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https://www.readbyqxmd.com/read/28526133/metabolic-reprogramming-and-oncogenesis-one-hallmark-many-organelles
#1
A S H Costa, C Frezza
The process of tumorigenesis can be described by a series of molecular features, among which alteration of cellular metabolism has recently emerged. This metabolic rewiring fulfills the energy and biosynthetic demands of fast proliferating cancer cells and amplifies their metabolic repertoire to survive and proliferate in the poorly oxygenated and nutrient-deprived tumor microenvironment. During the last decade, the complex reprogramming of cancer cell metabolism has been widely investigated, revealing cancer-specific metabolic alterations...
2017: International Review of Cell and Molecular Biology
https://www.readbyqxmd.com/read/28524240/potential-serum-biomarkers-associated-with-mild-and-severe-leptospirosis-infection-a-cohort-study-in-the-malaysian-population
#2
Tan Xue Ting, Fairuz Binti Amran, Ravindran Thayan, Norazah Ahmad, Roslinda Jaafar, Rahimah Haron, Rafidah Abdullah, Sazwan Reezal Bin Shamsuddin, Nor Suhaila Binti Md Riffin, Puteri Shafinaz Abdul-Rahman
Leptospirosis is an emerging zoonotic infectious disease in Malaysia. The symptoms of leptospirosis vary from mild non-specific flu-like illness to a severe condition which is usually associated with serious complication and fatality. To study the protein expression profile of mild and severe leptospirosis, fifteen paired sera were collected from the patients who were mildly infected and following that progressed to severe stage. The proteome profiles of mild and severe cases were studied using 2DE analysis in combination with LC-MS/MS...
May 19, 2017: Electrophoresis
https://www.readbyqxmd.com/read/28522547/a-regulatory-hierarchy-of-the-arabidopsis-branched-chain-amino-acid-metabolic-network
#3
Anqi Xing, Robert L Last
The branched-chain amino acids (BCAAs) Ile, Val and Leu are essential nutrients that humans and other animals obtain from plants. However, total and relative amounts of plant BCAAs rarely match animal nutritional needs, and improvement requires a better understanding of the mechanistic basis for BCAA homeostasis. We present an in vivo regulatory model of BCAA homeostasis derived from analysis of feedback-resistant Arabidopsis thaliana mutants for the three allosteric committed enzymes in the biosynthetic network: threonine deaminase (also named L-O-methylthreonine resistant 1, OMR1), acetohydroxyacid synthase small subunit 2 (AHASS2) and isopropylmalate synthase 1 (IPMS1)...
May 18, 2017: Plant Cell
https://www.readbyqxmd.com/read/28522458/a-key-role-for-apoplastic-h2o2-in-norway-spruce-phenolic-metabolism
#4
Teresa Laitinen, Kris Morreel, Nicolas Delhomme, Adrien Gauthier, Bastian Schiffthaler, Kaloian Nickolov, Günter Brader, Kean-Jin Lim, Teemu H Teeri, Nathaniel R Street, Wout A Boerjan, Anna Karkonen
Apoplastic events such as monolignol oxidation and lignin polymerization are difficult to study in intact trees. To investigate the role of apoplastic H2O2 in gymnosperm phenolic metabolism, an extracellular lignin-forming cell culture of Norway spruce (Picea abies) was used as a research model. Scavenging of apoplastic H2O2 by KI repressed lignin formation, in line with peroxidases activating monolignols for lignin polymerization. Time course analyses coupled to candidate substrate product pair network propagation revealed differential accumulation of low-molecular-weight phenolics, including (glycosylated) oligolignols, (glycosylated) flavonoids and proanthocyanidins, in lignin-forming and H2O2-scavenging cultures, and supported that monolignols are oxidatively coupled not only in the cell wall, but also in the cytoplasm where they are coupled to other monolignols and proanthocyanidins...
May 18, 2017: Plant Physiology
https://www.readbyqxmd.com/read/28522333/development-of-qsars-for-parameterizing-physiology-based-toxicokinetic-models
#5
Dimosthenis Α Sarigiannis, Krystalia Papadaki, Periklis Kontoroupis, Spyros P Karakitsios
A Quantitative Structure Activity Relationship (QSAR) model was developed in order to predict physicochemical and biochemical properties of industrial chemicals of various groups. This model was based on the solvation equation, originally proposed by Abraham. In this work Abraham's solvation model got parameterized using artificial intelligence techniques such as artificial neural networks (ANNs) for the prediction of partitioning into kidney, heart, adipose, liver, muscle, brain and lung for the estimation of the bodyweight-normalized maximal metabolic velocity (Vmax) and the Michaelis - Menten constant (Km)...
May 15, 2017: Food and Chemical Toxicology
https://www.readbyqxmd.com/read/28522317/the-association-between-cytochrome-p450-3a-progesterone-receptor-polymorphisms-plasma-17-ohpc-concentrations-and-spontaneous-preterm-birth
#6
Martha L Bustos, Steve N Caritis, Kathleen A Jablonski, Uma M Reddy, Yoram Sorokin, John M Thorp, Michael W Varner, Ronald J Wapner, Jay D Iams, Marshall W Carpenter, Alan M Peaceman, Brian M Mercer, Anthony Sciscione, Dwight J Rouse, Susan M Ramin
BACKGROUND: Infants born before 37 weeks' gestation are of public health concern since complications associated with preterm birth are the leading cause of mortality in children under 5 years of age and a major cause of morbidity and lifelong disability. The administration of 17-hydroxyprogesterone caproate (17-OHPC) reduces preterm birth by 33% in women with history spontaneous preterm birth (SPTB). We demonstrated previously that plasma concentrations of 17-OHPC vary widely among pregnant women and that women with 17-OHPC plasma concentrations in the lowest quartile had SPTB rates of 40% vs rates of 25% in those women with higher concentrations...
May 15, 2017: American Journal of Obstetrics and Gynecology
https://www.readbyqxmd.com/read/28521866/neovascular-deterioration-impaired-nadph-oxidase-and-inflammatory-cytokine-expression-in-adipose-derived-multipotent-cells-from-subjects-with-metabolic-syndrome
#7
Wilfredo Oliva-Olivera, Said Lhamyani, Leticia Coín-Aragüez, Daniel Castellano-Castillo, Juan Alcaide-Torres, Elena María Yubero-Serrano, Rajaa El Bekay, Francisco José Tinahones
OBJECTIVE: Expansion of adipose tissue depends on the growth of its vascular network and it has been shown that adipose tissue dysfunction in obese subjects with the metabolic syndrome is associated with decreased angiogenesis. However, some subjects with a high body mass index do not develop metabolic abnormalities associated with obesity. In this study we examined the neovascular properties, expression levels of proteins involved in cellular redox balance and inflammatory cytokines in adipose-derived multipotent mesenchymal cells (ASCs) of subjects with different metabolic profiles...
June 2017: Metabolism: Clinical and Experimental
https://www.readbyqxmd.com/read/28521733/nfpscanner-a-webtool-for-knowledge-based-deciphering-of-biomedical-networks
#8
Wenjian Xu, Yang Cao, Ziwei Xie, Haochen He, Song He, Hao Hong, Xiaochen Bo, Fei Li
BACKGROUND: Many biological pathways have been created to represent different types of knowledge, such as genetic interactions, metabolic reactions, and gene-regulating and physical-binding relationships. Biologists are using a wide range of omics data to elaborately construct various context-specific differential molecular networks. However, they cannot easily gain insight into unfamiliar gene networks with the tools that are currently available for pathways resource and network analysis...
May 18, 2017: BMC Bioinformatics
https://www.readbyqxmd.com/read/28521423/molecular-dysexpression-in-gastric-cancer-revealed-by-integrated-analysis-of-transcriptome-data
#9
Xiaomei Li, Weiwei Dong, Xueling Qu, Huixia Zhao, Shuo Wang, Yixin Hao, Qiuwen Li, Jianhua Zhu, Min Ye, Wenhua Xiao
Gastric cancer (GC) is often diagnosed in the advanced stages and is associated with a poor prognosis. Obtaining an in depth understanding of the molecular mechanisms of GC has lagged behind compared with other cancers. This study aimed to identify candidate biomarkers for GC. An integrated analysis of microarray datasets was performed to identify differentially expressed genes (DEGs) between GC and normal tissues. Gene ontology and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analyses were then performed to identify the functions of the DEGs...
May 2017: Oncology Letters
https://www.readbyqxmd.com/read/28521404/silencing-tak1-alters-gene-expression-signatures-in-bladder-cancer-cells
#10
Jimin Chen, Nan Zhang, Jiaming Wen, Zhewei Zhang
The aim of the present study was to identify the differentially expressed genes (DEGs) that are induced by the silencing of transforming growth factor-β-activated kinase 1 (TAK1) in bladder cancer cells and to analyze the potential biological effects. Dataset GSE52452 from mutant fibroblast growth factor receptor 3 (FGFR3) bladder cancer cells transfected with control siRNA or TAK1-specific siRNA was downloaded from Gene Expression Omnibus. The DEGs between the two groups were identified using Limma package following data pre-processing by Affy in Bioconductor...
May 2017: Oncology Letters
https://www.readbyqxmd.com/read/28520713/combining-inferred-regulatory-and-reconstructed-metabolic-networks-enhances-phenotype-prediction-in-yeast
#11
Zhuo Wang, Samuel A Danziger, Benjamin D Heavner, Shuyi Ma, Jennifer J Smith, Song Li, Thurston Herricks, Evangelos Simeonidis, Nitin S Baliga, John D Aitchison, Nathan D Price
Gene regulatory and metabolic network models have been used successfully in many organisms, but inherent differences between them make networks difficult to integrate. Probabilistic Regulation Of Metabolism (PROM) provides a partial solution, but it does not incorporate network inference and underperforms in eukaryotes. We present an Integrated Deduced And Metabolism (IDREAM) method that combines statistically inferred Environment and Gene Regulatory Influence Network (EGRIN) models with the PROM framework to create enhanced metabolic-regulatory network models...
May 17, 2017: PLoS Computational Biology
https://www.readbyqxmd.com/read/28520394/in-vitro-metabolic-engineering-of-amorpha-4-11-diene-biosynthesis-at-enhanced-rate-and-specific-yield-of-production
#12
Xixian Chen, Congqiang Zhang, Ruiyang Zou, Gregory Stephanopoulos, Heng-Phon Too
In vitro metabolic engineering is an alternative approach to cell-based biosynthesis. It offers unprecedented flexibility for the study of biochemical pathways, thus, providing useful information for the rational design and assembly of reaction modules. Herein, we took the advantage of in vitro metabolic engineering to initially gain insight into the regulatory network of a reconstituted amorpha-4,11-diene (AD) synthetic pathway. Guided by lin-log approximation, we rapidly identified the hitherto unrecognized inhibition of adenosine triphosphate (ATP) on both farnesyl pyrophosphate synthase (FPPS) and amorpha-4,11-diene synthase (ADS)...
May 18, 2017: ACS Synthetic Biology
https://www.readbyqxmd.com/read/28520105/large-scale-computational-models-of-liver-metabolism-how-far-from-the-clinics
#13
REVIEW
Tanja Cvitanović, Matthias C Reichert, Miha Moškon, Miha Mraz, Frank Lammert, Damjana Rozman
Understanding the dynamics of human liver metabolism is fundamental for effective diagnosis and treatment of liver diseases in general and the metabolism of drugs in particular. This knowledge can be obtained with systems biology/medicine approaches that account for the complexity of hepatic responses and their systemic consequences in other organs. Computational modelling can reveal hidden principles of the system by classification of individual components, analysing their interactions and simulating the effects that are difficult to investigate experimentally...
May 18, 2017: Hepatology: Official Journal of the American Association for the Study of Liver Diseases
https://www.readbyqxmd.com/read/28515794/influence-of-a-home-based-exercise-program-on-the-urine-ph-in-elderly-female-subjects-a-secondary-analysis-of-a-randomized-controlled-trial
#14
Yuichiro Nishida, Keitaro Tanaka, Megumi Hara, Noriko Hirao, Hiroaki Tanaka, Takuro Tobina, Masaharu Ikeda, Hiroshi Yamato, Masanori Ohta
BACKGROUND: A low urine pH is a characteristic metabolic feature of metabolic syndrome and type 2 diabetes. The purpose of the current study was to investigate the effects of a 12-week home-based bench step exercise on the urine pH status of elderly female subjects. METHODS: The current study is a secondary analysis of a randomized controlled trial (RCT) in which 59 postmenopausal female subjects were randomized to either the exercise group (n = 29) or the control group (n = 30)...
2017: European Review of Aging and Physical Activity
https://www.readbyqxmd.com/read/28515735/time-course-transcriptome-analysis-of-compatible-and-incompatible-pollen-stigma-interactions-in-brassica-napus-l
#15
Tong Zhang, Changbin Gao, Yao Yue, Zhiquan Liu, Chaozhi Ma, Guilong Zhou, Yong Yang, Zhiqiang Duan, Bing Li, Jing Wen, Bin Yi, Jinxiong Shen, Jinxing Tu, Tingdong Fu
Brassica species exhibit both compatible and incompatible pollen-stigma interactions, however, the underlying molecular mechanisms remain largely unknown. Here, RNA-seq technology was applied in a comprehensive time-course experiment (2, 5, 10, 20, and 30 min) to explore gene expression during compatible/incompatible pollen-stigma interactions in stigma. Moderate changes of gene expression were observed both in compatible pollination (PC) and incompatible pollination (PI) within 10 min, whereas drastic changes showed up by 30 min, especially in PI...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28515432/high-salt-intake-negatively-regulates-fat-deposition-in-mouse
#16
Huanxian Cui, Shuyan Yang, Maiqing Zheng, Ranran Liu, Guiping Zhao, Jie Wen
High-salt (HS) intake contributes to hypertension and cardiopathy, but the effect of HS on fat deposition is controversial. Feed intake, fat mass, the percentage of abdominal fat, heat production, rate of oxygen consumption and the respiratory exchange ratio of mice on a HS diet were significantly decreased (P < 0.01 or 0.05) compared with mice on a normal-salt (NS) diet. An in vitro experiment with differentiating pre-adipocytes showed reduced fat deposition in the presence of high concentrations of NaCl (>0...
May 17, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28515044/exploring-the-causal-pathway-from-telomere-length-to-coronary-heart-disease-a-network-mendelian-randomization-study
#17
Yiqiang Zhan, Ida K Karlsson, Robert Karlsson, Annika Tillander, Chandra A Reynolds, Nancy L Pedersen, Sara Hägg
Rationale: Observational studies have found shorter leukocyte telomere length to be a risk factor for coronary heart disease (CHD), and more recently the association was suggested to be causal. However, the relationship between telomere length and common metabolic risk factors for CHD is not well understood. Whether these risk factors could explain pathways from telomere length to CHD warrants further attention. Objective: To examine if metabolic risk factors for CHD mediate the causal pathway from short telomere length to increased risk of CHD using a network Mendelian randomization (MR) design...
May 17, 2017: Circulation Research
https://www.readbyqxmd.com/read/28514846/natural-mutagenesis-enabled-global-proteomic-study-of-metabolic-and-carbon-source-implications-in-mutant-thermoacidophillic-archaeon-sulfolobus-solfataricus-pbl2025
#18
Wen Qiu, Trong Khoa Pham, Xin Zou, Saw Yen Ow, Phillip C Wright
The thermoacidophilic crenarchaeon Sulfolobus solfataricus has been widely used as a model organism for archaeal systems biology research. Investigation using its spontaneous mutant PBL2025 provides an effective metabolic baseline to study subsequent mutagenesis-induced process shifts as well as changes in feedback inhibitions. Here, an untargeted metabolic investigation using quantitative proteomics and metabolomics was performed to correlate changes in S. solfataricus strains P2 against PBL2025 and under both glucose and tryptone...
May 17, 2017: Journal of Proteome Research
https://www.readbyqxmd.com/read/28514840/plastics-in-the-north-atlantic-garbage-patch-a-boat-microbe-for-hitchhikers-and-plastic-degraders
#19
Debroas Didier, Mone Anne, Ter Halle Alexandra
Plastic is a broad name given to different polymers with high molecular weight that impact wildlife. Their fragmentation leads to a continuum of debris sizes (meso to microplastics) entrapped in gyres and colonized by microorganisms. In the present work, the structure of eukaryotes, bacteria and Archaea was studied by a metabarcoding approach, and statistical analysis associated with network building was used to define a core microbiome at the plastic surface. Most of the bacteria significantly associated with the plastic waste originated from non-marine ecosystems, and numerous species can be considered as hitchhikers, whereas others act as keystone species (e...
May 13, 2017: Science of the Total Environment
https://www.readbyqxmd.com/read/28514140/properties-of-intermediates-in-the-catalytic-cycle-of-oxalate-oxidoreductase-and-its-suicide-inactivation-by-pyruvate
#20
Elizabeth Pierce, Steven O Mansoorabadi, Mehmet Can, George H Reed, Stephen W Ragsdale
Oxalate:ferredoxin oxidoreductase (OOR) is an unusual member of the thiamine pyrophosphate (TPP)-dependent 2-oxoacid:ferredoxin oxidoreductase (OFOR) family in that it catalyzes the coenzyme A (CoA)-independent conversion of oxalate into two moles of carbon dioxide. This reaction is surprising because binding of CoA to the acyl-TPP intermediate of other OFORs results in formation of a CoA ester and, in the case of pyruvate:ferredoxin oxidoreductase (PFOR), CoA binding generates the central metabolic intermediate acetyl-CoA and promotes a 10(5)-fold acceleration of the rate of electron transfer...
May 17, 2017: Biochemistry
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