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1.
Subcell Biochem ; 104: 485-501, 2024.
Article in English | MEDLINE | ID: mdl-38963497

ABSTRACT

Valosin-containing protein (VCP), also known as p97, is an evolutionarily conserved AAA+ ATPase essential for cellular homeostasis. Cooperating with different sets of cofactors, VCP is involved in multiple cellular processes through either the ubiquitin-proteasome system (UPS) or the autophagy/lysosomal route. Pathogenic mutations frequently found at the interface between the NTD domain and D1 ATPase domain have been shown to cause malfunction of VCP, leading to degenerative disorders including the inclusion body myopathy associated with Paget disease of bone and frontotemporal dementia (IBMPFD), amyotrophic lateral sclerosis (ALS), and cancers. Therefore, VCP has been considered as a potential therapeutic target for neurodegeneration and cancer. Most of previous studies found VCP predominantly exists and functions as a hexamer, which unfolds and extracts ubiquitinated substrates from protein complexes for degradation. However, recent studies have characterized a new VCP dodecameric state and revealed a controlling mechanism of VCP oligomeric states mediated by the D2 domain nucleotide occupancy. Here, we summarize our recent knowledge on VCP oligomerization, regulation, and potential implications of VCP in cellular function and pathogenic progression.


Subject(s)
Valosin Containing Protein , Valosin Containing Protein/metabolism , Valosin Containing Protein/genetics , Valosin Containing Protein/chemistry , Humans , Protein Multimerization , Animals , Mutation , Frontotemporal Dementia/genetics , Frontotemporal Dementia/metabolism , Adenosine Triphosphatases/metabolism , Adenosine Triphosphatases/genetics , Adenosine Triphosphatases/chemistry , Osteitis Deformans/genetics , Osteitis Deformans/metabolism , Cell Cycle Proteins/metabolism , Cell Cycle Proteins/genetics , Cell Cycle Proteins/chemistry , Myositis, Inclusion Body/genetics , Myositis, Inclusion Body/metabolism , Muscular Dystrophies, Limb-Girdle
2.
Zhonghua Gan Zang Bing Za Zhi ; 32(6): 558-562, 2024 Jun 20.
Article in Chinese | MEDLINE | ID: mdl-38964899

ABSTRACT

Objective: To explore the genotype-phenotype relationship of Wilson's disease (WD) and further study the mutation spectrum in the ATP7B gene. Methods: The clinical data and genetic test results of 115 cases with WD diagnosed in the First Affiliated Hospital of Zhengzhou University from 2015 to 2022 were retrospectively analyzed. The rank sum test was used for quantitative data comparison, and χ(2) test was used for count data comparison. Multivariate logistic regression was used to analyze the relationship between patients' genotype and phenotype. Results: The onset of liver manifestations (hepatic type) accounted for 60.9%, neurological symptoms (cerebral type) for 13.0%, and mixed hepato-cerebral symptoms for 26.1%. Presymptomatic individuals (hepatic types) accounted for 62.9%. Next-generation sequencing- diagnosed WD cases accounted for 87.8%. Combined multiplex ligation-dependent probe amplification assay-diagnosed WD cases accounted for 89.6%. A single case with a detected pathogenic locus accounted for 10.4%. The diagnostic rate of WD by genetic testing combined with clinical data was 100%. A total of 76 ATP7B mutations were detected, and the top three mutation frequencies were c.2333G>T (p.Arg778Leu) (30.7%), c.2975C>T (p.Pro992Leu) (7.3%), and c.2621C>T (p.Ala874Val) (6.4%). The mutations were mainly distributed in exons 8, 11-13, and 15-18, accounting for more than 90% of the total mutations. Eight new mutations were found, including c.3724G>A (p.Glu1242Lys), c.3703G>C (p.Gly1235Arg), c.3593T>C (p.Val1198Ala), c.2494A>C (p.Lys832Gln), c.1517T>A (p.Ile506Lys), c.484G>T (p.Glu162Ter), c.1870-49A>G, and the missing of exons 10-21. Liver histopathology showed cellular edema, degeneration, inflammation, and necrosis, as well as a 42.8% copper staining positive rate. Genotype-phenotype analysis showed that the p.Arg778Leu mutation had higher alanine aminotransferase (ALT) levels than those carrying other mutations (P=0.024), while the homozygous mutation of p.Arg778Leu was associated with cerebral-type patients (P=0.027). Conclusion: Genetic testing plays an important role in the diagnosis of WD. p.Arg778Leu is the first high-frequency mutation in the Chinese population, and patients carrying it have higher ALT levels. The p.Arg778Leu homozygous mutation is prone to causing cerebral-type WD. This study expands the ATP7B gene mutation spectrum.


Subject(s)
Copper-Transporting ATPases , Genotype , Hepatolenticular Degeneration , Mutation , Phenotype , Humans , Hepatolenticular Degeneration/genetics , Hepatolenticular Degeneration/diagnosis , Copper-Transporting ATPases/genetics , Retrospective Studies , Female , Male , Cation Transport Proteins/genetics , Genetic Association Studies , Adult , Adenosine Triphosphatases/genetics , Young Adult , Adolescent , Child , Genetic Testing , Middle Aged , High-Throughput Nucleotide Sequencing
3.
PLoS One ; 19(6): e0293105, 2024.
Article in English | MEDLINE | ID: mdl-38889130

ABSTRACT

Obg-like ATPase 1 (OLA1) protein has GTP and ATP hydrolyzing activities and is important for cellular growth and survival. The human OLA1 gene maps to chromosome 2 (locus 2q31.1), near Titin (TTN), which is associated with familial dilated cardiomyopathy (DCM). In this study, we found that expression of OLA1 was significantly downregulated in failing human heart tissue (HF) compared to non-failing hearts (NF). Using the Sanger sequencing method, we characterized the human OLA1 gene and screened for mutations in the OLA1 gene in patients with failing and non-failing hearts. Among failing and non-failing heart patients, we found 15 different mutations in the OLA1 gene, including two transversions, one substitution, one deletion, and eleven transitions. All mutations were intronic except for a non-synonymous 5144A>G, resulting in 254Tyr>Cys in exon 8 of the OLA1 gene. Furthermore, haplotype analysis of these mutations revealed that these single nucleotide polymorphisms (SNPs) are linked to each other, resulting in disease-specific haplotypes. Additionally, to screen the 254Tyr>Cys point mutation, we developed a cost-effective, rapid genetic screening PCR test that can differentiate between homozygous (AA and GG) and heterozygous (A/G) genotypes. Our results demonstrate that this PCR test can effectively screen for OLA1 mutation-associated cardiomyopathy in human patients using easily accessible cells or tissues, such as blood cells. These findings have important implications for the diagnosis and treatment of cardiomyopathy.


Subject(s)
Heart Failure , Polymorphism, Single Nucleotide , Humans , Heart Failure/genetics , Male , Female , Haplotypes , Polymerase Chain Reaction/methods , Cardiomyopathy, Dilated/genetics , Cardiomyopathy, Dilated/diagnosis , Middle Aged , Adult , Genetic Testing/methods , Mutation , Adenosine Triphosphatases/genetics
4.
Environ Microbiol Rep ; 16(4): e13278, 2024 Aug.
Article in English | MEDLINE | ID: mdl-38943264

ABSTRACT

Copper homeostasis is a fundamental process in organisms, characterised by unique pathways that have evolved to meet specific needs while preserving core resistance mechanisms. While these systems are well-documented in model bacteria, information on copper resistance in species adapted to cold environments is scarce. This study investigates the potential genes related to copper homeostasis in the genome of Bizionia argentinensis (JUB59-T), a psychrotolerant bacterium isolated from Antarctic seawater. We identified several genes encoding proteins analogous to those crucial for copper homeostasis, including three sequences of copper-transport P1B-type ATPases. One of these, referred to as BaCopA1, was chosen for cloning and expression in Saccharomyces cerevisiae. BaCopA1 was successfully integrated into yeast membranes and subsequently extracted with detergent. The purified BaCopA1 demonstrated the ability to catalyse ATP hydrolysis at low temperatures. Structural models of various BaCopA1 conformations were generated and compared with mesophilic and thermophilic homologous structures. The significant conservation of critical residues and structural similarity among these proteins suggest a shared reaction mechanism for copper transport. This study is the first to report a psychrotolerant P1B-ATPase that has been expressed and purified in a functional form.


Subject(s)
Cold Temperature , Copper , Copper/metabolism , Saccharomyces cerevisiae/genetics , Saccharomyces cerevisiae/enzymology , Saccharomyces cerevisiae/metabolism , Bacterial Proteins/genetics , Bacterial Proteins/metabolism , Bacterial Proteins/chemistry , Antarctic Regions , Adenosine Triphosphatases/genetics , Adenosine Triphosphatases/metabolism , Genome, Bacterial/genetics , Seawater/microbiology , Copper-Transporting ATPases/genetics , Copper-Transporting ATPases/metabolism , Copper-Transporting ATPases/chemistry , Sulfolobaceae/genetics , Sulfolobaceae/metabolism , Sulfolobaceae/enzymology
5.
Genes (Basel) ; 15(6)2024 Jun 01.
Article in English | MEDLINE | ID: mdl-38927660

ABSTRACT

The ring finger protein 213 gene (RNF213) is involved in several vascular diseases, both intracranial and systemic ones. Some variants are common in the Asian population and are reported as a risk factor for moyamoya disease, intracranial stenosis and intracranial aneurysms. Among intracranial vascular diseases, both moyamoya disease and intracranial artery dissection are more prevalent in the Asian population. We performed a systematic review of the literature, aiming to assess the rate of RNF213 variants in patients with spontaneous intracranial dissections. Four papers were identified, providing data on 53 patients with intracranial artery dissection. The rate of RNF213 variants is 10/53 (18.9%) and it increases to 10/29 (34.5%), excluding patients with vertebral artery dissection. All patients had the RNF213 p.Arg4810Lys variant. RNF213 variants seems to be involved in intracranial dissections in Asian cohorts. The small number of patients, the inclusion of only patients of Asian descent and the small but non-negligible coexistence with moyamoya disease familiarity might be limiting factors, requiring further studies to confirm these preliminary findings and the embryological interpretation.


Subject(s)
Adenosine Triphosphatases , Ubiquitin-Protein Ligases , Humans , Adenosine Triphosphatases/genetics , Aortic Dissection/genetics , Asian People/genetics , Genetic Predisposition to Disease , Intracranial Aneurysm/genetics , Moyamoya Disease/genetics , Polymorphism, Single Nucleotide , Ubiquitin-Protein Ligases/genetics
6.
Nature ; 630(8018): 1003-1011, 2024 Jun.
Article in English | MEDLINE | ID: mdl-38926614

ABSTRACT

Transposases drive chromosomal rearrangements and the dissemination of drug-resistance genes and toxins1-3. Although some transposases act alone, many rely on dedicated AAA+ ATPase subunits that regulate site selectivity and catalytic function through poorly understood mechanisms. Using IS21 as a model transposase system, we show how an ATPase regulator uses nucleotide-controlled assembly and DNA deformation to enable structure-based site selectivity, transposase recruitment, and activation and integration. Solution and cryogenic electron microscopy studies show that the IstB ATPase self-assembles into an autoinhibited pentamer of dimers that tightly curves target DNA into a half-coil. Two of these decamers dimerize, which stabilizes the target nucleic acid into a kinked S-shaped configuration that engages the IstA transposase at the interface between the two IstB oligomers to form an approximately 1 MDa transpososome complex. Specific interactions stimulate regulator ATPase activity and trigger a large conformational change on the transposase that positions the catalytic site to perform DNA strand transfer. These studies help explain how AAA+ ATPase regulators-which are used by classical transposition systems such as Tn7, Mu and CRISPR-associated elements-can remodel their substrate DNA and cognate transposases to promote function.


Subject(s)
AAA Domain , Adenosine Triphosphatases , Transposases , Adenosine Triphosphatases/chemistry , Adenosine Triphosphatases/metabolism , Adenosine Triphosphatases/ultrastructure , Catalytic Domain , Cryoelectron Microscopy , DNA/chemistry , DNA/genetics , DNA/metabolism , DNA/ultrastructure , DNA Transposable Elements/genetics , Enzyme Activation , Models, Molecular , Protein Multimerization , Transposases/metabolism , Transposases/chemistry
7.
Chem Biol Interact ; 398: 111086, 2024 Aug 01.
Article in English | MEDLINE | ID: mdl-38825054

ABSTRACT

Oleic acid (OA) is a monounsaturated compound with many health-benefitting properties such as obesity prevention, increased insulin sensitivity, antihypertensive and immune-boosting properties, etc. The aim of this study was to analyze the effect of oleic acid (OA) and some anticancer drugs against oxidative damage induced by nitropropionic acid (NPA) in rat brain. Six groups of Wistar rats were treated as follows: Group 1, (control); group 2, OA; group 3, NPA + OA; group 4, cyclophosphamide (CPP) + OA; group 5, daunorubicin (DRB) + OA; and group 6, dexrazoxane (DXZ) + OA. All compounds were administered intraperitoneally route, every 24 h for 5 days. Their brains were extracted to measure lipoperoxidation (TBARS), H2O2, Ca+2, Mg+2 ATPase activity, glutathione (GSH) and dopamine. Glucose, hemoglobin and triglycerides were measured in blood. In cortex GSH increased in all groups, except in group 2, the group 4 showed the highest increase of this biomarker. TBARS decrease, and dopamine increase in all regions of groups 4, 5 and 6. H2O2 increased only in cerebellum/medulla oblongata of group 5 and 6. ATPase expression decreased in striatum of group 4. Glucose increased in group 6, and hemoglobin increased in groups 4 and 5. These results suggest that the increase of dopamine and the antioxidant effect of oleic acid administration during treatment with oncologic agents could result in less brain injury.


Subject(s)
Antineoplastic Agents , Brain , Glutathione , Oleic Acid , Oxidative Stress , Rats, Wistar , Animals , Oxidative Stress/drug effects , Oleic Acid/pharmacology , Brain/drug effects , Brain/metabolism , Rats , Male , Glutathione/metabolism , Antineoplastic Agents/pharmacology , Hydrogen Peroxide/metabolism , Nitro Compounds/pharmacology , Dopamine/metabolism , Propionates/pharmacology , Cyclophosphamide , Lipid Peroxidation/drug effects , Daunorubicin/pharmacology , Thiobarbituric Acid Reactive Substances/metabolism , Adenosine Triphosphatases/metabolism , Antioxidants/pharmacology
8.
Biochemistry (Mosc) ; 89(4): 601-625, 2024 Apr.
Article in English | MEDLINE | ID: mdl-38831499

ABSTRACT

The most prominent representatives of multisubunit SMC complexes, cohesin and condensin, are best known as structural components of mitotic chromosomes. It turned out that these complexes, as well as their bacterial homologues, are molecular motors, the ATP-dependent movement of these complexes along DNA threads leads to the formation of DNA loops. In recent years, we have witnessed an avalanche-like accumulation of data on the process of SMC dependent DNA looping, also known as loop extrusion. This review briefly summarizes the current understanding of the place and role of cohesin-dependent extrusion in cell physiology and presents a number of models describing the potential molecular mechanism of extrusion in a most compelling way. We conclude the review with a discussion of how the capacity of cohesin to extrude DNA loops may be mechanistically linked to its involvement in sister chromatid cohesion.


Subject(s)
Cell Physiological Phenomena , Cohesins , Animals , Humans , Adenosine Triphosphatases/metabolism , Cell Cycle Proteins/metabolism , Cell Cycle Proteins/chemistry , Chromatids/metabolism , Chromosomal Proteins, Non-Histone/metabolism , Chromosomal Proteins, Non-Histone/chemistry , Cohesins/metabolism , DNA/metabolism , DNA/chemistry , DNA-Binding Proteins/metabolism , Multiprotein Complexes/metabolism , Multiprotein Complexes/chemistry
9.
Nucleic Acids Res ; 52(12): 7321-7336, 2024 Jul 08.
Article in English | MEDLINE | ID: mdl-38842933

ABSTRACT

The ParABS system, composed of ParA (an ATPase), ParB (a DNA binding protein), and parS (a centromere-like DNA), regulates bacterial chromosome partition. The ParB-parS partition complex interacts with the nucleoid-bound ParA to form the nucleoid-adaptor complex (NAC). In Helicobacter pylori, ParA and ParB homologs are encoded as HpSoj and HpSpo0J (HpParA and HpParB), respectively. We determined the crystal structures of the ATP hydrolysis deficient mutant, HpParAD41A, and the HpParAD41A-DNA complex. We assayed the CTPase activity of HpParB and identified two potential DNA binding modes of HpParB regulated by CTP, one is the specific DNA binding by the DNA binding domain and the other is the non-specific DNA binding through the C-terminal domain under the regulation of CTP. We observed an interaction between HpParAD41A and the N-terminus fragment of HpParB (residue 1-10, HpParBN10) and determined the crystal structure of the ternary complex, HpParAD41A-DNA-HpParBN10 complex which mimics the NAC formation. HpParBN10 binds near the HpParAD41A dimer interface and is clamped by flexible loops, L23 and L34, through a specific cation-π interaction between Arg9 of HpParBN10 and Phe52 of HpParAD41A. We propose a molecular mechanism model of the ParABS system providing insight into chromosome partition in bacteria.


Subject(s)
Bacterial Proteins , Chromosomes, Bacterial , DNA-Binding Proteins , Helicobacter pylori , Bacterial Proteins/metabolism , Bacterial Proteins/chemistry , Bacterial Proteins/genetics , Helicobacter pylori/genetics , Helicobacter pylori/metabolism , DNA-Binding Proteins/metabolism , DNA-Binding Proteins/chemistry , DNA-Binding Proteins/genetics , Chromosomes, Bacterial/metabolism , Chromosomes, Bacterial/chemistry , Chromosomes, Bacterial/genetics , Models, Molecular , Crystallography, X-Ray , Protein Binding , DNA, Bacterial/metabolism , DNA, Bacterial/chemistry , DNA, Bacterial/genetics , Adenosine Triphosphatases/metabolism , Adenosine Triphosphatases/chemistry , Adenosine Triphosphatases/genetics , Chromosome Segregation , Adenosine Triphosphate/metabolism , Binding Sites
10.
Biol Pharm Bull ; 47(6): 1172-1178, 2024.
Article in English | MEDLINE | ID: mdl-38880625

ABSTRACT

The increasing number of patients with depressive disorder is a serious socioeconomic problem worldwide. Although several therapeutic agents have been developed and used clinically, their effectiveness is insufficient and thus discovery of novel therapeutic targets is desired. Here, focusing on dysregulation of neuronal purinergic signaling in depressive-like behavior, we examined the expression profiles of ATP channels and ectonucleotidases in astrocytes of cerebral cortex and hippocampus of chronic social defeat stress (CSDS)-susceptible BALB/c mice. Mice were exposed to 10-d CSDS, and their astrocytes were obtained using a commercially available kit based on magnetic activated cell sorting technology. In astrocytes derived from cerebral cortex of CSDS-susceptible mice, the expression levels of mRNAs for connexin 43, P2X7 receptors and maxi anion channels were increased, those for connexin 43 and P2X7 receptors being inversely correlated with mouse sociability, and the expression of mRNAs for ecto-nucleoside triphosphate diphosphohydrase 2 and ecto-5'nucleotidase was decreased and increased, respectively. On the other hand, the alteration profiles of ATP channels and ectonucleotidases in hippocampal astrocytes of CSDS-susceptible mice were different from in the case of cortical astrocytes, and there was no significant correlation between expression levels of their mRNAs and mouse sociability. These findings imply that increased expression of ATP channels in cerebral cortex might be involved in the development of reduced sociability in CSDS-subjected BALB/c mice. Together with recent findings, it is suggested that ATP channels expressed by cortical astrocytes might be potential therapeutic targets for depressive disorder.


Subject(s)
Astrocytes , Cerebral Cortex , Hippocampus , Mice, Inbred BALB C , Social Defeat , Stress, Psychological , Animals , Astrocytes/metabolism , Cerebral Cortex/metabolism , Hippocampus/metabolism , Stress, Psychological/metabolism , Male , Mice , Receptors, Purinergic P2X7/metabolism , Receptors, Purinergic P2X7/genetics , Connexin 43/metabolism , Connexin 43/genetics , 5'-Nucleotidase/metabolism , 5'-Nucleotidase/genetics , Adenosine Triphosphatases/metabolism , Adenosine Triphosphatases/genetics , RNA, Messenger/metabolism , RNA, Messenger/genetics
11.
Curr Biol ; 34(12): R565-R567, 2024 Jun 17.
Article in English | MEDLINE | ID: mdl-38889676
12.
Proc Natl Acad Sci U S A ; 121(24): e2316892121, 2024 Jun 11.
Article in English | MEDLINE | ID: mdl-38833472

ABSTRACT

The loss of function of AAA (ATPases associated with diverse cellular activities) mechanoenzymes has been linked to diseases, and small molecules that activate these proteins can be powerful tools to probe mechanisms and test therapeutic hypotheses. Unlike chemical inhibitors that can bind a single conformational state to block enzyme function, activator binding must be permissive to different conformational states needed for mechanochemistry. However, we do not know how AAA proteins can be activated by small molecules. Here, we focus on valosin-containing protein (VCP)/p97, an AAA unfoldase whose loss of function has been linked to protein aggregation-based disorders, to identify druggable sites for chemical activators. We identified VCP ATPase Activator 1 (VAA1), a compound that dose-dependently stimulates VCP ATPase activity up to ~threefold. Our cryo-EM studies resulted in structures (ranging from ~2.9 to 3.7 Å-resolution) of VCP in apo and ADP-bound states and revealed that VAA1 binds an allosteric pocket near the C-terminus in both states. Engineered mutations in the VAA1-binding site confer resistance to VAA1, and furthermore, modulate VCP activity. Mutation of a phenylalanine residue in the VCP C-terminal tail that can occupy the VAA1 binding site also stimulates ATPase activity, suggesting that VAA1 acts by mimicking this interaction. Together, our findings uncover a druggable allosteric site and a mechanism of enzyme regulation that can be tuned through small molecule mimicry.


Subject(s)
Valosin Containing Protein , Valosin Containing Protein/metabolism , Valosin Containing Protein/chemistry , Valosin Containing Protein/genetics , Allosteric Regulation , Humans , Protein Binding , Molecular Mimicry , Cryoelectron Microscopy , Adenosine Triphosphatases/metabolism , Adenosine Triphosphatases/chemistry , Binding Sites , Allosteric Site , Models, Molecular , Protein Conformation
13.
BMC Vet Res ; 20(1): 242, 2024 Jun 04.
Article in English | MEDLINE | ID: mdl-38831422

ABSTRACT

BACKGROUND: ATPase activity and the antioxidant function of intestinal tissue can reflect intestinal cell metabolic activity and oxidative damage, which might be related to intestinal function. However, the specific influence of intestinal ATPase activity and antioxidant function on growth performance, feed conversion efficiency, and the intestinal microbiota in sheep remains unclear. RESULTS: This study analyzed the correlation between ATPase activity and antioxidant function in the jejunum of 92 Hu sheep and their growth performance and feed conversion efficiency. Additionally, individuals with the highest (H group) and lowest (L group) jejunum MDA content and Na+ K+-ATPase activity were further screened, and the effects of jejunum ATPase activity and MDA content on the morphology and microbial community of sheep intestines were analyzed. There was a significant correlation between jejunum ATPase and SOD activity and the initial weight of Hu sheep (P < 0.01). The H-MDA group exhibited significantly higher average daily gain (ADG) from 0 to 80 days old and higher body weight (BW) after 80 days. ATPase and SOD activities, and MDA levels correlated significantly and positively with heart weight. The jejunum crypt depth and circular muscle thickness in the H-ATP group were significantly higher than in the L-ATP group, and the villus length, crypt depth, and longitudinal muscle thickness in the H-MDA group were significantly higher than in the L-MDA group (P < 0.01). High ATPase activity and MDA content significantly reduced the jejunum microbial diversity, as indicated by the Chao1 index and observed species, and affected the relative abundance of specific taxa. Among species, the relative abundance of Olsenella umbonata was significantly higher in the H-MDA group than in the L-MDA group (P < 0.05), while Methanobrevibacter ruminantium abundance was significantly lower than in the L-MDA group (P < 0.05). In vitro culture experiments confirmed that MDA promoted the proliferation of Olsenella umbonata. Thus, ATPase and SOD activities in the jejunum tissues of Hu sheep are predominantly influenced by congenital factors, and lambs with higher birth weights exhibit lower Na+ K+-ATPase, Ca2+ Mg2+-ATPase, and SOD activities. CONCLUSIONS: The ATPase activity and antioxidant performance of intestinal tissue are closely related to growth performance, heart development, and intestinal tissue morphology. High ATPase activity and MDA content reduced the microbial diversity of intestinal tissue and affect the relative abundance of specific taxa, representing a potential interaction between the host and its intestinal microbiota.


Subject(s)
Adenosine Triphosphatases , Antioxidants , Gastrointestinal Microbiome , Jejunum , Animals , Jejunum/microbiology , Jejunum/enzymology , Antioxidants/metabolism , Gastrointestinal Microbiome/physiology , Adenosine Triphosphatases/metabolism , Sheep , Male , Malondialdehyde/metabolism , Superoxide Dismutase/metabolism
14.
Sci Adv ; 10(23): eadn2955, 2024 Jun 07.
Article in English | MEDLINE | ID: mdl-38848364

ABSTRACT

The hierarchical chromatin organization begins with formation of nucleosomes, which fold into chromatin domains punctuated by boundaries and ultimately chromosomes. In a hierarchal organization, lower levels shape higher levels. However, the dependence of higher-order 3D chromatin organization on the nucleosome-level organization has not been studied in cells. We investigated the relationship between nucleosome-level organization and higher-order chromatin organization by perturbing nucleosomes across the genome by deleting Imitation SWItch (ISWI) and Chromodomain Helicase DNA-binding (CHD1) chromatin remodeling factors in budding yeast. We find that changes in nucleosome-level properties are accompanied by changes in 3D chromatin organization. Short-range chromatin contacts up to a few kilo-base pairs decrease, chromatin domains weaken, and boundary strength decreases. Boundary strength scales with accessibility and moderately with width of nucleosome-depleted region. Change in nucleosome positioning seems to alter the stiffness of chromatin, which can affect formation of chromatin contacts. Our results suggest a biomechanical "bottom-up" mechanism by which nucleosome distribution across genome shapes 3D chromatin organization.


Subject(s)
Chromatin Assembly and Disassembly , Chromatin , Genome, Fungal , Nucleosomes , Saccharomyces cerevisiae , Nucleosomes/genetics , Nucleosomes/metabolism , Chromatin/genetics , Chromatin/metabolism , Chromatin/chemistry , Saccharomyces cerevisiae/genetics , Saccharomyces cerevisiae/metabolism , Saccharomyces cerevisiae Proteins/genetics , Saccharomyces cerevisiae Proteins/metabolism , DNA-Binding Proteins/genetics , DNA-Binding Proteins/metabolism , Transcription Factors/metabolism , Transcription Factors/genetics , Adenosine Triphosphatases
15.
Cell Death Dis ; 15(6): 423, 2024 Jun 18.
Article in English | MEDLINE | ID: mdl-38890304

ABSTRACT

Mitochondria play a crucial role in the progression of nasopharyngeal carcinoma (NPC). YME1L, a member of the AAA ATPase family, is a key regulator of mitochondrial function and has been implicated in various cellular processes and diseases. This study investigates the expression and functional significance of YME1L in NPC. YME1L exhibits significant upregulation in NPC tissues from patients and across various primary human NPC cells, while its expression remains relatively low in adjacent normal tissues and primary nasal epithelial cells. Employing genetic silencing through the shRNA strategy or knockout (KO) via the CRISPR-sgRNA method, we demonstrated that YME1L depletion disrupted mitochondrial function, leading to mitochondrial depolarization, reactive oxygen species (ROS) generation, lipid peroxidation, and ATP reduction within primary NPC cells. Additionally, YME1L silencing or KO substantially impeded cell viability, proliferation, cell cycle progression, and migratory capabilities, concomitant with an augmentation of Caspase-apoptosis activation in primary NPC cells. Conversely, ectopic YME1L expression conferred pro-tumorigenic attributes, enhancing ATP production and bolstering NPC cell proliferation and migration. Moreover, our findings illuminate the pivotal role of YME1L in Akt-mTOR activation within NPC cells, with Akt-S6K phosphorylation exhibiting a significant decline upon YME1L depletion but enhancement upon YME1L overexpression. In YME1L-silenced primary NPC cells, the introduction of a constitutively-active Akt1 mutant (caAkt1, at S473D) restored Akt-S6K phosphorylation, effectively ameliorating the inhibitory effects imposed by YME1L shRNA. In vivo studies revealed that intratumoral administration of YME1L-shRNA-expressing adeno-associated virus (AAV) curtailed subcutaneous NPC xenograft growth in nude mice. Furthermore, YME1L downregulation, concurrent with mitochondrial dysfunction and ATP reduction, oxidative injury, Akt-mTOR inactivation, and apoptosis induction were evident within YME1L-silenced NPC xenograft tissues. Collectively, these findings shed light on the notable pro-tumorigenic role by overexpressed YME1L in NPC, with a plausible mechanism involving the promotion of Akt-mTOR activation.


Subject(s)
Cell Proliferation , Nasopharyngeal Carcinoma , Nasopharyngeal Neoplasms , Humans , Nasopharyngeal Carcinoma/genetics , Nasopharyngeal Carcinoma/pathology , Nasopharyngeal Carcinoma/metabolism , Animals , Nasopharyngeal Neoplasms/pathology , Nasopharyngeal Neoplasms/metabolism , Nasopharyngeal Neoplasms/genetics , Cell Line, Tumor , Mice , Mitochondria/metabolism , Apoptosis/genetics , Mice, Nude , Reactive Oxygen Species/metabolism , Proto-Oncogene Proteins c-akt/metabolism , Cell Movement/genetics , Gene Expression Regulation, Neoplastic , TOR Serine-Threonine Kinases/metabolism , Male , Adenosine Triphosphatases/metabolism , Adenosine Triphosphatases/genetics , Female , Signal Transduction
16.
Arch Microbiol ; 206(7): 299, 2024 Jun 11.
Article in English | MEDLINE | ID: mdl-38861015

ABSTRACT

Chaperonins from psychrophilic bacteria have been shown to exist as single-ring complexes. This deviation from the standard double-ring structure has been thought to be a beneficial adaptation to the cold environment. Here we show that Cpn60 from the psychrophile Pseudoalteromonas haloplanktis (Ph) maintains its double-ring structure also in the cold. A strongly reduced ATPase activity keeps the chaperonin in an energy-saving dormant state, until binding of client protein activates it. Ph Cpn60 in complex with co-chaperonin Ph Cpn10 efficiently assists in protein folding up to 55 °C. Moreover, we show that recombinant expression of Ph Cpn60 can provide its host Escherichia coli with improved viability under low temperature growth conditions. These properties of the Ph chaperonin may make it a valuable tool in the folding and stabilization of psychrophilic proteins.


Subject(s)
Bacterial Proteins , Cold Temperature , Escherichia coli , Protein Folding , Pseudoalteromonas , Pseudoalteromonas/genetics , Pseudoalteromonas/metabolism , Bacterial Proteins/metabolism , Bacterial Proteins/genetics , Escherichia coli/genetics , Escherichia coli/metabolism , Chaperonin 60/metabolism , Chaperonin 60/genetics , Chaperonin 60/chemistry , Recombinant Proteins/metabolism , Recombinant Proteins/genetics , Recombinant Proteins/chemistry , Chaperonins/metabolism , Chaperonins/genetics , Chaperonins/chemistry , Adenosine Triphosphatases/metabolism , Adenosine Triphosphatases/genetics
17.
Plant Cell Rep ; 43(7): 174, 2024 Jun 15.
Article in English | MEDLINE | ID: mdl-38878164

ABSTRACT

KEY MESSAGE: Interactor of WOX2, CDC48A, is crucial for early embryo patterning and shoot meristem stem cell initiation, but is not required for WOX2 protein turnover or subcellular localization. During Arabidopsis embryo patterning, the WUSCHEL HOMEOBOX 2 (WOX2) transcription factor is a major regulator of protoderm and shoot stem cell initiation. Loss of WOX2 function results in aberrant protodermal cell divisions and, redundantly with its paralogs WOX1, WOX3, and WOX5, compromised shoot meristem formation. To elucidate the molecular basis for WOX2 function, we searched for protein interactors by IP-MS/MS from WOX2-overexpression roots displaying reprogramming toward shoot-like cell fates. Here, we report that WOX2 directly interacts with the type II AAA ATPase molecular chaperone CELL DIVISION CYCLE 48A (CDC48A). We confirmed this interaction with bimolecular fluorescence complementation and co-immunoprecipitation and found that both proteins co-localize in the nucleus. We show that CDC48A loss of function results in protoderm and shoot meristem stem cell initiation defects similar to WOX2 loss of function. We also provide evidence that CDC48A promotes WOX2 activity independently of proteolysis or the regulation of nuclear localization, common mechanisms of CDC48A function in other processes. Our results point to a new role of CDC48A in potentiating WOX2 function during early embryo patterning.


Subject(s)
Arabidopsis Proteins , Arabidopsis , Cell Cycle Proteins , Gene Expression Regulation, Plant , Homeodomain Proteins , Meristem , Arabidopsis/genetics , Arabidopsis/metabolism , Arabidopsis/embryology , Arabidopsis Proteins/metabolism , Arabidopsis Proteins/genetics , Homeodomain Proteins/metabolism , Homeodomain Proteins/genetics , Meristem/metabolism , Meristem/genetics , Meristem/embryology , Cell Cycle Proteins/metabolism , Cell Cycle Proteins/genetics , Adenosine Triphosphatases/metabolism , Adenosine Triphosphatases/genetics , Seeds/metabolism , Seeds/genetics , Seeds/growth & development , Plants, Genetically Modified , ATPases Associated with Diverse Cellular Activities , Transcription Factors
18.
Sheng Li Xue Bao ; 76(3): 487-495, 2024 Jun 25.
Article in Chinese | MEDLINE | ID: mdl-38939942

ABSTRACT

Copper is a vital trace metal element necessary for the functioning of living organisms. It serves as a co-factor or structural component in numerous enzymes, participating in crucial biological metabolic processes. Disruptions in copper homeostasis, whether inherited or acquired, such as copper overload, deficiency, or uneven distribution, can contribute to or exacerbate various diseases, including Menkes disease, Wilson's disease, neurodegenerative disorders, anemia, cardiovascular diseases, kidney diseases and cancer. Recent research has highlighted the close correlation between chronic kidney disease and intracellular copper overload. Therefore, renal cells must establish a well-organized and efficient copper regulation network to maintain intracellular copper homeostasis. This review summarizes the processes of copper uptake, intracellular trafficking, storage, and excretion in renal cells, and elucidates the underlying mechanisms involved, aiming to provide a theoretical foundation and potential therapeutic targets for the fundamental investigation and clinical management of kidney-related diseases.


Subject(s)
Copper , Homeostasis , Kidney , Homeostasis/physiology , Humans , Copper/metabolism , Kidney/metabolism , Kidney/physiology , Animals , Cation Transport Proteins/metabolism , Cation Transport Proteins/physiology , Kidney Diseases/metabolism , Adenosine Triphosphatases/metabolism , Adenosine Triphosphatases/physiology , Copper-Transporting ATPases/metabolism , Copper-Transporting ATPases/genetics , Copper Transporter 1/metabolism
19.
Cell Rep ; 43(6): 114345, 2024 Jun 25.
Article in English | MEDLINE | ID: mdl-38870012

ABSTRACT

Ferroptosis is an iron-dependent cell death mechanism characterized by the accumulation of toxic lipid peroxides and cell membrane rupture. GPX4 (glutathione peroxidase 4) prevents ferroptosis by reducing these lipid peroxides into lipid alcohols. Ferroptosis induction by GPX4 inhibition has emerged as a vulnerability of cancer cells, highlighting the need to identify ferroptosis regulators that may be exploited therapeutically. Through genome-wide CRISPR activation screens, we identify the SWI/SNF (switch/sucrose non-fermentable) ATPases BRM (SMARCA2) and BRG1 (SMARCA4) as ferroptosis suppressors. Mechanistically, they bind to and increase chromatin accessibility at NRF2 target loci, thus boosting NRF2 transcriptional output to counter lipid peroxidation and confer resistance to GPX4 inhibition. We further demonstrate that the BRM/BRG1 ferroptosis connection can be leveraged to enhance the paralog dependency of BRG1 mutant cancer cells on BRM. Our data reveal ferroptosis induction as a potential avenue for broadening the efficacy of BRM degraders/inhibitors and define a specific genetic context for exploiting GPX4 dependency.


Subject(s)
DNA Helicases , Ferroptosis , Nuclear Proteins , Transcription Factors , Ferroptosis/genetics , Humans , Transcription Factors/metabolism , Transcription Factors/genetics , DNA Helicases/metabolism , DNA Helicases/genetics , Nuclear Proteins/metabolism , Nuclear Proteins/genetics , Phospholipid Hydroperoxide Glutathione Peroxidase/metabolism , Phospholipid Hydroperoxide Glutathione Peroxidase/genetics , Clustered Regularly Interspaced Short Palindromic Repeats/genetics , NF-E2-Related Factor 2/metabolism , Cell Line, Tumor , CRISPR-Cas Systems/genetics , Adenosine Triphosphatases/metabolism , Adenosine Triphosphatases/genetics
20.
Rinsho Shinkeigaku ; 64(6): 417-421, 2024 Jun 27.
Article in Japanese | MEDLINE | ID: mdl-38797685

ABSTRACT

A 23-year-old man was admitted to our hospital with a one-year history of muscle weakness and atrophy. He had noticed contractures of the fingers of both hands from the age of 18. Examination revealed a skin rash including heliotrope rash and Gottron's sign, joint contractures in the extremities, dysphagia, extensive muscle weakness and marked muscle atrophy. The serum creatine kinase level was 272 |IU/l and muscle biopsy showed typical perifascicular atrophy but little lymphocyte invasion. There was no interstitial pneumonia or malignancy, but muscle tendons showed elevated CT values suggesting calcification or fibrosis. Anti-nuclear matrix protein 2 (NXP-2) antibody-positive dermatomyositis was diagnosed on the basis of the serum antibody level. Methylprednisolone pulse therapy ameliorated the skin rash and bulbar palsy, but muscle weakness, atrophy and joint contractures were resistant to the treatment. There have been no previous reports of young adults with anti-NXP-2 antibody-positive dermatomyositis in whom joint contracture became evident as early as 4 years beforehand, which is a important feature for differential diagnosis of dermatomyositis.


Subject(s)
Autoantibodies , Biomarkers , Contracture , Dermatomyositis , Pulse Therapy, Drug , Humans , Dermatomyositis/complications , Dermatomyositis/immunology , Dermatomyositis/diagnosis , Dermatomyositis/drug therapy , Male , Young Adult , Autoantibodies/blood , Contracture/etiology , Contracture/diagnosis , Biomarkers/blood , Methylprednisolone/administration & dosage , Diagnosis, Differential , RNA-Binding Proteins/immunology , Nuclear Proteins/immunology , Adult , Adenosine Triphosphatases , DNA-Binding Proteins , Transcription Factors
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