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1.
Proc Natl Acad Sci U S A ; 121(35): e2320804121, 2024 Aug 27.
Article in English | MEDLINE | ID: mdl-39172790

ABSTRACT

Breast Cancer Type 1 Susceptibility Protein (BRCA1) is a tumor-suppressor protein that regulates various cellular pathways, including those that are essential for preserving genome stability. One essential mechanism involves a BRCA1-A complex that is recruited to double-strand breaks (DSBs) by RAP80 before initiating DNA damage repair (DDR). How RAP80 itself is recruited to DNA damage sites, however, is unclear. Here, we demonstrate an intrinsic correlation between a methyltransferase DOT1L-mediated RAP80 methylation and BRCA1-A complex chromatin recruitment that occurs during cancer cell radiotherapy resistance. Mechanistically, DOT1L is quickly recruited onto chromatin and methylates RAP80 at multiple lysines in response to DNA damage. Methylated RAP80 is then indispensable for binding to ubiquitinated H2A and subsequently triggering BRCA1-A complex recruitment onto DSBs. Importantly, DOT1L-catalyzed RAP80 methylation and recruitment of BRCA1 have clinical relevance, as inhibition of DOT1L or RAP80 methylation seems to enhance the radiosensitivity of cancer cells both in vivo and in vitro. These data reveal a crucial role for DOT1L in DDR through initiating recruitment of RAP80 and BRCA1 onto chromatin and underscore a therapeutic strategy based on targeting DOT1L to overcome tumor radiotherapy resistance.


Subject(s)
BRCA1 Protein , DNA Repair , Histone Chaperones , Histone-Lysine N-Methyltransferase , Animals , Humans , Mice , BRCA1 Protein/metabolism , BRCA1 Protein/genetics , Cell Line, Tumor , Chromatin/metabolism , DNA Breaks, Double-Stranded , DNA Methylation , DNA-Binding Proteins/metabolism , DNA-Binding Proteins/genetics , Histone Chaperones/metabolism , Histone Chaperones/genetics , Histone-Lysine N-Methyltransferase/metabolism , Histone-Lysine N-Methyltransferase/genetics , Methylation , Methyltransferases/metabolism , Nuclear Proteins/metabolism , Nuclear Proteins/genetics , Radiation Tolerance/genetics
2.
Plant Physiol ; 192(2): 1028-1045, 2023 05 31.
Article in English | MEDLINE | ID: mdl-36883668

ABSTRACT

Castor (Ricinus communis L.) is a dicotyledonous oilseed crop that can have either spineless or spiny capsules. Spines are protuberant structures that differ from thorns or prickles. The developmental regulatory mechanisms governing spine formation in castor or other plants have remained largely unknown. Herein, using map-based cloning in 2 independent F2 populations, F2-LYY5/DL01 and F2-LYY9/DL01, we identified the RcMYB106 (myb domain protein 106) transcription factor as a key regulator of capsule spine development in castor. Haplotype analyses demonstrated that either a 4,353-bp deletion in the promoter or a single nucleotide polymorphism leading to a premature stop codon in the RcMYB106 gene could cause the spineless capsule phenotype in castor. Results of our experiments indicated that RcMYB106 might target the downstream gene RcWIN1 (WAX INDUCER1), which encodes an ethylene response factor known to be involved in trichome formation in Arabidopsis (Arabidopsis thaliana) to control capsule spine development in castor. This hypothesis, however, remains to be further tested. Nevertheless, our study reveals a potential molecular regulatory mechanism underlying the spine capsule trait in a nonmodel plant species.


Subject(s)
Castor Oil , Ricinus communis , Castor Oil/metabolism , Ricinus/genetics , Ricinus/metabolism , Gene Expression Regulation, Plant , Ricinus communis/genetics , Ricinus communis/metabolism
3.
Opt Express ; 32(3): 3764-3778, 2024 Jan 29.
Article in English | MEDLINE | ID: mdl-38297590

ABSTRACT

For optical waveguides with a layered background which itself is a slab waveguide, a guided mode is a bound state in the continuum (BIC), if it coexists with slab modes propagating outwards in the lateral direction; i.e., there are lateral leakage channels. It is known that generic BICs in optical waveguides with lateral leakage channels are robust in the sense that they still exist if the waveguide is perturbed arbitrarily. However, the theory is not applicable to non-generic BICs which can be defined precisely. Near a BIC, the waveguide supports resonant and leaky modes with a complex frequency and a complex propagation constant, respectively. In this paper, we develop a perturbation theory to show that the resonant and leaky modes near a non-generic BIC have an ultra-high Q factor and ultra-low leakage loss, respectively. Recently, many authors studied merging-BICs in periodic structures through tuning structural parameters. It has been shown that resonant modes near a merging-BIC have an ultra-high Q factor. However, the existing studies on merging-BICs are concerned with specific examples and specific parameters. Moreover, we analyze an arbitrary structural perturbation given by δF(r) to waveguides supporting a non-generic BIC, where F(r) is the perturbation profile and δ is the amplitude, and show that the perturbed waveguide has two BICs for δ > 0 (or δ < 0) and no BIC for δ < 0 (or δ > 0). This implies that a non-generic BIC can be regarded as a merging-BIC (for almost any perturbation profile F) when δ is considered as a parameter. Our study indicates that non-generic BICs have interesting special properties that are useful in applications.

4.
Opt Lett ; 49(6): 1461-1464, 2024 Mar 15.
Article in English | MEDLINE | ID: mdl-38489425

ABSTRACT

In lossless dielectric structures with a single periodic direction, a bound state in the continuum (BIC) is a special resonant mode with an infinite quality factor (Q factor). The Q factor of a resonant mode near a typical BIC satisfies Q∼1/(ß-ß ∗)2, where ß and ß ∗ are the Bloch wavenumbers of the resonant mode and the BIC, respectively. However, for some special BICs with ß ∗=0 (referred to as super-BICs by some authors), the Q factor satisfies Q ∼ 1/ß6. Although super-BICs are usually obtained by merging a few BICs through tuning a structural parameter, they can be precisely characterized by a mathematical condition. In this Letter, we consider arbitrary perturbations to structures supporting a super-BIC. The perturbation is given by δF(r), where δ is the amplitude and F(r) is the perturbation profile. We show that for a typical F(r), the BICs in the perturbed structure exhibit a pitchfork bifurcation around the super-BIC. The number of BICs changes from one to three as δ passes through zero. However, for some special profiles F(r), there is no bifurcation, i.e., there is only a single BIC for δ around zero. In that case, the super-BIC is not associated with a merging process for which δ is the parameter.

5.
Cell Commun Signal ; 22(1): 195, 2024 Mar 27.
Article in English | MEDLINE | ID: mdl-38539203

ABSTRACT

BACKGROUND: Lung cancer is cancer with the highest morbidity and mortality in the world and poses a serious threat to human health. Therefore, discovering new treatments is urgently needed to improve lung cancer prognosis. Small molecule inhibitors targeting the ubiquitin-proteasome system have achieved great success, in which deubiquitinase inhibitors have broad clinical applications. The deubiquitylase OTUD3 was reported to promote lung tumorigenesis by stabilizing oncoprotein GRP78, implying that inhibition of OTUD3 may be a therapeutic strategy for lung cancer. RESULTS: In this study, we identified a small molecule inhibitor of OTUD3, Rolapitant, by computer-aided virtual screening and biological experimental verification from FDA-approved drugs library. Rolapitant inhibited the proliferation of lung cancer cells by inhibiting deubiquitinating activity of OTUD3. Quantitative proteomic profiling indicated that Rolapitant significantly upregulated the expression of death receptor 5 (DR5). Rolapitant also promoted lung cancer cell apoptosis through upregulating cell surface expression of DR5 and enhanced TRAIL-induced apoptosis. Mechanistically, Rolapitant directly targeted the OTUD3-GRP78 axis to trigger endoplasmic reticulum (ER) stress-C/EBP homologous protein (CHOP)-DR5 signaling, sensitizing lung cancer cells to TRAIL-induced apoptosis. In the vivo assays, Rolapitant suppressed the growth of lung cancer xenografts in immunocompromised mice at suitable dosages without apparent toxicity. CONCLUSION: In summary, the present study identifies Rolapitant as a novel inhibitor of deubiquitinase OTUD3 and establishes that the OTUD3-GRP78 axis is a potential therapeutic target for lung cancer.


Subject(s)
Endoplasmic Reticulum Chaperone BiP , Lung Neoplasms , Spiro Compounds , Humans , Mice , Animals , Cell Line, Tumor , Lung Neoplasms/drug therapy , Proteomics , Ubiquitin-Specific Proteases/metabolism , Apoptosis , Receptors, TNF-Related Apoptosis-Inducing Ligand/metabolism , TNF-Related Apoptosis-Inducing Ligand/pharmacology
6.
Pediatr Res ; 95(1): 227-232, 2024 Jan.
Article in English | MEDLINE | ID: mdl-37580551

ABSTRACT

BACKGROUND: children who undergo CPB operations are at an elevated risk of infection due to immunosuppression. This study aims to investigate the association between lymphopenia following CPB and early postoperative infection in children. METHODS: A retrospective analysis including 41 children under 2 years old underwent CPB. Among them, 9 subjects had an early postoperative infection, and 32 subjects were period-matched without infection. Inflammatory cytokines, serum CRP and PCT values were measured in plasma, additionally, circulating total leucocyte and lymphocyte subpopulations were counted. RESULTS: Infected subjects exhibited significantly higher levels of inflammatory cytokines, including IL-6, IL-8, IL-10, IL-1ß and TNF-α, than non-infected subjects after CPB. Additionally, lower absolute number of lymphocyte and their subpopulations CD3+ T cells, CD4+ T-helper cells and CD8+cytotoxic T-cells, were observed in infected subjects. The impairment of T-cells Immune was found to be associated with higher levels of inflammatory cytokines IL-10. The ROC demonstrated that the absolute number of CD3+ T-cells <1934/ul, CD4+ T helper cells <1203/ul and CD8+cytotoxic T-cells <327/ul were associated with early postoperative infection. CONCLUSION: Higher levels of inflammatory cytokines resulted in T-cells lymphopenia after CPB, which significantly increasing the risk of postoperative infection in infants and young children. IMPACT: Infection complications after cardiopulmonary bypass (CPB) in pediatric CHD patients are serious issues, identifing the infection from after CPB remains a challenging. CPB can release numerous inflammatory cytokines associated with T cells lymphopenia, which increases the risk of postoperative infection after surgery. Monitoring T cells lymphopenia maybe more beneficial to predict early postoperative infection than C-reactive protein and procalcitonin.


Subject(s)
Cardiopulmonary Bypass , Lymphopenia , Infant , Humans , Child , Child, Preschool , Cardiopulmonary Bypass/adverse effects , Interleukin-10 , Retrospective Studies , Cytokines , T-Lymphocytes , Lymphopenia/etiology
7.
BMC Geriatr ; 24(1): 182, 2024 Feb 23.
Article in English | MEDLINE | ID: mdl-38395781

ABSTRACT

BACKGROUND: Frailty is a common geriatric syndrome related to multiple adverse outcomes. Sex differences in its prevalence and impact on mortality remain incompletely understood. METHODS: This study was conducted with data from the I-Lan Longitudinal Aging Study, in which community-dwelling subjects aged > 50 years without coronary artery disease or diabetes were enrolled. Sex disparities in phenotypically defined frailty and sex-morality predictor interactions were evaluated. Sex- and frailty-stratified analyses of mortality were performed. RESULTS: The sample comprised 1371 subjects (51.4% women, median age 61 years). The median follow-up period was 6.3 (interquartile range, 5.8-7.0) years. The frailty prevalence did not differ between men (5.3%) and women (5.8%). Frail individuals were older and less educated and had poorer renal function than did non-frail individuals. Body composition trends differed between sexes, regardless of frailty. Relative to non-frail men, frail men had significantly lower body mass indices (BMIs; 24.5 vs. 23.4 kg/m2, p = 0.04) and relative appendicular skeletal muscle masses (7.87 vs. 7.05 kg/m2, p < 0.001). Frail women had significantly higher BMIs (25.2 vs. 23.9 kg/m2, p = 0.02) and waist circumferences (88 vs. 80 cm, p < 0.001) than did non-frail women. Frailty was an independent mortality predictor for men only [hazard ratio (95% confidence interval) = 3.395 (1.809-6.371), psex-frailty interaction = 0.03]. CONCLUSION: Frailty reflected poorer health in men than in women in the present cohort. This study revealed sex disparities in the impact of frailty on mortality among relatively healthy community-dwelling older adults.


Subject(s)
Frailty , Aged , Humans , Female , Male , Frail Elderly , Sex Characteristics , Aging , Phenotype , Geriatric Assessment
8.
BMC Geriatr ; 24(1): 634, 2024 Jul 27.
Article in English | MEDLINE | ID: mdl-39068440

ABSTRACT

BACKGROUND: Malnutrition is linked to a higher risk of unfavorable outcomes in various illnesses. The present investigation explored the correlation between inadequate nutritional condition and outcomes in older individuals diagnosed with hyperlipidemia. METHODS: The geriatric nutritional risk index (GNRI) was used to evaluate the nutritional status. All patients were divided into two groups according to GNRI. A Kaplan-Meier analysis was used to assess the survival rates of different groups at risk of malnutrition. In addition, GNRI was used in COX proportional risk regression models to evaluate its predictive effect on both overall mortality and cardiovascular mortality among patients with hyperlipidemia. Furthermore, the study employed restricted cubic splines (RCS) to examine the nonlinear correlation between GNRI and mortality. RESULTS: The study included 4,532 elderly individuals diagnosed with hyperlipidemia. During a median follow-up duration of 139 months, a total of 1498 deaths from all causes and 410 deaths from cardiovascular causes occurred. The Kaplan-Meier analysis demonstrated significantly poorer survival among individuals at risk of malnutrition, as indicated by the GNRI. In the malnutrition risk group, the modified COX proportional hazards model revealed that a decrease in GNRI was associated with a higher risk of all-cause mortality (HR=1.686, 95% CI 1.212-2.347) and cardiovascular mortality (HR=3.041, 95% CI 1.797-5.147). Furthermore, the restricted cubic splines revealed a non-linear association between GNRI and both all-cause mortality and cardiovascular mortality (p-value for non-linearity = 0.0039, p-value for non-linearity=0.0386). CONCLUSIONS: In older patients with hyperlipidemia, lower levels of GNRI are associated with mortality. The GNRI could potentially be used to predict all-cause mortality and cardiovascular mortality.


Subject(s)
Cardiovascular Diseases , Hyperlipidemias , Malnutrition , Humans , Female , Aged , Male , Cardiovascular Diseases/mortality , Hyperlipidemias/mortality , Hyperlipidemias/epidemiology , Hyperlipidemias/complications , Malnutrition/mortality , Malnutrition/diagnosis , Malnutrition/epidemiology , Aged, 80 and over , Geriatric Assessment/methods , Nutrition Surveys/methods , Nutrition Surveys/trends , Cause of Death/trends , Nutrition Assessment , Nutritional Status , Risk Assessment/methods , Risk Factors , Kaplan-Meier Estimate , Proportional Hazards Models
9.
Proc Natl Acad Sci U S A ; 118(22)2021 06 01.
Article in English | MEDLINE | ID: mdl-34031238

ABSTRACT

Neuron-enriched microRNAs (miRNAs), miR-9/9* and miR-124 (miR-9/9*-124), direct cell fate switching of human fibroblasts to neurons when ectopically expressed by repressing antineurogenic genes. How these miRNAs function after the repression of fibroblast genes for neuronal fate remains unclear. Here, we identified targets of miR-9/9*-124 as reprogramming cells activate the neuronal program and reveal the role of miR-124 that directly promotes the expression of its target genes associated with neuronal development and function. The mode of miR-124 as a positive regulator is determined by the binding of both AGO and a neuron-enriched RNA-binding protein, ELAVL3, to target transcripts. Although existing literature indicates that miRNA-ELAVL family protein interaction can result in either target gene up-regulation or down-regulation in a context-dependent manner, we specifically identified neuronal ELAVL3 as the driver for miR-124 target gene up-regulation in neurons. In primary human neurons, repressing miR-124 and ELAVL3 led to the down-regulation of genes involved in neuronal function and process outgrowth and cellular phenotypes of reduced inward currents and neurite outgrowth. Our results highlight the synergistic role between miR-124 and RNA-binding proteins to promote target gene regulation and neuronal function.


Subject(s)
ELAV-Like Protein 3/biosynthesis , Gene Expression Regulation , MicroRNAs/metabolism , Neurons/metabolism , Adult , ELAV-Like Protein 3/genetics , Female , Humans , MicroRNAs/genetics
10.
J Asian Nat Prod Res ; : 1-9, 2024 Sep 15.
Article in English | MEDLINE | ID: mdl-39279056

ABSTRACT

A new sterol, aspersterol E (1), a newly discovered alkaloid, asperginine A (2), and five known compounds (3-7) were obtained from the endophytic fungus Aspergillus sp. S3 of Hibiscus tiliaceus Linn. The compounds were extracted from their fermentation products using silica gel, ODS C18, and semi-preparative HPLC. The structure of each compound was determined through spectroscopic analysis. All the obtained compounds (1-7) were evaluated for their cytotoxic activity against the mouse pre-gastric cancer cell line MFC by using the MTT assay. The IC50 values of compounds 1, 2, 3, and 5 were found to be 153.43 µM, 61.25 µM, 73.19 µM, and 181.69 µM respectively.

11.
Aesthetic Plast Surg ; 48(9): 1663-1671, 2024 May.
Article in English | MEDLINE | ID: mdl-38212544

ABSTRACT

BACKGROUND: V-Y advancement flap (VYAF) is a commonly used flap for facial reconstruction, but it is not popular in Asian society with limited aesthetic outcome evaluation. OBJECTIVE: To demonstrate our experience of facial VYAF with the quantitative aesthetic outcome assessment. METHODS AND MATERIALS: From January 2013 to December 2022, patients who underwent facial VYAF reconstruction were reviewed. Postoperative photographs were collected and independently graded by three plastic surgeons, three nurses, and six non-medical personnel using Manchester scar scale (MSS). The representative preoperative images were selected for surgeons' reconstruction preferences survey. RESULTS: Forty-eight patients (27 females and 21 males), with a mean age of 66.8 (23-97) years, were included in this study. All flaps survived with no flap necrosis. Only six patients (12.5%) developed minor postoperative complications, and they were treated conservatively and resolved uneventfully. The total MSS score was 7.8 ± 1.9 (scale of 4 [best scar] to 24 [worst scar]) and the overall scar VAS rating was 1.9 ± 1.1 (0 [best scar] to 10 [worst scar]), indicating satisfactory postoperative scar condition. From the survey of 22 plastic surgeons and 11 scenarios, VYAF was rarely chosen among other local flaps which only accounted for 8.7%. CONCLUSION: VYAF is an easy and safe method for facial reconstruction with low morbidity, but its usefulness is underappreciated. With a proper design and cautious dissection, we believe that good aesthetic and functional outcomes can be achieved with VYAF. LEVEL OF EVIDENCE IV: This journal requires that authors assign a level of evidence to each article. For a full description of these Evidence-Based Medicine ratings, please refer to the Table of Contents or the online Instructions to Authors www.springer.com/00266 .


Subject(s)
Asian People , Esthetics , Plastic Surgery Procedures , Surgical Flaps , Humans , Female , Male , Adult , Middle Aged , Plastic Surgery Procedures/methods , Aged , Surgical Flaps/transplantation , Retrospective Studies , Young Adult , Aged, 80 and over , Treatment Outcome , Facial Injuries/surgery , Cohort Studies , Risk Assessment , Graft Survival , Wound Healing/physiology , Cicatrix
12.
Sheng Li Xue Bao ; 76(1): 59-76, 2024 Feb 25.
Article in Zh | MEDLINE | ID: mdl-38444132

ABSTRACT

Intracerebral hemorrhage (ICH) is the most common subtype of stroke with high disability and high mortality rates. Due to the hypertension with arteriosclerosis, hemopathy and cerebrovascular amyloidosis, the influx of blood from ruptured vessels into the brain destroys the cerebral parenchyma and results in dysfunction of central nervous system because of hematoma compression and a series of toxic metabolites. The cerebral parenchyma consists of gray and white matter. The white matter consists of myelinated axons and oligodendrocytes, whereas the gray matter consists of neuronal cell bodies and dendrites. Currently, most of studies have explored the mechanisms of gray matter injury. But researches of white matter injury (WMI) are still in their infancy, which may be partially responsible for the failure of treatments with neuroprotectants targeting degenerating neuronal cells. In recent years, researchers have progressively identified pathophysiological mechanisms of WMI after ICH including mass effect, neuroinflammation and oxidative stress, but information on the molecular mechanisms of WMI and its effective treatment remains limited. In this paper, we will describe the structure and function of white matter, summarize pathology of WMI and focus on the research advances in the molecular mechanisms and therapeutic strategies of WMI after ICH.


Subject(s)
Stroke , White Matter , Humans , Cerebral Hemorrhage/therapy , Brain , Cerebral Cortex
13.
Zhongguo Zhong Yao Za Zhi ; 49(12): 3252-3257, 2024 Jun.
Article in Zh | MEDLINE | ID: mdl-39041086

ABSTRACT

The aim of this paper is to study the malonyl ginsenosides in the fresh roots of Panax ginseng. D101 macroporous adsorption resin, ODS, and preparative HPLC were employed to separate the chemical components from the 70% ethanol extract of the fresh roots of P. ginseng, and the structures of the separated compounds were identified based on the data of high-resolution mass spectrometry and nuclear magnetic resonance spectroscopy. Two malonyl ginsenosides were isolated from the fresh roots of P. ginseng and identified as 3-O-\[6-O-malonyl-ß-D-glucopyranosyl-(1→2)-ß-D-glucopyranosyl\]-20-O-\[ ß-D-xylopyranosyl-(1→4)-α-L-arabinopyranosyl-(1→6)-ß-D-glucopyranosyl\]-dammar-24-ene-3ß,12ß,20S-triol(1) and 3-O-\[6-O-malonyl-ß-D-glucopyranosyl-(1→2)-ß-D-glucopyranosyl\]-20-O-\[ ß-D-xylopyranosyl-(1→2)-α-L-arabinofuranosyl-(1→6)-ß-D-glucopyranosyl\]-dammar-24-ene-3ß,12ß,20S-triol(2), respectively. Compounds 1 and 2 are new compounds isolated from fresh roots of P. ginseng for the first time and named as malonyl ginsenoside-Ra_1 and malonyl ginsenoside-Ra_2, respectively.


Subject(s)
Ginsenosides , Panax , Plant Roots , Panax/chemistry , Ginsenosides/chemistry , Ginsenosides/isolation & purification , Plant Roots/chemistry , Molecular Structure , Magnetic Resonance Spectroscopy , Chromatography, High Pressure Liquid , Drugs, Chinese Herbal/chemistry , Drugs, Chinese Herbal/isolation & purification
14.
Acta Cardiol Sin ; 40(5): 479-543, 2024 Sep.
Article in English | MEDLINE | ID: mdl-39308649

ABSTRACT

Atherosclerotic cardiovascular disease (ASCVD) is one of the leading causes of death worldwide and in Taiwan. It is highly prevalent and has a tremendous impact on global health. Therefore, the Taiwan Society of Cardiology developed these best-evidence preventive guidelines for decision-making in clinical practice involving aspects of primordial prevention including national policies, promotion of health education, primary prevention of clinical risk factors, and management and control of clinical risk factors. These guidelines cover the full spectrum of ASCVD, including chronic coronary syndrome, acute coronary syndrome, cerebrovascular disease, peripheral artery disease, and aortic aneurysm. In order to enhance medical education and health promotion not only for physicians but also for the general public, we propose a slogan (2H2L) for the primary prevention of ASCVD on the basis of the essential role of healthy dietary pattern and lifestyles: "Healthy Diet and Healthy Lifestyles to Help Your Life and Save Your Lives". We also propose an acronym of the modifiable risk factors/enhancers and relevant strategies to facilitate memory: " ABC2D2EFG-I'M2 ACE": Adiposity, Blood pressure, Cholesterol and Cigarette smoking, Diabetes mellitus and Dietary pattern, Exercise, Frailty, Gout/hyperuricemia, Inflammation/infection, Metabolic syndrome and Metabolic dysfunction-associated fatty liver disease, Atmosphere (environment), Chronic kidney disease, and Easy life (sleep well and no stress). Some imaging studies can be risk enhancers. Some risk factors/clinical conditions are deemed to be preventable, and healthy dietary pattern, physical activity, and body weight control remain the cornerstone of the preventive strategy.

15.
BMC Genomics ; 24(1): 765, 2023 Dec 11.
Article in English | MEDLINE | ID: mdl-38082413

ABSTRACT

BACKGROUND: Lysine glutarylation (Kglu) is one of the most important Post-translational modifications (PTMs), which plays significant roles in various cellular functions, including metabolism, mitochondrial processes, and translation. Therefore, accurate identification of the Kglu site is important for elucidating protein molecular function. Due to the time-consuming and expensive limitations of traditional biological experiments, computational-based Kglu site prediction research is gaining more and more attention. RESULTS: In this paper, we proposed GBDT_KgluSite, a novel Kglu site prediction model based on GBDT and appropriate feature combinations, which achieved satisfactory performance. Specifically, seven features including sequence-based features, physicochemical property-based features, structural-based features, and evolutionary-derived features were used to characterize proteins. NearMiss-3 and Elastic Net were applied to address data imbalance and feature redundancy issues, respectively. The experimental results show that GBDT_KgluSite has good robustness and generalization ability, with accuracy and AUC values of 93.73%, and 98.14% on five-fold cross-validation as well as 90.11%, and 96.75% on the independent test dataset, respectively. CONCLUSION: GBDT_KgluSite is an effective computational method for identifying Kglu sites in protein sequences. It has good stability and generalization ability and could be useful for the identification of new Kglu sites in the future. The relevant code and dataset are available at https://github.com/flyinsky6/GBDT_KgluSite .


Subject(s)
Lysine , Proteins , Lysine/metabolism , Proteins/metabolism , Amino Acid Sequence , Protein Processing, Post-Translational , Mitochondria/metabolism , Computational Biology/methods
16.
Apoptosis ; 28(1-2): 233-246, 2023 Feb.
Article in English | MEDLINE | ID: mdl-36333630

ABSTRACT

NRP1 is a transmembrane glycoprotein that is highly expressed in a variety of tumors. There is evidence that NRP1 can enhance the stem cell properties of tumor cells, which are thought to be resistant to radiotherapy. This study aims to elucidate the potential mechanism of NRP1 in radiation resistance. We transfected NRP1 siRNA and plasmid in breast cancer cells to detect the expression of cancer stem cell markers by western blot and qRT-PCR. The effect of NRP1 on radiotherapy resistance was assesses by immunofluorescence and flow cytometry. In vivo, we established xenograft tumor model treating with shRNA-NRP1 to assess radiotherapy sensitivity. We found that NRP1 could enhance the stem cell properties and confer radioresistance of breast cancer cells. Mechanistically, we proved that NRP1 reduced IR-induced apoptosis by downregulation of Bcl-2 via methyltransferase WTAP in m6A-depentent way. It is suggested that these molecules may be the therapeutic targets for improving the efficacy of radiotherapy for breast cancer.


Subject(s)
Breast Neoplasms , Animals , Humans , Female , Breast Neoplasms/pathology , Methylation , Cell Line, Tumor , RNA, Messenger/metabolism , Apoptosis/radiation effects , RNA, Small Interfering/genetics , Disease Models, Animal , RNA Splicing Factors/metabolism , Cell Cycle Proteins/metabolism
17.
Opt Express ; 31(10): 15810-15824, 2023 May 08.
Article in English | MEDLINE | ID: mdl-37157673

ABSTRACT

A fiber grating and a one-dimensional (1D) periodic array of spheres are examples of rotationally symmetric periodic (RSP) waveguides. It is well known that bound states in the continuum (BICs) may exist in lossless dielectric RSP waveguides. Any guided mode in an RSP waveguide is characterized by an azimuthal index m, the frequency ω, and Bloch wavenumber ß. A BIC is a guided mode, but for the same m, ω and ß, cylindrical waves can propagate to or from infinity in the surrounding homogeneous medium. In this paper, we investigate the robustness of nondegenerate BICs in lossless dielectric RSP waveguides. The question is whether a BIC in an RSP waveguide with a reflection symmetry along its axis z, can continue its existence when the waveguide is perturbed by small but arbitrary structural perturbations that preserve the periodicity and the reflection symmetry in z. It is shown that for m = 0 and m ≠ 0, generic BICs with only a single propagating diffraction order are robust and non-robust, respectively, and a non-robust BIC with m ≠ 0 can continue to exist if the perturbation contains one tunable parameter. The theory is established by proving the existence of a BIC in the perturbed structure mathematically, where the perturbation is small but arbitrary, and contains an extra tunable parameter for the case of m ≠ 0. The theory is validated by numerical examples for propagating BICs with m ≠ 0 and ß ≠ 0 in fiber gratings and 1D arrays of circular disks.

18.
FASEB J ; 36(5): e22324, 2022 05.
Article in English | MEDLINE | ID: mdl-35439323

ABSTRACT

Glucose transporter 4 (GLUT4) is a dominant regulator of whole-body glucose homeostasis. Accumulating evidence has shown that circular RNAs (circRNAs) play significant roles in the pathogenesis of disease. The aim of the present study was to identify the circRNA that can be used as a novel biomarker for type 2 diabetes (T2D) through regulating GLUT4. Based on previous microarray analysis comparing T2D cases and healthy controls, hsa_circ_0071336, which was predicted to be a regulator of GLUT4 by acting as a competitive endogenous RNAs (ceRNA) to sponge miR-93-5p, was selected for further validation. The clinical significance of circulating hsa_circ_0071336 was investigated in a large independent cohort. The results showed that circulating hsa_circ_0071336 was significantly downregulated in blood in T2D and had a high diagnostic accuracy for discriminating T2D and impaired fasting glucose (IFG) from healthy controls. Low expression of circ_0071336 was an independent predictor of T2D, IFG and insulin resistance. A luciferase reporter assay and western-blot analysis indicated that miR-93-5p was a direct target of hsa_circ_0071336, and miR-93-5p may negatively regulate the expression of GLUT4. The expression levels of hsa_circ_007136 were negatively related to miR-93-5p expression and positively correlated with the mRNA expression of GLUT4 in adipose tissues. In conclusion, hsa_circRNA_0071336 can be considered as a potential novel and stable biomarker for T2D and its early detection. hsa_circ_0071336 regulates the GLUT4 expression by sponging miR-93-5p and maybe involved in the pathogenesis of T2D. These findings may unveil new targets for the prevention, diagnosis and treatment of T2D.


Subject(s)
Diabetes Mellitus, Type 2 , MicroRNAs , Biomarkers , Diabetes Mellitus, Type 2/genetics , Glucose , Humans , MicroRNAs/genetics , MicroRNAs/metabolism , RNA, Circular/genetics
19.
Neuroendocrinology ; 113(7): 736-755, 2023.
Article in English | MEDLINE | ID: mdl-36630921

ABSTRACT

INTRODUCTION: Type 2 diabetes mellitus (T2DM) patients with depression have a higher risk of complications and mortality than T2DM without depression. However, the exact neuropathophysiological mechanism remains unclear. Consequently, the current study aimed to investigate the alteration of cortical and subcortical spontaneous neural activity in T2DM patients with and without depression. METHODS: The demographic data, clinical variables, neuropsychological tests, and functional and anatomical magnetic resonance imaging of depressed T2DM (n = 47) of non-depressed T2DM (n = 59) and healthy controls (n = 41) were collected and evaluated. The correlation analysis, stepwise multiple linear regression, and receiver operating characteristic curve were performed for further analysis. RESULTS: Abnormal neural activities in the bilateral posterior cingulate cortex (PCC) and hippocampus were observed in depressed and non-depressed T2DM and the right putamen of the depressed T2DM. Interestingly, the subcortical degree centrality (DC) of the right hippocampus and putamen were higher in depressed than non-depressed T2DM. Furthermore, the cortical amplitude of low-frequency fluctuation (ALFF) in PCC, subcortical DC in the putamen of depressed T2DM, and hippocampus of non-depressed T2DM was correlated with cognitive scores. In contrast, the cortical fractional ALFF in PCC of non-depressed T2DM was correlated with depression scores. CONCLUSIONS: The abnormalities of spontaneous cortical activity in PCC and subcortical activity in the hippocampus might represent the neurobiological feature of cerebral dysfunction in T2DM. Notably, the altered subcortical activity in the right putamen might mainly associate with negative emotion in T2DM, which could be a promising biomarker for recognizing early cerebral dysfunction in depressed T2DM. This study provided a novel insight into the neuropathophysiological mechanism of brain dysfunction in T2DM with and without depression.


Subject(s)
Diabetes Mellitus, Type 2 , Humans , Diabetes Mellitus, Type 2/complications , Diabetes Mellitus, Type 2/diagnostic imaging , Depression/diagnostic imaging , Gyrus Cinguli/diagnostic imaging , Hippocampus , Magnetic Resonance Imaging/methods , Brain/pathology
20.
Macromol Rapid Commun ; 44(11): e2200641, 2023 Jun.
Article in English | MEDLINE | ID: mdl-36382386

ABSTRACT

Oily water caused in the process of industry leads to not only the waste of resources, but also environmental pollution. Membrane separation, as a facile and efficient separation technology, has attracted widespread attention in the field of oil/water separation. The development of membrane materials with high separation performance is one of the key elements to improve separation efficiency. In this work, a superhydrophobic membrane composited with a trifluoromethyl-containing covalent organic framework (COF) is prepared, which exhibits excellent performance on separations of oil/water mixtures and water-in-oil emulsions. For different composition of oil/water mixtures, the highest flux of oil is up to 32 000 L m-2  h-1 and oil/water separation efficiency is above 99%. Moreover, the high oil/water separation efficiency remains unchanged after successive cycles. This work provides a feasible scheme for the design of high-efficiency oil/water separation membranes.


Subject(s)
Metal-Organic Frameworks , Membranes , Environmental Pollution , Technology , Hydrophobic and Hydrophilic Interactions
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