Biology subjects

Duan, J.

Publications and source records attributed to Duan, J..

At least 37 records · Page 2Linked to original sources

bioRxiv2025

The inactivation of DHHC7 in mouse liver promotes diet-induced obesity through a hepatic Prg4-GPR146 axis

The liver secretes hepatokines that coordinate whole-body metabolism. Posttranslational lipidation of signaling proteins by DHHC palmitoyltransferases controls membrane targeting and signaling, yet the role of hepatic palmitoylation in systemic metabolic regulation is largely unexplored. Using an inducible, liver-specific DHHC7 knockout (D7LKO) mouse, we report that loss of DHHC7 in hepatocytes potentiates adenylyl cyclase-PKA-CREB signaling through reducing palmitoylation of inhibitory G protein subunit (Gi), leading to transcriptional elevation and secretion of proteoglycan 4 (Prg4). Elevated circulating Prg4 acts on adipocytes by binding GPR146 via Prg4s N-terminal SMB domain, suppressing adipocyte PKA substrate phosphorylation and hormone-sensitive lipase (HSL) Ser563 phosphorylation, thereby impairing lipolysis. Under high-fat diet (HFD) feeding, D7LKO mice and mice with adenoviral hepatic Prg4 overexpression develop pronounced obesity characterized by increasing brown, subcutaneous, and visceral fat mass and adipocyte hypertrophy; strikingly, these animals show little impairment in glucose tolerance or circulating triglycerides but display elevated plasma cholesterol. Conditioned medium containing Prg4 recapitulates suppression of adipocyte HSL phosphorylation in vitro, and SMB-deleted Prg4 fails to bind GPR146 or inhibit HSL phosphorylation. Our findings define a liver palmitoylation- hepatokine axis that controls adipose lipolysis and predisposes to diet-induced fat accumulation, establishing Prg4-GPR146 as a mechanistic link between hepatic signaling and adipose energy mobilization.

physiology↗

bioRxiv2025

Primate-specific adaptation of Ku protects transcriptomic integrity by suppressing Alu-mediated alternative splicing

Accurate pre-mRNA splicing is essential for the transfer of genetic information but faces unique challenge in higher primates due to the massive expansion of intronic Alu elements1-3. While studying Ku, the Ku70/Ku80 heterodimer best known for initiating non-homologous end-joining (NHEJ) by encircling DNA ends4, we discovered that Ku expression increased markedly during primate evolution in parallel with Alu expansion5. Ku binds double-stranded RNA (dsRNA) stem-loops, including those at the antisense Alu (asAlu) elements within introns5. Here, we show that Ku-depletion in human cells has a broad impact on splicing largely independent of cell-cycle states, NHEJ, or innate immune signaling, significantly affecting ~8-10% of quantifiable alternative splicing events. Mechanistically, Ku directly binds exonic asAlu to prevent their aberrant inclusion and binds asAlu within inverted-repeat Alu (irAlu) pairs flanking canonical exons to prevent exon skipping6. Among human tissues, Ku expression in the brain is consistently ~50% lower, correlating with more permissive expression of Alu-derived splice variants, particularly those encoding mitochondrial proteins and RNA-binding factors. Correspondingly, heterozygous Ku loss in patient causes developmental delay, neurological dysfunction, and acidosis. Together our findings identified Ku as a critical suppressor of Alu-associated alternative splicing co-opted during evolution with implications for primate brain function and human disease.

molecular biology↗

bioRxiv2025

Full-length structure of CPR-containing self-sufficient cytochrome P450

Cytochrome P450 (P450s) are heme-thiolate monooxygenases that exploit electrons sourced from pyridine nucleotide to reduce the oxygen and heme iron to catalyze hydroxylation of inactivated C-H bond1-4. Self-sufficient P450s that contain the substrate-binding heme-domain and the electron-donating NADPH:cytochrome P450 reductase (CPR) domain in the same polypeptide chain are highly effective and have been engineered to catalyze various challenging reactions. The high efficacy attributes to the effective electron transfer rate, but how the electrons travel among the redox centers remains elusive owing to the lack of structural information of the full-length protein. Here, we report the structure of a homologue of the most extensively studied P450BM3 from Shimazuella soli (SoP450) resolved by single particle cryo-electron microscopy (cryo-EM) and X-ray crystallography. SoP450 primarily exists as a homodimer formed via the intertwined CPR-domains. The spatial alignment of the heme-domain that is linked via an extensive loop was also determined. Notably, a class of structure that lacks one heme-domain was identified from the cryo-EM analyses, indicating that the heme-domain is mobile. We suspected that the heme-domain could move to reach the CPR-domain for electron acquisition and built a model of putative catalytic state to reveal how the electrons are relayed from NADPH to heme. These results are of fundamental importance to understand the catalytic reaction of CPR-containing self-sufficient P450s, which shall provide critical information to the engineering and applications of these enzymes.

synthetic biology↗

bioRxiv2025

Optimizing methods for virome analysis based on studies of a synthetic viral community

Studies of whole viral populations--the "virome"--are yielding exciting new insights into biological systems, but methods are still being optimized. Here we describe generation and use of a synthetic viral community to assess several technical challenges important in virome analysis. Our mock community was comprised of phages lambda, T4, M13, MS2, and phi6, together with adeno-associated virus (AAV), murine hepatitis virus (MHV), and vaccinia virus (VV). We spiked the mock community into different human sample types, including stool, saliva, oropharyngeal (OP) wash, and bronchoalveolar lavage (BAL), then passed the samples through different virus enrichment protocols and analyzed by Illumina sequencing. Compared to direct metagenomic sequencing, VLP enrichment protocols greatly increased viral read yields from virus-rich samples such as from stool and saliva. Three VLP enrichment work flows were compared, and each was found to have strengths and weaknesses. Four methods for DNA amplification were compared, with three showing over-amplification of small circular ssDNA viruses, most notably GenomiPhi. Studies of viral particle stability in the presence of nuclease showed that most viral genomes were stable when protected in viral particles, but phage MS2 RNA was unexpectedly labile under some of the conditions tested. Comparison of Illumina 1000-cycle sequencing versus 300-cycle sequencing showed that longer reads supported generation of longer viral genome assemblies. Bacteriophage DNA can be modified by at least 12 different chemistries, raising the question of whether these modifications might block recovery in virome analytical protocols. We tested bacteriophage T4 DNA modified with glucosyl-hydroxymethylcytosine (ghmC) and hydroxymethylcytosine (hmC), and found that both were readily detected, though the recovery of ghmC-modified DNA was reduced. These studies together with published data help provide guidance for virome researchers optimizing analytical protocols.

microbiology↗

bioRxiv2025

Ethanol induces neuroimmune dysregulation and soluble TREM2 generation in a human iPSC neuron, astrocyte, microglia triculture model

Alcohol use disorders (AUDs) affect substantial populations worldwide and increase the risk of developing cognitive impairments and alcohol-associated dementia. While chronic inflammatory signaling likely plays an important role in alcohol-associated neurological sequalae, the precise mechanisms underlying alcohol-associated neuropathology remain enigmatic. We hypothesize that alcohol leads to neuroimmune dysregulation among neurons, astrocytes, and microglia; and is perpetuated by innate immune signaling pathways involving cell-cell signaling. To investigate how alcohol dysregulates neuroimmune interactions in a human context, we constructed a triculture model comprising neurons, astrocytes, and microglia derived from human induced pluripotent stem cells. After exposure to ethanol, we observed significant differential gene expression relating to innate immune pathways, inflammation, and microglial activation. Microglial activation was confirmed with morphological analysis and expression of CD68, a lysosomal-associated membrane protein and marker for phagocytic microglial activation. A striking finding in our study was the elevation of TREM2 expression and, specifically, TREM2 alternative splice variants that are predicted to give rise to soluble TREM2. TREM2 has been reported to be a risk factor for Alzheimers disease. These results suggest that ethanol exposure in the brain may lead to increased microglial activation and production of soluble isoform named TREM2219 through alternate splicing. Deciphering the molecular and cellular mechanisms underpinning ethanol-related neuroimmune dysregulation within a human context promises to shed light on the etiology of AUD-related disorders, potentially contributing to the development of effective therapeutic strategies. HighlightsO_LIWe prepared a "triculture" of human iPSC-derived neurons, astrocytes and microglia C_LIO_LIEthanol treatment produces substantial changes in gene expression with prominent effects on neuroimmune signaling C_LIO_LISeveral microglia-specific genes are induced by ethanol in tricultures but not in cultures of microglia alone C_LIO_LITREM2 expression is increased following ethanol treatment and results indicate a differential splicing of isoforms, encoding a soluble form of TREM2 C_LI

neuroscience↗

bioRxiv2025

Hybrid peptide DNA nanomaterials enable potent and broad-spectrum virus neutralization

The continued emergence of antigenic drift and drug-resistant viral strains highlights the need for antiviral strategies that deliver robust efficacy, broad subtype coverage, and minimal off-target toxicity. We demonstrate a potent and broad-spectrum strategy that employs hybrid biomaterials of Urumin (a host defense peptide) and a honeycomb (HC) DNA origami through spatially organized multivalent presentation for enhanced antiviral efficacy. Molecular dynamics simulations reveal that Urumin penetrates and destabilizes the hemagglutinin (HA) trimer core, disrupting influenza A viral (IAV) entry. Arranging Urumin in trimeric clusters on the HC enables potent multivalent binding to trimeric HAs on IAV, enhancing antiviral efficacy at nanomolar concentrations, [~]1,000-fold more effective than free Urumin. In vitro assays confirm HC-Urumin outperforms free Urumin in blocking viral entry and preserving cell viability in more IAV subtypes. In vivo studies show that compared to free Urumin, HC-Urumin treatment reduces disease severity, preserves physiological behavior, and decreases mortality in infected mice, while maintaining virus-specific adaptive immune responses without altering humoral immunity. Our study offers an advanced and effective materials platform and strategy for broad-spectrum, low-dose intervention against human and animal IAVs, which can be adapted to combat other viruses by patterning corresponding host defense peptides on custom designed DNA nanostructures.

bioengineering↗

bioRxiv2025

Comparative Analysis of Neonatal Hypomyelination Models Using Spatial Transcriptomics

White matter injury (WMI) is a major cause of morbidity in premature infants, contributing to 5%-10% of cerebral palsy cases and up to 50% of cognitive and behavioral deficits in the United States. Two commonly used preclinical models, intermittent hypoxia (IH) and hypoxia-ischemia (HI) are widely employed to investigate the effects of WMI. The internal capsule (IC) and corpus callosum (CC) are major white matter tracts undergoing active myelination during the neonatal period, making them particularly vulnerable to hypoxic insults. This study aims to compare the effects of IH and HI models on myelination as well as the involvement of inflammatory cells in the IC and CC. We evaluated five oligodendrocyte (OL) subtypes, along with astrocytes, microglia, and activated microglia in IC and CC at postnatal day 12 (P12) and day 20 (P20) using spatial transcriptomics (CosMx, Novogene). For the HI model, C57BL/6 mice at P10 underwent permanent ligation of the left carotid artery followed by 45 minutes of hypoxia (8% O2 / 92% N2). For the IH model, P3 mice were exposed to 5% O2 / 95% N2, twice daily for five consecutive days. Animals were euthanized at P12 and P20, perfused transcardially, and brains were post-fixed in 4% paraformaldehyde, dehydrated in an ethanol series, embedded in paraffin, and coronally sectioned at 7 m. Slides were submitted for CosMx spatial transcriptomic analysis (NanoString Technologies), and data analysis was performed using the Seurat package in RStudio. Our results demonstrate that IH and HI models affect OL populations differently, and these effects vary by brain region. In the IC, the IH model caused earlier and more pronounced changes in OL differentiation-related gene expression compared to HI. In contrast, the CC was more affected by HI. Moreover, in the HI group, mature OL s in both regions showed reduced expression of myelination-associated genes. This was accompanied by greater activation of inflammatory cells and increased intercellular communication between these cells and mature OLs, potentially contributing to the observed hypomyelination. Overall, our study provides critical insights into how each model of neonatal hypoxia differentially impacts white matter development. This knowledge can help refine preclinical strategies and guide therapeutic research tailored to the underlying pathology of each model.

neuroscience↗

bioRxiv2025

Optical recordings of synaptic vesicle fusion reveal diffusional dispersion

The primary unit of exocytosis, the synaptic vesicle, is replete with proteins which enable vesicle fusion. For maintaining synaptic transmission the vesicle proteins have to be rapidly cleared from the active zone. The immediate fate of the cargo post-fusion and the precise mechanism of its resorting into a readily retrievable pool (RRetP) for endocytosis remains unclear. To address this, we developed a purely presynaptic preparation, the xenapse, presynaptic boutons formed en face directly onto a glass coverslip enabling optical single vesicle recording by total internal reflection microscopy (TIRFM). Electron microscopy showed xenapses contain a few hundred synaptic vesicles (SVs), of which [~]40 SVs are primed (readily releasable pool, RRP), as revealed by single vesicle recordings using the pH-sensitive fluorescent protein pHluorin. Single fusion events synchronous with action potentials could be localized with [~]20 nm precision and rapid post-fusion diffusional dispersion of vesicular proteins observed with diffusion constants in the order of 0.1 {micro}m2/s. Unroofing of xenapses revealed numerous Clathrin-coated structures, enriched for vesicle cargo and numerically equivalent to about twice the measured RRP size. In this way SV proteins are rapidly cleared from the release site into this RRetP of pre-assembled pits to allow for rapid re-docking and re-priming at vacated release sites in synapses tuned for high-fidelity fast signaling.

neuroscience↗

bioRxiv2025

Slow scission of single synaptic vesicles by Dynamin at physiological temperature

Compensatory endocytosis is crucial for the presynapse to maintain a functional pool of fusion-competent vesicles. Slow Clathrin-mediated endocytosis has been widely regarded as the primary mechanism of retrieval but this has been challenged by competing Clathrin-independent endocytic models, most notably sub-second ultra-fast endocytosis, reported to be predominant at physiological temperature. Here, we sought to resolve the salience of the respective endocytic modes by using a purely presynaptic preparation, the Xenapse, amenable to total internal reflection fluorescence microscopy (TIRFM). While the role of Clathrin is in dispute, Dynamin is widely acknowledged to figure as the scission protein at the invaginated vesicle neck. Hence, we labelled the endogenous Dynamin I with EGFP by CRISPR-Cas9 techniques and visualized single synaptic Dynamin-mediated scission events at very high temporal resolution. This revealed only a single slow mode of Dynamin-dependent retrieval with a half time of [~] 9 seconds at physiological temperature. Cross-correlational analysis with fluorescently labelled Clathrin confirmed these Dynamin events to be Clathrin-dependent. We thereby affirm Clathrin-mediated endocytosis as the primary mode of compensatory retrieval.

neuroscience↗

bioRxiv2025

Protein dynamics affect O2-stability of Group B -hydrogenase from Thermosediminibacter oceani

In the pursuit of sustainable green energy generation, [FeFe]-hydrogenases have attracted significant attention due to their ability to catalyze hydrogen production. However, the sensitivity of these enzymes to O2 is a major obstacle for their application as biocatalysts in energy conversion technologies. In the search for an O2-stable [FeFe]-hydrogenase, we identified the hydrogenase ToHydA from Thermosediminibacter oceani that belongs to the rarely characterized Group B (M2a) [FeFe]-hydrogenases. Our findings demonstrate that ToHydA exhibits remarkable O2-stability, even under prolonged O2 exposure. By characterizing site-directed mutagenesis variants, we found that the highly conserved proton-transporting cysteine protects H-cluster from O2-induced degradation by forming Hinact state. The additional cysteine residue in the TSCCCP motif of ToHydA, a feature unique to Group B (M2a) [FeFe]-hydrogenases, enhances the flexibility of that motif and facilitates the formation of the Hinact state. Moreover, ToHydA possesses unique features, including the formation of an unusual Hinact resting state that distinguishes the enzyme from other [FeFe]-hydrogenases. Our atomistic molecular dynamics simulations reveal a previously unrecognized cluster of hydrophobic residues centered around the proton-transporting cysteine-bearing loop. This structural feature appears to be a common molecular characteristic in hydrogenases that form the O2-protected Hinact state. By exploiting these molecular features of ToHydA, future research can aim to rationally design hydrogenases that combine high catalytic activity with enhanced O2 stability, to develop more efficient and durable catalysts. Table of Contents Figure O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=153 SRC="FIGDIR/small/643706v1_ufig1.gif" ALT="Figure 1"> View larger version (61K): org.highwire.dtl.DTLVardef@96b4aorg.highwire.dtl.DTLVardef@62f367org.highwire.dtl.DTLVardef@59f170org.highwire.dtl.DTLVardef@fa2fd7_HPS_FORMAT_FIGEXP M_FIG C_FIG

biochemistry↗

bioRxiv2025

Rare missense variants of the leukocyte common antigen related receptor (LAR) display reduced activity in transcellular adhesion and synapse formation

The leukocyte common antigen related receptor (LAR) is a member of the LAR receptor protein tyrosine phosphatase (RPTP) family of synaptic adhesion molecules that contribute to the proper alignment and specialization of synaptic connections in the mammalian brain. LAR-RPTP members have been genetically associated with neuropsychiatric disorders, but the molecular consequences of genetic perturbations of LAR remain unstudied. Using exome sequencing data from psychiatric patients and controls, we identify rare missense variants of LAR that render the extracellular domain (ECD) unstable and susceptible to proteolytic cleavage. Using recombinant and cellular systems, we describe three variants that cause disruption of the LAR:NGL-3 interaction, which results in loss of transcellular adhesion and synaptogenic effects. Furthermore, we show that overexpression of two of these variants elicit altered morphological phenotypes in an imaging-based morphological profiling assay compared to wild type LAR, suggesting that destabilization of the LAR ECD has broad effects on LAR function. In conclusion, our study identifies three rare, missense variants in LAR that could provide insights into LAR involvement with psychiatric pathobiology.

neuroscience↗

bioRxiv2025

Single-cell multiomics of neuronal activation reveals context-dependent genetic control of brain disorders

Most causal variants for neuropsychiatric disorders (NPD) remain unknown. A major hurdle is that disease variants may act in specific contexts, such as during neuronal activation, which is difficult to study in vivo at the population level. We profiled single-nucleus neuron-activation multiomics in human induced pluripotent stem cell (iPSC)-derived neurons from 100 donors, revealing the NPD-relevant transcriptomic/epigenomic landscape of neuronal activation. We identified abundant genetic variants associated with activity-dependent gene expression (eQTL) and chromatin accessibility (caQTL), the latter explaining larger proportions of NPD heritability. Integrating multiomic data with genome-wide association studies (GWAS) further revealed NPD risk variants and genes with effects detected only upon stimulation, such as activity-dependent cholesterol metabolism. Our work highlights the power of cell stimulation to reveal context-specific "hidden" genetic effects.

neuroscience↗

bioRxiv2025

VIRUS-MVP: A framework for comprehensive surveillance of viral mutations and their functional impacts

As viruses evolve, they accumulate genetic mutations that can influence disease severity, transmissibility, and the effectiveness of vaccines and therapeutics. Real-time tracking of viral mutations and their functional impacts is essential to understand these changes and assess their implications for public health responses. VIRUS-MVP is an interactive, portable platform designed for the comprehensive surveillance of viral mutations. Initially developed for SARS-CoV-2, it now fully supports mpox and is expanding to include influenza and RSV. The platform links viral mutations to functional annotations, providing insights into their predicted effects on viral infectivity, immune evasion, and protein functionality. It features an interactive interface for visualizing mutation distributions, a modular and reproducible genomics workflow, and a curated annotation resource that captures known impacts on viral proteins and host interactions. Users can also import custom functional annotations to tailor analyses to specific research needs or emerging pathogens. Developed collaboratively with public health and academic partners, VIRUS-MVP enhances understanding of viral evolution and its public health impact by bridging genomic data with biological insights. The platform is open-source, adaptable, and accessible on GitHub.

bioinformatics↗

bioRxiv2025

Contribution of DNA breathing to physical interactions with transcription factors

Interaction between transcription factors (TFs) and DNA plays a key role in regulating gene expression. It is generally believed that these interactions are controlled through recognition of DNA core motifs by TFs. Nevertheless, several studies pointed out the limitation of this view, in particular, DNA sequence variants influencing TF binding are often located outside of core motifs. One possible explanation is that the physical properties of DNA may play a role in TF-DNA interactions. Recent studies have supported the importance of DNA shape features, especially in flanking regions of core motifs. Another important physical property of DNA is DNA breathing, the spontaneous opening of double-stranded DNA through thermal motions. But there have been few genomic studies of the role of DNA breathing in TF-DNA interactions. In this work, we analyzed in vitro TF-DNA binding data of three TFs and found that DNA breathing features inside or near core motifs are correlated with binding affinity. This suggests that these TFs may prefer locally and temporally melted DNA formed through breathing. We extended the analysis to 44 TFs with in vivo ChIP-seq binding data. We found that for a large proportion of TFs, their breathing features in or near core motifs are associated with binding, but the sign and magnitude of these associations vary substantially across TF families. Altogether, our study supports the hypothesis that DNA breathing features near binding motifs contribute to TF-DNA interactions. Author SummaryProper regulation of when and where genes are expressed is crucial to biological development and function. This process is largely controlled by interaction of transcription factors (TFs) with DNA sequences. The recognition of specific DNA sequences by TFs is important to ensure that only the correct genes are activated. Extensive work has shown that TFs prefer to bind certain DNA sequence patterns of 6-20 bp, known as motifs. However, the structure of DNA molecules may also play a role. In this work, we explored the role of DNA breathing, which refers to spontaneous opening of double strand DNA due to thermal motions. This process creates transient, single-strand "bubbles" in DNA. Through examining TF-DNA binding data of >60 TFs, we found that the propensity of DNA forming bubbles near motifs is often associated with binding affinity of DNA sequence. Interestingly the patterns of these associations seem to vary with TFs. Altogether, our results highlighted the potential of DNA breathing in influencing TF-DNA interactions.

genetics↗

bioRxiv2025

Charge-based fingerprinting of unlabeled full-length proteins using an aerolysin nanopore

Proteins play essential roles in cellular processes and are involved in numerous diseases, driving the need for efficient proteoform identification. While nanopore technology was highly successful for DNA sequencing, this approach has not yet delivered its full potential in protein identification. Here, we demonstrate the capabilities of an aerolysin nanopore for direct identification of a range of unlabeled full-length proteins. Combining low pH and guanidinium chloride, we generate a strong electroosmotic flow that enables an efficient capture and translocation, resulting in distinct fingerprints from single-protein translocations. Using machine learning classifier, we achieve 80% accuracy in distinguishing seven related proteins with 38%-70% pairwise sequence identities. Differences in fingerprints largely reflect the distribution of positive charges in the protein sequences, providing a rational basis for the observed sensitivity. With further development, fingerprint-predictions could allow to infer de novo protein sequence information from single-molecule data, offering a powerful tool for proteomics.

bioengineering↗

bioRxiv2024

Distinct Microbiomes Underlie Divergent Responses of Methane Emissions from Diverse Wetland soils to Oxygen Shifts

Hydrological shifts in wetlands, a globally important methane (CH4) source, are critical constraints on CH4 emissions and carbon-climate feedbacks. A limited understanding of how hydrologically driven oxygen (O2) variability affects microbial CH4 cycling in diverse wetlands makes wetland CH4 emissions uncertain. Transient O2 exposure significantly stimulated anoxic CH4 production in incubations of Sphagnum peat from a temperate bog by enriching for polyphenol oxidizers and polysaccharide degraders, enhancing substrate flow toward methanogenesis under subsequent anoxic conditions. To assess whether shifts in soil microbiome structure and function operate similarly across wetland types, here we examined the sensitivity of different wetland soils to transient oxygenation. In slurry incubations of Sphagnum peat from a minerotrophic fen, and sediments from a freshwater marsh and saltmarsh, we examined temporal shifts in microbiomes coupled with geochemical characterization of slurries and incubation headspaces. Oxygenation did not affect microbiome structure and anoxic CH4 production in mineral-rich fen-origin peat and freshwater marsh soils. Key taxa linked to O2-stimulated CH4 production in the bog-origin peat were notably rare in the fen-origin peat, supporting microbiome structure as a primary determinant of wetland response to O2 shifts. In contrast to freshwater wetland experiments, saltmarsh geochemistry--particularly pH--and microbiome structure were persistently and significantly altered post-oxygenation, albeit with no significant impact on greenhouse gas emissions. These divergent responses suggest wetlands may be differentially resilient to O2 fluctuations. With climate change driving greater O2 variability in wetlands, our results inform mechanisms of wetland resiliency and highlight microbiome structure as a potential resiliency biomarker.

microbiology↗

bioRxiv2024

Lack of Ameliorative Effect of Chronic Oral Nicotine on Olfactory Dysfunction in Young Adult Presenilin-1/2 Double Knockout Mice of a Dementia Model

Olfactory dysfunction is a prevalent and early feature of neurodegenerative diseases including Alzheimers disease while the features and underlying mechanisms remain inadequately understood. This investigation aimed to elucidate the olfactory function characteristics of presenilin-1/2 double knockout (DKO) mice, an established mouse model of dementia. Through a series of behavioral tests on DKO and wildtype (WT) mice at 2 and 6 months of age, we assessed their abilities in odor detection, discrimination, and olfactory memory. The findings revealed a substantial deficit in odor detection in 2-month-old DKO mice compared to WT mice, with a noteworthy age-related deterioration observed from 2 to 6 months. Although DKO mice exhibited normal odor discrimination and olfactory memory capabilities at 2 months, these functions declined with age, falling significantly lower levels than observed in WT mice by the age of 6 months. Subsequently, 2-month-old DKO and WT mice underwent a 4-month chronic nicotine treatment through drinking water. This intervention failed to ameliorate olfactory dysfunctions in DKO mice and exhibited no significant impact on WT mice, despite a discernible trend of a potential negative effect. In summary, this behavioral study elucidates that Presenilin-1/2 double knockout impairs odor detection in young adult mice and accelerates declines of olfactory discrimination and memory. The chronic administration of nicotine did not effectively mitigate olfactory function deficiencies in young adult DKO mice, and the results also highlight age as an important contributing factor.

animal behavior and cognition↗

bioRxiv2024

SOQ1 functions as a methionine sulfoxide reductase in the chloroplast lumen for regulation of photoprotective qH in Arabidopsis

Photosynthetic organisms must balance light absorption and energy dissipation to prevent photo-oxidative damage. Non-photochemical quenching (NPQ) dissipates excess light energy as heat, with the quenching component qH providing sustained photoprotection. However, the molecular mechanism underlying qH induction remains unclear. Our study focuses on the thylakoid membrane protein SUPPRESSOR OF QUENCHING 1 (SOQ1) and its inhibition of qH through interaction with LIPOCALIN IN THE PLASTID (LCNP) in Arabidopsis thaliana. Structural homology of SOQ1 lumenal domains with bacterial disulfide bond protein D suggested potential thiol-disulfide exchange activity. In vitro assays determined that both SOQ1 thioredoxin-like (Trx-like) and C-terminal (CTD) domains contain a redox-active cysteine pair and evidenced electron transfer from Trx-like to CTD. Importantly, we found that SOQ1 lumenal domains exhibit methionine sulfoxide reductase (Msr) activity converting oxidized methionine residues in LCNP back to methionine, which thereby inactivates LCNP and prevents qH formation. Mutational analyses identified cysteine residues in SOQ1-CTD and methionine residues in LCNP as critical for qH suppression, supporting their role in redox regulation. Additionally, we found that the redox state of SOQ1 in vivo is light-dependent, shifting from reduced to oxidized under stress conditions, indicating a dynamic regulation of its activity. We conclude that the Trx-like domain of SOQ1 provides reducing power to its CTD displaying Msr activity. SOQ1 is therefore an unusual example of a protein possessing both a disulfide reductase and Msr domain in tandem. Our findings elucidate the redox-regulation mechanism of qH involving SOQ1-mediated methionine reduction of LCNP, providing insights into the intricate control of photoprotective processes in chloroplasts and enhancing our understanding of plant resilience under environmental stress.

plant biology↗