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https://www.readbyqxmd.com/read/28545104/pkng-senses-amino-acid-availability-to-control-metabolism-and-virulence-of-mycobacterium-tuberculosis
#1
Barbara Rieck, Giulia Degiacomi, Michael Zimmermann, Alessandro Cascioferro, Francesca Boldrin, Natalie R Lazar-Adler, Andrew R Bottrill, Fabien le Chevalier, Wafa Frigui, Marco Bellinzoni, María-Natalia Lisa, Pedro M Alzari, Liem Nguyen, Roland Brosch, Uwe Sauer, Riccardo Manganelli, Helen M O'Hare
Sensing and response to changes in nutrient availability are essential for the lifestyle of environmental and pathogenic bacteria. Serine/threonine protein kinase G (PknG) is required for virulence of the human pathogen Mycobacterium tuberculosis, and its putative substrate GarA regulates the tricarboxylic acid cycle in M. tuberculosis and other Actinobacteria by protein-protein binding. We sought to understand the stimuli that lead to phosphorylation of GarA, and the roles of this regulatory system in pathogenic and non-pathogenic bacteria...
May 17, 2017: PLoS Pathogens
https://www.readbyqxmd.com/read/28544938/sex-steroids-and-metabolic-responses-in-mussels-mytilus-galloprovincialis-exposed-to-drospirenone
#2
Tiziana Cappello, Denise Fernandes, Maria Maisano, Andrea Casano, Marta Bonastre, Maria João Bebianno, Angela Mauceri, Salvatore Fasulo, Cinta Porte
Drospirenone (DRO) is a synthetic progestin derived from 17α-spironolactone with a pharmacological mechanism of action similar to progesterone. Despite its wide use as pharmaceutical and consequent continuous release into the aquatic environment, DRO effects have been poorly investigated on aquatic biota. In order to unravel the toxicity mechanisms of DRO, mussels Mytilus galloprovincialis were exposed for 7 days to different concentrations of DRO, namely 20ng/L (Low; L), 200ng/L (Medium; M), 2000ng/L (High; H) and 10μg/L (Super High; SH) nominal doses...
May 22, 2017: Ecotoxicology and Environmental Safety
https://www.readbyqxmd.com/read/28544881/mammalian-systems-biotechnology-reveals-global-cellular-adaptations-in-a-recombinant-cho-cell-line
#3
Faraaz Noor Khan Yusufi, Meiyappan Lakshmanan, Ying Swan Ho, Bernard Liat Wen Loo, Pramila Ariyaratne, Yuansheng Yang, Say Kong Ng, Tessa Rui Min Tan, Hock Chuan Yeo, Hsueh Lee Lim, Sze Wai Ng, Ai Ping Hiu, Chung Ping Chow, Corrine Wan, Shuwen Chen, Gavin Teo, Gao Song, Ju Xin Chin, Xiaoan Ruan, Ken Wing Kin Sung, Wei-Shou Hu, Miranda Gek Sim Yap, Muriel Bardor, Niranjan Nagarajan, Dong-Yup Lee
Effective development of host cells for therapeutic protein production is hampered by the poor characterization of cellular transfection. Here, we employed a multi-omics-based systems biotechnology approach to elucidate the genotypic and phenotypic differences between a wild-type and recombinant antibody-producing Chinese hamster ovary (CHO) cell line. At the genomic level, we observed extensive rearrangements in specific targeted loci linked to transgene integration sites. Transcriptional re-wiring of DNA damage repair and cellular metabolism in the antibody producer, via changes in gene copy numbers, was also detected...
May 24, 2017: Cell Systems
https://www.readbyqxmd.com/read/28544603/metabolic-reprogramming-of-macrophages-exposed-to-silk-poly-lactic-co-glycolic-acid-and-silica-nanoparticles
#4
Raquel Saborano, Thidarat Wongpinyochit, John D Totten, Blair F Johnston, F Philipp Seib, Iola F Duarte
Monitoring macrophage metabolism in response to nanoparticle exposure provides new insights into biological outcomes, such as inflammation or toxicity, and supports the design of tailored nanomedicines. This paper describes the metabolic signature of macrophages exposed to nanoparticles ranging in diameter from 100 to 125 nm and made from silk, poly(lactic-co-glycolic acid) or silica. Nanoparticles of this size and type are currently at various stages of preclinical and clinical development for drug delivery applications...
May 8, 2017: Advanced Healthcare Materials
https://www.readbyqxmd.com/read/28544323/mass-spectrometric-evidence-for-the-modification-of-small-molecules-in-a-cobalt-60-irradiated-rodent-diet
#5
J K Prasain, L S Wilson, A Arabshahi, C Grubbs, S Barnes
The purpose of this study was to investigate the effect of radiation on the content of animal diet constituents using global metabolomics. Aqueous methanolic extracts of control and cobalt-60 irradiated NIH 7001 diets were comprehensively analyzed using nanoLC-MS/MS. Among the over two thousand ions revealed by XCMS followed by data preprocessing, 94 positive and 143 negative metabolite ions had greater than 1.5 fold changes and p-values <0.01. Use of Metaboanalyst statistical software demonstrated complete separation of the irradiated and non-radiated diets in unsupervised principal components analysis and supervised partial least squares discriminant analysis...
May 24, 2017: Journal of Mass Spectrometry: JMS
https://www.readbyqxmd.com/read/28544148/structure-and-biosynthesis-of-crocagins-polycyclic-postranslationally-modified-ribosomal-peptides-from-chondromyces-crocatus
#6
Konrad Viehrig, Frank Surup, Carsten Volz, Jennifer Herrmann, Antoine Abou Fayad, Sebastian Adam, Jesko Köhnke, Dirk Trauner, Rolf Müller
Secondary metabolome mining efforts in the myxobacterial multiproducer of natural products, Chondromyces crocatus Cm c5, resulted in the isolation and structure elucidation of crocagins, which are novel polycyclic peptides containing a tetrahydropyrrolo[2,3-b]indole core. The gene cluster was identified through an approach combining genome analysis, targeted gene inactivation in the producer, and in vitro experiments. Based on our findings, we developed a biosynthetic scheme for crocagin biosynthesis. These natural products are formed from the three C-terminal amino acids of a precursor peptide and thus belong to a novel class of ribosomally synthesized and post-translationally modified peptides (RiPPs)...
May 23, 2017: Angewandte Chemie
https://www.readbyqxmd.com/read/28544073/hydrophilic-interaction-and-reversed-phase-ultra-performance-liquid-chromatography-tof-ms-for-metabolomic-analysis-of-veratrum-nigrum-induced-cardiotoxicity
#7
Ziheng Wei, Xu Dong, Hanzhe Zhang, Songyan Gao, Wei Shi, Feng Yang, Xin Dong
The acute cardiotoxicity induced by Veratrum nigrum (VN) is explored by analysing heart tissue metabolic profiles in mouse models and applying reversed-phase liquid chromatography mass spectrometry (RPLC-MS) and hydrophilic interaction liquid chromatography mass spectrometry (HILIC-MS) that are based on ultra-high performance liquid chromatography quadrupole time-of-flight mass spectrometry (UPLC-QTOF-MS). An animal model of acute heart injury was established in mice via intra-gastric administration of VN. Then, electrocardiogram, echocardiograph monitoring of cardiac function and pathological examination were performed on mice both in the control and VN groups, and it was successfully verified that acute heart injury was caused...
May 22, 2017: Biomedical Chromatography: BMC
https://www.readbyqxmd.com/read/28543988/absolute-minimal-sampling-of-homonuclear-2d-nmr-tocsy-spectra-for-high-throughput-applications-of-complex-mixtures
#8
Alexandar Hansen, Da-Wei Li, Cheng Wang, Rafael Bruschweiler
Modern applications of 2D NMR spectroscopy to diagnostic screening, metabolomics, quality control, and other high-throughput applications are often limited by the time-consuming sampling requirements along the indirect time domain t1. 2D Total Correlation Spectroscopy (TOCSY) provides unique spin-connectivity information for the analysis of a large number of compounds in complex mixtures, but standard methods typically require >100 t1-increments for an accurate spectral reconstruction, rendering these experiments ineffective for high-throughput applications...
May 23, 2017: Angewandte Chemie
https://www.readbyqxmd.com/read/28543881/a-review-of-blood-sample-handling-and-pre-processing-for-metabolomics-studies
#9
REVIEW
Vinicius Veri Hernandes, Coral Barbas, Danuta Dudzik
Metabolomics has been found to be applicable to a wide range of clinical studies, bringing a new era for improving clinical diagnostics, early disease detection, therapy prediction and treatment efficiency monitoring. A major challenge in metabolomics, particularly untargeted studies, is the extremely diverse and complex nature of biological specimens. Despite great advances in the field there still exist fundamental needs for considering pre-analytical variability that can introduce bias to the subsequent analytical process and decrease the reliability of the results and moreover confound final research outcomes...
May 19, 2017: Electrophoresis
https://www.readbyqxmd.com/read/28542832/integrated-transcriptomic-and-metabolomic-analysis-reveals-adaptive-changes-of-hibernating-retinas
#10
Yizhao Luan, Jingxing Ou, Vincent P Kunze, Fengyu Qiao, Yan Wang, Lai Wei, Wei Li, Zhi Xie
Hibernation is a seasonally adaptive strategy that allows hibernators to live through extremely cold conditions. Despite the profound reduction of blood flow to the retinas, hibernation causes no lasting retinal injury. Instead, hibernators show an increased tolerance to ischemic insults during the hibernation period. To understand the molecular changes of the retinas in response to hibernation, we applied an integrative transcriptome and metabolome analysis to explore changes in gene expression and metabolites of 13-lined ground squirrel retinas during hibernation...
May 25, 2017: Journal of Cellular Physiology
https://www.readbyqxmd.com/read/28542544/development-and-characterization-of-an-experimental-model-of-diet-induced-metabolic-syndrome-in-rabbit
#11
Oscar Julián Arias-Mutis, Vannina G Marrachelli, Amparo Ruiz-Saurí, Antonio Alberola, Jose Manuel Morales, Luis Such-Miquel, Daniel Monleon, Francisco J Chorro, Luis Such, Manuel Zarzoso
Metabolic syndrome (MetS) has become one of the main concerns for public health because of its link to cardiovascular disease. Murine models have been used to study the effect of MetS on the cardiovascular system, but they have limitations for studying cardiac electrophysiology. In contrast, the rabbit cardiac electrophysiology is similar to human, but a detailed characterization of the different components of MetS in this animal is still needed. Our objective was to develop and characterize a diet-induced experimental model of MetS that allows the study of cardiovascular remodeling and arrhythmogenesis...
2017: PloS One
https://www.readbyqxmd.com/read/28542375/human-plasma-metabolomics-in-age-related-macular-degeneration-amd-using-nuclear-magnetic-resonance-spectroscopy
#12
Inês Laíns, Daniela Duarte, António S Barros, Ana Sofia Martins, João Gil, John B Miller, Marco Marques, Tânia Mesquita, Ivana K Kim, Maria da Luz Cachulo, Demetrios Vavvas, Isabel M Carreira, Joaquim N Murta, Rufino Silva, Joan W Miller, Deeba Husain, Ana M Gil
PURPOSE: To differentiate the plasma metabolomic profile of patients with age related macular degeneration (AMD) from that of controls, by Nuclear Magnetic Resonance (NMR) spectroscopy. METHODS: Two cohorts (total of 396 subjects) representative of central Portugal and Boston, USA phenotypes were studied. For each cohort, subjects were grouped according to AMD stage (early, intermediate and late). Multivariate analysis of plasma NMR spectra was performed, followed by signal integration and univariate analysis...
2017: PloS One
https://www.readbyqxmd.com/read/28542224/is-spaceflight-induced-immune-dysfunction-linked-to-systemic-changes-in-metabolism
#13
Michael J Pecaut, Xiao Wen Mao, Denise L Bellinger, Karen R Jonscher, Louis S Stodieck, Virginia L Ferguson, Ted A Bateman, Robert P Mohney, Daila S Gridley
The Space Shuttle Atlantis launched on its final mission (STS-135) on July 8, 2011. After just under 13 days, the shuttle landed safely at Kennedy Space Center (KSC) for the last time. Female C57BL/6J mice flew as part of the Commercial Biomedical Testing Module-3 (CBTM-3) payload. Ground controls were maintained at the KSC facility. Subsets of these mice were made available to investigators as part of NASA's Bio-specimen Sharing Program (BSP). Our group characterized cell phenotype distributions and phagocytic function in the spleen, catecholamine and corticosterone levels in the adrenal glands, and transcriptomics/metabolomics in the liver...
2017: PloS One
https://www.readbyqxmd.com/read/28541040/metabolic-effect-of-1-deoxynojirimycin-from-mulberry-leaves-on-db-db-diabetic-mice-using-lc-ms-based-metabolomics
#14
Xue-Qin Hu, Kiran Thakur, Gui-Hai Chen, Fei Hu, Jian-Guo Zhang, Hong-Bin Zhang, Zhao-Jun Wei
Metabolomics was applied to LC-MS urinary metabolic profile of type 2 diabetes (T2DM) mice treated with mulberry 1-deoxynojirimycin (DNJ). The serum biochemical indicators related to T2DM like blood glucose, insulin, triglyceride, total cholesterol, nitrogen, malondialdehyde and creatinine decreased significantly in treated group. The histopathological changes in liver cells were marked by deformations and disruptions in central area of nuclei in DM mice, whereas, DNJ treatment recovered regular liver cells with normal nuclei...
May 25, 2017: Journal of Agricultural and Food Chemistry
https://www.readbyqxmd.com/read/28540498/metabolic-regulation-of-hematopoietic-and-leukemic-stem-progenitor-cells-under-homeostatic-and-stress-conditions
#15
REVIEW
Daiki Karigane, Keiyo Takubo
Hematopoietic stem cells (HSCs) exhibit multilineage differentiation and self-renewal activities that maintain the entire hematopoietic system during an organism's lifetime. These abilities are sustained by intrinsic transcriptional programs and extrinsic cues from the microenvironment or niche. Recent studies using metabolomics technologies reveal that metabolic regulation plays an essential role in HSC maintenance. Metabolic pathways provide energy and building blocks for other factors functioning at steady state and in stress...
May 24, 2017: International Journal of Hematology
https://www.readbyqxmd.com/read/28539670/simvastatin-and-bezafibrate-ameliorate-emotional-disorder-induced-by-high-fat-diet-in-c57bl-6-mice
#16
Hui Wang, Jia Zhou, Qiong Zhen Liu, Lu Lu Wang, Jing Shang
High fat diet (HFD)-induced metabolic disorders may lead to emotional disorders. This study aimed to explore the effect of simvastatin (SMV) and bezafibrate (BZ) on improving HFD-induced emotional changes, and tried to identify their different mechanisms. The intraperitoneal glucose tolerance test (IPGTT) was used to evaluate glucose control ability; and behavior tests including open field tests (OFT), forced swimming tests (FST), tail suspension tests (TST) and sucrose preference (SPT), were then performed to evaluate emotional changes...
May 24, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28539642/combinatory-evaluation-of-transcriptome-and-metabolome-profiles-of-low-temperature-induced-resistant-ascites-syndrome-in-broiler-chickens
#17
Shourong Shi, Yiru Shen, Shan Zhang, Zhenhua Zhao, Zhuocheng Hou, Huaijun Zhou, Jianmin Zou, Yuming Guo
To select metabolic biomarkers and differentially expressed genes (DEGs) associated with resistant-ascites syndrome (resistant-AS), we used innovative techniques such as metabolomics and transcriptomics to comparatively examine resistant-AS chickens and AS controls. Metabolomic evaluation of chicken serum using ultra-performance liquid chromatography-quadruple time-of-flight high-sensitivity mass spectrometry (UPLC-QTOF/HSMS) showed significantly altered lysoPC(18:1), PE(18:3/16:0), PC(20:1/18:3), DG(24:1/22:6/0:0), PS(18:2/18:0), PI(16:0/16:0), PS(18:0/18:1), PS(14:1/14:0), dihydroxyacetone, ursodeoxycholic acid, tryptophan, L-valine, cycloserine, hypoxanthine, and 4-O-Methylmelleolide concentrations on day 21 and LysoPC(18:0), LysoPE(20:1/0:0), LysoPC(16:0), LysoPE(16:0/0:0), hypoxanthine, dihydroxyacetone, 4-O-Methylmelleolide, LysoPC(18:2), and PC(14:1/22:1) concentrations on day 35, between the susceptible and resistant groups...
May 24, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28539352/a-metabolomics-based-biomarker-signature-discriminates-pancreatic-cancer-from-chronic-pancreatitis
#18
EDITORIAL
Eithne Costello
No abstract text is available yet for this article.
May 24, 2017: Gut
https://www.readbyqxmd.com/read/28539122/an-inference-method-from-multi-layered-structure-of-biomedical-data
#19
Myungjun Kim, Yonghyun Nam, Hyunjung Shin
BACKGROUND: Biological system is a multi-layered structure of omics with genome, epigenome, transcriptome, metabolome, proteome, etc., and can be further stretched to clinical/medical layers such as diseasome, drugs, and symptoms. One advantage of omics is that we can figure out an unknown component or its trait by inferring from known omics components. The component can be inferred by the ones in the same level of omics or the ones in different levels. METHODS: To implement the inference process, an algorithm that can be applied to the multi-layered complex system is required...
May 18, 2017: BMC Medical Informatics and Decision Making
https://www.readbyqxmd.com/read/28538732/cps1-maintains-pyrimidine-pools-and-dna-synthesis-in-kras-lkb1-mutant-lung-cancer-cells
#20
Jiyeon Kim, Zeping Hu, Ling Cai, Kailong Li, Eunhee Choi, Brandon Faubert, Divya Bezwada, Jaime Rodriguez-Canales, Pamela Villalobos, Yu-Fen Lin, Min Ni, Kenneth E Huffman, Luc Girard, Lauren A Byers, Keziban Unsal-Kacmaz, Christopher G Peña, John V Heymach, Els Wauters, Johan Vansteenkiste, Diego H Castrillon, Benjamin P C Chen, Ignacio Wistuba, Diether Lambrechts, Jian Xu, John D Minna, Ralph J DeBerardinis
Metabolic reprogramming by oncogenic signals promotes cancer initiation and progression. The oncogene KRAS and tumour suppressor STK11, which encodes the kinase LKB1, regulate metabolism and are frequently mutated in non-small-cell lung cancer (NSCLC). Concurrent occurrence of oncogenic KRAS and loss of LKB1 (KL) in cells specifies aggressive oncological behaviour. Here we show that human KL cells and tumours share metabolomic signatures of perturbed nitrogen handling. KL cells express the urea cycle enzyme carbamoyl phosphate synthetase-1 (CPS1), which produces carbamoyl phosphate in the mitochondria from ammonia and bicarbonate, initiating nitrogen disposal...
May 24, 2017: Nature
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