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https://www.readbyqxmd.com/read/28419726/chemotaxonomic-characterization-of-the-thaumarchaeal-lipidome
#1
Felix J Elling, Martin Könneke, Graeme W Nicol, Michaela Stieglmeier, Barbara Bayer, Eva Spieck, José R de la Torre, Kevin W Becker, Michael Thomm, James I Prosser, Gerhard J Herndl, Christa Schleper, Kai-Uwe Hinrichs
Thaumarchaeota are globally distributed and abundant microorganisms occurring in diverse habitats and thus represent a major source of archaeal lipids. The scope of lipids as taxonomic markers in microbial ecological studies is limited by the scarcity of comparative data on the membrane lipid composition of cultivated representatives, including the phylum Thaumarchaeota. Here, we comprehensively describe the core and intact polar lipid (IPL) inventory of ten ammonia-oxidizing thaumarchaeal cultures representing all four characterized phylogenetic clades...
April 17, 2017: Environmental Microbiology
https://www.readbyqxmd.com/read/28405621/lipidfinder-a-computational-workflow-for-discovery-of-lipids-identifies-eicosanoid-phosphoinositides-in-platelets
#2
Anne O'Connor, Christopher J Brasher, David A Slatter, Sven W Meckelmann, Jade I Hawksworth, Stuart M Allen, Valerie B O'Donnell
Accurate and high-quality curation of lipidomic datasets generated from plasma, cells, or tissues is becoming essential for cell biology investigations and biomarker discovery for personalized medicine. However, a major challenge lies in removing artifacts otherwise mistakenly interpreted as real lipids from large mass spectrometry files (>60 K features), while retaining genuine ions in the dataset. This requires powerful informatics tools; however, available workflows have not been tailored specifically for lipidomics, particularly discovery research...
April 6, 2017: JCI Insight
https://www.readbyqxmd.com/read/28391860/lipidomic-analysis-for-carbonyl-species-derived-from-fish-oil-using-liquid-chromatography-tandem-mass-spectrometry
#3
Joon Hyuk Suh, Yue S Niu, Wei-Lun Hung, Chi-Tang Ho, Yu Wang
Lipid peroxidation gives rise to carbonyl species, some of which are reactive and play a role in the pathogenesis of numerous human diseases. Oils are ubiquitous sources that can be easily oxidized to generate these compounds under oxidative stress. In this present work, we developed a targeted lipidomic method for the simultaneous determination of thirty-five aldehydes and ketones derived from fish oil, the omega-3 fatty acid-rich source, by using liquid chromatography-tandem mass spectrometry (LC-MS/MS). The analytes include highly toxic reactive carbonyl species (RCS) such as acrolein, crotonaldehyde, trans-4-hydroxy-2-hexenal (HHE), trans-4-hydroxy-2-nonenal (HNE), trans-4-oxo-2-nonenal (ONE), glyoxal and methylglyoxal, all of which are promising biomarkers of lipid peroxidation...
June 1, 2017: Talanta
https://www.readbyqxmd.com/read/28372724/simultaneous-metabolomics-and-lipidomics-analysis-based-on-novel-heart-cutting-two-dimensional-liquid-chromatography-mass-spectrometry
#4
Shuangyuan Wang, Lina Zhou, Zhichao Wang, Xianzhe Shi, Guowang Xu
Increasing metabolite coverage by combining data from different platforms or methods can improve understanding of related metabolic mechanisms and the identification of biomarkers. However, no one method can obtain metabolomic and lipidomic information in a single analysis. In this work, aiming at collecting comprehensive information on metabolome and lipidome in a single analytical run, we developed an on-line heart-cutting two-dimensional liquid chromatography-mass spectrometry (2D-LC-MS) method. Complex metabolites from biological samples are divided into two fractions by using a precolumn...
May 8, 2017: Analytica Chimica Acta
https://www.readbyqxmd.com/read/28344632/dynamic-and-temporal-assessment-of-human-dried-blood-spot-ms-ms-all-shotgun-lipidomics-analysis
#5
Fei Gao, Justice McDaniel, Emily Y Chen, Hannah E Rockwell, Jeremy Drolet, Vivek K Vishnudas, Vladimir Tolstikov, Rangaprasad Sarangarajan, Niven R Narain, Michael A Kiebish
BACKGROUND: Real-time and dynamic assessment of an individual's lipid homeostatic state in blood is complicated due to the need to collect samples in a clinical environment. In the context of precision medicine and population health, tools that facilitate sample collection and empower the individual to participate in the process are necessary to complement advanced bioanalytical analysis. The dried blood spot (DBS) methodology via finger prick or heel prick is a minimally invasive sample collection method that allows the relative ease and low cost of sample collection as well as transport...
2017: Nutrition & Metabolism
https://www.readbyqxmd.com/read/28339984/the-link-between-phenotype-and-fatty-acid-metabolism-in-advanced-chronic-kidney-disease
#6
Dan-Qian Chen, Hua Chen, Lin Chen, Nosratola D Vaziri, Ming Wang, Xiang-Ri Li, Ying-Yong Zhao
Background.: The kidney plays a central role in elimination of metabolic waste products and regulation of low-molecular weight metabolites via glomerular filtration, tubular secretion and reabsorption. Disruption of these processes results in profound changes in the biochemical milieu of the body fluids, which contribute to complications of chronic kidney disease (CKD) by inducing cytotoxicity and inflammation. Insight into the changes of the composition of metabolites and dysregulation of target genes and proteins enhances the understanding of the pathophysiology of CKD and its complications, and the development of novel therapeutic strategies...
March 1, 2017: Nephrology, Dialysis, Transplantation
https://www.readbyqxmd.com/read/28333036/apoe-%C3%AE%C2%B54-specific-imbalance-of-arachidonic-acid-and-docosahexaenoic-acid-in-serum-phospholipids-identifies-individuals-with-preclinical-mild-cognitive-impairment-alzheimer-s-disease
#7
Laila Abdullah, James E Evans, Tanja Emmerich, Gogce Crynen, Ben Shackleton, Andrew P Keegan, Cheryl Luis, Leon Tai, Mary J LaDu, Michael Mullan, Fiona Crawford, Corbin Bachmeier
This study was designed to explore the influence of apolipoprotein E (APOE) on blood phospholipids (PL) in predicting preclinical Alzheimer's disease (AD). Lipidomic analyses were also performed on blood from an AD mouse model expressing human APOE isoforms (EFAD) and five AD mutations and from 195 cognitively normal participants, 23 of who converted to mild cognitive impairment (MCI)/AD within 3 years. APOE ε4-carriers converting to MCI/AD had high arachidonic acid (AA)/docosahexaenoic acid (DHA) ratios in PL compared to cognitively normal ε4 and non-ε4 carriers...
March 23, 2017: Aging
https://www.readbyqxmd.com/read/28317846/serum-and-synovial-fluid-lipidomic-profiles-predict-obesity-associated-osteoarthritis-synovitis-and-wound-repair
#8
Chia-Lung Wu, Kelly A Kimmerling, Dianne Little, Farshid Guilak
High-fat diet-induced obesity is a major risk factor for osteoarthritis (OA) and diminished wound healing. The objective of this study was to determine the associations among serum and synovial fluid lipid levels with OA, synovitis, adipokine levels, and wound healing in a pre-clinical obese mouse model of OA. Male C57BL/6 J mice were fed either a low-fat (10% kcal) or one of three high-fat (HF, 60% kcal) diets rich in saturated fatty acids (SFAs), ω-6 or ω-3 polyunsaturated FAs (PUFAs). OA was induced by destabilization of the medial meniscus...
March 20, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28287268/nmr-based-lipid-profiling-of-high-density-lipoprotein-particles-in-healthy-subjects-with-low-normal-and-elevated-hdl-cholesterol
#9
Christina E Kostara, Vasilis Tsimihodimos, Moses S Elisaf, Eleni T Bairaktari
Recent studies suggest that the cholesterol content of HDL (high density lipoproteins) may provide limited information on their antiatherogenic properties and that the composition and particles' structure provide more information on their functionality. We used NMR-based (nuclear magnetic resonance-based) lipidomics to study the relationships of serum HDL-C (HDL-cholesterol) levels with the lipid composition of HDL particles in three groups of subjects selected on the basis of their HDL-C levels. Subjects with low and high HDL-C levels exhibited differences in HDL lipidome compared to those with normal HDL-C levels...
March 21, 2017: Journal of Proteome Research
https://www.readbyqxmd.com/read/28287094/enlightening-discriminative-network-functional-modules-behind-principal-component-analysis-separation-in-differential-omic-science-studies
#10
Sara Ciucci, Yan Ge, Claudio Durán, Alessandra Palladini, Víctor Jiménez-Jiménez, Luisa María Martínez-Sánchez, Yuting Wang, Susanne Sales, Andrej Shevchenko, Steven W Poser, Maik Herbig, Oliver Otto, Andreas Androutsellis-Theotokis, Jochen Guck, Mathias J Gerl, Carlo Vittorio Cannistraci
Omic science is rapidly growing and one of the most employed techniques to explore differential patterns in omic datasets is principal component analysis (PCA). However, a method to enlighten the network of omic features that mostly contribute to the sample separation obtained by PCA is missing. An alternative is to build correlation networks between univariately-selected significant omic features, but this neglects the multivariate unsupervised feature compression responsible for the PCA sample segregation...
March 13, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28265968/expanding-lipidome-coverage-using-lc-ms-ms-data-dependent-acquisition-with-automated-exclusion-list-generation
#11
Jeremy P Koelmel, Nicholas M Kroeger, Emily L Gill, Candice Z Ulmer, John A Bowden, Rainey E Patterson, Richard A Yost, Timothy J Garrett
Untargeted omics analyses aim to comprehensively characterize biomolecules within a biological system. Changes in the presence or quantity of these biomolecules can indicate important biological perturbations, such as those caused by disease. With current technological advancements, the entire genome can now be sequenced; however, in the burgeoning fields of lipidomics, only a subset of lipids can be identified. The recent emergence of high resolution tandem mass spectrometry (HR-MS/MS), in combination with ultra-high performance liquid chromatography, has resulted in an increased coverage of the lipidome...
March 6, 2017: Journal of the American Society for Mass Spectrometry
https://www.readbyqxmd.com/read/28251853/uplc-qqq-ms-based-lipidomics-approach-to-characterize-lipid-alterations-in-inflammatory-macrophages
#12
Jae Won Lee, Hyuck Jun Mok, Dae Young Lee, Seung Cheol Park, Geum-Soog Kim, Seung-Eun Lee, Young-Seob Lee, Kwang Pyo Kim, Hyung Don Kim
In this study, UPLC-QqQ/MS-based lipidomics was applied to profile various lipids from RAW264.7 macrophages treated with different concentrations of lipopolysaccharide (LPS). The degree of inflammation increased with the LPS concentration. To elucidate the altered lipid metabolism of inflammatory macrophages, we targeted to analyze 25 lipid classes from LPS-treated RAW264.7 cells. As a result, 523 lipid species were successfully profiled by using the optimal UPLC and MRM. Statistical data analyses such as PCA, PLS-DA, and HCA differentiated five RAW264...
March 16, 2017: Journal of Proteome Research
https://www.readbyqxmd.com/read/28251292/lipidomic-analysis-of-plasma-in-patients-with-lacunar-infarction-using-normal-phase-reversed-phase-two-dimensional-liquid-chromatography-quadrupole-time-of-flight-mass-spectrometry
#13
Li Yang, Pu Lv, Wanpeng Ai, Linnan Li, Sensen Shen, Honggang Nie, Yabing Shan, Yu Bai, Yining Huang, Huwei Liu
Stroke is a major cause of mortality and long-term disability worldwide. The study of biomarkers and pathogenesis is vital for early diagnosis and treatment of stroke. In the present study, a continuous-flow normal-phase/reversed-phase two-dimensional liquid chromatography-quadrupole time-of-flight mass spectrometry (NP/RP 2D LC-QToF/MS) method was employed to measure lipid species in human plasma, including healthy controls and lacunar infarction (LI) patients. As a result, 13 lipid species were demonstrated with significant difference between the two groups, and a "plasma biomarker model" including glucosylceramide (38:2), phosphatidylethanolamine (35:2), free fatty acid (16:1), and triacylglycerol (56:5) was finally established...
March 1, 2017: Analytical and Bioanalytical Chemistry
https://www.readbyqxmd.com/read/28249170/plasma-dihydroceramides-are-diabetes-susceptibility-biomarker-candidates-in-mice-and-humans
#14
Leonore Wigger, Céline Cruciani-Guglielmacci, Anthony Nicolas, Jessica Denom, Neïké Fernandez, Frédéric Fumeron, Pedro Marques-Vidal, Alain Ktorza, Werner Kramer, Anke Schulte, Hervé Le Stunff, Robin Liechti, Ioannis Xenarios, Peter Vollenweider, Gérard Waeber, Ingo Uphues, Ronan Roussel, Christophe Magnan, Mark Ibberson, Bernard Thorens
Plasma metabolite concentrations reflect the activity of tissue metabolic pathways and their quantitative determination may be informative about pathogenic conditions. We searched for plasma lipid species whose concentrations correlate with various parameters of glucose homeostasis and susceptibility to type 2 diabetes (T2D). Shotgun lipidomic analysis of the plasma of mice from different genetic backgrounds, which develop a pre-diabetic state at different rates when metabolically stressed, led to the identification of a group of sphingolipids correlated with glucose tolerance and insulin secretion...
February 28, 2017: Cell Reports
https://www.readbyqxmd.com/read/28248224/the-role-of-clinical-proteomics-lipidomics-and-genomics-in-the-diagnosis-of-alzheimer-s-disease
#15
Ian James Martins
The early diagnosis of Alzheimer's disease (AD) has become important to the reversal and treatment of neurodegeneration, which may be relevant to premature brain aging that is associated with chronic disease progression. Clinical proteomics allows the detection of various proteins in fluids such as the urine, plasma, and cerebrospinal fluid for the diagnosis of AD. Interest in lipidomics has accelerated with plasma testing for various lipid biomarkers that may with clinical proteomics provide a more reproducible diagnosis for early brain aging that is connected to other chronic diseases...
March 31, 2016: Proteomes
https://www.readbyqxmd.com/read/28242299/dysregulation-of-lipids-in-alzheimer-s-disease-and-their-role-as-potential-biomarkers
#16
REVIEW
Matthew W Wong, Nady Braidy, Anne Poljak, Russell Pickford, Madhav Thambisetty, Perminder S Sachdev
The brain is highly enriched in lipids, and an intensive study of these lipids may be informative, not only of normal brain function but also of changes with age and in disease. In recent years, the development of highly sensitive mass spectrometry platforms and other high-throughput technologies has enabled the discovery of complex changes in the entire lipidome. This lipidomics approach promises to be a particularly useful tool for identifying diagnostic biomarkers for early detection of age-related neurodegenerative disease, such as Alzheimer's disease (AD), which has till recently been limited to protein- and gene-centric approaches...
February 24, 2017: Alzheimer's & Dementia: the Journal of the Alzheimer's Association
https://www.readbyqxmd.com/read/28220056/a-lipidomic-and-metabolomic-serum-signature-from-nonhuman-primates-exposed-to-ionizing-radiation
#17
Evan L Pannkuk, Evagelia C Laiakis, Tytus D Mak, Giuseppe Astarita, Simon Authier, Karen Wong, Albert J Fornace
INTRODUCTION: Due to dangers associated with potential accidents from nuclear energy and terrorist threats, there is a need for high-throughput biodosimetry to rapidly assess individual doses of radiation exposure. Lipidomics and metabolomics are becoming common tools for determining global signatures after disease or other physical insult and provide a "snapshot" of potential cellular damage. OBJECTIVES: The current study assesses changes in the nonhuman primate (NHP) serum lipidome and metabolome 7 days following exposure to ionizing radiation (IR)...
May 2016: Metabolomics: Official Journal of the Metabolomic Society
https://www.readbyqxmd.com/read/28219319/biomarkers-in-alzheimer-s-disease-recent-update
#18
Sushil Sharma, Walter Lipincott
Alzheimer disease (AD) is an age-related neurodegenerative disorder, characterized by loss of memory and cognitive function. It is the common cause of dementia in elderly and is a global health concern as the population of people aged 85 and older, is growing alarmingly. Although pharmacotherapy for the treatment of AD has improved, lot of work remains to treat this devastating disease. AD pathology begins even before the onset of clinical symptoms. Because therapies could be more effective if implemented early in the disease progression, it is highly prudent to discover reliable biomarkers, to detect its exact pathophysiology during pre-symptomatic stage...
February 20, 2017: Current Alzheimer Research
https://www.readbyqxmd.com/read/28212433/elevated-gm3-plasma-concentration-in-idiopathic-parkinson-s-disease-a-lipidomic-analysis
#19
Robin B Chan, Adler J Perotte, Bowen Zhou, Christopher Liong, Evan J Shorr, Karen S Marder, Un J Kang, Cheryl H Waters, Oren A Levy, Yimeng Xu, Hong Bin Shim, Itsik Pe'er, Gilbert Di Paolo, Roy N Alcalay
Parkinson's disease (PD) is a common neurodegenerative disease whose pathological hallmark is the accumulation of intracellular α-synuclein aggregates in Lewy bodies. Lipid metabolism dysregulation may play a significant role in PD pathogenesis; however, large plasma lipidomic studies in PD are lacking. In the current study, we analyzed the lipidomic profile of plasma obtained from 150 idiopathic PD patients and 100 controls, taken from the 'Spot' study at Columbia University Medical Center in New York. Our mass spectrometry based analytical panel consisted of 520 lipid species from 39 lipid subclasses including all major classes of glycerophospholipids, sphingolipids, glycerolipids and sterols...
2017: PloS One
https://www.readbyqxmd.com/read/28192938/size-dependent-lipidomic-analysis-of-urinary-exosomes-from-patients-with-prostate-cancer-by-flow-field-flow-fractionation-and-nanoflow-liquid-chromatography-tandem-mass-spectrometry
#20
Joon Seon Yang, Jong Cheol Lee, Seul Kee Byeon, Koon Ho Rha, Myeong Hee Moon
Exosomes are membrane-bound extracellular vesicles involved in intercellular communication and tumor cell metastasis. In this study, flow field-flow fractionation (FlFFF) was utilized to separate urinary exosomes by size, demonstrating a significant difference in exosome sizes between healthy controls and patients with prostate cancer (PCa). Exosome fractions of different sizes were collected for microscopic analysis during an FlFFF run and evaluated with exosome marker proteins using Western blot analysis...
February 2, 2017: Analytical Chemistry
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