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https://www.readbyqxmd.com/read/28239068/complete-genome-sequence-of-pseudomonas-chlororaphis-subsp-aurantiaca-reveals-a-triplicate-quorum-sensing-mechanism-for-regulation-of-phenazine-production
#1
Tomohiro Morohoshi, Takahito Yamaguchi, Xiaonan Xie, Wen-Zhao Wang, Kasumi Takeuchi, Nobutaka Someya
Pseudomonas chlororaphis subsp. aurantiaca StFRB508 regulates phenazine production through N-acyl-l-homoserine lactone (AHL)-mediated quorum sensing. Two sets of AHL-synthase and AHL-receptor genes, phzI/phzR and aurI/aurR, have been identified from the incomplete draft genome of StFRB508. In the present study, the complete genome of StFRB508, comprising a single chromosome of 6,997,933 bp, was sequenced. The complete genome sequence revealed the presence of a third quorum-sensing gene set, designated as csaI/csaR...
February 25, 2017: Microbes and Environments
https://www.readbyqxmd.com/read/28239061/evaluation-of-the-mechanisms-of-mayonnaise-phospholipid-oxidation
#2
Shunji Kato, Tatsuya Iseki, Yasuhiko Hanzawa, Yurika Otoki, Junya Ito, Fumiko Kimura, Teruo Miyazawa, Kiyotaka Nakagawa
Mayonnaise, which is widely used in foods, is rich in lipids and therefore susceptible to oxidation during the manufacturing process, which can result in loss of quality. Herein, we detected and analyzed phosphatidylcholine hydroperoxide (PCOOH) isomers present in fresh mayonnaise using LC-MS/MS. The PCOOH isomer composition suggests that mayonnaise phospholipid peroxidation is predominantly initiated by radical-oxidation (i.e. upon autoxidation), rather than singlet oxygen-oxidation (e.g. upon light exposure), during manufacturing, packaging and/or storage...
February 24, 2017: Journal of Oleo Science
https://www.readbyqxmd.com/read/28238905/seasonal-heat-stress-affects-adipose-tissue-proteome-toward-enrichment-of-the-nrf2-mediated-oxidative-stress-response-in-late-pregnant-dairy-cows
#3
M Zachut, G Kra, L Livshitz, Y Portnick, S Yakoby, G Friedlander, Y Levin
: Environmental heat stress and metabolic stress during transition from late gestation to lactation are main factors limiting production in dairy cattle, and there is a complex interaction between them. Many proteins expressed in adipose tissue are involved in metabolic responses to stress. We aimed to investigate the effects of seasonal heat stress on adipose proteome in late-pregnant cows, and to identify biomarkers of heat stress. Late pregnant cows during summer heat stress (S, n=18), or during the winter season (W, n=12) were used...
February 23, 2017: Journal of Proteomics
https://www.readbyqxmd.com/read/28238901/evaluation-of-14-c-and-13-c-sucrose-as-blood-brain-barrier-permeability-markers
#4
Mohammad K Miah, Ekram A Chowdhury, Ulrich Bickel, Reza Mehvar
Non-specific quantitation of [(14)C]sucrose in blood and brain has been routinely used as a quantitative measure of the in vivo blood-brain barrier (BBB) integrity. However, the reported apparent brain uptake clearance (Kin) of the marker varies widely (∼100 fold). We investigated the accuracy of the use of the marker in comparison with a stable isotope of sucrose ([(13)C]sucrose) measured by a specific LC-MS/MS method. Rats received single doses of each marker, and the Kin values were determined. Surprisingly, the Kin value of [(13)C]sucrose was 6-7 fold lower than that of [(14)C]sucrose...
February 23, 2017: Journal of Pharmaceutical Sciences
https://www.readbyqxmd.com/read/28238887/coenzyme-a-thioester-formation-of-11-and-15-oxo-eicosatetraenoic-acid
#5
Clementina Mesaros, Alejandro D Arroyo, Ian A Blair, Nathaniel W Snyder
Release of arachidonic acid (AA) by cytoplasmic phospholipase A2 (cPLA2), followed by metabolism through cyclooxygenase-2 (COX-2) and 15-hydroxyprostaglandin dehydrogenase (15-PGDH), results in the formation of the eicosanoids 11-oxo- and 15-oxo-eicosatetraenoic acid (oxo-ETE). Both 11-oxo- and 15-oxo-ETE have been identified in human biospecimens but their function and further metabolism is poorly described. The oxo-ETEs contain an α,β-unsaturated ketone and a free carbocyclic acid, and thus may form Michael adducts with a nucleophile or a thioester with the free thiol of Coenzyme A (CoA)...
February 23, 2017: Prostaglandins & Other Lipid Mediators
https://www.readbyqxmd.com/read/28237112/proteomic-profiling-of-de-novo-protein-synthesis-in-starvation-induced-autophagy-using-bioorthogonal-noncanonical-amino-acid-tagging
#6
J Zhang, J Wang, Y-M Lee, T-K Lim, Q Lin, H-M Shen
Autophagy is an intracellular degradation process activated by stress factors such as nutrient starvation to maintain cellular homeostasis. There is emerging evidence demonstrating that de novo protein synthesis is involved in the autophagic process. However, up-to-date characterizing of these de novo proteins is technically difficult. In this chapter, we describe a novel method to identify newly synthesized proteins during starvation-mediated autophagy by bioorthogonal noncanonical amino acid tagging (BONCAT), in conjunction with isobaric tagging for relative and absolute quantification (iTRAQ)-based quantitative proteomics...
2017: Methods in Enzymology
https://www.readbyqxmd.com/read/28237084/identification-and-profiling-of-specialized-pro-resolving-mediators-in-human-tears-by-lipid-mediator-metabolomics
#7
Justin T English, Paul C Norris, Robin R Hodges, Darlene A Dartt, Charles N Serhan
Specialized pro-resolving mediators (SPM), e.g. Resolvin D1, Protectin D1, Lipoxin A₄, and Resolvin E1 have each shown to be active in ocular models reducing inflammation. In general, SPMs have specific agonist functions that stimulate resolution of infection and inflammation in animal disease models. The presence and quantity of SPM in human emotional tears is of interest. Here, utilizing a targeted LC-MS-MS metabololipidomics based approach we document the identification of pro-inflammatory (Prostaglandins and Leukotriene B₄) and pro-resolving lipid mediators (D-series Resolvins, Protectin D1, and Lipoxin A₄) in human emotional tears from 12 healthy individuals...
February 2017: Prostaglandins, Leukotrienes, and Essential Fatty Acids
https://www.readbyqxmd.com/read/28236406/lc-ms-ms-analysis-and-pharmacokinetic-study-on-five-bioactive-constituents-of-tanreqing-injection-in-rats
#8
Feng Zhang, Liang Sun, Shou-Hong Gao, Wan-Sheng Chen, Yi-Feng Chai
Tanreqing injection (TRQ), a well-known traditional Chinese medicine formula, is commonly used to treat respiratory diseases. In the present study, a rapid, selective, and sensitive liquid chromatography-tandem mass spectrometry (LC-MS/MS) method was developed and validated to simultaneously determinate the plasma contents of 5 major constituents of TRQ, including chlorogenic acid (CHA), caffeic acid (CFA), baicalin (BA), ursodeoxycholic acid (UDCA) and chenodeoxycholic acid (CDCA) in rats after intravenous administration of TRQ...
October 2016: Chinese Journal of Natural Medicines
https://www.readbyqxmd.com/read/28235592/steroid-profiling-in-h295r-cells-to-identify-chemicals-potentially-disrupting-the-production-of-adrenal-steroids
#9
Petra Strajhar, David Tonoli, Fabienne Jeanneret, Raphaella M Imhof, Vanessa Malagnino, Melanie Patt, Denise V Kratschmar, Julien Boccard, Serge Rudaz, Alex Odermatt
The validated OECD test guideline 456 based on human adrenal H295R cells promotes measurement of testosterone and estradiol production as read-out to identify potential endocrine disrupting chemicals. This study aimed to establish optimal conditions for using H295R cells to detect chemicals interfering with the production of key adrenal steroids. H295R cells' supernatants were characterized by liquid chromatography-mass spectrometry (LC-MS)-based steroid profiling, and the influence of experimental conditions including time and serum content was assessed...
February 21, 2017: Toxicology
https://www.readbyqxmd.com/read/28235584/proteomic-analysis-in-kidneys-of-atlantic-salmon-infected-with-aeromonas-salmonicida-by-itraq
#10
Peng-Fei Liu, Yishuai Du, Lingjie Meng, Xian Li, Ying Liu
Aeromonas salmonicida is a major etiologic agent which induces furunculosis and is globally harmful in salmonid and turbot cultures, especially in Atlantic salmon (Salmo salar) farming. In order to improve knowledge of its poorly understood pathogenesis, we utilized high-throughput proteomics to display differentially expressed proteins in the kidney of Atlantic salmon challenged with high and low infection dose of A. salmonicida at 7 and 14 days. In quantitative proteomic assays, isobaric tags for relative and absolute quantitation (iTRAQ) combined with 2D LC-MS/MS is emerging as a powerful methodology in the search for disease-specific targets and biomarkers...
February 21, 2017: Developmental and Comparative Immunology
https://www.readbyqxmd.com/read/28235581/first-occurrence-of-cylindrospermopsin-in-portugal-a-contribution-to-its-continuous-global-dispersal
#11
Cristiana Moreira, Rita Mendes, Joana Azevedo, Vitor Vasconcelos, Agostinho Antunes
Cylindrospermopsin (CYN) was found to occur in Portugal for the first time. In this study CYN values varied from a minimum of 1.4 μg L(-1) to a maximum of 12 μg L(-1) detected through HPLC technique and confirmed by LC-MS method. Amplification of the cyrC gene was done and was confirmed to be from the genera Aphanizomenon. This study is therefore an important contribution to the knowledge on the dispersal and biogeography of CYN.
February 21, 2017: Toxicon: Official Journal of the International Society on Toxinology
https://www.readbyqxmd.com/read/28235579/dolichospermum-and-aphanizomenon-as-neurotoxins-producers-in-some-russian-freshwaters
#12
Ekaterina Chernova, Sergey Sidelev, Iana Russkikh, Ekaterina Voyakina, Olga Babanazarova, Roman Romanov, Anton Kotovshchikov, Hanna Mazur-Marzec
Last decades, cyanobacterial blooms have been commonly reported in Russia. Among the boom-forming species, potential toxin producers have been identified. The aim of this paper was to study the presence of neurotoxic compounds - saxitoxins and anatoxin-a - in water bodies from different regions of Russia. We also made attempts to identify the neurotoxin-producing genera. The good convergence of the results obtained by light microscopy, PCR and LC-MS/MS analyses indicated the presence of active neurotoxin producing species in all investigated water bodies...
February 21, 2017: Toxicon: Official Journal of the International Society on Toxinology
https://www.readbyqxmd.com/read/28231532/paeonifiorin-sulfonate-as-a-characteristic-marker-for-specifically-inspecting-chinese-patent-medicine-liu-wei-di-huang-wan-contained-sulfur-fumigated-moutan-cortex
#13
Xiu-Yang Li, Fang Long, Jin-Di Xu, Hong Shen, Ming Kong, He Zhu, Ye-Qing Zhang, Song-Lin Li
Sulfur fumigation can induce chemical transformation of bioactive components, consequently the alteration of bioactivities or even toxicities of medicinal herbs. Inspecting Chinese patent medicines (CPM) contained sulfur-fumigated constituent herbs is crucial for ensuring the safety and efficacy of CPM. Paeonifiorin sulfonate is a sulfur-fumigation induced compound of Moutan Cortex (MC), one of the main constituent herbs of a commonly used CPM Liu-Wei-Di-Huang-Wan (LWDHW). Herein, we investigated the approach of paeonifiorin sulfonate as a characteristic marker for specifically inspecting LWDHW potentially contained sulfur-fumigated MC (SFMC)...
February 16, 2017: Journal of Pharmaceutical and Biomedical Analysis
https://www.readbyqxmd.com/read/28231319/development-of-a-keratinase-activity-assay-using-recombinant-chicken-feather-keratin-substrates
#14
Hyeon-Su Jin, Seon Yeong Park, Kyungmin Kim, Yong-Jik Lee, Gae-Won Nam, Nam Joo Kang, Dong-Woo Lee
Poultry feathers consist mainly of the protein keratin, which is rich in β-pleated sheets and consequently resistant to proteolysis. Although many keratinases have been identified, the reasons for their substrate specificity towards β-keratin remain unclear due to difficulties in preparing a soluble feather keratin substrate for use in activity assays. In the present study, we overexpressed Gallus gallus chromosomes 2 and 27 β-keratin-encoding genes in Escherichia coli, purified denatured recombinant proteins by Ni2+ affinity chromatography, and refolded by stepwise dialysis to yield soluble keratins...
2017: PloS One
https://www.readbyqxmd.com/read/28230966/increasing-peak-capacity-in-non-targeted-omics-applications-by-combining-full-scan-field-asymmetric-waveform-ion-mobility-spectrometry-with-liquid-chromatography-mass-spectrometry
#15
Kayleigh L Arthur, Matthew A Turner, James C Reynolds, Colin S Creaser
Full scan field asymmetric waveform ion mobility spectrometry (FAIMS) combined with liquid chromatography and mass spectrometry (LC-FAIMS-MS) is shown to enhance peak capacity for omics applications. A miniaturized FAIMS device capable of rapid compensation field scanning has been incorporated into an ultra-high performance liquid chromatography (UHPLC) and time-of-flight (TOF) mass spectrometry analysis, allowing the acquisition of full scan FAIMS and MS nested data sets within the timescale of a UHPLC peak...
February 23, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28230740/application-of-chromatographic-and-spectroscopic-methods-towards-the-quality-assessment-of-ginger-zingiber-officinale-rhizomes-from-ecological-plantations
#16
Wojciech Koch, Wirginia Kukula-Koch, Zbigniew Marzec, Elwira Kasperek, Lucyna Wyszogrodzka-Koma, Wojciech Szwerc, Yoshinori Asakawa
The usefulness of ginger in the food industry and pharmacotherapy is strictly related to its content of various components. The study elucidates the chemical composition of Zingiber officinale rhizomes cultivated on ecological plantations on Shikoku Island (Japan). GC-MS analysis of terpene content, LC-MS determination of phenolic content, and the determination of 12 elements using AAS spectrometry were performed to give more detailed insight into the samples. Ninety-five percent of terpene composition was elucidated, with zingiberene as the most abundant sesquiterpene (37...
February 20, 2017: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/28230641/peritransplant-energy-changes-and-their-correlation-to-outcome-after-human-liver-transplantation
#17
Bote G Bruinsma, James H Avruch, Gautham V Sridharan, Pepijn D Weeder, Marie Louise Jacobs, Kerry Crisalli, Beth Amundsen, Robert J Porte, James F Markmann, Korkut Uygun, Heidi Yeh
BACKGROUND: The ongoing shortage of donor livers for transplantation and the increased use of marginal livers necessitate the development of accurate pretransplant tests of viability. Considering the importance energy status during transplantation, we aimed to correlate peritransplant energy cofactors to posttransplant outcome and subsequently model this in an ex vivo setting. METHODS: Sequential biopsies were taken from 19 donor livers postpreservation, as well as 30 min after portal venous (PVR) and hepatic arterial reperfusion (HAR) and analyzed by LC-MS for energetic cofactors (ATP/ADP/AMP, NADH/NAD, NADPH/NADP, FAD, GSSG/GSH)...
February 23, 2017: Transplantation
https://www.readbyqxmd.com/read/28230321/disruption-of-genes-involved-in-corvet-complex-leads-to-enhanced-secretion-of-heterologous-carboxylesterase-only-in-protease-deficient-pichia-pastoris
#18
Lukas Marsalek, Clemens Gruber, Friedrich Altmann, Markus Aleschko, Diethard Mattanovich, Brigitte Gasser, Verena Puxbaum
The methylotrophic yeast Pichia pastoris (Komagataella spp.) is a popular microbial host for the production of recombinant proteins. Previous studies have shown that mis-sorting to the vacuole can be a bottleneck during production of recombinant secretory proteins in yeast, however, no information was available for P. pastoris. In this work we have therefore generated vps (vacuolar protein sorting) mutant strains disrupted in genes involved in the CORVET tethering complex at the early stages of endosomal sorting...
February 23, 2017: Biotechnology Journal
https://www.readbyqxmd.com/read/28230078/unravelling-the-metabolic-impact-of-sbs-associated-microbial-dysbiosis-insights-from-the-piglet-short-bowel-syndrome-model
#19
Prue M Pereira-Fantini, Sean G Byars, James Pitt, Susan Lapthorne, Fiona Fouhy, Paul D Cotter, Julie E Bines
Liver disease is a major source of morbidity and mortality in children with short bowel syndrome (SBS). SBS-associated microbial dysbiosis has recently been implicated in the development of SBS-associated liver disease (SBS-ALD), however the pathological implications of this association have not been explored. In this study high-throughput sequencing of colonic content from the well-validated piglet SBS-ALD model was examined to determine alterations in microbial communities, and concurrent metabolic alterations identified in urine samples via targeted mass spectrometry approaches (GC-MS, LC-MS, FIA-MS) further uncovered impacts of microbial disturbance on metabolic outcomes in SBS-ALD...
February 23, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28228285/mass-spectrometry-profiling-of-hla-associated-peptidomes-in-mono-allelic-cells-enables-more-accurate-epitope-prediction
#20
Jennifer G Abelin, Derin B Keskin, Siranush Sarkizova, Christina R Hartigan, Wandi Zhang, John Sidney, Jonathan Stevens, William Lane, Guang Lan Zhang, Thomas M Eisenhaure, Karl R Clauser, Nir Hacohen, Michael S Rooney, Steven A Carr, Catherine J Wu
Identification of human leukocyte antigen (HLA)-bound peptides by liquid chromatography-tandem mass spectrometry (LC-MS/MS) is poised to provide a deep understanding of rules underlying antigen presentation. However, a key obstacle is the ambiguity that arises from the co-expression of multiple HLA alleles. Here, we have implemented a scalable mono-allelic strategy for profiling the HLA peptidome. By using cell lines expressing a single HLA allele, optimizing immunopurifications, and developing an application-specific spectral search algorithm, we identified thousands of peptides bound to 16 different HLA class I alleles...
February 21, 2017: Immunity
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