Tang S

References (31)

Title : Neuroprotective effects of cordycepin inhibit glutamate-induced apoptosis in hippocampal neurons - Sun_2024_Cell.Stress.Chaperones__
Author(s) : Sun H , Wei S , Gong Y , Ding K , Tang S , Sun W , Yuan C , Huang L , Liu Z , Chen C , Yao L
Ref : Cell Stress Chaperones , : , 2024
Abstract : Glutamate is a neurotransmitter that can cause excitatory neurotoxicity when its extracellular concentration is too high, leading to disrupted calcium balance and increased production of reactive oxygen species (ROS). Cordycepin, a nucleoside adenosine derivative, has been shown to protect against excitatory neurotoxicity induced by glutamate. To investigate its potential neuroprotective effects, the present study employed fluorescence detection and spectrophotometry techniques to analyze primary hippocampal-cultured neurons. The results showed that glutamate toxicity reduced hippocampal neuron viability, increased ROS production, and increased intracellular calcium levels. Additionally, glutamate-induced cytotoxicity activated acetylcholinesterase (AChE) and decreased glutathione (GSH) levels. However, cordycepin inhibited glutamate-induced cell death, improved cell viability, reduced ROS production, and lowered Ca(2+) levels. It also inhibited AChE activation and increased GSH levels. This study suggests that cordycepin can protect against glutamate-induced neuronal injury in cell models, and this effect was inhibited by adenosine A(1) receptor blockers, indicating that its neuroprotective effect is achieved through activation of the adenosine A(1) receptor.
ESTHER : Sun_2024_Cell.Stress.Chaperones__
PubMedSearch : Sun_2024_Cell.Stress.Chaperones__
PubMedID: 38219840

Title : Customized fluorescent probe for peering into the expression of butyrylcholinesterase in thyroid cancer - Kang_2023_Anal.Chim.Acta_1282_341932
Author(s) : Kang W , Ma M , Xu L , Tang S , Li J , Ma P , Song D , Sun Y
Ref : Anal Chim Acta , 1282 :341932 , 2023
Abstract : BACKGROUND: Thyroid cancer has been increasingly prevalent in recent years. The main diagnostic methods for thyroid are B-ultrasound scan, serum detection and puncture detection. However, these methods are invasive and complex. It is a pressing need to develop non-invasive or minimally invasive methods for thyroid cancer diagnosis. Fluorescence method as a non-invasive detection method has attracted much attention. Butyrylcholinesterase (BChE) is a common enzyme in the human body, and many diseases affect its reduction. We found that BChE is also a marker for thyroid cancer. Therefore, it is of certain clinical value to explore the expression of BChE in thyroid cancer cells through a customized fluorescent probe to provide valuable experimental data and clues for studying the expression of thyroid cancer marker to reflect thyroid status. RESULTS: In this study, we customized a fluorescent probe named Kang-BChE, which is easy to synthesize with a high yield. The experimental results show that the probe Kang-BChE can detect BChE in the linear range of 0-900 U L(-1) (R(2) = 0.9963), and the detection limit is as low as 3.93 U L(-1) (lambda(ex/em) = 550/689 nm). In addition, Kang-BChE probes have low cytotoxicity, good specificity, and can completely eliminate interference from acetylcholinesterase (AChE). Kang-BChE showed excellent stability in the detection of complex biological samples in serum recovery experiments (95.64-103.12 %). This study was the first time using Kang-BChE to study the low expression of BChE in thyroid cancer cells (Tpc-1 cells). In addition, we observed that H(2)O(2) concentration in Tpc-1 cells was positively correlated with BChE activity. SIGNIFICANCE: Kang-BChE is expected to be an important tool for monitoring the change of BChE content in complex biological environments due to its excellent performance. Kang-BChE can also be used to explore the influence of molecules in more organisms on the change of BChE content due to its excellent anti-interference ability. We expect that Kang-BChE can play a significant role in the clinical diagnosis and treatment of thyroid cancer.
ESTHER : Kang_2023_Anal.Chim.Acta_1282_341932
PubMedSearch : Kang_2023_Anal.Chim.Acta_1282_341932
PubMedID: 37923409

Title : Chemical synthesis of a 28 kDa full-length PET degrading enzyme ICCG by the removable backbone modification strategy - Gao_2023_Bioorg.Chem_143_107047
Author(s) : Gao YP , Sun PF , Guo WC , Zhou YK , Zheng JS , Tang S
Ref : Bioorg Chem , 143 :107047 , 2023
Abstract : Chemical protein synthesis offers a powerful way to access otherwise-difficult-to-obtain proteins such as mirror-image proteins. Although a large number of proteins have been chemically synthesized to date, the acquisition to proteins containing hydrophobic peptide fragments has proven challenging. Here, we describe an approach that combines the removable backbone modification strategy and the peptide hydrazide-based native chemical ligation for the chemical synthesis of a 28 kDa full-length PET degrading enzyme IGGC (a higher depolymerization efficiency of variant leaf-branch compost cutinase (LCC)) containing hydrophobic peptide segments. The synthetic ICCG exhibits the enzymatic activity and will be useful in establishing the corresponding mirror-image version of ICCG.
ESTHER : Gao_2023_Bioorg.Chem_143_107047
PubMedSearch : Gao_2023_Bioorg.Chem_143_107047
PubMedID: 38154387
Gene_locus related to this paper: 9bact-g9by57

Title : A novel thermostable and salt-tolerant carboxylesterase involved in the initial aerobic degradation pathway for pyrethroids in Glycomyces salinus - Liu_2023_J.Hazard.Mater_451_131128
Author(s) : Liu Y , Tang S , Wang X , Tang X , Wu Q , Huang Z , Ding J
Ref : J Hazard Mater , 451 :131128 , 2023
Abstract : The long-term and excessive use of pyrethroid pesticides poses substantial health risks and ecosystem concerns. Several bacteria and fungi have been reported that could degrade pyrethroids. The ester-bond hydrolysis using hydrolases is the initial regulatory metabolic reaction of pyrethroids. However, the thoroughly biochemical characterization of hydrolases involved in this process is limited. Here, a novel carboxylesterase, designated as EstGS1 that could hydrolyze pyrethroid pesticides was characterized. EstGS1 showed low sequence identity (<27.03%) compared to other reported pyrethroid hydrolases and belonged to the hydroxynitrile lyase family that preferred short short-chain acyl esters (C2 to C8). EstGS1 displayed the maximal activity of 213.38 U/mg at 60 degreesC and pH 8.5 using pNPC2 as substrate, with K(m) and V(max) were 2.21 +/- 0.72 mM and 212.90 +/- 41.78 microM/min, respectively. EstGS1 is a halotolerant esterase and remains stable in 5.1 M NaCl. Based on molecular docking and mutational analysis, the catalytic triad of S(74)-D(181)-H(212) and three other substrate-binding residues I(108), S(159), and G(75) are critical for the enzymatic activity of EstGS1. Additionally, 61 and 40 mg/L of deltamethrin and lambda-cyhalothrin were hydrolyzed by 20 U of EstGS1 in 4 h. This work presents the first report on a pyrethroid pesticide hydrolase characterized from a halophilic actinobacteria.
ESTHER : Liu_2023_J.Hazard.Mater_451_131128
PubMedSearch : Liu_2023_J.Hazard.Mater_451_131128
PubMedID: 36893599
Gene_locus related to this paper: 9actn-EstGS1

Title : The dipeptidyl peptidase-4 inhibitor linagliptin ameliorates LPS-induced acute lung injury by maintenance of pulmonary microvascular barrier via activating the Epac1\/AKT pathway - Zhang_2022_Biomed.Pharmacother_155_113704
Author(s) : Zhang N , Tang S , Zhang J , Pei B , Pang T , Sun G
Ref : Biomed Pharmacother , 155 :113704 , 2022
Abstract : Pulmonary microvascular endothelial cells (PMVECs) barrier dysfunction is a main pathophysiological feature of sepsis-related acute lung injury (ALI). This study aimed to investigate whether the dipeptidyl peptidase (DPP)-4 inhibitor linagliptin could protect against LPS-induced PMVECs barrier disruption and its underlying molecular mechanisms. A classical ALI animal model and LPS-treated PMVECs were applied and all were treated with or without linagliptin. Cellular experiments demonstrated that linagliptin could mitigate LPS-induced PMVECs hyperpermeability and intercellular junction (VE-cadherin, beta-catenin, and ZO-1) disruption in a dose-dependent manner. Correspondingly, it was observed that linagliptin pretreatment distinctly relieved LPS-induced lung injury, oxidative stress, and pulmonary edema in vivo. Furthermore, we found that the inhibition of oxidative stress by linagliptin may be achieved by reversing impaired mitochondrial function. Mechanistically, linagliptin administration promoted the activation of the Epac1 pathway and its downstream AKT pathway, while inhibition of the Epac1/Akt signaling pathway significantly alleviated the above-mentioned protective effect of linagliptin on the PMVECs barrier. Taken together, these data suggest that linagliptin can effectively reserve PMVECs barrier dysfunction and inhibit oxidative stress to protect against ALI via activating the Epac1/AKT signaling pathway, and thus may become a potential clinical therapeutic strategy for ALI.
ESTHER : Zhang_2022_Biomed.Pharmacother_155_113704
PubMedSearch : Zhang_2022_Biomed.Pharmacother_155_113704
PubMedID: 36115114

Title : Discovery and Genetic Code Expansion of a Polyethylene Terephthalate (PET) Hydrolase from the Human Saliva Metagenome for the Degradation and Bio-Functionalization of PET - Eiamthong_2022_Angew.Chem.Int.Ed.Engl_15_e202203061
Author(s) : Eiamthong B , Meesawat P , Wongsatit T , Jitdee J , Sangsri R , Patchsung M , Aphicho K , Suraritdechachai S , Huguenin-Dezot N , Tang S , Suginta W , Paosawatyanyong B , Babu MM , Chin JW , Pakotiprapha D , Bhanthumnavin W , Uttamapinant C
Ref : Angew Chem Int Ed Engl , :e202203061 , 2022
Abstract : We report a bioinformatic workflow and subsequent discovery of a new polyethylene terephthalate (PET) hydrolase, which we named MG8, from the human saliva metagenome. MG8 has robust PET plastic degradation activities under different temperature and salinity conditions, outperforming several naturally occurring and engineered hydrolases in degrading PET. Moreover, we genetically encoded 2,3-diaminopropionic acid (DAP) in place of the catalytic serine residue of MG8, thereby converting a PET hydrolase into a covalent binder for bio-functionalization of PET. We show that MG8(DAP), in conjunction with a split green fluorescent protein system, can be used to attach protein cargos to PET as well as other polyester plastics. The discovery of a highly active PET hydrolase from the human metagenome-currently an underexplored resource for industrial enzyme discovery-as well as the repurposing of such an enzyme into a plastic functionalization tool, should facilitate ongoing efforts to degrade and maximize reusability of PET.
ESTHER : Eiamthong_2022_Angew.Chem.Int.Ed.Engl_15_e202203061
PubMedSearch : Eiamthong_2022_Angew.Chem.Int.Ed.Engl_15_e202203061
PubMedID: 35656865
Gene_locus related to this paper: 9gamm-PETaseMG1 , 9gamm-PETaseMG2 , 9gamm-PETaseMG3 , 9gamm-PETaseMG4 , 9gamm-PETaseMG5 , 9gamm-PETaseMG6 , 9gamm-PETaseMG7 , 9gamm-PETaseMG8 , 9pseu-PETaseMG9 , 9actn-PETaseMG10

Title : Tannic acid reduced apparent protein digestibility and induced oxidative stress and inflammatory response without altering growth performance and ruminal microbiota diversity of Xiangdong black goats - Wang_2022_Front.Vet.Sci_9_1004841
Author(s) : Wang Z , Yin L , Liu L , Lan X , He J , Wan F , Shen W , Tang S , Tan Z , Yang Y
Ref : Front Vet Sci , 9 :1004841 , 2022
Abstract : The present study was performed to evaluate the impacts of tannic acid (TA) supplementation at different levels on the growth performance, physiological, oxidative and immunological metrics, and ruminal microflora of Xiangdong black goats. Twenty-four goats were randomly assigned to four dietary treatments: the control (CON, basal diet), the low-dose TA group [TAL, 0.3 % of dry matter (DM)], the mid-dose TA group (TAM, 0.6 % of DM), and the high-dose TA group (TAH, 0.9 % of DM). Results showed that the growth performance was unaffected (P > 0.05) by adding TA, whilst the 0.3 % and 0.6 % TA supplementation significantly decreased (P < 0.05) the apparent digestibility of crude protein (CP) and ruminal NH(3)-N concentration, and raised (P < 0.05) the level of total volatile fatty acid (TVFA) in rumen. The increments of alanine aminotransferase (ALT), triglyceride (TG), cortisol (CORT), total antioxidant capacity (T-AOC), interleukin (IL)-1beta, IL-6, and serumamyloid A (SAA), and decrements of globulin (GLB), immunoglobulin G (IgG), cholinesterase (CHE), glutathione reductase (GR), creatinine (CRE), growth hormone (GH), high-density lipoprotein cholesterol (HDLC), and insulin-like growth factor 1 (IGF-1) to different extents by TA addition were observed. Although the Alpha and Beta diversity of rumen bacterial community remained unchanged by supplementing TA, the relative abundance of the predominant genus Prevotella_1 was significantly enriched (P < 0.05) in TAL. It could hence be concluded that the TA supplementation in the present trial generally decreased CP digestion and caused oxidative stress and inflammatory response without influencing growth performance and ruminal microbiota diversity. More research is needed to explore the premium dosage and mechanisms of effects for TA addition in the diet of goats.
ESTHER : Wang_2022_Front.Vet.Sci_9_1004841
PubMedSearch : Wang_2022_Front.Vet.Sci_9_1004841
PubMedID: 36187804

Title : Mechanism-based traps enable protease and hydrolase substrate discovery - Tang_2022_Nature_602_701
Author(s) : Tang S , Beattie AT , Kafkova L , Petris G , Huguenin-Dezot N , Fiedler M , Freeman M , Chin JW
Ref : Nature , 602 :701 , 2022
Abstract : Hydrolase enzymes, including proteases, are encoded by 2-3% of the genes in the human genome and 14% of these enzymes are active drug targets(1). However, the activities and substrate specificities of many proteases-especially those embedded in membranes-and other hydrolases remain unknown. Here we report a strategy for creating mechanism-based, light-activated protease and hydrolase substrate traps in complex mixtures and live mammalian cells. The traps capture substrates of hydrolases, which normally use a serine or cysteine nucleophile. Replacing the catalytic nucleophile with genetically encoded 2,3-diaminopropionic acid allows the first step reaction to form an acyl-enzyme intermediate in which a substrate fragment is covalently linked to the enzyme through a stable amide bond(2); this enables stringent purification and identification of substrates. We identify new substrates for proteases, including an intramembrane mammalian rhomboid protease RHBDL4 (refs. (3,4)). We demonstrate that RHBDL4 can shed luminal fragments of endoplasmic reticulum-resident type I transmembrane proteins to the extracellular space, as well as promoting non-canonical secretion of endogenous soluble endoplasmic reticulum-resident chaperones. We also discover that the putative serine hydrolase retinoblastoma binding protein 9 (ref. (5)) is an aminopeptidase with a preference for removing aromatic amino acids in human cells. Our results exemplify a powerful paradigm for identifying the substrates and activities of hydrolase enzymes.
ESTHER : Tang_2022_Nature_602_701
PubMedSearch : Tang_2022_Nature_602_701
PubMedID: 35173328
Gene_locus related to this paper: human-RBBP9

Title : Eruptive xanthoma model reveals endothelial cells internalize and metabolize chylomicrons, leading to extravascular triglyceride accumulation - Cabodevilla_2021_J.Clin.Invest_131_
Author(s) : Cabodevilla AG , Tang S , Lee S , Mullick AE , Aleman JO , Hussain MM , Sessa WC , Abumrad NA , Goldberg IJ
Ref : J Clinical Investigation , 131 : , 2021
Abstract : Although tissue uptake of fatty acids from chylomicrons is primarily via lipoprotein lipase (LpL) hydrolysis of triglycerides (TGs), studies of patients with genetic LpL deficiency suggest additional pathways deliver dietary lipids to tissues. Despite an intact endothelial cell (EC) barrier, hyperchylomicronemic patients accumulate chylomicron-derived lipids within skin macrophages, leading to the clinical finding eruptive xanthomas. We explored whether an LpL-independent pathway exists for transfer of circulating lipids across the EC barrier. We found that LpL-deficient mice had a marked increase in aortic EC lipid droplets before and after a fat gavage. Cultured ECs internalized chylomicrons, which were hydrolyzed within lysosomes. The products of this hydrolysis fueled lipid droplet biogenesis in ECs and triggered lipid accumulation in cocultured macrophages. EC chylomicron uptake was inhibited by competition with HDL and knockdown of the scavenger receptor-BI (SR-BI). In vivo, SR-BI knockdown reduced TG accumulation in aortic ECs and skin macrophages of LpL-deficient mice. Thus, ECs internalize chylomicrons, metabolize them in lysosomes, and either store or release their lipids. This latter process may allow accumulation of TGs within skin macrophages and illustrates a pathway that might be responsible for creation of eruptive xanthomas.
ESTHER : Cabodevilla_2021_J.Clin.Invest_131_
PubMedSearch : Cabodevilla_2021_J.Clin.Invest_131_
PubMedID: 34128469

Title : Cholinesterase homozygous genotype as susceptible biomarker of hypertriglyceridemia for pesticide-exposed agricultural workers - Zhou_2021_Biomarkers__1
Author(s) : Zhou X , Zhang M , Wang Y , Xia H , Zhu L , Li G , Rong L , Dong H , Chen R , Tang S , Yu M
Ref : Biomarkers , :1 , 2021
Abstract : PURPOSE: Dyslipidemia is an emerging metabolic disorder among pesticide-exposed agricultural workers, and this study was aimed to explore biomarkers of hypertriglyceridemia susceptibility. METHODS: This cross-sectional study recruited 72 pesticide-exposed subjects and 78 non-exposed controls. Lipid profile, cholinesterase activity, and thyroid hormones were analyzed with routine assays. Six loci, including rs11206244 and rs2235544 for deiodinase 1, rs12885300 and rs225014 for deiodinase 2, rs1803274 for butyrylcholinesterase, and rs3757869 for acetylcholinesterase were genotyped using an improved multiplex ligation detection reaction technique. RESULTS: Pesticide-exposed subjects showed higher levels of triglyceride than controls (p = 0.009), although there were comparable cholinesterase activity and genotype frequencies of all six loci between pesticide-exposed subjects and controls. Pesticide-exposed subjects with homozygous genotype of cholinesterasehad increased triglyceride levels than controls (p < 0.05). The percentage of hypertriglyceridemia was 28.6% and 8.8% for pesticide-exposed subjects and controls with homozygous butyrylcholinesterase genotype (p = 0.007) and 20.8% and 14.3% with homozygous acetylcholinesterase genotype (p = 0.792), respectively. Multivariate logistic regression analyses found that odds ratio of hypertriglyceridemia is 21.92 and 4.56 for pesticide-exposed subjects with homozygous genotype of butyrylcholinesterase (p = 0.001) and acetylcholinesterase (p = 0.036), respectively. CONCLUSIONS: Cholinesterase homozygous genotype might be a potential susceptible biomarker in screening pesticide-exposed agricultural workers vulnerable to hypertriglyceridemia.
ESTHER : Zhou_2021_Biomarkers__1
PubMedSearch : Zhou_2021_Biomarkers__1
PubMedID: 33617373

Title : A Roadmap to the Structure-Related Metabolism Pathways of Per- and Polyfluoroalkyl Substances in the Early Life Stages of Zebrafish (Danio rerio) - Han_2021_Environ.Health.Perspect_129_77004
Author(s) : Han J , Gu W , Barrett H , Yang D , Tang S , Sun J , Liu J , Krause HM , Houck KA , Peng H
Ref : Environmental Health Perspectives , 129 :77004 , 2021
Abstract : BACKGROUND: Thousands of per- and polyfluoroalkyl substances (PFAS) with diverse structures have been detected in the ambient environment. Apart from a few well-studied PFAS, the structure-related toxicokinetics of a broader set of PFAS remain unclear. OBJECTIVES: To understand the toxicokinetics of PFAS, we attempted to characterize the metabolism pathways of 74 structurally diverse PFAS samples from the U.S. Environmental Protection Agency's PFAS screening library. METHODS: Using the early life stages of zebrafish (Danio rerio) as a model, we determined the bioconcentration factors and phenotypic toxicities of 74 PFAS. Then, we applied high-resolution mass spectrometry-based nontargeted analysis to identify metabolites of PFAS in zebrafish larvae after 5 d of exposure by incorporating retention time and mass spectra. In vitro enzymatic activity experiments with human recombinant liver carboxylesterase (hCES1) were employed to validate the structure-related hydrolysis of 11 selected PFAS. RESULTS: Our findings identified five structural categories of PFAS prone to metabolism. The metabolism pathways of PFAS were highly related to their structures as exemplified by fluorotelomer alcohols that the predominance of beta-oxidation or taurine conjugation pathways were primarily determined by the number of hydrocarbons. Hydrolysis was identified as a major metabolism pathway for diverse PFAS, and perfluoroalkyl carboxamides showed the highest in vivo hydrolysis rates, followed by carboxyesters and sulfonamides. The hydrolysis of PFAS was verified with recombinant hCES1, with strong substrate preferences toward perfluoroalkyl carboxamides. CONCLUSIONS: We suggest that the roadmap of the structure-related metabolism pathways of PFAS established in this study would provide a starting point to inform the potential health risks of other PFAS. https://doi.org/10.1289/EHP7169.
ESTHER : Han_2021_Environ.Health.Perspect_129_77004
PubMedSearch : Han_2021_Environ.Health.Perspect_129_77004
PubMedID: 34288731

Title : Caged Oxime Reactivators Designed for the Light Control of Acetylcholinesterase Reactivation - Cannon_2021_Photochem.Photobiol__
Author(s) : Cannon J , Tang S , Choi SK
Ref : Photochem Photobiol , : , 2021
Abstract : Despite its promising role in the active control of biological functions by light, photocaging remains untested in acetylcholinesterase (AChE), a key enzyme in the cholinergic family. Here, we describe synthesis, photochemical properties, and biochemical activities of two caged oxime compounds applied in the photocontrolled reactivation of the AChE inactivated by reactive organophosphate. Each of these consists of a photocleavable coumarin cage tethered to a known oxime reactivator for AChE that belongs in an either 2-(hydroxyimino)acetamide or pyridiniumaldoxime class. Of these, the first caged compound was able to successfully go through oxime uncaging upon irradiation at long wavelength ultraviolet light (365 nm) or visible light (420 nm). It was further evaluated in AChE assays in vitro under variable light conditions to define its activity in the photocontrolled reactivation of paraoxon-inactivated AChE. This assay result showed its lack of activity in the dark but its induction of activity under light conditions only. In summary, this article reports a first class of light-activatable modulators for AChE and it offers assay methods and novel insights that help to achieve an effective design of caged compounds in the enzyme control.
ESTHER : Cannon_2021_Photochem.Photobiol__
PubMedSearch : Cannon_2021_Photochem.Photobiol__
PubMedID: 34558680

Title : Toxicologic effect and transcriptome analysis for short-term orally dosed enrofloxacin combined with two veterinary antimicrobials on rat liver - Luan_2021_Ecotoxicol.Environ.Saf_220_112398
Author(s) : Luan Y , Zhao J , Han H , Shen J , Tang S , Cheng L
Ref : Ecotoxicology & Environmental Safety , 220 :112398 , 2021
Abstract : Presently, toxicological assessment of multiple veterinary antimicrobials has not been performed on mammals. In this study, we assessed the short-term toxicity of enrofloxacin (E) combined with colistin (C) and quinocetone (Q). Young male rats were orally dosed drug mixtures and single drugs in 14 consecutive days, each at the dose of 20, 80, and 400 mg/(kg.BW) for environmental toxicologic study. The results showed that at the high dose treatment, the combination of E + C+Q significantly decreased body intake, lymphocytes count on rats; significantly increased the values of Alanine aminotransferase (ALT), Glutamic oxaloacetic transaminase (AST) and, cholinesterase (CHE); it also got the severest histopathological changes, where sinusoidal congestion and a large number of black particles in sinusoids were observed. This means E + C+Q in the high dose groups was able to cause significant damage to the liver. Other combinations or doses did not induce significant liver damage. Transcriptome analysis was then performed on rats in high dose group for further research. For E + C and E + Q, an amount of 375 and 480 differently expressed genes were filtered out, revealing their possible underlying effect on genomes. For E + C+Q, a weighted gene co-expression network analysis was performed and 96 hub genes were identified to reveal the specific effect induced by this combination. This study indicates that joint toxicity should be taken into consideration when involving the risk assessment of these antimicrobials.
ESTHER : Luan_2021_Ecotoxicol.Environ.Saf_220_112398
PubMedSearch : Luan_2021_Ecotoxicol.Environ.Saf_220_112398
PubMedID: 34116333

Title : Dual acting oximes designed for therapeutic decontamination of reactive organophosphates via catalytic inactivation and acetylcholinesterase reactivation - Cannon_2021_RSC.Med.Chem_12_1592
Author(s) : Cannon J , Tang S , Yang K , Harrison R , Choi SK
Ref : RSC Med Chem , 12 :1592 , 2021
Abstract : A conventional approach in the therapeutic decontamination of reactive organophosphate (OP) relies on chemical OP degradation by oxime compounds. However, their efficacy is limited due to their lack of activity in the reactivation of acetylcholinesterase (AChE), the primary target of OP. Here, we describe a set of alpha-nucleophile oxime derivatives which are newly identified for such dual modes of action. Thus, we prepared a 9-member oxime library, each composed of an OP-reactive oxime core linked to an amine-terminated scaffold, which varied through an N-alkyl functionalization. This library was screened by enzyme assays performed with human and electric eel subtypes of OP-inactivated AChE, which led to identifying three oxime leads that displayed significant enhancements in reactivation activity comparable to 2-PAM. They were able to reactivate both enzymes inactivated by three OP types including paraoxon, chlorpyrifos and malaoxon, suggesting their broad spectrum of OP susceptibility. All compounds in the library were able to retain catalytic reactivity in paraoxon inactivation by rates increased up to 5 or 8-fold relative to diacetylmonoxime (DAM) under controlled conditions at pH (8.0, 10.5) and temperature (17, 37 degreesC). Finally, selected lead compounds displayed superb efficacy in paraoxon decontamination on porcine skin in vitro. In summary, we addressed an unmet need in therapeutic OP decontamination by designing and validating a series of congeneric oximes that display dual modes of action.
ESTHER : Cannon_2021_RSC.Med.Chem_12_1592
PubMedSearch : Cannon_2021_RSC.Med.Chem_12_1592
PubMedID: 34671741

Title : Discovery and Characterization of a PKS-NRPS Hybrid in Aspergillus terreus by Genome Mining - Tang_2020_J.Nat.Prod_83_473
Author(s) : Tang S , Zhang W , Li Z , Li H , Geng C , Huang X , Lu X
Ref : Journal of Natural Products , 83 :473 , 2020
Abstract : Fungal polyketide synthase-nonribosomal peptide synthetase (PKS-NRPS) hybrids have been characterized to produce polyketide-amino acid compounds with striking structural features and biological activities. In this study, a PKS-NRPS hybrid enzyme was found in Aspergillus terreus by genome mining. By activating the cluster-specific transcriptional regulator, this cryptic PKS-NRPS gene cluster was successfully activated and ten products (1-10) were identified as pyranterreones. Using functional genetics, bioinformatics, and isotope-labeling feeding analysis, the biosynthetic pathway was revealed. This is the second PKS-NRPS hybrid identified in A. terreus.
ESTHER : Tang_2020_J.Nat.Prod_83_473
PubMedSearch : Tang_2020_J.Nat.Prod_83_473
PubMedID: 32077283
Gene_locus related to this paper: asptn-pytb , aspte-pyti

Title : Shielded alpha-Nucleophile Nanoreactor for Topical Decontamination of Reactive Organophosphate - Wong_2020_ACS.Appl.Mater.Interfaces_12_33500
Author(s) : Wong PT , Tang S , Cannon J , Yang K , Harrison R , Ruge M , O'Konek JJ , Choi SK
Ref : ACS Appl Mater Interfaces , 12 :33500 , 2020
Abstract : Here, we describe a nanoscale reactor strategy with a topical application in the therapeutic decontamination of reactive organophosphates (OPs) as chemical threat agents. It involves functionalization of poly(amidoamine) dendrimer through a combination of its partial PEG shielding and exhaustive conjugation with an OP-reactive alpha-nucleophile moiety at its peripheral branches. We prepared a 16-member library composed of two alpha-nucleophile classes (oxime, hydroxamic acid), each varying in its reactor valency (43-176 reactive units per nanoparticle), and linker framework for alpha-nucleophile tethering. Their mechanism for OP inactivation occurred via nucleophilic catalysis as verified against P-O and P-S bonded OPs including paraoxon-ethyl (POX), malaoxon, and omethoate by (1)H NMR spectroscopy. Screening their reactivity for POX inactivation was performed under pH- and temperature-controlled conditions, which resulted in identifying 13 conjugates, each showing shorter POX half-life up to 2 times as compared to a reference Dekon 139 at pH 10.5, 37 degreesC. Of these, 10 conjugates were further confirmed for greater efficacy in POX decontamination experiments performed in two skin models, porcine skin and an artificial human microtissue. Finally, a few lead conjugates were selected and demonstrated for their biocompatibility in vitro as evident with lack of skin absorption, no inhibition of acetylcholinesterase (AChE), and no cytotoxicity in human neuroblastoma cells. In summary, this study presents a novel nanoreactor library, its screening methods, and identification of potent lead conjugates with potential for therapeutic OP decontamination.
ESTHER : Wong_2020_ACS.Appl.Mater.Interfaces_12_33500
PubMedSearch : Wong_2020_ACS.Appl.Mater.Interfaces_12_33500
PubMedID: 32603588

Title : Collaborative Biosynthesis of a Class of Bioactive Azaphilones by Two Separate Gene Clusters Containing Four PKS\/NRPSs with Transcriptional Crosstalk in Fungi - Huang_2020_Angew.Chem.Int.Ed.Engl_59_4349
Author(s) : Huang X , Zhang W , Tang S , Wei S , Lu X
Ref : Angew Chem Int Ed Engl , 59 :4349 , 2020
Abstract : Azaphilones are a family of fungal polyketide metabolites with diverse chemical structures and biological activities with a highly oxygenated pyranoquinone bicyclic core. Here, a class of azaphilones possessing a 6/6/6/6 tetracyclic ring system was identified in Aspergillus terreus, and exhibited potential anticancer activities. The gene deletions and biochemical investigations demonstrated that these azaphilones were collaboratively synthesized by two separate clusters containing four core-enzymes, two nonreducing PKSs, one highly reducing PKS, and one NRPS-like. More interestingly, we found that the biosynthesis is coordinately regulated by a crosstalk mechanism between these two gene clusters based on three transcriptional factors. This is a meaningful mechanism of fungal secondary metabolism, which allows fungi to synthesize more complex compounds and gain new physiological functions. The results provide a new insight into fungal natural product biosynthesis.
ESTHER : Huang_2020_Angew.Chem.Int.Ed.Engl_59_4349
PubMedSearch : Huang_2020_Angew.Chem.Int.Ed.Engl_59_4349
PubMedID: 31908094
Gene_locus related to this paper: asptn-5moas , asptn-azpb5

Title : Hydrophilic scaffolds of oxime as the potent catalytic inactivator of reactive organophosphate - Tang_2019_Chem.Biol.Interact_297_67
Author(s) : Tang S , Wong PT , Cannon J , Yang K , Bowden S , Bhattacharjee S , O'Konek JJ , Choi SK
Ref : Chemico-Biological Interactions , 297 :67 , 2019
Abstract : Despite its efficacy as a skin decontaminant of reactive organophosphates (OP), Dekon 139-a potassium salt of 2,3-butanedione monooxime (DAM)-is associated with adverse events related to percutaneous absorption largely due to its small size and lipophilicity. In order to address this physicochemical issue, we synthesized and evaluated the activity of a focused library of 14 hydrophilic oxime compounds, each designed with either a DAM or monoisonitrosoacetone (MINA) oxime tethered to a polar or charged scaffold in order to optimize the size, hydrophilicity, and oxime acidity. High-throughput colorimetric assays were performed with paraoxon (POX) as a model OP to determine the kinetics of POX inactivation by these compounds under various pH and temperature conditions. This primary screening led to the identification of 6 lead compounds, predominantly in the MINA series, which displayed superb catalytic activity by reducing the POX half-life (t1/2) by 2-3 fold relative to Dekon 139. Our mechanistic studies show that POX inactivation by the oxime compounds occurred faster at a higher temperature and in a pH-dependent manner in which the negatively charged oximate species is>/=10-fold more effective than the neutral oxime species. Lastly, using one of the lead compounds, we demonstrated its promising efficacy for POX decontamination in porcine skin ex vivo, and showed its potent ability to protect acetylcholine esterase (AChE) through POX inactivation. In summary, we report the rational design and chemical biological validation of novel hydrophilic oximes which address an unmet need in therapeutic OP decontamination.
ESTHER : Tang_2019_Chem.Biol.Interact_297_67
PubMedSearch : Tang_2019_Chem.Biol.Interact_297_67
PubMedID: 30393113

Title : Genome Mining and Assembly-Line Biosynthesis of the UCS1025A Pyrrolizidinone Family of Fungal Alkaloids - Li_2018_J.Am.Chem.Soc_140_2067
Author(s) : Li L , Tang MC , Tang S , Gao S , Soliman S , Hang L , Xu W , Ye T , Watanabe K , Tang Y
Ref : Journal of the American Chemical Society , 140 :2067 , 2018
Abstract : UCS1025A is a fungal polyketide/alkaloid that displays strong inhibition of telomerase. The structures of UCS1025A and related natural products are featured by a tricyclic furopyrrolizidine connected to a trans-decalin fragment. We mined the genome of a thermophilic fungus and activated the ucs gene cluster to produce UCS1025A at a high titer. Genetic and biochemical analysis revealed a PKS-NRPS assembly line that activates 2S,3S-methylproline derived from l-isoleucine, followed by Knoevenagel condensation to construct the pyrrolizidine moiety. Oxidation of the 3S-methyl group to a carboxylate leads to an oxa-Michael cyclization and furnishes the furopyrrolizidine. Our work reveals a new strategy used by nature to construct heterocyclic alkaloid-like ring systems using assembly line logic.
ESTHER : Li_2018_J.Am.Chem.Soc_140_2067
PubMedSearch : Li_2018_J.Am.Chem.Soc_140_2067
PubMedID: 29373009
Gene_locus related to this paper: acrsp-ucsc

Title : Fishing for contaminants: identification of three mechanism specific transcriptome signatures using Danio rerio embryos - Hausen_2018_Environ.Sci.Pollut.Res.Int_25_4023
Author(s) : Hausen J , Otte JC , Legradi J , Yang L , Strahle U , Fenske M , Hecker M , Tang S , Hammers-Wirtz M , Hollert H , Keiter SH , Ottermanns R
Ref : Environ Sci Pollut Res Int , 25 :4023 , 2018
Abstract : In ecotoxicology, transcriptomics is an effective way to detect gene expression changes in response to environmental pollutants. Such changes can be used to identify contaminants or contaminant classes and can be applied as early warning signals for pollution. To do so, it is important to distinguish contaminant-specific transcriptomic changes from genetic alterations due to general stress. Here we present a first step in the identification of contaminant class-specific transcriptome signatures. Embryos of zebrafish (Danio rerio) were exposed to three substances (methylmercury, chlorpyrifos and Aroclor 1254, each from 24 to 48 hpf exposed) representing sediment typical contaminant classes. We analyzed the altered transcriptome to detect discriminative genes significantly regulated in reaction to the three applied contaminants. By comparison of the results of the three contaminants, we identified transcriptome signatures and biologically important pathways (using Cytoscape/ClueGO software) that react significantly to the contaminant classes. This approach increases the chance of finding genes that play an important role in contaminant class-specific pathways rather than more general processes.
ESTHER : Hausen_2018_Environ.Sci.Pollut.Res.Int_25_4023
PubMedSearch : Hausen_2018_Environ.Sci.Pollut.Res.Int_25_4023
PubMedID: 28391457

Title : Correlation between antibiotic-induced feeding depression and body size reduction in zooplankton (rotifer, Brachionus calyciflorus): Neural response and digestive enzyme inhibition - Yan_2018_Chemosphere_218_376
Author(s) : Yan Z , Yang Q , Wang X , Torres OL , Tang S , Zhang S , Guo R , Chen J
Ref : Chemosphere , 218 :376 , 2018
Abstract : The study analyzed the correlation between the antibiotic-induced feeding depression and body size reduction in rotifer, Brachionus calyciflorus, involving exposure, post-exposure and re-exposure periods. The filtration and ingestion rates of the rotifers were inhibited in these three exposure periods at any given concentration of the antibiotic sulfamethazine (SMZ). As food for rotifer, the cell size of the green algae was unchanged, which indicated that it could not drive feeding depression. Secondly, several corresponding physiological responses were considered. Reactive oxygen species (ROS) levels increased in the post-exposure and the re-exposure; acetylcholinesterase (AChE) activity was significantly decreased in the exposure and the re-exposure, whereas it was induced in the post-exposure. The activities of amylase and lipase were always inhibited in these three exposure periods. Additionally, significant decreases in lorica length, width and biovolume of rotifers occurred after the feeding depression. Statistical analysis indicated a positive correlation between the activity of the digestive enzyme and the body size. Our results demonstrated that SMZ could influence the neurotransmission, inhibit the activity of the digestive enzyme, and finally result in body size reduction. These results provided an integrated perspective on assessing the toxicity effects of antibiotic in non-lethal dosage on the feeding behavior of non-target aquatic organisms.
ESTHER : Yan_2018_Chemosphere_218_376
PubMedSearch : Yan_2018_Chemosphere_218_376
PubMedID: 30476769

Title : Hydrogen peroxide redistributes the localization of protein phosphatase methylesterase 1 - Tang_2018_Life.Sci_213_166
Author(s) : Tang S , Lu C , Mo L , Wang X , Liang Z , Qin F , Liu Y , Huang H , Huang Y , Cai H , Xiao D , Guo S , Ouyang Y , Sun B , Li X
Ref : Life Sciences , 213 :166 , 2018
Abstract : AIMS: Protein phosphatase methylesterase-1 (PME-1) is a serine hydrolase that catalyzes protein phosphatase 2A (PP2A) demethylation and negatively regulates its activity. PME-1 is compartmentalized within cells to precisely control the demethylation of PP2A. This study investigated the localization of PME-1 in human fibroblast cells (HDF) under oxidative stress. MAIN METHODS: Alkaline demethylation and peptide competition assays were applied to detect the methylation sensitivity of anti-PP2Ac. The localization of PME-1, leucine carboxyl methyltransferase 1 (LCMT1), demethylated-phosphorylated-PP2Ac (dem-p-PP2Ac) and total PP2Ac was determined by immunofluorescence analysis, and protein expression was measured by Western blot. A HEK293 cell line stably expressing constructed PME-1-EGFP was used to dynamically monitor the nuclear export of PME-1 under oxidative stress. KEY RESULTS: After hydrogen peroxide (H(2)O(2)) treatment, the protein expression of PME-1 remained unchanged, while PME-1 facilitated redistribution from the nucleus to the cytoplasm in HDF according to immunofluorescence analysis. In constructed HEK293 cells, the EGFP-tagged PME-1 was exported from the nucleus to the cytoplasm after H(2)O(2) treatment, and nuclear export was eliminated after leptomycin B additions. Our observation of dem-p-PP2Ac species relocation from the nucleus to the cytoplasm under oxidative stress is consistent with the redistribution patterns of PME-1. Antioxidant N-acetyl cysteine can reverse the nuclear to cytoplasmic ratio of PME-1 proteins and dem-p-PP2Ac after H(2)O(2) exposure. SIGNIFICANCE: We found that PME-1 is exported from the nucleus to the cytoplasm upon H(2)O(2) treatment and redistributes dem-p-PP2Ac in subcellular compartments. These findings offer new insight into the regulation of PME-1 localization and PP2A demethylation under oxidative stress.
ESTHER : Tang_2018_Life.Sci_213_166
PubMedSearch : Tang_2018_Life.Sci_213_166
PubMedID: 30340029
Gene_locus related to this paper: human-PPME1

Title : A Novel Dynamic Model Describing the Spread of the MERS-CoV and the Expression of Dipeptidyl Peptidase 4 - Tang_2017_Comput.Math.Methods.Med_2017_5285810
Author(s) : Tang S , Ma W , Bai P
Ref : Comput Math Methods Med , 2017 :5285810 , 2017
Abstract : The Middle East respiratory syndrome (MERS) coronavirus, a newly identified pathogen, causes severe pneumonia in humans. MERS is caused by a coronavirus known as MERS-CoV, which attacks the respiratory system. The recently defined receptor for MERS-CoV, dipeptidyl peptidase 4 (DPP4), is generally expressed in endothelial and epithelial cells and has been shown to be present on cultured human nonciliated bronchiolar epithelium cells. In this paper, a class of novel four-dimensional dynamic model describing the infection of MERS-CoV is given, and then global stability of the equilibria of the model is discussed. Our results show that the spread of MERS-CoV can also be controlled by decreasing the expression rate of DPP4.
ESTHER : Tang_2017_Comput.Math.Methods.Med_2017_5285810
PubMedSearch : Tang_2017_Comput.Math.Methods.Med_2017_5285810
PubMedID: 28894474

Title : Single and mixture toxicities of BDE-47, 6-OH-BDE-47 and 6-MeO-BDE-47 on the feeding activity of Daphnia magna: From behavior assessment to neurotoxicity - Liu_2017_Chemosphere_195_542
Author(s) : Liu Y , Guo R , Tang S , Zhu F , Zhang S , Yan Z , Chen J
Ref : Chemosphere , 195 :542 , 2017
Abstract : Although 2,2',4,4'-tetrabrominated diphenyl ether (BDE-47), 6-hydroxy-2,2',4,4'-tetrabromodiphenyl ether (6-OH-BDE-47) and 6-methoxy-2,2',4,4'-tetrabromodiphenyl ether (6-MeO-BDE-47) clearly disrupt the endocrine system, current knowledge of their single and/or mixture toxicities on other behaviors of aquatic organisms remains limited. In the present study, Daphnia magna was used to investigate the single and mixture toxicities of BDE-47, 6-OH-BDE-47 and 6-MeO-BDE-47 as measured by inhibition of feeding during exposure and post-exposure periods. Additionally, the biochemical performance, i.e., the activities of super oxidase dismutase (SOD), glutathione peroxidase (GPx) and acetylcholinesterase (AChE) of the test organism was studied to investigate the potential mechanisms of the toxicity of the target compounds. The three target compounds produced an obvious depressive effect on feeding behavior during the exposure period, and the effect increased with increasing concentrations. D. magna was most sensitive to 6-OH-BDE-47. The toxicity of the ternary mixture showed an obvious concentration-dependent effect, whereas the binary mixture toxicity showed the characteristics of hormesis. During the post-exposure period, overcompensation occurred, indicating a short-term effect of the target compounds on D. magna. Additionally, significant changes occurred in neurological responses, indicating that these compounds might have neurobehavioral toxicity in D. magna. The decrease in oxidative stress enzymes (SOD and GPx) indicated that the antioxidant response of D. magna was destroyed.
ESTHER : Liu_2017_Chemosphere_195_542
PubMedSearch : Liu_2017_Chemosphere_195_542
PubMedID: 29277034

Title : Calretinin, S100 and protein gene product 9.5 immunostaining of rectal suction biopsies in the diagnosis of Hirschsprung' disease - Jiang_2016_Am.J.Transl.Res_8_3159
Author(s) : Jiang M , Li K , Li S , Yang L , Yang D , Zhang X , Fang M , Cao G , Wang Y , Chen W , Tang S
Ref : Am J Transl Res , 8 :3159 , 2016
Abstract : Evaluation of rectal suction biopsies for the ganglion cells and neural hypertrophy is the basic modality for the diagnosis of Hirschsprung's disease (HD). However, the traditional hematoxylin and eosin staining coupled with acetylcholinesterase histochemistry remain challenging, especially in newborns. Thus we conducted a prospective study to evaluate the usefulness of calretinin combined with S100 and protein gene product 9.5 (PGP9.5) immunostaining of rectal suction biopsies for the diagnosis of HD. A total of 195 patients were enrolled in our study. Of the 195 patients 69% had ganglion cells on the initial diagnostic protocol. Sixty cases were devoid of ganglion cells, and of these, 90% and 91% showed submucosal neural hypertrophy on S-100 staining and PGP9.5 staining, respectively. Eighty-one patients underwent a colonic resection, and of these, 59 had confirmed aganglionic segment, the other 22 patients were diagnosed as intestinal neuronal dysplasia type B (n=13) and isolated hypoganglionosis (n=9). Of the rest 114 patients, 51 cases underwent a full-thickness biopsy, and HD was excluded; sixty-three patients were thoroughly followed-up with no evidence of HD. We encountered two false-negatives and they were proved to be short segment HD after the surgery. The sensitivity and specificity rates of our diagnostic protocol was 96.49% (95% CI, 0.88-0.99) and 100% (95% CI, 0.97-1.00), respectively, excluding 5 patients with inconclusive results. Our findings demonstrated that calretinin coupled with S100 and PGP9.5 immunostaining on suction rectal biopsies is sensitive and specific for diagnosing HD.
ESTHER : Jiang_2016_Am.J.Transl.Res_8_3159
PubMedSearch : Jiang_2016_Am.J.Transl.Res_8_3159
PubMedID: 27508037

Title : Taurine improves the spatial learning and memory ability impaired by sub-chronic manganese exposure - Lu_2014_J.Biomed.Sci_21_51
Author(s) : Lu CL , Tang S , Meng ZJ , He YY , Song LY , Liu YP , Ma N , Li XY , Guo SC
Ref : J Biomed Sci , 21 :51 , 2014
Abstract : BACKGROUND: Excessive manganese exposure induced cognitive deficit. Several lines of evidence have demonstrated that taurine improves cognitive impairment induced by numerous neurotoxins. However, the role of taurine on manganese-induced damages in learning and memory is still elusive. This goal of this study was to investigate the beneficial effect of taurine on learning and memory capacity impairment by manganese exposure in an animal model.
RESULTS: The escape latency in the Morris Water Maze test was significantly longer in the rats injected with manganese than the rats received both taurine and manganese. Similarly, the probe trial showed that the annulus crossings were significantly greater in the taurine plus manganese treated rats than the manganese-treated rats. However, the blood level of manganese was not altered by the taurine treatment. Interestingly, the exposure of manganese led to a significant increase in the acetylcholinesterase activity and an evidently decrease in the choline acetyltransferase activity, which were partially restored by the addition of taurine. Additionally, we identified 9 differentially expressed proteins between the rat hippocampus treated by manganese and the control or the manganese plus taurine in the proteomic analysis using the 2-dimensional gel electrophoresis followed by the tandem mass spectrometry (MS/MS). Most of these proteins play a role in energy metabolism, oxidative stress, inflammation, and neuron synapse.
CONCLUSIONS: In summary, taurine restores the activity of AChE and ChAT, which are critical for the regulation of acetylcholine. We have identified seven differentially expressed proteins specifically induced by manganese and two proteins induced by taurine from the rat hippocampus. Our results support that taurine improves the impaired learning and memory ability caused by excessive exposure of manganese.
ESTHER : Lu_2014_J.Biomed.Sci_21_51
PubMedSearch : Lu_2014_J.Biomed.Sci_21_51
PubMedID: 24885898

Title : Complete Genome Sequence of Bacteroidales Strain CF from a Chloroform-Dechlorinating Enrichment Culture - Tang_2013_Genome.Announc_1_e01066
Author(s) : Tang S , Edwards EA
Ref : Genome Announc , 1 : , 2013
Abstract : Bacteroidales strain CF is the most abundant nondechlorinating organism in a Dehalobacter-containing enrichment culture that consistently reductively dechlorinates >50 mg/liter chloroform or 1,1,1-trichloroethane (methyl chloroform). We assembled and closed the complete genome sequence of this organism from the metagenomic sequencing data for enrichment cultures. This organism is predicted to ferment l-lactate and ethanol.
ESTHER : Tang_2013_Genome.Announc_1_e01066
PubMedSearch : Tang_2013_Genome.Announc_1_e01066
PubMedID: 24356833
Gene_locus related to this paper: 9bact-u5q8g5 , 9bact-u5q334

Title : Semi-automatic in silico gap closure enabled de novo assembly of two Dehalobacter genomes from metagenomic data - Tang_2012_PLoS.One_7_e52038
Author(s) : Tang S , Gong Y , Edwards EA
Ref : PLoS ONE , 7 :e52038 , 2012
Abstract : Typically, the assembly and closure of a complete bacterial genome requires substantial additional effort spent in a wet lab for gap resolution and genome polishing. Assembly is further confounded by subspecies polymorphism when starting from metagenome sequence data. In this paper, we describe an in silico gap-resolution strategy that can substantially improve assembly. This strategy resolves assembly gaps in scaffolds using pre-assembled contigs, followed by verification with read mapping. It is capable of resolving assembly gaps caused by repetitive elements and subspecies polymorphisms. Using this strategy, we realized the de novo assembly of the first two Dehalobacter genomes from the metagenomes of two anaerobic mixed microbial cultures capable of reductive dechlorination of chlorinated ethanes and chloroform. Only four additional PCR reactions were required even though the initial assembly with Newbler v. 2.5 produced 101 contigs within 9 scaffolds belonging to two Dehalobacter strains. By applying this strategy to the re-assembly of a recently published genome of Bacteroides, we demonstrate its potential utility for other sequencing projects, both metagenomic and genomic.
ESTHER : Tang_2012_PLoS.One_7_e52038
PubMedSearch : Tang_2012_PLoS.One_7_e52038
PubMedID: 23284863
Gene_locus related to this paper: 9firm-w0ejt1

Title : Genome sequences for five strains of the emerging pathogen Haemophilus haemolyticus - Jordan_2011_J.Bacteriol_193_5879
Author(s) : Jordan IK , Conley AB , Antonov IV , Arthur RA , Cook ED , Cooper GP , Jones BL , Knipe KM , Lee KJ , Liu X , Mitchell GJ , Pande PR , Petit RA , Qin S , Rajan VN , Sarda S , Sebastian A , Tang S , Thapliyal R , Varghese NJ , Ye T , Katz LS , Wang X , Rowe L , Frace M , Mayer LW
Ref : Journal of Bacteriology , 193 :5879 , 2011
Abstract : We report the first whole-genome sequences for five strains, two carried and three pathogenic, of the emerging pathogen Haemophilus haemolyticus. Preliminary analyses indicate that these genome sequences encode markers that distinguish H. haemolyticus from its closest Haemophilus relatives and provide clues to the identity of its virulence factors.
ESTHER : Jordan_2011_J.Bacteriol_193_5879
PubMedSearch : Jordan_2011_J.Bacteriol_193_5879
PubMedID: 21952546
Gene_locus related to this paper: haein-yfbb

Title : Role of acetylcholine transmission in nucleus accumbens and ventral tegmental area in heroin-seeking induced by conditioned cues - Zhou_2007_Neurosci_144_1209
Author(s) : Zhou W , Liu H , Zhang F , Tang S , Zhu H , Lai M , Kalivas PW
Ref : Neuroscience , 144 :1209 , 2007
Abstract : The involvement of cholinergic transmission in heroin self-administration and the reinstatement of heroin-seeking was examined in rats trained to nose-poke for i.v. heroin. Systemic treatment with physostigmine, an inhibitor of acetylcholinesterase, modestly reduced the acquisition and rate of heroin self-administration, and this suppression of heroin intake was reversed by pretreatment with scopolamine but not by mecamylamine. Following 10-14 days of self-administration, rats were left in the home environment for 14 days. Subsequently, rats were evaluated for extinction of nose-pokes during the first hour after being returned to the self-administration apparatus. One hour later a conditioned stimulus (house light, light in the nose-poke hole, sound of the infusion pump) was presented to initiate cue-induced reinstatement. Physostigmine produced a dose-dependent inhibition of cue-induced reinstatement, but only the dose of 0.5 mg/kg significantly decreased nose-poke responding in the extinction test. Chronic treatment with physostigmine (0.1 mg/kg) did not impair performance during acquisition of heroin self-administration. However, during a subsequent reinstatement test conducted in the absence of physostigmine pretreatment, heroin seeking was significantly below that of rats chronically pretreated with saline. To evaluate brain regions mediating the effects of systemic drug treatment on reinstatement, physostigmine was microinjected into the nucleus accumbens (NAc) or ventral tegmental area (VTA). Microinjection of physostigmine into the NAc prior to presenting conditioned cues inhibited the reinstatement of heroin-seeking, without affecting extinction responding. In contrast, microinjection of physostigmine into the VTA augmented the reinstatement induced by conditioned cues and extinction responding. Inactivation of either NAc or VTA by microinjecting tetrodotoxin blocked both extinction responding and cue-induced reinstatement. These data demonstrate that cholinergic transmission influences heroin self-administration and reinstatement. Moreover, cue-induced reinstatement was inhibited by physostigmine in the NAc and potentiated by cholinergic stimulation in the VTA.
ESTHER : Zhou_2007_Neurosci_144_1209
PubMedSearch : Zhou_2007_Neurosci_144_1209
PubMedID: 17184925

Title : The transcriptional landscape of the mammalian genome - Carninci_2005_Science_309_1559
Author(s) : Carninci P , Kasukawa T , Katayama S , Gough J , Frith MC , Maeda N , Oyama R , Ravasi T , Lenhard B , Wells C , Kodzius R , Shimokawa K , Bajic VB , Brenner SE , Batalov S , Forrest AR , Zavolan M , Davis MJ , Wilming LG , Aidinis V , Allen JE , Ambesi-Impiombato A , Apweiler R , Aturaliya RN , Bailey TL , Bansal M , Baxter L , Beisel KW , Bersano T , Bono H , Chalk AM , Chiu KP , Choudhary V , Christoffels A , Clutterbuck DR , Crowe ML , Dalla E , Dalrymple BP , de Bono B , Della Gatta G , di Bernardo D , Down T , Engstrom P , Fagiolini M , Faulkner G , Fletcher CF , Fukushima T , Furuno M , Futaki S , Gariboldi M , Georgii-Hemming P , Gingeras TR , Gojobori T , Green RE , Gustincich S , Harbers M , Hayashi Y , Hensch TK , Hirokawa N , Hill D , Huminiecki L , Iacono M , Ikeo K , Iwama A , Ishikawa T , Jakt M , Kanapin A , Katoh M , Kawasawa Y , Kelso J , Kitamura H , Kitano H , Kollias G , Krishnan SP , Kruger A , Kummerfeld SK , Kurochkin IV , Lareau LF , Lazarevic D , Lipovich L , Liu J , Liuni S , McWilliam S , Madan Babu M , Madera M , Marchionni L , Matsuda H , Matsuzawa S , Miki H , Mignone F , Miyake S , Morris K , Mottagui-Tabar S , Mulder N , Nakano N , Nakauchi H , Ng P , Nilsson R , Nishiguchi S , Nishikawa S , Nori F , Ohara O , Okazaki Y , Orlando V , Pang KC , Pavan WJ , Pavesi G , Pesole G , Petrovsky N , Piazza S , Reed J , Reid JF , Ring BZ , Ringwald M , Rost B , Ruan Y , Salzberg SL , Sandelin A , Schneider C , Schonbach C , Sekiguchi K , Semple CA , Seno S , Sessa L , Sheng Y , Shibata Y , Shimada H , Shimada K , Silva D , Sinclair B , Sperling S , Stupka E , Sugiura K , Sultana R , Takenaka Y , Taki K , Tammoja K , Tan SL , Tang S , Taylor MS , Tegner J , Teichmann SA , Ueda HR , van Nimwegen E , Verardo R , Wei CL , Yagi K , Yamanishi H , Zabarovsky E , Zhu S , Zimmer A , Hide W , Bult C , Grimmond SM , Teasdale RD , Liu ET , Brusic V , Quackenbush J , Wahlestedt C , Mattick JS , Hume DA , Kai C , Sasaki D , Tomaru Y , Fukuda S , Kanamori-Katayama M , Suzuki M , Aoki J , Arakawa T , Iida J , Imamura K , Itoh M , Kato T , Kawaji H , Kawagashira N , Kawashima T , Kojima M , Kondo S , Konno H , Nakano K , Ninomiya N , Nishio T , Okada M , Plessy C , Shibata K , Shiraki T , Suzuki S , Tagami M , Waki K , Watahiki A , Okamura-Oho Y , Suzuki H , Kawai J , Hayashizaki Y
Ref : Science , 309 :1559 , 2005
Abstract : This study describes comprehensive polling of transcription start and termination sites and analysis of previously unidentified full-length complementary DNAs derived from the mouse genome. We identify the 5' and 3' boundaries of 181,047 transcripts with extensive variation in transcripts arising from alternative promoter usage, splicing, and polyadenylation. There are 16,247 new mouse protein-coding transcripts, including 5154 encoding previously unidentified proteins. Genomic mapping of the transcriptome reveals transcriptional forests, with overlapping transcription on both strands, separated by deserts in which few transcripts are observed. The data provide a comprehensive platform for the comparative analysis of mammalian transcriptional regulation in differentiation and development.
ESTHER : Carninci_2005_Science_309_1559
PubMedSearch : Carninci_2005_Science_309_1559
PubMedID: 16141072
Gene_locus related to this paper: mouse-abhd1 , mouse-abhd3 , mouse-abhd4 , mouse-acot4 , mouse-adcl4 , mouse-DGLB , mouse-ephx3 , mouse-Kansl3 , mouse-lipli , mouse-LIPN , mouse-Ppgb , mouse-q3uuq7 , mouse-srac1 , mouse-Tex30 , mouse-tmco4 , mouse-tmm53 , mouse-f172a