Biology subjects

Qi, X.

Publications and source records attributed to Qi, X..

At least 55 records · Page 3Linked to original sources

bioRxiv2024

A novel and robust method for assessing mitochondrial (dys)function in healthy and diseased frozen cardiac tissue

Cardiovascular diseases are often associated with impairment in mitochondrial function detected by reduced mitochondrial oxygen consumption using high-resolution respirometry. However, existing respirometry protocols are limited by the necessity for fresh tissue samples. This study developed a method with tailored substrate-inhibitor titration (TSIT) of mitochondrial electron transport complexes (ETC) to measure mitochondrial function in frozen cardiac samples using high-resolution respirometry. Briefly, acetyl-CoA was added to fuel the tricarboxylic acid (TCA) cycle for NADH production, enabling complex I (CI)-linked respiratory assessment. NADH was then added to measure maximum CI-linked respiratory capacity, followed by rotenone and succinate to assess complex II (CII)-linked respiratory capacity. TSIT detected mitochondrial functional differences between frozen atrial and ventricular tissue, with comparable results as measured in fresh samples. It also detected cardiac mitochondrial dysfunction across various (patho)physiological mouse models (including aging, ischemia reperfusion, obesity, and CI deficiency) as well as in frozen human donor samples, highlighting its clinical potential. Furthermore, we showed the first evidence for supercomplexes (SCs) formation between ETC-SCs and the TCA cycle metabolon, underpinning TSIT feasibility. In conclusion, we established a novel, robust, sensitive and translational method (TSIT) for assessing mitochondrial (dys)function in frozen cardiac samples from various species, enabling flexible analysis of mitochondrial function in both laboratory and clinical settings.

physiology↗

bioRxiv2024

Global analysis of protein and small-molecule substrates of ubiquitin-like proteins (UBLs)

AbstractUbiquitin-like proteins (UBLs) constitute a family of evolutionarily conserved proteins that share similarities with ubiquitin in 3D structures and modification mechanisms. For most UBLs including Small-Ubiquitin-like Modifiers (SUMO), their modification sites on substrate proteins cannot be identified using the mass spectrometry-based method that has been successful for identifying ubiquitination sites, unless a UBL protein is mutated accordingly. To identify UBL modification sites without having to mutate UBL, we have developed a dedicated search engine pLink-UBL on the basis of pLink, a software tool for identification of cross-linked peptide pairs. pLink-UBL exhibited superior precision, sensitivity, and speed than "make-do" search engines such as MaxQuant, pFind, and pLink. For example, compared to MaxQuant, pLink-UBL increased the number of identified SUMOylation sites by 50 [~] 300% from the same datasets. Additionally, we present a method for identifying small-molecule modifications of UBLs. This method involves antibody enrichment of a UBL C-terminal peptide following enrichment of a UBL protein, followed by LC-MS/MS analysis and a pFind 3 blind search to identify unexpected modifications. Using this method, we have discovered non-protein substrates of SUMO, of which spermidine is the major one for fission yeast SUMO Pmt3. Spermidine can be conjugated to the C-terminal carboxylate group of Pmt3 through its N1 or also likely, N8 amino group in the presence of SUMO E1, E2, and ATP. Pmt3-spermidine conjugation does not require E3 and can be reversed by SUMO isopeptidase Ulp1. SUMO-spermidine conjugation is present in mice and humans. Also, spermidine can be conjugated to ubiquitin in vitro by E1 and E2 in the presence of ATP. The above observations suggest that spermidine may be a common small molecule substrate of SUMO and possibly ubiquitin across eukaryotic species. HighlightsO_LIA specialized software pLink-UBL enables precise identification of UBL modification sites on protein substrates. C_LIO_LIpFind 3 blind search enables identification of unexpected small-molecule substrates of a UBL protein. C_LIO_LISpermidine is a small molecule substrate of fission yeast SUMO Pmt3 as well as mammalian SUMO proteins. C_LIO_LIThe C-terminal carboxyl group of Pmt3 can be attached to the N1 or likely also the N8 amino group of spermidine in the presence of E1, E2, and ATP, and can be detached by SUMO isopeptidase. C_LI

biochemistry↗

bioRxiv2024

Isoliquiritigenin attenuated cognitive impairment, cerebral tau phosphorylation and oxidative stress in a streptozotocin-induced mouse model of Alzheimers disease

IntroductionTau hyperphosphorylation, mitochondrial dysfunction and oxidative stress play important roles in Alzheimers disease (AD). Isoliquiritigenin, a natural flavonoid isolated from the root of liquorice, has been shown to exert inhibitory effects on oxidative stress. Here, we assessed the neuroprotective effects of isoliquiritigenin on a streptozotocin-injected mouse model. MethodMolecular docking analysis performed for isoliquiritigenin with mTOR and ERK2. The mice (n = 27, male) were intracerebroventricularly injected with streptozotocin, treated with isoliquiritigenin (intraperitoneal, 2 days) and assessed using the Morris water maze. Oxidative stress, tau phosphorylation, mitochondrial dysfunction and synaptic impairment were evaluated in the cortex and hippocampal tissues of the mice by using biochemical assays and immunofluorescence staining. ResultsIsoliquiritigenin treatment mitigated the spatial memory capacity of streptozotocin-injected mice and alleviated tau phosphorylation at Ser396; the production of reactive oxygen species; the mitochondrial fission proteins Mfn1 and Mfn2; neuronal loss; and synaptic impairment (PSD95, SNAP25). Isoliquiritigenin treatment reduced the levels of mTOR Ser2448 and ERK1/2 T202/Y204 and upregulated the level of GSK-3{beta}Ser9 in the cortex and hippocampus of streptozotocin-injected mice. ConclusionIn conclusion, our findings suggest that isoliquiritigenin ameliorates streptozotocin-induced cognitive impairment, hyperphosphorylated tau, oxidative stress, mitochondrial dysfunction and synaptic impairment by decreasing mTOR and ERK activity and increasing GSK-3{beta} activity.

neuroscience↗

bioRxiv2024

mTOR inhibition alleviated tau phosphorylation-induced mitochondrial impairment, oxidative stress, and cognitive impairment

AimHyperphosphorylated tau is a hallmark of Alzheimers disease (AD). However, whether mammalian target of rapamycin (mTOR) directly regulates tau phosphorylation at Ser214, Ser356, and Thr231 and how such regulation affects mitochondrial function remain unclear. In this study, we aimed to determine whether mTOR-mediated tau phosphorylation disrupts mitochondrial and metabolic profiles and cognitive function and whether these effects can be reversed by the mTOR inhibitor rapamycin. MethodsTau3E-overexpressing mice were generated by bilateral injection of adeno-associated virus vectors encoding the phosphomimetic TauS214E/T231E/S356E (Tau3E) variant into the hippocampal CA3 region of 2-month-old C57BL/6 mice. The mice received intraperitoneal rapamycin for one week. Cognitive performance was assessed using the Morris water maze. MALDI-mass spectrometry imaging was conducted to evaluate metabolic alterations in the brain tissue slices. mTOR, p70S6K, and tau phosphorylation protein expression; mitochondrial dynamics markers; and reactive oxygen species (ROS) levels were analyzed by Western blotting, immunofluorescence, and flow cytometry in HT22 cells, Tau3E mice, and postmortem AD brain tissues. ResultsPhosphorylated mTORS2448 colocalized with p-TauSer214, p-TauSer356, and p-TauThr231 in the hippocampal CA3 region of AD brains. HT22 cells and Tau3E mice exhibited increased levels of p-mTOR, p-p70S6K, and ROS production; mitochondrial fragmentation; and tau phosphorylation at Ser214, Ser356, and Thr231. Rapamycin treatment partially ameliorated cognitive deficits, reduced oxidative stress and mitochondrial dysfunction, and restored metabolic profile particularly the inosine-pentose phosphate pathway-glycolysis metabolic axis, structural lipidome axis and the neurotransmitter homeostasis. ConclusionmTOR activation contributes to site-specific tau hyperphosphorylation, mitochondrial dysfunction, and cognitive impairment. Pharmacological inhibition of mTOR by rapamycin attenuated tau pathology, regulated metabolic alterations, preserved mitochondrial homeostasis, and improved cognitive function, suggesting a potential therapeutic strategy for AD.

neuroscience↗

bioRxiv2024

Reprogramming the neuronal secretory and metabolic machinery using correctors for Alzheimer therapy

Alzheimer disease (AD) is a neurodegenerative disorder characterized by memory loss and personality changes, leading to dementia. The primary cause of the cognitive decline that characterizes AD is the loss of neurons, hypothesized as being due to secretory defects in neurotransmitter release and synaptic plasticity. There is growing evidence that in Alzheimer there is impaired neuronal metabolism due to an increase in free radicals and mitochondrial fission, leading to loss in ATP synthesis required for neurotransmission. Therefore, impaired metabolism in neurons may lead to the observed defects in neurotransmitter release, resulting in the loss of neuronal function and connections in regions of the brain involved in memory and reasoning. In our earlier studies, peptide inhibitor targeting oligomeric ATAD3A, a protein essential for mitochondrial fission and bioenergetics, were found to partially rescue from AD, both in AD neurons and AD mice. In the current study in AD neurons, neuronal porosome reconstitution combined with either a linear or circular peptide inhibitor of ATAD3A oligomers, was able to restore AD neurons to near normal levels of viability and greatly reduce oxidative stress in mitochondria. Additionally, the peptide and a small molecule considered safe by the FDA and used as a food additive, were also able to greatly increase viability in AD neurons and provide reduction to near normal levels of mitochondrial oxidative stress. Collectively, these results demonstrate great promise as secretory and metabolic correctors for AD therapy.

neuroscience↗

bioRxiv2024

Temporal Dynamics of Nucleus Accumbens Neurons in Male Mice During Reward Seeking

The nucleus accumbens (NAc) regulates reward-motivated behavior, but the temporal dynamics of NAc neurons that enable "free-willed" animals to obtain rewards remain elusive. Here, we recorded Ca2+ activity from individual NAc neurons when mice performed self-paced lever-presses for sucrose. NAc neurons exhibited three temporally-sequenced clusters, defined by times at which they exhibited increased Ca2+ activity: approximately 0, -2.5 or -5 sec relative to the lever-pressing. Dopamine D1 receptor (D1)-expressing neurons and D2-neurons formed the majority of the -5-sec versus -2.5-sec clusters, respectively, while both neuronal subtypes were represented in the 0-sec cluster. We found that pre-press activity patterns of D1- or D2-neurons could predict subsequent lever-presses. Inhibiting D1-neurons at -5 sec or D2-neurons at -2.5 sec, but not at other timepoints, reduced sucrose-motivated lever-pressing. We propose that the time-specific activity of D1- and D2-neurons mediate key temporal features of the NAc through which reward motivation initiates reward-seeking behavior.

neuroscience↗

bioRxiv2024

Bergeyella cardium variant induces unique cytoplasmic vacuolization cell death

Bacterial pathogens have evolved multiple mechanisms to modulate host cell death, evade host immunity, and establish persistent infection. Here, we show that an emerging pathogen Bergeyella cardium variant (BCV) survives serum killing, inducing unique cytoplasmic vacuolization cell death in the majority of cells and apoptosis in a small number of bystanders. The cytoplasmic vacuolization cell death triggered by BCV is characterized by fused lysosome-associated termination and is inhibited by the sodium channel inhibitor amiloride. Endosomal solute carrier family 9 member A9 (SLC9A9) was identified as a critical regulator in the process of BCV-triggered cytoplasmic vacuolization cell death. Moreover, outer membrane vesicles (OMVs) or transfection of barrel-like membrane proteins lipocalin, {beta}-barrel, and PorV dramatically induced cytoplasmic vacuolization. BCV hijacked SLC9A9 by maintaining its high expression, increasing cytoplasmic vacuolization, and enhancing pathogenicity. These findings contribute to the development of novel approaches to modulate cytoplasmic vacuolization cell death and treat infectious diseases. HighlightsO_LIBCV triggers unique cytoplasmic vacuolization cell death. C_LIO_LISLC9A9 is essential for BCV-induced cytoplasmic vacuolization cell death. C_LIO_LIOMVs and the transfection of barrel-like proteins derived from BCV induce cytoplasmic vacuolization cell death. C_LIO_LIBCV increases pathogenicity via cytoplasmic vacuolization cell death. C_LI

cell biology↗

bioRxiv2024

Yttrium-90-doped metal-organic frameworks (MOFs) for low-dose rate intratumoral radiotherapy

Brachytherapy, or intratumoral radiation therapy, is a highly effective treatment option for localized tumors. Herein, we engineered injectable and biodegradable metal-organic frameworks (MOFs) to deliver the therapeutic radioisotope yttrium-90 (90Y). Particles of bimetallic MIL-100(Fe,Y) and Y-BTC, doped with 90Y and 88Y, were synthesized in a single step and retained radioyttrium in various buffer solutions. Tumor injectability and radioisotope retention were evaluated using tumor-bearing mice. In vivo analysis and calculations showed that radiolabeled MIL-100(Fe,Y) emitted more than 38% of its radioactivity, while Y-BTC emitted greater than 75% of its radioactivity, through 7 days at the tumor site upon intratumoral injection, without significant yttrium accumulation in off-target tissues. The anticancer effects of MIL-100(Fe,Y,90Y) and 90Y,Y-BTC particles were assessed using 3D multicellular tumor spheroids and a tumor-bearing mouse model, respectively. 90Y-doped MIL-100(Fe,Y) particles penetrated A549 tumor spheroids and caused superior cytotoxic effects compared to non-radioactive particles or 90YCl3, added at the same dose. Brachytherapy with 90Y-doped Y-BTC MOFs induced inhibition of B16F1 melanoma tumor growth and resulted in an increased median survival of 8.5 days compared to 4.5 days in untreated mice. This study exhibits the feasibility to prepare radioactive 90Y-containing biodegradable, non-toxic MOF particles that are advantageous for low-dose rate internal radiotherapy.

biophysics↗

bioRxiv2024

Endogenous retroviruses activate MARCO-mediated inflammatory response to block retroviral infection

Endogenous retroviruses (ERVs) are remnants of ancient retroviral infections and can profoundly affect the host antiviral innate immune response, although the mechanisms by which these changes occur are largely unknown. Here we report that chicken-specific ERVs exert genetic resistance to exogenous retrovirus infection. Mechanistically, chicken-specific ERVs activated the scavenger receptor MARCO (macrophage receptor with collagenous structure)-mediated TLR3-IL-1{beta} inflammatory response in macrophages. Under the presence of MARCO, macrophages response to viral infection through inducing TLR3-IL-1{beta} inflammatory response. Conversely, lack of MARCO increased the viral replication levels and attenuated the antiviral inflammatory response. MARCO-mediated ligand delivery enhances TLR3-IL-1{beta} antiviral response, and IL-1{beta} expression is responsible for viral inhibition. Restoring MARCO or IL-1{beta} expression overcomes viral infection in macrophages. Our study provides new insights into the molecular mechanisms underlying the host defense against exogenous retroviruses infection and may have important implications for the development of novel therapeutic strategies against retroviruses infection.

immunology↗

bioRxiv2024

Generation of High-fidelity Blastocyst-like Structures from Porcine Expanded Pluripotent stem cell via Chemically inducing cell plasticity

Understanding the mechanisms of blastocyst formation and implantation is crucial for advancing farm animal reproduction. However, research in this area is often hindered by the limited availability of embryos. In this study, we developed an efficient method to generate blastocyst-like structures (termed blastoids) from porcine expanded pluripotent stem cells (pEPSCs) through chemical induction with an efficiency up to 80%. These porcine blastoids closely resemble natural blastocysts in terms of morphology, cell composition, and single-cell transcriptomes. The tissue structures of the blastoids developed over time in culture, resembling the tissue morphology of gastrulation-stage embryos. This innovative approach not only provides a robust in vitro model for studying early embryogenesis in pigs but also holds the potential for improving reproductive efficiency and understanding the developmental processes of large farm animal species. The development of porcine blastoids represents a significant advancement in regenerative medicine and developmental biology.

cell biology↗

bioRxiv2024

Lipid droplets restrict phagosome formation during Candida challenge

Lipid droplets (LDs) are intracellular organelles which can be induced and interact with phagosomes during the process of pathogen phagocytosis in macrophages. However, the function of LDs in the phagocytosis remains elusive. Here, we unveil the role of LDs in modulating phagosome formation using a fungal infection model. Specifically, LDs accumulation restricted the quantity of phagosome formation, and protected macrophages from death. Mechanistically, LDs formation competitively consumed intracellular endoplasmic reticulum membrane and altered RAC1 translocation and its GTPase activity, which resulted in limiting phagosomes formation in macrophages during fungi engulfed. Mice with Hilpda-deficient macrophages were more susceptible to the lethal sequelae of systemic infection with C. albicans. Notably, administration of ATGL inhibitor Atglistatin improved host outcomes in disseminated fungal infections. Taken together, our study elucidates the mechanism of LDs in controlling phagosomes formation to avoid immune cell death, and offers a potential drug target for treatment of C. albicans infections. HighlightsO_LIC. albicans infection induces triglycerides production and LD accumulation in macrophages. C_LIO_LILD restricts the quantity of phagosome formation and protects macrophages from death. C_LIO_LILD consumes intracellular ER membrane components and alters RAC1 translocation and its GTPase activity. C_LIO_LIAdministration of ATGL inhibitor Atglistatin improves host outcomes in disseminated fungal infections. C_LI

microbiology↗

bioRxiv2024

Short heat shock factor A2 confers heat sensitivity in Arabidopsis: Insights into heat resistance and growth balance

Cells prevent heat damage through the highly conserved canonical heat stress response (HSR), where heat shock factors (HSFs) bind heat shock elements (HSEs) to activate heat shock proteins (HSPs). Plants generate short HSFs (S-HSFs) derived from HSF splicing variants, yet their functions remain poorly understood. While an enhanced canonical HSR confers thermotolerance, its hyperactivation inhibits plant growth. How plants prevent this hyperactivation to ensure proper growth remains unknown. Here, we report that Arabidopsis S-HsfA2, S-HsfA4c, and S-HsfB1 confer sensitivity to extreme heat (45 {degrees}C) and constitute new HSF types featuring a unique truncated DNA-binding domain (tDBD). This tDBD binds a new heat-regulated element (HRE), which confers minimal promoter heat-responsiveness and exhibits heat stress sensing and transmission patterns. Using S-HsfA2, we investigated whether and how S-HSFs prevent canonical HSR hyperactivation. HSP17.6B, a common direct target of HsfA2 and S-HsfA2, confers thermotolerance; however, its overexpression partially causes HSR hyperactivation. Moreover, HRE-HRE-like and HSE elements mediate the HSP17.6B promoters heat response. We further show S-HsfA2 alleviates hyperactivation via two mechanisms: 1) S-HsfA2 negatively regulates HSP17.6B via the HRE-HRE-like element, establishing a noncanonical HSR (S-HsfA2-HRE-HSP17.6B) that antagonistically represses HsfA2-activated HSP17.6B expression. 2) S-HsfA2 binds the HsfA2 DBD, preventing HsfA2 from binding HSEs and thereby attenuating HsfA2-activated HSP17.6B promoter activity. Overall, our findings highlight the essential role of S-HsfA2 in preventing hyperactivation of plant heat tolerance to maintain proper growth.

plant biology↗

bioRxiv2024

Efficient small fragment sequencing of human, cow, and bison miRNA, small RNA or csRNA-seq libraries using AVITI

Next-Generation Sequencing (NGS) catalyzed breakthroughs across various scientific domains. Illuminas sequencing by synthesis method has long been essential for NGS but emerging technologies like Element Biosciences sequencing by avidity (AVITI) represent a novel approach. It has been reported that AVITI offers improved signal-to-noise ratios and cost reductions. However, the method relies on rolling circle amplification which can be impacted by polymer size, raising questions about its efficacy sequencing small RNAs (sRNA) molecules including microRNAs (miRNAs), piwi-interacting RNAs (piRNAs), and others that are crucial regulators of gene expression and involved in various biological processes. In addition, capturing capped small RNAs (csRNA-seq) has emerged as a powerful method to map active or "nascent" RNA polymerase II transcription initiation in tissues and clinical samples. Here, we report a new protocol for seamlessly sequencing short DNA fragments on the AVITI and demonstrate that AVITI and Illumina sequencing technologies equivalently capture human, cattle (Bos taurus) and the bison (Bison bison) sRNA or csRNA sequencing libraries, augmenting the confidence in both approaches. Additionally, analysis of generated nascent transcription start sites (TSSs) data for cattle and bison revealed inaccuracies in their current genome annotations and highlighted the possibility and need to translate small RNA sequencing methodologies to livestock. Our accelerated and optimized protocol therefore bridges the advantages of AVITI sequencing and critical methods that rely on sequencing short DNA fragments.

genomics↗

bioRxiv2024

Mutation of GmDMP genes triggers haploid induction in soybean

The development of homozygous lines is a key step in plant breeding and production. Generally, homozygous lines can be obtained through traditional time-consuming way of several generations selfing or through a way of doubled haploid (DH) technology, which has obvious advantages to accelerate breeding. However, no effective haploid production system so far has been established in soybean. Here we show that mutations of the soybean GmDMP1 and GmDMP2 genes can be used to induce haploid with an average haploid induction rate of 0.61%. We also found that 22.9% of soybean haploids can produce seeds through spontaneous chromosome doubling. Those findings laid a solid foundation for establishing DH technology in soybean, which will accelerate soybean breeding.

genetics↗

bioRxiv2024

In silico identification of putative causal genetic variants

Understanding the causal genetic architecture of complex phenotypes will fuel future research into disease mechanisms and potential therapies. Here, we illustrate the power of a novel framework: it detects, starting from summary statistics, and across the entire genome, sets of variants that carry non-redundant information on the phenotypes and are therefore more likely to be causal in a biological sense. The approach, implemented in open-source software, is also computationally efficient, requiring less than 15 minutes on a single CPU to perform genome-wide analysis. Through extensive genome-wide simulation studies, we show that the method can substantially outperform existing methods in false discovery rate control, statistical power and various fine-mapping criteria. In applications to a meta-analysis of ten large-scale genetic studies of Alzheimers disease (AD), we identified 82 loci associated with AD, including 37 additional loci missed by conventional GWAS pipeline. Massively parallel reporter assays and CRISPR-Cas9 experiments have confirmed the functionality of the putative causal variants our method points to. Finally, we retrospectively analyzed summary statistics from 67 large-scale GWAS for a variety of phenotypes. Results reveal the methods capacity to robustly discover additional loci for polygenic traits and pinpoint potential causal variants underpinning each locus beyond conventional GWAS pipeline, contributing to a deeper understanding of complex genetic architectures in post-GWAS analyses.

genetics↗

bioRxiv2024

Glutamate as a co-agonist for acid-sensing ion channels to aggravate ischemic brain damage

Glutamate is traditionally viewed as the first messenger to activate N-methyl-D-aspartate receptors (NMDARs) and downstream cell death pathways in stroke1,2, but unsuccessful clinical trials with NMDAR antagonists implicate the engagement of other NMDAR-independent mechanisms3-7. Here we show that glutamate and its structural analogs, including NMDAR antagonist L-AP5 (or APV), robustly potentiated currents mediated by acid-sensing ion channels (ASICs) which are known for driving acidosis-induced neurotoxicity in stroke4. Glutamate increased the proton affinity and open probability of ASICs, aggravating ischemic neurotoxicity in both in vitro and in vivo models. Site-directed mutagenesis and structure-based in silico molecular docking and simulations uncovered a novel glutamate binding cavity in the extracellular domain of ASIC1a. Computational drug screening of NMDAR competitive antagonist analogs identified a small molecule, LK-2, that binds to this cavity and abolishes glutamate-dependent potentiation of ASIC currents but spares NMDARs, providing strong neuroprotection efficacy comparable to that in ASIC1a or other cation ion channel knockout mouse models4-7. We conclude that glutamate serves as the first messenger for ASICs to exacerbate neurotoxicity, and that selective blockage of glutamate binding sites on ASICs without affecting NMDARs may be of strategic importance for developing effective stroke therapeutics devoid of the psychotic side effects of NMDAR antagonists.

neuroscience↗

bioRxiv2024

Selective degradation of multimeric proteins via chemically induced proximity to TRIM21

Targeted protein degradation (TPD) has emerged as an effective strategy to eliminate disease-causing proteins by inducing their interactions with the protein degradation machinery. First-generation TPD agents exploit a limited set of broadly expressed E3 ubiquitin ligases with constitutive activity, forbidding their application to proteins requiring higher levels of targeting selectivity. Here, by phenotype-based screening, we discovered that the antipsychotic drug acepromazine possesses interferon-enhanced cytotoxicity towards cancer cell lines expressing high levels of aldo-keto reductases 1C. These enzymes convert acepromazine into its stereo-selective metabolite (S)-hydroxyl-acepromazine, which recruits the interferon-induced E3 ubiquitin ligase TRIM21 to the vicinity of the nuclear pore complex, resulting in the degradation of nuclear pore proteins. Co-crystal structures of acepromazine and derivatives in complex with the PRYSPRY domain of TRIM21 revealed a ligandable pocket, which was exploited for designing heterobifunctional degraders. The resulting chemicals selectively degrade multimeric proteins-- such as those in biomolecular condensates--without affecting monomeric proteins, consistent with the requirement of substrate-induced clustering for TRIM21 activation. As aberrant protein assemblies have been causally linked to diseases such as neurodegeneration, autoimmunity, and cancer, our findings highlight the potential of TRIM21-based multimer-selective degraders as a strategy to tackle the direct causes of these diseases.

pharmacology and toxicology↗

bioRxiv2024

Inflammatory Cytokines Can Induce Synthesis Of Type-I Interferon

Type I interferon (IFN) is induced in virus infected cells, secreted and it inhibits viral replication in neighboring cells. IFN is also an important player in many non-viral diseases and in the development of normal immune cells. Although the signaling pathways for IFN induction by viral RNA or DNA have been extensively studied, its mode of induction in uninfected cells remains obscure. Here, we report that inflammatory cytokines, such as TNF- and IL-1{beta}, can induce IFN-{beta} through activation of the cytoplasmic RIG-I signaling pathway. However, RIG-I is activated not by RNA, but by PACT, the protein activator of PKR. In cell lines or primary cells expressing RIG-I and PACT, activation of the MAPK, p38, by cytokine signaling, leads to phosphorylation of PACT, which binds to primed RIG-I and activates its signaling pathway. Thus, a new mode of type I IFN induction by ubiquitous inflammatory cytokines has been revealed. Key pointsO_LICytochalasin D followed by TNF- / IL-1{beta} treatment activates IFN-{beta} expression. C_LIO_LIIFN-{beta} expression happens due to activation of RIG-I signaling. C_LIO_LIInteraction between RIG-I and PACT activates IFN-{beta} expression. C_LI

cell biology↗