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1.
Acta Pharmacol Sin ; 45(2): 282-297, 2024 Feb.
Article in English | MEDLINE | ID: mdl-37803141

ABSTRACT

The GRIN genes encoding N-methyl-D-aspartate receptor (NMDAR) subunits are remarkably intolerant to variation. Many pathogenic NMDAR variants result in their protein misfolding, inefficient assembly, reduced surface expression, and impaired function on neuronal membrane, causing neurological disorders including epilepsy and intellectual disability. Here, we investigated the proteostasis maintenance of NMDARs containing epilepsy-associated variations in the GluN2A subunit, including M705V and A727T. In the transfected HEK293T cells, we showed that the two variants were targeted to the proteasome for degradation and had reduced functional surface expression. We demonstrated that the application of BIX, a known small molecule activator of an HSP70 family chaperone BiP (binding immunoglobulin protein) in the endoplasmic reticulum (ER), dose-dependently enhanced the functional surface expression of the M705V and A727T variants in HEK293T cells. Moreover, BIX (10 µM) increased the surface protein levels of the M705V variant in human iPSC-derived neurons. We revealed that BIX promoted folding, inhibited degradation, and enhanced anterograde trafficking of the M705V variant by modest activation of the IRE1 pathway of the unfolded protein response. Our results suggest that adapting the ER proteostasis network restores the folding, trafficking, and function of pathogenic NMDAR variants, representing a potential treatment for neurological disorders resulting from NMDAR dysfunction.


Subject(s)
Epilepsy , Receptors, N-Methyl-D-Aspartate , Humans , Receptors, N-Methyl-D-Aspartate/metabolism , Proteostasis , HEK293 Cells , Epilepsy/genetics , Epilepsy/metabolism , Endoplasmic Reticulum/metabolism
2.
J Biol Chem ; 298(10): 102423, 2022 10.
Article in English | MEDLINE | ID: mdl-36030824

ABSTRACT

Gamma-aminobutyric acid type A (GABAA) receptors are the primary inhibitory neurotransmitter-gated ion channels in the mammalian central nervous system. Maintenance of GABAA receptor protein homeostasis (proteostasis) in cells utilizing its interacting proteins is essential for the function of GABAA receptors. However, how the proteostasis network orchestrates GABAA receptor biogenesis in the endoplasmic reticulum is not well understood. Here, we employed a proteomics-based approach to systematically identify the interactomes of GABAA receptors. We carried out a quantitative immunoprecipitation-tandem mass spectrometry analysis utilizing stable isotope labeling by amino acids in cell culture. Furthermore, we performed comparative proteomics by using both WT α1 subunit and a misfolding-prone α1 subunit carrying the A322D variant as the bait proteins. We identified 125 interactors for WT α1-containing receptors, 105 proteins for α1(A322D)-containing receptors, and 54 overlapping proteins within these two interactomes. Our bioinformatics analysis identified potential GABAA receptor proteostasis network components, including chaperones, folding enzymes, trafficking factors, and degradation factors, and we assembled a model of their potential involvement in the cellular folding, degradation, and trafficking pathways for GABAA receptors. In addition, we verified endogenous interactions between α1 subunits and selected interactors by using coimmunoprecipitation in mouse brain homogenates. Moreover, we showed that TRIM21 (tripartite motif containing-21), an E3 ubiquitin ligase, positively regulated the degradation of misfolding-prone α1(A322D) subunits selectively. This study paves the way for understanding the molecular mechanisms as well as fine-tuning of GABAA receptor proteostasis to ameliorate related neurological diseases such as epilepsy.


Subject(s)
Proteostasis , Receptors, GABA-A , Animals , Mice , Endoplasmic Reticulum/genetics , Endoplasmic Reticulum/metabolism , gamma-Aminobutyric Acid/metabolism , Proteomics , Receptors, GABA-A/metabolism
3.
Cell ; 134(5): 769-81, 2008 Sep 05.
Article in English | MEDLINE | ID: mdl-18775310

ABSTRACT

Loss-of-function diseases are often caused by a mutation in a protein traversing the secretory pathway that compromises the normal balance between protein folding, trafficking, and degradation. We demonstrate that the innate cellular protein homeostasis, or proteostasis, capacity can be enhanced to fold mutated enzymes that would otherwise misfold and be degraded, using small molecule proteostasis regulators. Two proteostasis regulators are reported that alter the composition of the proteostasis network in the endoplasmic reticulum through the unfolded protein response, increasing the mutant folded protein concentration that can engage the trafficking machinery, restoring function to two nonhomologous mutant enzymes associated with distinct lysosomal storage diseases. Coapplication of a pharmacologic chaperone and a proteostasis regulator exhibits synergy because of the former's ability to further increase the concentration of trafficking-competent mutant folded enzymes. It may be possible to ameliorate loss-of-function diseases by using proteostasis regulators alone or in combination with a pharmacologic chaperone.


Subject(s)
Lysosomal Storage Diseases/metabolism , Protein Folding , Proteins/metabolism , Cell Line , Fibroblasts/metabolism , Gaucher Disease/drug therapy , Gaucher Disease/metabolism , Humans , Leupeptins/pharmacology , Lysosomal Storage Diseases/drug therapy , Molecular Chaperones/pharmacology , Pentacyclic Triterpenes , Tay-Sachs Disease/drug therapy , Tay-Sachs Disease/metabolism , Triterpenes/pharmacology
4.
BMC Pulm Med ; 23(1): 415, 2023 Oct 31.
Article in English | MEDLINE | ID: mdl-37907909

ABSTRACT

OBJECTIVES: The incidence of multiple primary lung cancer (MPLC) has increased in recent years. The risk factors of MPLC are not well studied, especially in the Asian population. This case-control study investigated the association between a family history of cancer and MPLC risk. METHODS: We used data from people who surgically confirmed MPLC with at least 2 nodes of Fujian Medical University Union Hospital and matched 1:2 normal individuals as controls between 2016 and 2017. Information on age, sex, lifestyle, personal history, and family history of cancer was collected using a self-administered questionnaire, and odds ratios (OR) were estimated using unconditional logistic regression. RESULTS: We included 2 104 patients. In total, 321 patients with histologically confirmed MPLC and 642 healthy controls were studied. The significantly higher ratio of current smokers was observed for the cases than the controls (54.1% vs. 30.0%). A family history of LC in first-degree relatives of the cases reported a significantly higher proportion than in the controls (15.3% vs. 8.6%). Family history of all cancers and LC significantly increased the risk of MPLC (OR = 1.64, P = 0.009 and OR = 2.59, P = 0.000, respectively). The multivariate analysis identified a significantly increased risk of MPLC (OR = 2.45, P = 0.000) associated with parents and siblings influenced by LC history. The younger age (aged < 55 years) of LC cases at diagnosis exhibited a significantly increased risk of MPLC (OR = 2.39, P = 0.000). A significant association with a family history of LC was found for male squamous carcinoma and male adenocarcinoma (OR = 1.59, p = 0.037 and OR = 1.64, p = 0.032, respectively). A positive association with LC history was only observed for female adenocarcinoma (OR = 2.23, p = 0.028). The risk of MPLC was not significantly associated with A family history of cancers in non-smokers (OR = 0.91, P = 0.236). Ever-smokers with a positive family history of cancer or LC had a significantly elevated risk of MPLC (OR = 4.01, P = 0.000 and OR = 6.49, P = 0.000, respectively). We also observed a very elevated risk for smokers with no family history (OR = 3.49, P = 0.000). Such a positive association was also observed in ever-smokers with no family history of LC (OR = 3.55, P = 0.000). Adenocarcinoma in females was prevalent and significantly associated with a family history of LC in risk of MPLC compared with other histologic subtypes. CONCLUSIONS: Our findings suggest an association between a family history of LC and MPLC risk among an Asian population. Smoking status and family history of LC have a synergistic effect on MPLC. These findings indicate that MPLC exhibits familiar aggregation and that inherited genetic susceptibility may contribute to the development of MPLC.


Subject(s)
Adenocarcinoma , Lung Neoplasms , Neoplasms, Multiple Primary , Humans , Male , Female , Lung Neoplasms/epidemiology , Lung Neoplasms/genetics , Lung Neoplasms/pathology , Case-Control Studies , Smoking/epidemiology , Smoking/adverse effects , Risk Factors , Adenocarcinoma/complications
5.
Nanotechnology ; 33(33)2022 May 25.
Article in English | MEDLINE | ID: mdl-35504249

ABSTRACT

This paper outlines an approach to biological sensing involving the use of spintronic devices to sense magnetic particles attached to biological carriers. We developed an enzyme-linked immunosorbent assay (ELISA)-based Anomalous Hall Effect magnetic sensor via surface functionalization using Triethoxysilylundecanal (TESUD). The proposed sensor uses a CoFeB/MgO heterostructure with a perpendicular magnetic anisotropy. Through several sets of magnetic layer thickness, this work also explored the optimization process of ferromagnetic layer used. Our spintronics-based biosensor is compatible with semiconductor fabrication technology and can be effectively miniaturized to integrate with semiconductor chips, which has the advantage of reduced manufacturing cost and reduced power consumption. The proposed sensor provides real-time measurement results and it is competitive to conventional biological colorimetric measurement systems in terms of accuracy and immediacy.


Subject(s)
Biosensing Techniques , Magnetics , Enzyme-Linked Immunosorbent Assay/methods , Magnets , Semiconductors
6.
Blood Cells Mol Dis ; 89: 102568, 2021 07.
Article in English | MEDLINE | ID: mdl-33862368

ABSTRACT

Liver X receptor ß (LXRß), a nuclear receptor involved in important cellular processes such as cholesterol, glucose and fatty acid metabolism, was suggested to be involved in platelet aggregation but its detailed roles are not clear. In the present study, we evaluated the contribution of LXRß to platelet functions and production. In the systemic collagen-epinephrine thrombosis mouse model, LXRß-deficient mice showed increased area of blood clots compared with control wide-type littermates. The aggregation of LXRß-deficient platelets in response to ADP was stronger than that of control mice platelets. More importantly, the number of platelets in blood of LXRß-deficient mice was significantly higher than that of wild-type mice, especially for female mice. Knockdown of LXRß expression in human megakaryoblastic Dami cells also enhanced cell polyploidization, formation of proplatelets and production of platelet-like particles. Increase in expression levels of proteins related to oxidative phosphorylation such as NADH:ubiquinone oxidoreductase core subunit V1 (Ndufv1) was observed in LXRß-knockdown Dami cells. The levels of Ndufv1 in LXRß-deficient mice platelets were also higher than that of wild-type mice. Taken together, our findings suggested LXRß might participate in control of platelet production from megakaryocytes by regulating mitochondrial metabolism.


Subject(s)
Blood Platelets/cytology , Liver X Receptors/metabolism , Megakaryocytes/cytology , Animals , Blood Platelets/metabolism , Cell Line , Cells, Cultured , Female , Gene Knockdown Techniques , Humans , Liver X Receptors/genetics , Male , Megakaryocytes/metabolism , Mice , Mice, Knockout , Platelet Aggregation , Platelet Count
7.
Cell Mol Biol (Noisy-le-grand) ; 66(2): 125-129, 2020 May 15.
Article in English | MEDLINE | ID: mdl-32415938

ABSTRACT

The aim of this study was to investigate whether Jatrorrhizine hydrochloride (JAH) can attenuate oxidative damage of endothelial cells by regulating mitochondrial function and inflammatory response. It was found that JAH inhibited tert-butyl hydroperoxide (t-BHP)-induced oxidative damage in mouse brain endothelial cells (MBECs) by increasing cell viability and inhibiting cell apoptosis. Moreover, JAH significantly inhibited the production of reactive oxygen species (ROS) and lipid peroxidation. It enhanced mitochondrial membrane potential (MMP) and maintained ATP synthesis. In addition, JAH regulated the expressions of inflammatory cytokines and increased the activation of endothelial nitric oxide synthase (eNOS). The protective effect of JAH was related to the protein expression of peroxisome proliferator-activated receptor-γ (PPAR-γ) gene. In conclusion, these results suggest that JAH may have therapeutic potential for ischemic stroke associated with endothelial dysfunction through its antioxidant and anti-inflammatory properties.


Subject(s)
Anti-Inflammatory Agents/pharmacology , Berberine/analogs & derivatives , Oxidative Stress/drug effects , PPAR gamma/metabolism , Adenosine Triphosphate/metabolism , Animals , Apoptosis/drug effects , Berberine/pharmacology , Brain/cytology , Cell Survival/drug effects , Cells, Cultured , Cytokines/metabolism , Endothelial Cells/cytology , Endothelial Cells/metabolism , Lipid Peroxidation/drug effects , Membrane Potential, Mitochondrial/drug effects , Mice , Mice, Inbred C57BL , Mitochondria/drug effects , Mitochondria/metabolism , Nitric Oxide Synthase Type III/metabolism , PPAR gamma/genetics , Reactive Oxygen Species/metabolism , tert-Butylhydroperoxide/toxicity
8.
J Assist Reprod Genet ; 37(3): 509-516, 2020 Mar.
Article in English | MEDLINE | ID: mdl-32026199

ABSTRACT

PURPOSE: Approximately 1% of individuals who carry a balanced reciprocal translocation (BRT) are subfertile. Current karyotyping does not have the resolution to determine whether the breakpoints of the involved chromosomes perturb genes important for fertility. The aim of this study was to apply single-molecule optical mapping (SMOM) to patients presenting for IVF (in vitro fertilization) to ascertain whether the BRT disrupted any genes associated with normal fertility. METHODS: Nine subfertile patients with different BRTs were recruited for the study. Methyltransferase enzyme DLE1 was used to fluorescently label their genomic DNA samples at the recognition motif CTTAAG. The SMOM was performed on the Bionano platform, and long molecules aligned against the reference genome hg19 to identify the breakpoint regions. Mate-pair and PCR-Sanger sequencing were used to confirm the precise breakpoint sequences. RESULTS: Both breakpoint regions in each of the nine BRTs were finely mapped to small regions of approximately 10 Kb, and their positions were consistent with original cytogenetic banding patterns determined by karyotyping. In three BRTs, breakpoints disrupted genes known to be associated with male infertility, namely NUP155 and FNDC3A [46,XY,t(5;13)(p15;q22)], DPY19L1 [46,XY,t(1;7)(p36.3;p15), and BAI3 [46,XY,t(3;6)(p21;q16)]. CONCLUSIONS: The SMOM has potential clinical application as a rapid tool to screen patients with BRTs for underlying genetic causes of infertility and other diseases.


Subject(s)
Infertility, Male/genetics , Infertility/genetics , Translocation, Genetic/genetics , Adult , Female , Fertilization in Vitro , Humans , In Situ Hybridization, Fluorescence/methods , Infertility/pathology , Infertility, Male/diagnosis , Infertility, Male/pathology , Karyotyping , Male , Middle Aged , Single Molecule Imaging/methods
9.
J Adv Nurs ; 76(9): 2416-2425, 2020 Sep.
Article in English | MEDLINE | ID: mdl-32449228

ABSTRACT

AIM: The purpose of this study is to design a research protocol for the clinical testing of the "Mommy go" for pregnant women with a risk of postpartum depression. DESIGN: A non-blinded randomized controlled trial. METHODS: A randomized controlled study will be performed from January 2018 to the completion of the study. The intervention group will follow the "Mommy go" protocol and the control group will receive traditional support. We will use the Edinburgh Postpartum Depression Scale and the Chinese version of the Postpartum Depression Predictors Inventory-Revised to measure the risk of postpartum depression in pregnant women. The outcomes are clinical data, postpartum depressive mood, self-efficacy, and infant temperament. Outcomes will be assessed using questionnaires and through data generated by digital technologies. DISCUSSION: The expected outcomes are increased self-efficacy and infant temperament, reduced postpartum depressive mood, and improvements to postpartum depression. We expect the study to have a clinical impact on future online interventions for postpartum depression in China. IMPACT: This study will provide an internet-based intervention for postpartum depression in China. It will be implemented in clinical practice if it can effectively improve postpartum depression. TRIAL REGISTRATION: Registered at the Chinese Clinical Trials.gov (ChiCTR1800018804).


Subject(s)
Depression, Postpartum , Internet-Based Intervention , China , Depression , Depression, Postpartum/therapy , Female , Humans , Internet , Postpartum Period , Pregnancy , Pregnant Women , Randomized Controlled Trials as Topic , Treatment Outcome
10.
Biochem Biophys Res Commun ; 511(2): 356-362, 2019 04 02.
Article in English | MEDLINE | ID: mdl-30791981

ABSTRACT

The endoplasmic reticulum-Golgi intermediate compartment protein-53 (ERGIC-53, aka LMAN1), which cycles between the endoplasmic reticulum (ER) and Golgi, is a known cargo receptor for a number of soluble proteins. However, whether LMAN1 plays a role as a trafficking factor in the central nervous system is largely unknown. Here, we determined the role of LMAN1 on endogenous protein levels of the Cys-loop superfamily of neuroreceptors, including gamma-aminobutyric acid type A receptors (GABAARs), 5-hydroxytryptamine (serotonin) type 3 (5-HT3) receptors, and nicotinic acetylcholine receptors (nAChRs). Knockdown of LMAN1 reduces the surface trafficking of endogenous ß3 subunits of GABAARs in mouse hypothalamic GT1-7 neurons. Furthermore, Western blot analysis of brain homogenates from LMAN1 knockout mice demonstrated that loss of LMAN1 decreases the total protein levels of 5HT3A receptors and γ2 subunits of GABAARs. LMAN1 knockout regulates the ER proteostasis network by upregulating ERP44 without changing calnexin levels. Interestingly, despite the critical role of the glycan-binding function of LMAN1 in its other known cargo clients, LMAN1 interacts with GABAARs in a glycan-independent manner. In summary, LMAN1 is a trafficking factor for certain neuroreceptors in the central nervous system. This is the first report of LMAN1 function in membrane protein trafficking.


Subject(s)
Mannose-Binding Lectins/metabolism , Membrane Proteins/metabolism , Receptors, GABA-A/metabolism , Receptors, Serotonin, 5-HT3/metabolism , Sensory Receptor Cells/metabolism , Animals , Brain/metabolism , Cell Line , Humans , Mannose-Binding Lectins/genetics , Membrane Proteins/genetics , Mice , Mice, Knockout , Protein Transport
11.
Fish Shellfish Immunol ; 93: 977-985, 2019 Oct.
Article in English | MEDLINE | ID: mdl-31449979

ABSTRACT

C-type lectins (CTLs), which bind carbohydrates in a Ca2+-dependent manner, are involved in many cellular activities, especially immunity. CTLs play important roles in both the antibacterial and the antiviral immune response and are also associated with autoimmunity. Several CTLs have been investigated in crustaceans, primarily with respect to their function in the immune response. In this study, we cloned a novel CTL gene (LvCTLU) from Litopenaeus vannamei. LvCTLU is involved in microbe agglutination and phagocytosis. Downregulating LvCTLU increased the cumulative mortality of L. vannamei after Vibrio parahemolyticus infection. Similar to other reported CTLs, LvCTLU also had antiviral properties. Downregulation of LvCTLU also increased the cumulative mortality of L. vannamei after infection with white spot syndrome virus. More importantly, LvCTLU expression was induced by the unfolded protein response (UPR), which is the key pathway in the endoplasmic reticulum (ER)-stress response of eukaryotic organism. Our results suggested that this protein might be involved in the shrimp ER-stress response. Reporter gene assay indicated that LvCTLU was regulated by X-box-binding protein 1, which is the key transcription factor in the UPR. Our study thus revealed that LvCTLU plays vital roles in both the anti-pathogen immune response and the ER-stress response.


Subject(s)
Gene Expression Regulation/immunology , Immunity, Innate/genetics , Lectins, C-Type/genetics , Lectins, C-Type/immunology , Penaeidae/genetics , Penaeidae/immunology , X-Box Binding Protein 1/genetics , Amino Acid Sequence , Animals , Arthropod Proteins/chemistry , Arthropod Proteins/genetics , Arthropod Proteins/immunology , Base Sequence , Gene Expression Profiling , Lectins, C-Type/chemistry , Phylogeny , Sequence Alignment , White spot syndrome virus 1/physiology , X-Box Binding Protein 1/metabolism
12.
Fish Shellfish Immunol ; 86: 1081-1087, 2019 Mar.
Article in English | MEDLINE | ID: mdl-30593900

ABSTRACT

Antimicrobial peptides (AMPs) are small proteins showing broad-spectrum antimicrobial activity that have been known to be powerful agents against a variety of pathogens (bacteria, fungi and viruses). In this study, the effects of AMPs from Bacillus subtilis on Epinephelus coioides were examined. E. coioides were fed with diets containing AMPs (0, 100, 200, 400 or 800 mg/kg) for four weeks. Results showed that the levels of total protein (TP), albumin (ALB), alanine aminotransferase (ALT), aspartate aminotransferase (AST), high-density lipoprotein cholesterol (HDL-C), low-density lipoprotein cholesterol (LDL-C) and blood glucose (GLU) and lipopolysaccharide (LPS) in the serum of E. coioides changed than those of the control group; compared to the control group, the levels of total antioxidant capacity (T-AOC), superoxide dismutase (SOD), catalase (CAT), malondialdehyde (MDA) and lysozyme (LZM) levels in E. coioides fed with different dosages AMP diets were also different; in addition, the mRNA expression of tumor necrosis factor alpha (TNF-α), interleukin-1-beta (IL-1ß), and heat shock protein 90 (Hsp90) in the tissues of E. coioides were measured, the three genes in the tissues examined were significantly upregulated. The results demonstrated that diets containing AMPs can enhance the antioxidant capacity and innate immune ability of E. coioides, indicating that AMPs might be a potential alternative to antibiotics in E. coioides.


Subject(s)
Antimicrobial Cationic Peptides/pharmacology , Antioxidants/metabolism , Bass/immunology , Immunity, Innate , Animal Feed/analysis , Animals , Antimicrobial Cationic Peptides/administration & dosage , Bacillus subtilis/chemistry , Bass/metabolism , Blood Chemical Analysis/veterinary , Diet/veterinary
13.
Arch Womens Ment Health ; 22(2): 279-287, 2019 04.
Article in English | MEDLINE | ID: mdl-29980903

ABSTRACT

Postpartum depression is a common complication of childbearing and up to 12 months postpartum. This study aimed to determine the prevalence of postpartum depressive mood (PDM) in China by performing a meta-analysis of published studies. Studies that reported the prevalence of PDM in China were identified by searching the PubMed, Embase, CNKI, and CQVIP databases. Three thousand, one hundred, and two articles were obtained, and after careful evaluation, 26 studies were finally included in the meta-analysis. The combined studies included a total of 7618 cases with 1621 cases of PDM. The studies were assessed on the basis of heterogeneity testing and the potential for publication bias. Stata software 11.0 was used to perform the meta-analysis. The random-effect model showed that the prevalence of PDM was 21% with a 95% confidence interval (CI) of 17-25%. PDM was the highest 0 to 1.5 months after delivery. PDM levels decreased to 10.4% (95% CI 9.7-11.1%, P < 0.001) after publication bias were corrected. Sensitivity analyses evaluated the stability of our results and showed no significant change when any single study was excluded. Subgroup analyses showed that region, instruments used, cut-off score, and time points for depression assessment were positively associated with PDM prevalence. The prevalence of PDM differed among regions, with South Central China and East China exhibiting the lowest prevalence. The prevalence was higher in regions with poor economic development, suggesting that more attention should be devoted to Southwest and North China and that the prevalence of PDM should be evaluated 0 to 1.5 months after delivery.


Subject(s)
Depression, Postpartum/epidemiology , Asian People/psychology , China/epidemiology , Female , Humans , Prevalence
14.
Proc Natl Acad Sci U S A ; 113(35): E5163-71, 2016 08 30.
Article in English | MEDLINE | ID: mdl-27535938

ABSTRACT

Asian cultivated rice consists of two subspecies: Oryza sativa subsp. indica and O. sativa subsp. japonica Despite the fact that indica rice accounts for over 70% of total rice production worldwide and is genetically much more diverse, a high-quality reference genome for indica rice has yet to be published. We conducted map-based sequencing of two indica rice lines, Zhenshan 97 (ZS97) and Minghui 63 (MH63), which represent the two major varietal groups of the indica subspecies and are the parents of an elite Chinese hybrid. The genome sequences were assembled into 237 (ZS97) and 181 (MH63) contigs, with an accuracy >99.99%, and covered 90.6% and 93.2% of their estimated genome sizes. Comparative analyses of these two indica genomes uncovered surprising structural differences, especially with respect to inversions, translocations, presence/absence variations, and segmental duplications. Approximately 42% of nontransposable element related genes were identical between the two genomes. Transcriptome analysis of three tissues showed that 1,059-2,217 more genes were expressed in the hybrid than in the parents and that the expressed genes in the hybrid were much more diverse due to their divergence between the parental genomes. The public availability of two high-quality reference genomes for the indica subspecies of rice will have large-ranging implications for plant biology and crop genetic improvement.


Subject(s)
Chromosomes, Plant/genetics , Genetic Variation , Genome, Plant/genetics , Oryza/genetics , Chromosome Mapping/methods , Gene Expression Profiling , Gene Expression Regulation, Plant , Genes, Plant/genetics , INDEL Mutation , Oryza/classification , Polymorphism, Single Nucleotide , Species Specificity
15.
World J Microbiol Biotechnol ; 34(7): 90, 2018 Jun 09.
Article in English | MEDLINE | ID: mdl-29886558

ABSTRACT

To search for more microbial resources for screening environment-friendly antifoulants, we investigated the phylogenetic diversity and antifouling potentials of culturable fungi in mangrove sediments from Techeng Isle, China. A total of 176 isolates belonging to 57 fungal taxa were recovered and identified. The high levels of diversity and abundance of mangrove fungi from Techeng Isle were in accordance with previous studies on fungi from other mangrove ecosystems. Fifteen of the 176 isolates demonstrated high divergence (87-93%) from the known fungal taxa in GenBank. Moreover, 26 isolates recorded in mangrove ecosystems for the first time. These results suggested that mangrove sediments from Techeng Isle harbored some new fungal communities compared with other mangrove ecosystems. The antifouling activity of 57 representative isolates (belonging to 57 different fungal taxa) was tested against three marine bacteria (Loktanella hongkongensis, Micrococcus luteus and Pseudoalteromonas piscida) and two marine macrofoulers (bryozoan Bugula neritina and barnacle Balanus amphitrite). Approximately 40% of the tested isolates displayed distinct antifouling activity. Furthermore, 17 fungal isolates were found to display strong or a wide spectrum of antifouling activity in this study, suggesting that these isolates deserve further study as potential sources of novel antifouling metabolites. To our knowledge, this is the first report on the investigation of the phylogenetic diversity and antifouling potential of culturable fungi in mangrove sediments from Techeng Isle, China. These results contribute to our knowledge of mangrove fungi and further increases the pool of fungi available for natural bioactive product screening.


Subject(s)
Biofouling/prevention & control , Biological Products/pharmacology , Fungi/classification , Fungi/isolation & purification , Fungi/metabolism , Geologic Sediments/microbiology , Phylogeny , Anti-Bacterial Agents , Bacteria/drug effects , Biodiversity , China , DNA, Fungal , Ecosystem , Fungi/genetics , Seawater/microbiology , Wetlands
16.
J Biol Chem ; 291(18): 9526-39, 2016 Apr 29.
Article in English | MEDLINE | ID: mdl-26945068

ABSTRACT

Proteostasis maintenance of γ-aminobutyric acid type A (GABAA) receptors dictates their function in controlling neuronal inhibition in mammalian central nervous systems. However, as a multisubunit, multispan, integral membrane protein, even wild type subunits of GABAA receptors fold and assemble inefficiently in the endoplasmic reticulum (ER). Unassembled and misfolded subunits undergo ER-associated degradation (ERAD), but this degradation process remains poorly understood for GABAA receptors. Here, using the α1 subunits of GABAA receptors as a model substrate, we demonstrated that Grp94, a metazoan-specific Hsp90 in the ER lumen, uses its middle domain to interact with the α1 subunits and positively regulates their ERAD. OS-9, an ER-resident lectin, acts downstream of Grp94 to further recognize misfolded α1 subunits in a glycan-dependent manner. This delivers misfolded α1 subunits to the Hrd1-mediated ubiquitination and the valosin-containing protein-mediated extraction pathway. Repressing the initial ERAD recognition step by inhibiting Grp94 enhances the functional surface expression of misfolding-prone α1(A322D) subunits, which causes autosomal dominant juvenile myoclonic epilepsy. This study clarifies a Grp94-mediated ERAD pathway for GABAA receptors, which provides a novel way to finely tune their function in physiological and pathophysiological conditions.


Subject(s)
Endoplasmic Reticulum-Associated Degradation/physiology , Endoplasmic Reticulum/metabolism , Membrane Glycoproteins/metabolism , Proteolysis , Receptors, GABA-A/metabolism , Ubiquitin-Protein Ligases/metabolism , Amino Acid Substitution , Endoplasmic Reticulum/genetics , HEK293 Cells , Humans , Membrane Glycoproteins/genetics , Mutation, Missense , Receptors, GABA-A/genetics , Ubiquitin-Protein Ligases/genetics , Ubiquitination/physiology
17.
Bioinformatics ; 32(20): 3058-3064, 2016 10 15.
Article in English | MEDLINE | ID: mdl-27318200

ABSTRACT

MOTIVATION: Next generation sequencing technologies have revolutionized our ability to rapidly and affordably generate vast quantities of sequence data. Once generated, raw sequences are assembled into contigs or scaffolds. However, these assemblies are mostly fragmented and inaccurate at the whole genome scale, largely due to the inability to integrate additional informative datasets (e.g. physical, optical and genetic maps). To address this problem, we developed a semi-automated software tool-Genome Puzzle Master (GPM)-that enables the integration of additional genomic signposts to edit and build 'new-gen-assemblies' that result in high-quality 'annotation-ready' pseudomolecules. RESULTS: With GPM, loaded datasets can be connected to each other via their logical relationships which accomplishes tasks to 'group,' 'merge,' 'order and orient' sequences in a draft assembly. Manual editing can also be performed with a user-friendly graphical interface. Final pseudomolecules reflect a user's total data package and are available for long-term project management. GPM is a web-based pipeline and an important part of a Laboratory Information Management System (LIMS) which can be easily deployed on local servers for any genome research laboratory. AVAILABILITY AND IMPLEMENTATION: The GPM (with LIMS) package is available at https://github.com/Jianwei-Zhang/LIMS CONTACTS: jzhang@mail.hzau.edu.cn or rwing@mail.arizona.eduSupplementary information: Supplementary data are available at Bioinformatics online.


Subject(s)
Genomics , High-Throughput Nucleotide Sequencing , Software , Genome
18.
PLoS Genet ; 10(9): e1004641, 2014 Sep.
Article in English | MEDLINE | ID: mdl-25233454

ABSTRACT

High blood pressure (BP) is the most common cardiovascular risk factor worldwide and a major contributor to heart disease and stroke. We previously discovered a BP-associated missense SNP (single nucleotide polymorphism)-rs2272996-in the gene encoding vanin-1, a glycosylphosphatidylinositol (GPI)-anchored membrane pantetheinase. In the present study, we first replicated the association of rs2272996 and BP traits with a total sample size of nearly 30,000 individuals from the Continental Origins and Genetic Epidemiology Network (COGENT) of African Americans (P=0.01). This association was further validated using patient plasma samples; we observed that the N131S mutation is associated with significantly lower plasma vanin-1 protein levels. We observed that the N131S vanin-1 is subjected to rapid endoplasmic reticulum-associated degradation (ERAD) as the underlying mechanism for its reduction. Using HEK293 cells stably expressing vanin-1 variants, we showed that N131S vanin-1 was degraded significantly faster than wild type (WT) vanin-1. Consequently, there were only minimal quantities of variant vanin-1 present on the plasma membrane and greatly reduced pantetheinase activity. Application of MG-132, a proteasome inhibitor, resulted in accumulation of ubiquitinated variant protein. A further experiment demonstrated that atenolol and diltiazem, two current drugs for treating hypertension, reduce the vanin-1 protein level. Our study provides strong biological evidence for the association of the identified SNP with BP and suggests that vanin-1 misfolding and degradation are the underlying molecular mechanism.


Subject(s)
Amidohydrolases/genetics , Amidohydrolases/metabolism , Blood Pressure/genetics , Endoplasmic Reticulum-Associated Degradation/genetics , Genetic Variation , Alleles , Amidohydrolases/blood , Antihypertensive Agents/pharmacology , Antihypertensive Agents/therapeutic use , Blood Pressure/drug effects , Cohort Studies , Enzyme Activation , GPI-Linked Proteins/blood , GPI-Linked Proteins/genetics , GPI-Linked Proteins/metabolism , Genetic Association Studies , Genotype , Humans , Hypertension/drug therapy , Hypertension/epidemiology , Hypertension/genetics , Mutation , Phenotype , Polymorphism, Single Nucleotide
19.
J Biol Chem ; 290(1): 325-37, 2015 Jan 02.
Article in English | MEDLINE | ID: mdl-25406314

ABSTRACT

GABAA receptors are the primary inhibitory ion channels in the mammalian central nervous system. The A322D mutation in the α1 subunit results in its excessive endoplasmic reticulum-associated degradation at the expense of plasma membrane trafficking, leading to autosomal dominant juvenile myoclonic epilepsy. Presumably, valosin-containing protein (VCP)/p97 extracts misfolded subunits from the endoplasmic reticulum membrane to the cytosolic proteasome for degradation. Here we showed that inhibiting VCP using Eeyarestatin I reduces the endoplasmic reticulum-associated degradation of the α1(A322D) subunit without an apparent effect on its dynamin-1 dependent endocytosis and that this treatment enhances its trafficking. Furthermore, coapplication of Eeyarestatin I and suberanilohydroxamic acid, a known small molecule that promotes chaperone-assisted folding, yields an additive restoration of surface expression of α1(A322D) subunits in HEK293 cells and neuronal SH-SY5Y cells. Consequently, this combination significantly increases GABA-induced chloride currents in whole-cell patch clamping experiments than either chemical compound alone in HEK293 cells. Our findings suggest that VCP inhibition without stress induction, together with folding enhancement, represents a new strategy to restore proteostasis of misfolding-prone GABAA receptors and, therefore, a potential remedy for idiopathic epilepsy.


Subject(s)
Adenosine Triphosphatases/genetics , Cell Cycle Proteins/genetics , Endoplasmic Reticulum-Associated Degradation/drug effects , Hydrazones/pharmacology , Hydroxamic Acids/pharmacology , Hydroxyurea/analogs & derivatives , Receptors, GABA-A/chemistry , Action Potentials/drug effects , Action Potentials/physiology , Adenosine Triphosphatases/antagonists & inhibitors , Adenosine Triphosphatases/metabolism , Adolescent , Cell Cycle Proteins/antagonists & inhibitors , Cell Cycle Proteins/metabolism , Cell Line, Tumor , Chlorides/metabolism , Drug Synergism , Dynamin I/genetics , Dynamin I/metabolism , Endocytosis/drug effects , Endoplasmic Reticulum/drug effects , Endoplasmic Reticulum/metabolism , Endoplasmic Reticulum-Associated Degradation/genetics , HEK293 Cells , Humans , Hydroxyurea/pharmacology , Myoclonic Epilepsy, Juvenile/genetics , Myoclonic Epilepsy, Juvenile/metabolism , Myoclonic Epilepsy, Juvenile/pathology , Neurons/drug effects , Neurons/metabolism , Neurons/pathology , Patch-Clamp Techniques , Proteasome Endopeptidase Complex/drug effects , Proteasome Endopeptidase Complex/metabolism , Protein Folding/drug effects , Protein Stability/drug effects , Receptors, GABA-A/genetics , Receptors, GABA-A/metabolism , Signal Transduction , Valosin Containing Protein , Vorinostat , gamma-Aminobutyric Acid/metabolism
20.
Pharmacol Res ; 83: 3-9, 2014 May.
Article in English | MEDLINE | ID: mdl-24747662

ABSTRACT

Normal organismal physiology depends on the maintenance of proteostasis in each cellular compartment to achieve a delicate balance between protein synthesis, folding, trafficking, and degradation while minimizing misfolding and aggregation. Defective proteostasis leads to numerous protein misfolding diseases. Pharmacological chaperones are cell-permeant small molecules that promote the proper folding and trafficking of a protein via direct binding to that protein. They stabilize their target protein in a protein-pharmacological chaperone state, increasing the natively folded protein population that can effectively engage trafficking machinery for transport to the final destination for function. Here, as regards the application of pharmacological chaperones, we focus on their capability to promote the folding and trafficking of lysosomal enzymes, G protein coupled receptors (GPCRs), and ion channels, each of which is presently an important drug target. Pharmacological chaperones hold great promise as potential therapeutics to ameliorate a variety of protein misfolding diseases.


Subject(s)
Drug Discovery , Ion Channels/metabolism , Lysosomes/enzymology , Protein Folding/drug effects , Protein Transport/drug effects , Receptors, G-Protein-Coupled/metabolism , Animals , Humans , Ion Channels/chemistry , Lysosomes/drug effects , Lysosomes/pathology , Proteostasis Deficiencies/drug therapy , Proteostasis Deficiencies/metabolism , Proteostasis Deficiencies/pathology , Receptors, G-Protein-Coupled/chemistry
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