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2.
Math Biosci Eng ; 20(2): 1960-1980, 2023 Jan.
Article in English | MEDLINE | ID: mdl-36899517

ABSTRACT

There are huge differences in the layouts and numbers of sensors in different smart home environments. Daily activities performed by residents trigger a variety of sensor event streams. Solving the problem of sensor mapping is an important prerequisite for the transfer of activity features in smart homes. However, it is common practice among most of the existing approaches that only sensor profile information or the ontological relationship between sensor location and furniture attachment are used for sensor mapping. The rough mapping seriously restricts the performance of daily activity recognition. This paper presents a mapping approach based on the optimal search for sensors. To begin with, a source smart home that is similar to the target one is selected. Thereafter, sensors in both source and target smart homes are grouped by sensor profile information. In addition, sensor mapping space is built. Furthermore, a small amount of data collected from the target smart home is used to evaluate each instance in sensor mapping space. In conclusion, Deep Adversarial Transfer Network is employed to perform daily activity recognition among heterogeneous smart homes. Testing is conducted using the public CASAC data set. The results have revealed that the proposed approach achieves a 7-10% improvement in accuracy, 5-11% improvement in precision, and 6-11% improvement in F1 score, compared with the existing methods.

3.
Neuron ; 111(8): 1205-1221.e9, 2023 04 19.
Article in English | MEDLINE | ID: mdl-36822200

ABSTRACT

The C9orf72 hexanucleotide repeat expansion (HRE) is the most frequent genetic cause of the neurodegenerative diseases amyotrophic lateral sclerosis (ALS) and frontotemporal dementia (FTD). Here, we describe the pathogenic cascades that are initiated by the C9orf72 HRE DNA. The HRE DNA binds to its protein partner DAXX and promotes its liquid-liquid phase separation, which is capable of reorganizing genomic structures. An HRE-dependent nuclear accumulation of DAXX drives chromatin remodeling and epigenetic changes such as histone hypermethylation and hypoacetylation in patient cells. While regulating global gene expression, DAXX plays a key role in the suppression of basal and stress-inducible expression of C9orf72 via chromatin remodeling and epigenetic modifications of the promoter of the major C9orf72 transcript. Downregulation of DAXX or rebalancing the epigenetic modifications mitigates the stress-induced sensitivity of C9orf72-patient-derived motor neurons. These studies reveal a C9orf72 HRE DNA-dependent regulatory mechanism for both local and genomic architectural changes in the relevant diseases.


Subject(s)
Amyotrophic Lateral Sclerosis , C9orf72 Protein , Frontotemporal Dementia , Humans , Amyotrophic Lateral Sclerosis/genetics , Amyotrophic Lateral Sclerosis/pathology , C9orf72 Protein/genetics , C9orf72 Protein/metabolism , DNA/genetics , DNA/metabolism , DNA Repeat Expansion/genetics , Epigenesis, Genetic , Frontotemporal Dementia/genetics , Frontotemporal Dementia/pathology , Histones/metabolism
4.
Wei Sheng Yan Jiu ; 50(6): 967-974, 2021 Nov.
Article in Chinese | MEDLINE | ID: mdl-34949325

ABSTRACT

OBJECTIVE: An ultra performance liquid chromatography-hybrid triple quadrupole linear ion trap-mass spectrometry(UPLC-QqLIT-MS) was established for determination of lipophilic marine biotoxins in shellfish. And the 12 lipophilic marine biotoxins in shellfish were surveyed. METHODS: The lipophilic marine biotoxins in homogenized shellfish were ultrasonically extracted by methanol in super-sonic instrument, and cleaned up by solid phase extraction of Strata-X column, and eluted with methanol(containing 0.3% ammonia water). The elution was diluted with water, and cleaned by 0.22 µm millipore filter. The filtrate was separated on a Waters ACQUITY UPLC BEH C_(18) column(150 mm×2.1 mm, 1.7 µm)by gradient elution in 12 minutes with acetronitrile-water(containing 0.01%(V/V) ammonia and 2 mmol/L ammonium formate) as mobile phase, and detected by ultra performance liquid chromatography-tandem mass spectrometry(UPLC-MS/MS), identified by electrospray ionization(ESI) in simultaneous scanning mode of positive and negative ions using multiple reaction monitoring, and quantified with external standards. Information dependent acquisition scan function(IDA) combined with enhanced production scan(EPI) was used to confirm the 12 lipophilic marine biotoxins. RESULTS: The calibration curves of 12 lipophilic marine biotoxins showed good linearity in the range of 0.5-50 µg/L with correlation coefficients were 0.9984-0.9999.The detection limits of the method were 0.15-0.29 µg/kg. The recoveries of three spiking levels ranged from 80.0% to 116.0%, and the relative standard deviation(RSD) were 0.6%-6.4%(n=7). CONCLUSION: The method for determination of 12 lipophilic marine biotoxins in shellfish by UPLC-QqLIT-MS was of operation convenience, less interference from impurities and good accuracy, which could meet the requirements for the determination of 12 lipophilic marine biotoxins residues in sea foods.


Subject(s)
Marine Toxins , Tandem Mass Spectrometry , Chromatography, High Pressure Liquid , Chromatography, Liquid , Seafood , Shellfish/analysis
5.
J Am Chem Soc ; 143(19): 7368-7379, 2021 05 19.
Article in English | MEDLINE | ID: mdl-33855846

ABSTRACT

The expansion of a hexanucleotide repeat GGGGCC (G4C2) in the C9orf72 gene is the most common cause of amyotrophic lateral sclerosis (ALS) and frontotemporal dementia (FTD). The G4C2 expansion leads to repeat-associated non-AUG (RAN) translation and the production of toxic dipeptide repeat (DPR) proteins, but the mechanisms of RAN translation remain enigmatic. Here, we report that the RNA helicase DHX36 is a robust positive regulator of C9orf72 RAN translation. DHX36 has a high affinity for the G4C2 repeat RNA, preferentially binds to the repeat RNA's G-quadruplex conformation, and efficiently unwinds the G4C2 G-quadruplex structures. Native DHX36 interacts with the G4C2 repeat RNA and is essential for effective RAN translation in the cell. In induced pluripotent stem cells and differentiated motor neurons derived from C9orf72-linked ALS patients, reducing DHX36 significantly decreased the levels of endogenous DPR proteins. DHX36 is also aberrantly upregulated in tissues of C9orf72-linked ALS patients. These results indicate that DHX36 facilitates C9orf72 RAN translation by resolving repeat RNA G-quadruplex structures and may be a potential target for therapeutic intervention.


Subject(s)
Amyotrophic Lateral Sclerosis/genetics , DNA Helicases/genetics , RNA/genetics , DNA Repeat Expansion/genetics , G-Quadruplexes , Humans
6.
Cell Metab ; 33(3): 531-546.e9, 2021 03 02.
Article in English | MEDLINE | ID: mdl-33545050

ABSTRACT

The haploinsufficiency of C9orf72 is implicated in the most common forms of amyotrophic lateral sclerosis (ALS) and frontotemporal dementia (FTD), but the full spectrum of C9orf72 functions remains to be established. Here, we report that C9orf72 is a mitochondrial inner-membrane-associated protein regulating cellular energy homeostasis via its critical role in the control of oxidative phosphorylation (OXPHOS). The translocation of C9orf72 from the cytosol to the inter-membrane space is mediated by the redox-sensitive AIFM1/CHCHD4 pathway. In mitochondria, C9orf72 specifically stabilizes translocase of inner mitochondrial membrane domain containing 1 (TIMMDC1), a crucial factor for the assembly of OXPHOS complex I. C9orf72 directly recruits the prohibitin complex to inhibit the m-AAA protease-dependent degradation of TIMMDC1. The mitochondrial complex I function is impaired in C9orf72-linked ALS/FTD patient-derived neurons. These results reveal a previously unknown function of C9orf72 in mitochondria and suggest that defective energy metabolism may underlie the pathogenesis of relevant diseases.


Subject(s)
C9orf72 Protein/metabolism , Electron Transport Complex I/metabolism , Energy Metabolism/physiology , ATP-Dependent Proteases/metabolism , ATPases Associated with Diverse Cellular Activities/metabolism , Animals , Apoptosis Inducing Factor/antagonists & inhibitors , Apoptosis Inducing Factor/genetics , Apoptosis Inducing Factor/metabolism , C9orf72 Protein/antagonists & inhibitors , C9orf72 Protein/genetics , Cell Line , Cell Survival , Electron Transport Complex I/chemistry , Humans , Mice , Mice, Inbred C57BL , Mice, Knockout , Mitochondria/metabolism , Mitochondrial Precursor Protein Import Complex Proteins/antagonists & inhibitors , Mitochondrial Precursor Protein Import Complex Proteins/genetics , Mitochondrial Precursor Protein Import Complex Proteins/metabolism , Neurodegenerative Diseases/metabolism , Neurodegenerative Diseases/pathology , Oxidative Phosphorylation , RNA Interference , RNA, Small Interfering/metabolism
7.
Nucleic Acids Res ; 48(13): 7421-7438, 2020 07 27.
Article in English | MEDLINE | ID: mdl-32496517

ABSTRACT

The long non-coding RNA NEAT1 serves as a scaffold for the assembly of paraspeckles, membraneless nuclear organelles involved in gene regulation. Paraspeckle assembly requires NEAT1 recruitment of the RNA-binding protein NONO, however the NEAT1 elements responsible for recruitment are unknown. Herein we present evidence that previously unrecognized structural features of NEAT1 serve an important role in these interactions. Led by the initial observation that NONO preferentially binds the G-quadruplex conformation of G-rich C9orf72 repeat RNA, we find that G-quadruplex motifs are abundant and conserved features of NEAT1. Furthermore, we determine that NONO binds NEAT1 G-quadruplexes with structural specificity and provide evidence that G-quadruplex motifs mediate NONO-NEAT1 association, with NONO binding sites on NEAT1 corresponding largely to G-quadruplex motifs, and treatment with a G-quadruplex-disrupting small molecule causing dissociation of native NONO-NEAT1 complexes. Together, these findings position G-quadruplexes as a primary candidate for the NONO-recruiting elements of NEAT1 and provide a framework for further investigation into the role of G-quadruplexes in paraspeckle formation and function.


Subject(s)
DNA-Binding Proteins/metabolism , G-Quadruplexes , RNA, Long Noncoding/metabolism , RNA-Binding Proteins/metabolism , Animals , Binding Sites , Conserved Sequence , DNA-Binding Proteins/chemistry , HEK293 Cells , Humans , Mice , Protein Binding , RNA, Long Noncoding/chemistry , RNA-Binding Proteins/chemistry
8.
Genes Dev ; 32(21-22): 1380-1397, 2018 11 01.
Article in English | MEDLINE | ID: mdl-30366907

ABSTRACT

Cells undergo metabolic adaptation during environmental changes by using evolutionarily conserved stress response programs. This metabolic homeostasis is exquisitely regulated, and its imbalance could underlie human pathological conditions. We report here that C9orf72, which is linked to the most common forms of the neurodegenerative diseases amyotrophic lateral sclerosis (ALS) and frontotemporal dementia (FTD), is a key regulator of lipid metabolism under stress. Loss of C9orf72 leads to an overactivation of starvation-induced lipid metabolism that is mediated by dysregulated autophagic digestion of lipids and increased de novo fatty acid synthesis. C9orf72 acts by promoting the lysosomal degradation of coactivator-associated arginine methyltransferase 1 (CARM1), which in turn regulates autophagy-lysosomal functions and lipid metabolism. In ALS/FTD patient-derived neurons or tissues, a reduction in C9orf72 function is associated with dysregulation in the levels of CARM1, fatty acids, and NADPH oxidase NOX2. These results reveal a C9orf72-CARM1 axis in the control of stress-induced lipid metabolism and implicates epigenetic dysregulation in relevant human diseases.


Subject(s)
C9orf72 Protein/physiology , Glucose/physiology , Lipid Metabolism , Protein-Arginine N-Methyltransferases/metabolism , Stress, Physiological , Amyotrophic Lateral Sclerosis/genetics , Amyotrophic Lateral Sclerosis/metabolism , Animals , C9orf72 Protein/genetics , C9orf72 Protein/metabolism , Cells, Cultured , Fatty Acids/metabolism , Frontotemporal Dementia/genetics , Frontotemporal Dementia/metabolism , HEK293 Cells , Humans , Lysosomes/metabolism , Mice , Protein-Arginine N-Methyltransferases/physiology
9.
Nucleic Acids Res ; 46(14): 7418-7424, 2018 08 21.
Article in English | MEDLINE | ID: mdl-29982790

ABSTRACT

DNA supercoiling is an important regulator of gene activity. The transmission of transcription-generated supercoiling wave along a DNA helix provides a way for a gene being transcribed to communicate with and regulate its neighboring genes. Currently, the dynamic behavior of supercoiling transmission remains unclear owing to the lack of a suitable tool for detecting the dynamics of supercoiling transmission. In this work, we established a torsion sensor that quantitatively monitors supercoiling transmission in real time in DNA. Using this sensor, we studied the transmission of transcriptionally generated negative supercoiling in linear and multi-way DNA duplexes. We found that transcription-generated dynamic supercoiling not only transmits along linear DNA duplex but also equally diverges at and proceeds through multi-way DNA junctions. We also show that such a process is regulated by DNA-protein interactions and non-canonical DNA structures in the path of supercoiling transmission. These results imply a transcription-coupled mechanism of dynamic supercoiling-mediated intra- and inter-chromosomal signal transduction pathway and their regulation in DNA.


Subject(s)
DNA, Superhelical/chemistry , DNA/chemistry , G-Quadruplexes , Transcription, Genetic , Base Sequence , Biosensing Techniques , DNA/genetics , DNA/metabolism , DNA, Superhelical/genetics , DNA, Superhelical/metabolism , Kinetics , Models, Genetic , Promoter Regions, Genetic/genetics , Protein Binding , Spectrometry, Fluorescence/methods
10.
Mol Cell ; 69(5): 787-801.e8, 2018 03 01.
Article in English | MEDLINE | ID: mdl-29499134

ABSTRACT

MicroRNA-mediated gene silencing is a fundamental mechanism in the regulation of gene expression. It remains unclear how the efficiency of RNA silencing could be influenced by RNA-binding proteins associated with the microRNA-induced silencing complex (miRISC). Here we report that fused in sarcoma (FUS), an RNA-binding protein linked to neurodegenerative diseases including amyotrophic lateral sclerosis (ALS), interacts with the core miRISC component AGO2 and is required for optimal microRNA-mediated gene silencing. FUS promotes gene silencing by binding to microRNA and mRNA targets, as illustrated by its action on miR-200c and its target ZEB1. A truncated mutant form of FUS that leads its carriers to an aggressive form of ALS, R495X, impairs microRNA-mediated gene silencing. The C. elegans homolog fust-1 also shares a conserved role in regulating the microRNA pathway. Collectively, our results suggest a role for FUS in regulating the activity of microRNA-mediated silencing.


Subject(s)
Caenorhabditis elegans Proteins/metabolism , Caenorhabditis elegans/metabolism , Gene Silencing , MicroRNAs/metabolism , RNA, Helminth/metabolism , RNA-Binding Protein FUS/metabolism , Amyotrophic Lateral Sclerosis/genetics , Amyotrophic Lateral Sclerosis/metabolism , Amyotrophic Lateral Sclerosis/pathology , Animals , Caenorhabditis elegans/genetics , Caenorhabditis elegans Proteins/genetics , HEK293 Cells , Humans , Mice , MicroRNAs/genetics , RNA, Helminth/genetics , RNA-Binding Protein FUS/genetics
11.
ACS Chem Biol ; 12(10): 2609-2618, 2017 10 20.
Article in English | MEDLINE | ID: mdl-28846373

ABSTRACT

Transcription induces formation of intramolecular G-quadruplex structures at the upstream region of a DNA duplex by an upward transmission of negative supercoiling through the DNA. Currently the regulation of such G-quadruplex formation remains unclear. Using plasmid as a model, we demonstrate that while it is the dynamic negative supercoiling generated by a moving RNA polymerase that triggers a formation of a G-quadruplex, the constitutional superhelicity determines the potential and range of the formation of a G-quadruplex by constraining the propagation of the negative supercoiling. G-quadruplex formation is maximal in negatively supercoiled and nearly abolished in relaxed plasmids while being moderate in nicked and linear ones. The formation of a G-quadruplex strongly correlates with the presence of an R-loop. Preventing R-loop formation virtually abolished G-quadruplex formation even in the negatively supercoiled plasmid. Enzymatic action and protein binding that manipulate supercoiling or its propagation all impact the formation of G-quadruplexes. Because chromosomes and plasmids in cells in their natural form are maintained in a supercoiled state, our findings reveal a physical basis that justifies the formation and regulation of G-quadruplexes in vivo. The structural features involved in G-quadruplex formation may all serve as potential targets in clinical and therapeutic applications.


Subject(s)
DNA/chemistry , G-Quadruplexes , Transcription, Genetic , DNA/genetics , DNA-Directed RNA Polymerases , Escherichia coli , Nucleic Acid Denaturation , Plasmids , Viral Proteins
12.
Toxicol Lett ; 255: 36-42, 2016 Jul 25.
Article in English | MEDLINE | ID: mdl-27208482

ABSTRACT

OBJECTIVES: To evaluate how exposure to deep-frying oils, repeated frying oil (RFO) and restaurant waste oil (RWO) affects emission of polycyclic aromatic hydrocarbons (PAHs) and oxidative stress in male restaurant workers. METHODS: The study participants included 236 male restaurant workers in 12 restaurants in Shenzhen. Airborne particulate PAHs were measured over 12h on each of two consecutive work days. Urinary 1-hydroxypyrene (1-OHP) measurements were used to indicate cooking oil fumes (COF) exposure, and urinary malondialdehyde (MDA) and 8-hydroxy-2'-deoxyguanosine (8-OHdG) were adopted as oxidative stress markers. RESULTS: The production and emission rates of ultrafine particles (UFPs) and PM2.5 were higher in the exposed groups than in the control group. The concentrations of summed PAHs were in the order of RFO-frying group>RWO-frying group>deep-frying group>unexposed control group. Urinary 1-OHP was found to be a significant predictor of elevated urinary MDA and 8-OHdG concentrations (all, P<0.05). UFPs were a significant predictor of elevated urinary 8-OHdG for restaurant workers (P<0.05). The RFO- and RWO-frying groups had higher mean urinary concentrations of 1-OHP, MDA and 8-OHdG than the control group (P<0.05). RFO exposure was found to be a significant risk factor for elevated urinary 8-OHdG and RWO exposure was found to be a significant risk factor for elevated urinary MDA (both, P<0.001). CONCLUSIONS: Concentrations of urinary 1-OHP, MDA and 8-OHdG reflect occupational exposure to PAHs from COFs and oxidative stress in restaurants workers. Exposure to RFO may cause increased oxidative DNA damage, and exposure to RWO might cause increased lipid peroxidation.


Subject(s)
Air Pollutants, Occupational/urine , Cooking , Environmental Monitoring/methods , Occupational Health , Oils/metabolism , Oxidative Stress/drug effects , Particulate Matter/urine , Restaurants , 8-Hydroxy-2'-Deoxyguanosine , Adult , Air Pollutants, Occupational/adverse effects , Biomarkers/urine , China , DNA Damage , Deoxyguanosine/analogs & derivatives , Deoxyguanosine/urine , Humans , Lipid Peroxidation/drug effects , Male , Malondialdehyde/urine , Oils/adverse effects , Particle Size , Particulate Matter/adverse effects , Predictive Value of Tests , Pyrenes/urine , Risk Assessment , Urinalysis , Young Adult
13.
Wei Sheng Yan Jiu ; 45(1): 56-60, 2016 Jan.
Article in Chinese | MEDLINE | ID: mdl-26987197

ABSTRACT

OBJECTIVE: An ultra-performance liquid chromatography-tandem mass spectrometric method was established for determination of 3-nitropropionic acid of sugarcane, sugarcane bagasse, vomit, serum and urine. METHODS: The 3-nitropropionic acid in poisoning samples was extracted by acetonitrile in super-sonic instrument. The supernatant was cleaned up with PSA column and eluted with 10% ammonia water-methanol (10: 90, V/V), then the purified solution was concentrated by nitrogen, dissolved with water (containing 0.4% formic acid) and cleaned by 0.22 µm millipore filter. The filtrate was detected by ultra-performance liquid chromatography-tandem mass spectrometry, identified by electrospray ionization (ESI) in negative mode using multiple reaction monitoring, and quantified with external standards of sample matrix matching. The sample extract was separated on an acquity BEH C18 column (2.1 mm x 150 mm x 1.7 µm) by gradient elution in 10 minutes with acetronitrile-water as mobile phase. RESULTS: The calibration curves of 3-nitropropionic acid residues showed good linearity in the range of 1.0 - 50 µg/kg with correlation coefficient of 0.9993 or 0.9998. The detection limits of the method were from 0.06 µg/kg to 0.30 µg/kg, and limits of quantitation ranged from 0.20 µg/kg to 1.0 µg/kg. The recoveries of three spiking levels (1.0, 10.0 and 100.0 µg/kg) ranged from 86.9% to 102.0%, and the relative standard deviations of 1.80%- 4.19% were obtained. CONCLUSION: The method for determination of 3-nitropropionic acid in poisoning samples by UPLC-MS/MS is of operation convenience, less interference from impurities and good accuracy, which could provide evidence and treatment for mouldy sugarcane poisoning.


Subject(s)
Chromatography, High Pressure Liquid , Nitro Compounds/analysis , Propionates/analysis , Tandem Mass Spectrometry , Chromatography, Liquid , Humans , Nitro Compounds/poisoning , Propionates/poisoning
14.
Anal Bioanal Chem ; 408(10): 2621-9, 2016 Apr.
Article in English | MEDLINE | ID: mdl-26873198

ABSTRACT

A simple and fast method was developed for the simultaneous determination of five parabens, bisphenol A (BPA), triclosan (TCS), and 8-hydroxy-2'-deoxyguanosine (8-OHdG) in human urine using liquid chromatography coupled with electrospray ionization tandem mass spectrometry (LC-ESI-MS/MS). The solid-phase extraction (SPE) procedure, chromatographic conditions, and MS/MS parameters were optimized to achieve maximum sensitivity and accuracy for the analytes. The validation results showed that the correlation coefficients (R (2)) and recoveries ranged from 0.999 to 1 and 83.9 to 109.9 %, respectively, and the intra-day and inter-day precisions (relative standard deviation, RSD) were within the range of 1.3-8.5 % and 1.3-9.0 %, respectively. The limits of detection for the analytes ranged from 0.001 to 0.05 µg/L. The method was successfully employed to determine parabens, BPA, TCS, and 8-OHdG in urine samples from school students in Guangzhou, China. The results showed that methyl, ethyl, n-propyl parabens, BPA, TCS, and 8-OHdG were frequently detected in urine samples. n-Butyl and benzyl parabens were only detected in a part of the samples due to their low concentrations in urine.


Subject(s)
Benzhydryl Compounds/urine , Chromatography, Liquid/methods , Deoxyguanosine/analogs & derivatives , Parabens/analysis , Phenols/urine , Spectrometry, Mass, Electrospray Ionization/methods , Tandem Mass Spectrometry/methods , 8-Hydroxy-2'-Deoxyguanosine , Deoxyguanosine/urine , Humans , Limit of Detection
15.
Chem Sci ; 7(7): 4573-4581, 2016 Jul 01.
Article in English | MEDLINE | ID: mdl-30155104

ABSTRACT

G-quadruplexes are implicated in many essential cellular processes and sequences with potential to form a G-quadruplex are widely present in DNA and RNA. However, it is difficult to know whether a sequence of interest naturally forms a G-quadruplex in living cells. Here we report the detection of a G-quadruplex in defined RNA sequences in living cells in a natural intracellular environment. A G-quadruplex forming sequence in a RNA transcript is tagged at proximity with an aptamer. The two structures are recognized respectively by two probe proteins each of which is fused with a split half of enhanced green fluorescent protein (eGFP). Simultaneous binding of the two proteins to RNA brings the two halves of eGFP into proximity, permitting them to reconstitute into a functional eGFP that emits fluorescence to signal the formation of a G-quadruplex in RNA. We show that a G-quadruplex can form in RNA and can be detected with sequence and structure specificity under both in vitro and in vivo conditions. The results, therefore, provide direct evidence for the formation of RNA G-quadruplexes in live cells and the method provides a useful tool to validate G-quadruplex formation in a specific sequence under a natural cellular condition.

16.
Proc Natl Acad Sci U S A ; 112(47): 14581-6, 2015 Nov 24.
Article in English | MEDLINE | ID: mdl-26553979

ABSTRACT

G-quadruplex structures formed by guanine-rich nucleic acids are implicated in essential physiological and pathological processes and nanodevices. G-quadruplexes are normally composed of four Gn (n ≥ 3) tracts assembled into a core of multiple stacked G-quartet layers. By dimethyl sulfate footprinting, circular dichroism spectroscopy, thermal melting, and photo-cross-linking, here we describe a unique type of intramolecular G-quadruplex that forms with one G2 and three G3 tracts and bears a guanine vacancy (G-vacancy) in one of the G-quartet layers. The G-vacancy can be filled up by a guanine base from GTP or GMP to complete an intact G-quartet by Hoogsteen hydrogen bonding, resulting in significant G-quadruplex stabilization that can effectively alter DNA replication in vitro at physiological concentration of GTP and Mg(2+). A bioinformatic survey shows motifs of such G-quadruplexes are evolutionally selected in genes with unique distribution pattern in both eukaryotic and prokaryotic organisms, implying such G-vacancy-bearing G-quadruplexes are present and play a role in gene regulation. Because guanine derivatives are natural metabolites in cells, the formation of such G-quadruplexes and guanine fill-in (G-fill-in) may grant an environment-responsive regulation in cellular processes. Our findings thus not only expand the sequence definition of G-quadruplex formation, but more importantly, reveal a structural and functional property not seen in the standard canonical G-quadruplexes.


Subject(s)
G-Quadruplexes , Guanine/analogs & derivatives , Guanine/chemistry , Circular Dichroism , DNA/chemistry , DNA Replication
17.
Wei Sheng Yan Jiu ; 44(4): 641-6, 2015 Jul.
Article in Chinese | MEDLINE | ID: mdl-26454965

ABSTRACT

OBJECTIVE: A high performance liquid chromatography-tandem mass spectrometric method was established for determination of 7 penicilins (cloxacillin, nafcillin, oxacillin, penicillin V, amoxicillin, penicillin G, ampicillin) and their penicilloic acids (cloxacilloic acid, nafcilloic acid, oxacilloic acid, penicilloic acid V, amoxicilloic acid, penicilloic acid G and ampicilloic acid) in milk products. And the 7 penicilins and penicilloic acids in milk products were surveyed. METHODS: The 7 penicilins and penicilloic acids in milk products were extracted by water in super-sonic instrument , precipitated proteins by acetonitrile and degreased fat by n-hexane with liquid-liquid extraction, then the purified solution was concentrated by nitrogen, dissolved with acetonitrile-water (10 + 90, V/V) and cleaned by 0.22 µm millipore filter. The filtrate was detected by high performance liquid chromatography-tandem mass spectrometry, identified by electrospray ionization (ESI) in positive mode using multiple reaction monitoring, and quantified with external standards. RESULTS: The calibration curves of 7 penicilins and penicilloic acids showed good linearity in the range of 1.0-200 µg/kg with correlation coefficients were above 0.9992. The detection limits of the method were from 0.03 µg/kg to 0.15 µg/kg. The recoveries of three spiking levels ranged from 80.0% to 110.0%, and RSDs of 7.06% or less were obtained. CONCLUSION: The method for determination of 7 penicilins and penicilloic acids in milk products by HPLC-MS/MS was of operation convenience, less interference from impurities and good accuracy, which could meet the requirements for the determination of 7 penicilins and penicilloic acids residues in milk products.


Subject(s)
Chromatography, High Pressure Liquid/methods , Milk/chemistry , Penicillanic Acid/analogs & derivatives , Penicillins/analysis , Tandem Mass Spectrometry/methods , Animals , Dairy Products , Drug Residues/analysis , Hexanes , Penicillanic Acid/analysis , Penicillin G
18.
Wei Sheng Yan Jiu ; 43(5): 809-13, 2014 Sep.
Article in Chinese | MEDLINE | ID: mdl-25438540

ABSTRACT

OBJECTIVE: A method for the determination of ac, 3 and γ-hexabromocyclododecanes (HBCDs) in human breast milk was developed by HPLC-MS/MS. METHODS: 3 -5 g human breast milk powder was spiked with '3C-HBCDs and then been extracted using Soxhlet extraction. The extract was dried and dissolved in 6ml of cyclohexane/ethyl acetate (1:1 ), then purified by gel permeation chromatography (GPC). The effluent was concentrated with rotary evaporation and then re-dissolved in hexane. 2ml of sulphuric acid was added to remove the fat for further clean-up. After drying under nitrogen, the supernatant was dissolved in 100 µl of methanol and finally determined by HPLC-MS/MS. RESULTS: The linear range for the three diastereoisomers of HBCDs was in 1 - 50 µg/L, with correlation coefficients ranging from 0. 9997 to 0.998. The detection limits of the three diastereoisomers ranged from 0. 12 to 0. 22 µg/L. The recoveries for three spiking levels ranged from 82. 80% to 110. 60% . The intra-day and inter-day relative standard deviations (RSD) were all less than 9. 4%. CONCLUSION: The developed method was simple, convenient and sensitive. It was suitable for the determination of or, P3 and y-HBCDs in breast milk and other matrix in the future.


Subject(s)
Chromatography, High Pressure Liquid/methods , Food Analysis/methods , Milk, Human/chemistry , Tandem Mass Spectrometry/methods , Animals , Female , Humans , Hydrocarbons, Brominated
19.
Wei Sheng Yan Jiu ; 43(4): 614-9, 2014 Jul.
Article in Chinese | MEDLINE | ID: mdl-25199291

ABSTRACT

OBJECTIVE: To evaluate the efficiency of capsaicinoids to discriminate bio-waste oil from edible vegetable oil. METHODS: 14 raw vegetable oils, 24 fried waste oils, 34 kitchen-waste oils, 32 edible non-peanut vegetable oil, 32 edible peanuts oil, 16 edible oil add flavorand and 11 refined bio-waste oils were prepared and examined for capsaicinoids including capsaicin, dihydrocapsaicin and nonylic acid vanillylamide. The detection results of the above samples were statistically tested based on sample category to assessment identify the effectiveness of the bio-waste oils with capsaicinoids. RESULTS: As a indicator, capsaincin was possessed of high detection sensitivity and has the highest efficiency to discern kitchen-waste oils and refined bio-waste oils samples from edible non-peanut vegetable oil correctly. The accuracy rate of identification were 100% and 90.1% respectively. There is the background in peanut oil. CONCLUSION Capsaicin added in cooking process can be retained in the refining process and hardly be removed in the refining process. In the case of fully eliminating the background interference, capsaicinoids can effectively identify bio-waste oils and edible vegetable oil in combination.


Subject(s)
Capsaicin/analysis , Oils , Plant Oils/chemistry , Capsaicin/analogs & derivatives , Cooking , Food , Peanut Oil , Solid Waste , Vegetables
20.
Wei Sheng Yan Jiu ; 43(6): 978-81, 997, 2014 Nov.
Article in Chinese | MEDLINE | ID: mdl-25603610

ABSTRACT

OBJECTIVE: To establish a sensitive method for the analysis of dicyanodiamide and melamine residue in milk and milk products by, hydrophilic interaction liquid chromatography coupled with electrospray tandem mass spectrometry. METHODS: Samples were extracted with 2.5% (V/V) formic acid solution. Acetonitrile was used to precipitate proteins. The separation was carried on Acquity UPLC BEH Amide column (100 mm x 2.1 mm x 1.7 mm) by gradient elution with acetonitrile - water as mobile phase. Identification was achieved by electrospray ionization (ESI) in positive mode using multiple reaction monitoring, and quantified with external standards. RESULTS: The dicyanodiamide and melamine were linear in the range of 5.0 - 1000.0 µg/L with correlation coefficient of 0.9995 for dicyanodiamide and 0.9997 for melamine. The detection limit of the method were 10.0 µg/kg for dicyanodiamide and melamine. The spiked at three levels ranged 86.0% - 100.0% (0.050 mg/kg), 90.0% - 104.0% (1.0 mg/kg) and 90.0% - 100.1% (10.0 mg/kg). And the relative standard derivations were lower than 1.06% -7.77%. The within-day precisions were 2.35% (dicyanodiamide) and 3.44% (melamine), and the inter-day precision 3.87% (dicyanodiamide) and 5.39% (melamine). CONCLUSION: The method was sensitive, accurate and precise. It can be used in monitoring quality of milk production and daily analysis of milk and milk products.


Subject(s)
Chromatography, High Pressure Liquid/methods , Dairy Products/analysis , Guanidines/chemistry , Milk/chemistry , Spectrometry, Mass, Electrospray Ionization/methods , Tandem Mass Spectrometry/methods , Triazines/chemistry , Animals , Food Analysis/methods , Food Contamination/analysis , Guanidines/analysis , Hydrophobic and Hydrophilic Interactions , Limit of Detection , Milk/standards , Reference Standards , Triazines/analysis
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