the mitochondrial matrix of human cells. Substrate protein folding has been proposed to occur through interconnected single- and double-ring pathways. In the absence of nucleotide, mHsp60 exists in equilibrium between free protomers and heptameric single rings, while the formation of double rings requires ATP. Here, we present cryo-electron microscopy structures of mHsp60 in the apo state, bound to ATP, and bound to ATP in complex with the cochaperonin mHsp10. ATP binding to single-ring apo mHsp60 7 triggers coordinated conformational changes in the intermediate and apical domains, resulting in a highly dynamic apical region within the ring. Extensive inter-subunit rearrangements flatten the equatorial surface of each ring, thereby enabling inter-ring contacts that stitch the rings together to form double-ring mHsp60 14 . Collectively, these structures define the structural basis of ATP-driven double-ring assembly of a human mitochondrial chaperonin responsible for maintaining mitochondrial protein homeostasis.
    DOI:  https://doi.org/10.1101/2025.10.04.680452
  20. J Gen Physiol. 2026 Jan 05. pii: e202513811. [Epub ahead of print]158(1):
      Polyphosphoinositides (PPIns) are essential components of membrane lipids and play crucial roles in cell signaling in eukaryotes. Phosphatidylinositol4,5-bisphosphate (PI(4,5)P2) is a species of PPIns enriched in the plasma membrane and regulates numerous membrane proteins, including ion channels, transporters, and receptors, primarily through direct binding to positively charged residues such as lysine and arginine. Despite recent advances in structural biology and biophysics, the specific contributions of individual amino acid residues to PI(4,5)P2 binding in membrane proteins remain unclear. These questions have been explored by functional characterization of mutant proteins with site-specific amino acid replacement and their comparison with the WT proteins. Here, we apply genetic code expansion to investigate the role of lysine residues in the PI(4,5)P2 sensitivity of ion channels. A caged lysine compound, hydroxycoumarin-lysine (HCK), was incorporated at several key lysine residues critical for PI(4,5)P2 sensitivity in the mouse inward-rectifier potassium channel Kir2.1, expressed in Xenopus oocytes. Caging of lysine by introducing HCK at K182 or K187 completely silenced Kir2.1 currents, but light-induced uncaging restored current activity. Voltage-sensing phosphatase assays revealed that this current increase was accompanied by enhanced PI(4,5)P2 sensitivity. On the other hand, introducing HCK at K219, which forms a secondary PI(4,5)P2-binding region, did not fully eliminate Kir2.1 currents, and uncaging resulted in an approximately twofold increase in current. Analysis of uncaging and PI(4,5)P2 sensitivity in Kir2.1-K219HCK revealed that the region C-terminal to residue K219 is dispensable when assembled with the full-length protein. Genetic code expansion using caged lysine provides a valuable tool for studying the mechanisms of PI(4,5)P2 regulation in ion channels, complementing existing approaches.
    DOI:  https://doi.org/10.1085/jgp.202513811
  21. RNA. 2025 Nov 17. pii: rna.080744.125. [Epub ahead of print]
      Nicotinamide adenine dinucleotide (NAD) is a ubiquitous enzyme cofactor that serves as a carrier of hydride ions for metabolic oxidation-reduction reactions. NAD is also sometimes used as a source of activated adenosine monophosphate (AMP) for adenylation reactions or as a precursor of ADP-ribose upon removal of nicotinamide. Many bacterial riboswitch classes are known to sense nucleotide-derived enzyme cofactors, but NAD is one of several ancient cofactors that have few or no known riboswitch representatives. Two rare riboswitch classes, named NAD+-I and NAD+-II, have been reported that regulate genes relevant to NAD biosynthesis and transport. However, these RNAs exhibit unusual functional and structural properties. Here we report that miniature NAD+-II riboswitches, named mini-NAD+-II, are more abundant and widespread than the longer RNAs that were used to defined the original consensus model for this class. The newfound examples are commonly found within lactic acid bacteria, which are notable for varied metabolic fermentation strategies used to maintain sufficient NAD+. Furthermore, the simple H-type pseudoknot core of mini-NAD+-II aptamers is similar to that of class I preQ1 riboswitch (preQ1-I) aptamers. Thus, H-type pseudoknots might serve as a versatile architecture for the natural or synthetic construction of ligand-binding aptamers.
    Keywords:  aptamer; gene control; nicotinamide adenine dinucleotide; prequeosine; pseudoknot
    DOI:  https://doi.org/10.1261/rna.080744.125
  22. Eur J Pharmacol. 2025 Nov 19. pii: S0014-2999(25)01132-X. [Epub ahead of print] 178378
      Lysine lactylation (Kla) has emerged as an epigenetic-metabolic regulatory mechanism linking post-translational modification (PTM) to immunosuppressive TME formation. Evidence supports its complex role in TME by modulating immune state transitions and augmenting tumor malignancy. However, the existence of specialized lactyltransferases and multiple crosstalk mechanisms remain debated. This review summarizes upstream and downstream regulatory factors influencing lactylation modification, comparing differential substrate modification patterns that diverge in their requirements for Lactyl-CoA biosynthesis, which contributes to gene expression or protein function. Furthermore, we explore the mechanism that the lactate-Kla axis drives tumor progression by orchestrating metabolic reprogramming, fostering therapy resistance, and suppressing T-cell cytotoxicity. Finally, we summarize the burgeoning field of anti-lactylation pharmacology, evaluating prospective therapeutic strategies from preclinical and clinical studies.
    Keywords:  Epigenetic regulation; Immunosuppressive tumor microenvironment; Lactate; Lactylation; Lactyltransferase
    DOI:  https://doi.org/10.1016/j.ejphar.2025.178378
  23. bioRxiv. 2025 Oct 02. pii: 2025.10.01.679551. [Epub ahead of print]
      Lysosomes process cellular waste and coordinate responses to metabolic challenge. Central to lysosomal homeostasis are phosphoinositide lipids, key signaling molecules which establish organelle identity, regulate membrane dynamics and are tightly linked to the pathophysiology and therapy of lysosomal storage disorders, neurodegeneration, and cancer. Phosphatidylinositol 3,5-bisphosphate (PI(3,5)P2) interacts with multiple lysosomal membrane proteins and plays a critical role in regulating lysosomal pH by directly inhibiting the chloride/proton antiporter ClC-7, though the molecular mechanism of this inhibition remains unclear. Here, using a combination of functional, structural, and computational analysis, we demonstrate that PI(3,5)P2 binding dramatically remodels the structure of ClC-7 by inducing close association between cytosolic and transmembrane domains. Disease-causing mutations show increased transport activity through loss of PI(3,5)P2 binding and subsequent inhibition. Conversely, ClC-7 activation is correlated with dissociation and increased disorder of the cytoplasmic domain along with novel transmembrane domain conformations, revealing a mechanistic link between specific lysosomal lipids, transporter regulation, and the enigmatic basis of the ClC-7 slow gate.
    DOI:  https://doi.org/10.1101/2025.10.01.679551
  24. Oncogenesis. 2025 Nov 21. 14(1): 44
      RNA modification, a prominent epigenetic mechanism, has been implicated in regulating RNA function, stability, processing, and interactions, including pseudouridylation, acetylation, and methylation. Recent evidence highlights that 5-methylcytosine (m5C) influences key cellular processes such as proliferation, differentiation, apoptosis, and stress responses by modulating RNA stability, translation, transcription, nuclear export, and cleavage. This review consolidates current insights into the role and mechanisms of m5C methylation across various tumor types, underscoring its pivotal involvement in post-transcriptional regulation and its profound effects on gene expression, cellular dynamics, and tumor biology. The mechanisms through which m5C methylation impacts tumor progression, including modulation of glucose and iron metabolism, as well as resistance to therapeutic agents, are also discussed. Finally, the review identifies critical future research avenues, focusing on elucidating the underlying mechanisms, developing targeted therapies, and advancing personalized medicine approaches to leverage m5C methylation in cancer treatment.
    DOI:  https://doi.org/10.1038/s41389-025-00587-w
  25. Nucleic Acids Res. 2025 Nov 22. pii: gkaf1226. [Epub ahead of print]
      The AlphaFold Protein Structure Database (AFDB; https://alphafold.ebi.ac.uk), developed by EMBL-EBI and Google DeepMind, provides open access to hundreds of millions of high-accuracy protein structure predictions, transforming research in structural biology and the wider life sciences. Since its launch, AFDB has become a widely used bioinformatics resource, integrated into major databases, visualization platforms, and analysis pipelines. Here, we report the update of the database to align with the UniProt 2025_03 release, along with a comprehensive redesign of the entry page to enhance usability, accessibility, and structural interpretation. The new design integrates annotations directly with an interactive 3D viewer and introduces dedicated domains and summary tabs. Structural coverage has also been updated to include isoforms plus underlying multiple sequence alignments. Data are available through the website, FTP, Google Cloud, and updated APIs. Together, these advances reinforce AFDB as a sustainable resource for exploring protein sequence-structure relationships.
    DOI:  https://doi.org/10.1093/nar/gkaf1226