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Metabolomic analysis

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https://www.readbyqxmd.com/read/29235871/increased-levels-of-circulating-fatty-acids-are-associated-with-protective-effects-against-future-cardiovascular-events-in-non-diabetics
#1
Muhammad Anas Kamleh, Olga McLeod, Antonio Checa, Damiano Baldassarre, Fabrizio Veglia, Karl Gertow, Steve E Humphries, Rainer Rauramaa, Ulf deFaire, Andries J Smit, Philippe Giral, Sudhir Kurl, Elmo Mannarino, Elena Tremoli, Angela Silveira, John Orvik, Anders Hamsten, Craig E Wheelock
Cardiovascular disease (CVD) is a major cause of morbidity and mortality worldwide, particularly in individuals with diabetes. The current study objective was to determine the circulating metabolite profiles associated with the risk of future cardiovascular events, with emphasis on diabetes status. Non-targeted metabolomics analysis was performed by LC-HRMS in combination with targeted quantification of eicosanoids and endocannabinoids. Plasma from 375 individuals from the IMPROVE pan-European cohort were included in a case-control study design...
December 13, 2017: Journal of Proteome Research
https://www.readbyqxmd.com/read/29235868/a-metabolomic-signature-of-endometrial-cancer
#2
Jacopo Troisi, Laura Sarno, Annamaria Landolfi, Giovanni Scala, Pasquale Martinelli, Roberta Venturella, Annalisa Di Cello, Fulvio Zullo, Maurizio Guida
Endometrial cancer (EC) is the most common cancer of the female reproductive tract in developed Countries. At the moment, no effective screening system is available. Here, we evaluate the diagnostic performance of a serum metabolomic signature. Two enrollments were carried out: one constituted of 168 subjects: 88 with EC and 80 healthy women, was used for building the classification models. The second (used to establish the performance of the classification algorithm) was constituted of 120 subjects: 30 with EC, 30 with ovarian cancer, 10 with benign endometrial disease and 50 healthy controls...
December 13, 2017: Journal of Proteome Research
https://www.readbyqxmd.com/read/29234904/post-genomics-era-for-orchid-research
#3
REVIEW
Wen-Chieh Tsai, Anne Dievart, Chia-Chi Hsu, Yu-Yun Hsiao, Shang-Yi Chiou, Hsin Huang, Hong-Hwa Chen
Among 300,000 species in angiosperms, Orchidaceae containing 30,000 species is one of the largest families. Almost every habitats on earth have orchid plants successfully colonized, and it indicates that orchids are among the plants with significant ecological and evolutionary importance. So far, four orchid genomes have been sequenced, including Phalaenopsis equestris, Dendrobium catenatum, Dendrobium officinale, and Apostaceae shengen. Here, we review the current progress and the direction of orchid research in the post genomics era...
December 12, 2017: Botanical Studies (Taipei, Taiwan)
https://www.readbyqxmd.com/read/29234415/1h-nmr-based-serum-metabolomics-study-to-investigate-hepatoprotective-effect-of-qin-jiao-on-carbon-tetrachloride-induced-acute-hepatotoxicity-in-rats
#4
Zeyun Li, Ying Li, Lingpan Lu, Zhiheng Yang, Wenhua Xue, Xin Tian, Xiaojian Zhang
Gentiana macrophylla Radix, commonly known as Qin-Jiao (QJ), was recorded alone to treat jaundice in Compendium of Materia Medica and has been frequently prescribed for treatment of liver disease in China. However, the underlying mechanism remains unknown. In the present work, QJ of 1,2 g/kg or silybin of 40 mg/kg (positive control) was orally given to rats for 7 days to verify the protective effect on acute liver damage induced by tetrachloride (CCl4). Together with serum biochemistry and histopathological examination, 1H-NMR based metabolomics work was carried out to investigate the efficacy...
2017: Evidence-based Complementary and Alternative Medicine: ECAM
https://www.readbyqxmd.com/read/29233709/metabolomics-analysis-of-alloxan-induced-diabetes-in-mice-using-uplc-q-tof-ms-after-crassostrea-gigas-polysaccharide-treatment
#5
Guanhua Zhao, Xilong Hou, Xingyao Li, Min Qu, Changqing Tong, Wei Li
Diabetes has become a global and serious health issues which causes a variety of complications. This study aims to explore the hypoglycemic effect of Crassostrea gigas polysaccharide (CGPS) and the dynamic changes in the endogenous small molecule metabolites of urine from normal group, model group and CGPS high dose group by metabolomic approach (UPLC-Q-TOF-MS). In our study, the CGPS treatment could reduce the fasting blood glucose levels and recover the triglycerides (TG), total cholesterol (TC) and glycosylated serum protein (GSP) levels in serum of diabetic mice...
December 9, 2017: International Journal of Biological Macromolecules
https://www.readbyqxmd.com/read/29232014/mutations-of-the-glycine-cleavage-system-genes-possibly-affect-the-negative-symptoms-of-schizophrenia-through-metabolomic-profile-changes
#6
Akane Yoshikawa, Fumichika Nishimura, Aya Inai, Yosuke Eriguchi, Masaki Nishioka, Atsuhiko Takaya, Mamoru Tochigi, Yoshiya Kawamura, Tadashi Umekage, Kayoko Kato, Tsukasa Sasaki, Yoshiaki Ohashi, Kazuya Iwamoto, Kiyoto Kasai, Chihiro Kakiuchi
AIM: Hypofunction of N-methyl-D-aspartate receptors (NMDARs) may contribute to the pathophysiology of schizophrenia (SCZ). Recently, the glycine cleavage system (GCS) was shown to affect NMDAR function in the brain. GCS functional defects cause nonketotic hyperglycinemia (NKH), the atypical phenotype of which presents psychiatric symptoms similar to SCZ. Here, we examined the involvement of GCS in SCZ. METHODS: First, to identify the rare variants and the exonic deletions, we re-sequenced all the coding exons and the splice sites of four GCS genes (GLDC, AMT, GCSH, DLD) in 474 patients with SCZ and 475 controls and performed multiplex ligation-dependent probe amplification (MLPA) analysis in SCZ...
December 12, 2017: Psychiatry and Clinical Neurosciences
https://www.readbyqxmd.com/read/29231702/stacked-injections-of-biphasic-extractions-for-improved-metabolomic-coverage-and-sample-throughput
#7
Corey David Broeckling, Jessica E Prenni
Omics technologies attempt to provide comprehensive coverage of their target analytes. Comprehensive coverage of metabolites - the aim of non-targeted metabolomics applications - is hindered by the extreme diversity in physiochemical properties of the metabolome. One approach to deal with this challenge is the use of biphasic extractions. These methods generate two largely complementary extracts from a single sample, with an organic lipid-rich fraction and an aqueous fraction containing largely primary and secondary metabolites...
December 12, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/29231001/-metabolic-characteristics-of-lethal-bradycardia-induced-by-myocardial-ischemia
#8
J Y Wu, D Wang, J Kong, X X Wang, X J Yu
OBJECTIVES: To explore the metabolic characteristics of lethal bradycardia induced by myocardial ischemia in rat's serum. METHODS: A rat myocardial ischemia-bradycardia-sudden cardiac death (MI-B-SCD) model was established, which was compared with the sham-operation group. The metabolic profile of postmortem serum was analyzed by gas chromatography-mass spectrometry (GC-MS), coupled with the analysis of serum metabolic characteristics using metabolomics strategies...
February 2017: Fa Yi Xue za Zhi
https://www.readbyqxmd.com/read/29230249/the-impact-of-gfp-reporter-gene-transduction-and-expression-on-metabolomics-of-placental-mesenchymal-stem-cells-determined-by-uhplc-q-tof-ms
#9
Jinfeng Yang, Nan Wang, Deying Chen, Jiong Yu, Qiaoling Pan, Dan Wang, Jingqi Liu, Xiaowei Shi, Xiaotian Dong, Hongcui Cao, Liang Li, Lanjuan Li
Introduction: Green fluorescent protein (GFP) is widely used as a reporter gene in regenerative medicine research to label and track stem cells. Here, we examined whether expressing GFP gene may impact the metabolism of human placental mesenchymal stem cells (hPMSCs). Methods: The GFP gene was transduced into hPMSCs using lentiviral-based infection to establish GFP+hPMSCs. A sensitive 13C/12C-dansyl labeling LC-MS method targeting the amine/phenol submetabolome was used for in-depth cell metabolome profiling...
2017: Stem Cells International
https://www.readbyqxmd.com/read/29229969/transcriptome-and-metabolome-profiling-of-narcissus-pseudonarcissus-king-alfred-reveal-components-of-amaryllidaceae-alkaloid-metabolism
#10
Aparna Singh, Isabel Desgagné-Penix
Amaryllidaceae alkaloids (AAs) represent a diverse class of plant specialized metabolites and many display potent pharmacological activities. The AA metabolic pathway is poorly understood and resources are minimal. To enable AA pathway elucidation and novel biosynthetic enzymes discovery, we generated comprehensive metabolomic and corresponding transcriptomic datasets from different tissues of Narcissus pseudonarcissus 'King Alfred'. In this study, we performed untargeted UPLC-QTOF-MS metabolite analysis from different tissues, which generated exhaustive list of compounds, including several AAs, most predominant and diverse in bulbs...
December 11, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29228968/feces-and-liver-tissue-metabonomics-studies-on-the-regulatory-effect-of-aspirin-eugenol-eater-in-hyperlipidemic-rats
#11
Ning Ma, Xiwang Liu, Xiaojun Kong, Shihong Li, Zenghua Jiao, Zhe Qin, Pengcheng Dong, Yajun Yang, Jianyong Li
BACKGROUND: Based on the pro-drug principle, aspirin and eugenol were esterified to synthesize aspirin eugenol ester (AEE). The anti-hyperlipidemia effect of aspirin eugenol ester has been confirmed in hyperlipidemic rat induced by high fat diet (HFD). However, its effect on liver and feces metabonomic profiles remains unknown. METHODS: Suspension of AEE was prepared in 5% carboxymethyl cellulose sodium (CMC-Na). Thirty rats were divided into control, model and AEE groups...
December 11, 2017: Lipids in Health and Disease
https://www.readbyqxmd.com/read/29227833/vitamin-a-deficiency-in-mice-alters-host-and-gut-microbial-metabolism-leading-to-altered-energy-homeostasis
#12
Yuan Tian, Robert G Nichols, Jingwei Cai, Andrew D Patterson, Margherita T Cantorna
Vitamin A deficiency (A-) is a worldwide public health problem. To better understand how vitamin A status influences gut microbiota and host metabolism, we systematically analyzed urine, cecum, serum and liver samples from vitamin A sufficient (A+) and deficient (A-) mice using 1H NMR-based metabolomics, quantitative (q)PCR and 16S rRNA gene sequencing coupled with multivariate data analysis. The microbiota in the cecum of A- mice showed compositional as well as functional shifts compared to the microbiota from A+ mice...
November 5, 2017: Journal of Nutritional Biochemistry
https://www.readbyqxmd.com/read/29225351/metabolome-wide-association-studies-for-agronomic-traits-of-rice
#13
Julong Wei, Aiguo Wang, Ruidong Li, Han Qu, Zhenyu Jia
Identification of trait-associated metabolites will advance the knowledge and understanding of the biosynthetic and catabolic pathways that are relevant to the complex traits of interest. In the past, the association between metabolites (treated as quantitative traits) and genetic variants (e.g., SNPs) has been extensively studied using metabolomic quantitative trait locus (mQTL) mapping. Nevertheless, the research on the association between metabolites with agronomic traits has been inadequate. In practice, the regular approaches for QTL mapping analysis may be adopted for metabolites-phenotypes association analysis due to the similarity in data structure of these two types of researches...
December 11, 2017: Heredity
https://www.readbyqxmd.com/read/29225300/metabolomic-analysis-in-heart-failure
#14
Ryutaro Ikegami, Ippei Shimizu, Yohko Yoshida, Tohru Minamino
It is thought that at least 6,500 low-molecular-weight metabolites exist in humans, and these metabolites have various important roles in biological systems in addition to proteins and genes. Comprehensive assessment of endogenous metabolites is called metabolomics, and recent advances in this field have enabled us to understand the critical role of previously unknown metabolites or metabolic pathways in the cardiovascular system. In this review, we will focus on heart failure and how metabolomic analysis has contributed to improving our understanding of the pathogenesis of this critical condition...
December 8, 2017: Circulation Journal: Official Journal of the Japanese Circulation Society
https://www.readbyqxmd.com/read/29224734/optimization-of-the-quenching-and-extraction-procedures-for-a-metabolomic-analysis-of-lactobacillus-plantarum
#15
Qin Yang, Rui Tao, Bo Yang, Hao Zhang, Yong Q Chen, Haiqin Chen, Wei Chen
This study evaluated the quenching and extraction procedures using different solvents at different temperatures for Lactobacillus plantarum ZS2058. Eight quenching methods that used readily available organic solvents (methanol and ethanol) or cryoprotectants (glycerol and dimethyl sulfoxide) were evaluated quantitatively, and their effects on cell membrane integrity and metabolic inactivation were assessed by propidium iodide and energy charge assays, respectively. The combination of 20% methanol and 0.9% sodium chloride (-4 °C), with the lowest propidium iodide labelling rate of 3...
December 7, 2017: Analytical Biochemistry
https://www.readbyqxmd.com/read/29223814/a-metabolomics-strategy-to-assess-the-combined-toxicity-of-polycyclic-aromatic-hydrocarbons-pahs-and-short-chain-chlorinated-paraffins-sccps
#16
Feidi Wang, Haijun Zhang, Ningbo Geng, Xiaoqian Ren, Baoqin Zhang, Yufeng Gong, Jiping Chen
The combined toxicity of mixed chemicals is usually evaluated according to several specific endpoints, and other potentially toxic effects are disregarded. In this study, we provided a metabolomics strategy to achieve a comprehensive understanding of toxicological interactions between mixed chemicals on metabolism. The metabolic changes were quantified by a pseudotargeted analysis, and the types of combined effects were quantitatively discriminated according to the calculation of metabolic effect level index (MELI)...
December 7, 2017: Environmental Pollution
https://www.readbyqxmd.com/read/29223015/thiamine-accumulation-and-thiamine-triphosphate-decline-occur-in-parallel-with-atp-exhaustion-during-postmortem-aging-of-pork-muscles
#17
S Muroya, M Oe, K Ojima
We aimed to clarify the mechanisms affecting postmortem thiamine and its phosphoester contents in major edible pork muscles, namely the longissimus lumborum (LL) in addition to vastus intermedius (VI). Metabolomic analysis by capillary electrophoresis-time of flight mass spectrometry revealed that the level of thiamine triphosphate (ThTP), approximately 1.8-fold higher in LL than in VI muscle at 0h postmortem, declined in the first 24h, resulting in an undetectable level at 168h postmortem in both muscles. In contrast, the thiamine content in both muscles increased after 24h postmortem during the aging process...
December 2, 2017: Meat Science
https://www.readbyqxmd.com/read/29222756/metabolic-model-reconstruction-and-analysis-of-an-artificial-microbial-ecosystem
#18
Chao Ye, Nan Xu, Xiulai Chen, Liming Liu
Microbial communities are widespread in the environment, and to isolate and identify species or to determine relations among microorganisms, some 'omics methods like metagenomics, proteomics, and metabolomics have been used. When combined with various 'omics data, models known as artificial microbial ecosystems (AME) are powerful methods that can make functional predictions about microbial communities. Reconstruction of an AME model is the first step for model analysis. Many techniques have been applied to the construction of AME models, e...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29220569/crocadepsins-depsipeptides-from-the-myxobacterium-chondromyces-crocatus-found-by-a-genome-mining-approach
#19
Frank Surup, Konrad Viehrig, Shwan Rachid, Alberto Plaza, Christine K Maurer, Rolf W Hartmann, Rolf Müller
Analysis of the genome sequence of the myxobacterium Chondromyces crocatus Cm c5 revealed the presence of numerous cryptic megasynthetase gene clusters, one of which we here assign to two previously unknown chlorinated metabolites by a comparative gene inactivation and secondary metabolomics approach. Structure elucidation of these compounds revealed a unique cyclic depsipeptide skeleton featuring β- and δ-amide bonds of aspartic acid and 3-methyl ornithine moieties, respectively. Insights into their biosynthesis were obtained by targeted gene inactivation and feeding experiments employing isotope-labeled precursors...
December 8, 2017: ACS Chemical Biology
https://www.readbyqxmd.com/read/29218948/-preliminary-screening-of-biomarkers-for-curcumin-s-antidepressant-effect-based-on-metabonomics-method
#20
Zhi-Jie Ma, Wei Zhang, Jie-Ming Dong, Xiao-Hong Yu, Xiao-Mei Zhao, Shi-Biao Pu
To screen potential biomarkers of curcumin related to treating depression rats by using metabolomics means, so as to explore the antidepressant action mechanism of curcumin. The healthy male SD rats were randomly divided into four groups. Chronic unpredictable mild stress (CUMS) stimulation was conducted for modeling for 2 weeks, and then curcumin (200 mg•kg⁻¹) or venlafaxine (40 mg•kg⁻¹) was given by gavage administration. The blank group and model group rats were given with the same volume of 1% CMCNa normal saline, once per day for two weeks...
September 2017: Zhongguo Zhong Yao za Zhi, Zhongguo Zhongyao Zazhi, China Journal of Chinese Materia Medica
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