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https://www.readbyqxmd.com/read/28507018/erratum-for-rippe-and-angelopoulos-fructose-containing-sugars-and-cardiovascular-disease-adv-nutr-2015-6-430-9
#1
(no author information available yet)
No abstract text is available yet for this article.
May 2017: Advances in Nutrition
https://www.readbyqxmd.com/read/28507017/erratum-for-rippe-the-metabolic-and-endocrine-response-and-health-implications-of-consuming-sugar-sweetened-beverages-findings-from-recent-randomized-controlled-trials-adv-nutr-2013-4-677-86
#2
https://www.readbyqxmd.com/read/28499008/rippminer-a-bioinformatics-resource-for-deciphering-chemical-structures-of-ripps-based-on-prediction-of-cleavage-and-cross-links
#3
Priyesh Agrawal, Shradha Khater, Money Gupta, Neetu Sain, Debasisa Mohanty
Ribosomally synthesized and post-translationally modified peptides (RiPPs) constitute a rapidly growing class of natural products with diverse structures and bioactivities. We have developed RiPPMiner, a novel bioinformatics resource for deciphering chemical structures of RiPPs by genome mining. RiPPMiner derives its predictive power from machine learning based classifiers, trained using a well curated database of more than 500 experimentally characterized RiPPs. RiPPMiner uses Support Vector Machine to distinguish RiPP precursors from other small proteins and classify the precursors into 12 sub-classes of RiPPs...
May 12, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28494112/application-of-the-lewis-acid-me3si-f-al-orf-3-for-the-preparation-of-phosphino-phosphonium-cations-with-the-least-coordinating-rfo-3al-f-al-orf-3-wca
#4
Josephine Possart, Arthur Martens, Mario Schleep, Alexander Johannes Christoph Ripp, Harald Scherer, Daniel Kratzert, Ingo Krossing
By reaction of two equivalents of Me3Si-F-Al(ORF)3 1 with an equimolar amount of PPh2Cl, the salt [Ph2P-PPh2Cl]+[(RFO)3Al-F-Al(ORF)3]- 2 may be prepared smoothly in 91% yield (NMR, XRD). The synthesis of [Ph2P-PPh3]+[(RFO)3Al-F-Al(ORF)3]- 3 is best achieved by a two-step reaction: First, two equivalents of 1 react with one PPh3 to give [Me3Si-PPh3]+[(RFO)3Al-F-Al(ORF)3]- 4 (NMR, XRD), which upon reaction with PPh2Cl yields pure 3 and Me3SiCl (NMR, XRD). Typically, a stoichiometry of two equivalents of 1 with respect to one equivalent of the chloride donor should be used...
May 11, 2017: Chemistry: a European Journal
https://www.readbyqxmd.com/read/28481092/nuclear-magnetic-resonance-structure-and-binding-studies-of-pqqd-a-chaperone-required-in-the-biosynthesis-of-the-bacterial-dehydrogenase-cofactor-pyrroloquinoline-quinone
#5
Robert L Evans, John A Latham, Youlin Xia, Judith P Klinman, Carrie M Wilmot
Biosynthesis of the ribosomally synthesized and post-translationally modified peptide (RiPP), pyrroloquinoline quinone (PQQ), is initiated when the precursor peptide, PqqA, is recognized and bound by the RiPP precursor peptide recognition element (RRE), PqqD, for presentation to the first enzyme in the pathway, PqqE. Unlike other RiPP-producing, postribosomal peptide synthesis (PRPS) pathways in which the RRE is a component domain of the first enzyme, PqqD is predominantly a separate scaffolding protein that forms a ternary complex with the precursor peptide and first tailoring enzyme...
May 12, 2017: Biochemistry
https://www.readbyqxmd.com/read/28476884/insights-into-catalysis-of-lysine-tryptophan-bond-in-bacterial-peptides-by-a-spasm-domain-radical-sam-peptide-cyclase
#6
Alhosna Benjdia, Laure Decamps, Alain Guillot, Xavier Kubiak, Pauline Ruffie, Corine Sandstrom, Olivier Berteau
Radical SAM enzymes are emerging as a major superfamily of biological catalysts involved in the biosynthesis of the broad family of bioactive peptides called ribosomally synthesized and post-translationally-modified peptides (RiPPs). These enzymes have been shown to catalyze unconventional reactions such as methyl transfer to electrophilic carbon atoms, sulfur to Cα-atom thioether bonds or carbon-carbon bond formation. Recently, a novel radical SAM enzyme catalyzing the formation of a lysine-tryptophan bond has been identified in Streptococcus thermophilus and a reaction mechanism has been proposed...
May 5, 2017: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/28471780/well-being-in-graduate-medical-education-a-call-for-action
#7
Jonathan A Ripp, Michael R Privitera, Colin West, Richard Leiter, Lia Logio, Jo Shapiro, Hasan Bazari
Job burnout is highly prevalent in graduate medical trainees. Numerous demands and stressors drive the development of burnout in this population, leading to significant and potentially tragic consequences, not only for trainees but also for the patients and communities they serve. The literature on interventions to reduce resident burnout is limited but suggests that both individual- and system-level approaches are effective. Work hours limitations and mindfulness training are each likely to have modest benefit...
May 2, 2017: Academic Medicine: Journal of the Association of American Medical Colleges
https://www.readbyqxmd.com/read/28465505/hypertension-reduces-soluble-guanylyl-cyclase-expression-in-the-mouse-aorta-via-the-notch-signaling-pathway
#8
Catarina Rippe, Baoyi Zhu, Katarzyna K Krawczyk, Ed Van Bavel, Sebastian Albinsson, Jonas Sjölund, Erik N T P Bakker, Karl Swärd
Hypertension is a dominating risk factor for cardiovascular disease. To characterize the genomic response to hypertension, we administered vehicle or angiotensin II to mice and performed gene expression analyses. AngII treatment resulted in a robust increase in blood pressure and altered expression of 235 genes in the aorta, including Gucy1a3 and Gucy1b3 which encode subunits of soluble guanylyl cyclase (sGC). Western blotting and immunohistochemistry confirmed repression of sGC associated with curtailed relaxation via sGC activation...
May 2, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28460059/insights-into-ciliary-genes-and-evolution-from-multi-level-phylogenetic-profiling
#9
Yannis Nevers, Megana K Prasad, Laetitia Poidevin, Kirsley Chennen, Alexis Allot, Arnaud Kress, Raymond Ripp, Julie D Thompson, Hélène Dollfus, Olivier Poch, Odile Lecompte
Cilia (flagella) are important eukaryotic organelles, present in the Last Eukaryotic Common Ancestor, and are involved in cell motility and integration of extracellular signals. Ciliary dysfunction causes a class of genetic diseases, known as ciliopathies, however current knowledge of the underlying mechanisms is still limited and a better characterization of genes is needed. As cilia have been lost independently several times during evolution and they are subject to important functional variation between species, ciliary genes can be investigated through comparative genomics...
April 28, 2017: Molecular Biology and Evolution
https://www.readbyqxmd.com/read/28453677/afs-identification-and-quantification-of-species-composition-by-metagenomic-sequencing
#10
Yongchao Liu, Fabian Ripp, Rene Koeppel, Hanno Schmidt, Sören Lukas Hellmann, Mathias Weber, Christopher Felix Krombholz, Bertil Schmidt, Thomas Hankeln
Summary: DNA-based methods to detect and quantify taxon composition in biological materials are often based on species-specific polymerase chain reaction, limited to detecting species targeted by the assay. Next-generation sequencing overcomes this drawback by untargeted shotgun sequencing of whole metagenomes at affordable cost. Here we present AFS, a software pipeline for quantification of species composition in food. AFS uses metagenomic shotgun sequencing and sequence read counting to infer species proportions...
May 1, 2017: Bioinformatics
https://www.readbyqxmd.com/read/28452467/biosynthetic-insights-into-linaridin-natural-products-from-genome-mining-and-precursor-peptide-mutagenesis
#11
Tianlu Mo, Wan-Qiu Liu, Wenjuan Ji, Junfeng Zhao, Tuo Chen, Wei Ding, Shaoning Yu, Qi Zhang
Linaridin is a small class of peptide natural products belonging to the ribosomally synthesized and post-translationally modified peptides (RiPPs) superfamily. By an extensive genome-wide survey of linaridin biosynthetic genes, we show that this class of natural products is widespread in nature and possesses vast structural diversity. The linaridin precursor peptides are relatively conserved in the N-termini but have diverse sequences in the core region, which appear to have coevolved with the biosynthetic enzymes...
May 3, 2017: ACS Chemical Biology
https://www.readbyqxmd.com/read/28424207/a-distributed-solute-model-an-extended-two-pore-model-with-application-to-the-glomerular-sieving-of-ficoll
#12
Carl M Öberg, Joseph J Groszek, Shuvo Roy, William H Fissell, Bengt Rippe
One of the many unresolved questions regarding the permeability of the glomerular filtration barrier is the reason behind the marked difference in permeability between albumin and polysaccharide probe molecules such as Ficoll and dextran of the same molecular size. Although the differences in permeability have been mainly attributed to charge effects, we have previously shown that this would require a highly charged filtration barrier, having a charge density that is ~10 times more than that on the albumin molecule...
April 19, 2017: American Journal of Physiology. Renal Physiology
https://www.readbyqxmd.com/read/28406749/nucleosome-repositioning-during-differentiation-of-a-human-myeloid-leukemia-cell-line
#13
Vladimir B Teif, Jan-Philipp Mallm, Tanvi Sharma, David B Mark Welch, Karsten Rippe, Roland Eils, Jörg Langowski, Ada L Olins, Donald E Olins
Cell differentiation is associated with changes in chromatin organization and gene expression. In this study, we examine chromatin structure following differentiation of the human myeloid leukemia cell line (HL-60/S4) into granulocytes with retinoic acid (RA) or into macrophage with phorbol ester (TPA). We performed ChIP-seq of histone H3 and its modifications, analyzing changes in nucleosome occupancy, nucleosome repeat length, eu-/heterochromatin redistribution and properties of epichromatin (surface chromatin adjacent to the nuclear envelope)...
March 4, 2017: Nucleus
https://www.readbyqxmd.com/read/28402732/different-methods-for-inlay-production-effect-on-internal-and-marginal-adaptation-adjustment-time-and-contact-point
#14
M P Rippe, C Monaco, L Volpe, M A Bottino, R Scotti, L F Valandro
The aim of this study was to evaluate the effect of different production methods of resin and ceramic inlays on marginal and internal adaptation, adjustment time, and proximal contacts. Forty premolars were selected, embedded (their roots), and prepared to receive inlays that were made as follows (n=10): LaRe-digital impression with a Lava C.O.S. scanner, followed by milling of Lava Ultimate block (composite resin) in a milling center; CeRe-digital impression with a Cerec 3D Bluecam scanner, followed by milling of Lava Ultimate block in Cerec; CeDis-digital impression with a Cerec 3D Bluecam scanner, followed by milling of IPS e...
April 12, 2017: Operative Dentistry
https://www.readbyqxmd.com/read/28399420/dietary-rose-hip-exerts-antiatherosclerotic-effects-and-increases-nitric-oxide-mediated-dilation-in-apoe-null-mice
#15
Michele Cavalera, Ulrika Axling, Catarina Rippe, Karl Swärd, Cecilia Holm
Atherosclerosis is a disease in which atheromatous plaques develop inside arteries, leading to reduced or obstructed blood flow that in turn may cause stroke and heart attack. Rose hip is the fruit of plants of the genus Rosa, belonging to the Rosaceae family, and it is rich in antioxidants with high amounts of ascorbic acid and phenolic compounds. Several studies have shown that fruits, seeds and roots of these plants exert antidiabetic, antiobesity and cholesterol-lowering effects in rodents as well as humans...
June 2017: Journal of Nutritional Biochemistry
https://www.readbyqxmd.com/read/28358161/post-translational-modifications-involved-in-the-biosynthesis-of-thiopeptide-antibiotics
#16
REVIEW
Qingfei Zheng, Hui Fang, Wen Liu
Thiopeptide antibiotics are a class of typical ribosomally synthesized and post-translationally modified peptides (RiPPs) with complex chemical structures that are difficult to construct via chemical synthesis. To date, more than 100 thiopeptides have been discovered, and most of these compounds exhibit remarkable biological activities, such as antibacterial, antitumor and immunosuppressive activities. Therefore, studies of the biosynthesis of thiopeptides can contribute to the development of new drug leads and facilitate the understanding of the complex post-translational modifications (PTMs) of peptides and/or proteins...
April 18, 2017: Organic & Biomolecular Chemistry
https://www.readbyqxmd.com/read/28348006/gabab-receptor-attenuation-of-gabaa-currents-in-neurons-of-the-mammalian-central-nervous-system
#17
Wen Shen, Changlong Nan, Peter T Nelson, Harris Ripps, Malcolm M Slaughter
Ionotropic receptors are tightly regulated by second messenger systems and are often present along with their metabotropic counterparts on a neuron's plasma membrane. This leads to the hypothesis that the two receptor subtypes can interact, and indeed this has been observed in excitatory glutamate and inhibitory GABA receptors. In both systems the metabotropic pathway augments the ionotropic receptor response. However, we have found that the metabotropic GABAB receptor can suppress the ionotropic GABAA receptor current, in both the in vitro mouse retina and in human amygdala membrane fractions...
March 2017: Physiological Reports
https://www.readbyqxmd.com/read/28316106/chironomus-riparius-diptera-genome-sequencing-reveals-the-impact-of-minisatellite-transposable-elements-on-population-divergence
#18
Ann-Marie Oppold, Hanno Schmidt, Marcel Rose, Sören Lukas Hellmann, Florian Dolze, Fabian Ripp, Bettina Weich, Urs Schmidt-Ott, Erwin Schmidt, Robert Kofler, Thomas Hankeln, Markus Pfenninger
Active transposable elements (TEs) may result in divergent genomic insertion and abundance patterns among conspecific populations. Upon secondary contact, such divergent genetic backgrounds can theoretically give rise to classical Dobzhansky-Muller incompatibilities (DMI), thus contributing to the evolution of endogenous genetic barriers and eventually cause population divergence. We investigated differential TE abundance among conspecific populations of the non-biting midge Chironomus riparius and evaluated their potential role in causing endogenous genetic incompatibilities between these populations...
March 18, 2017: Molecular Ecology
https://www.readbyqxmd.com/read/28295227/mild-perinatal-adversities-moderate-the-association-between-maternal-harsh-parenting-and-hair-cortisol-evidence-for-differential-susceptibility
#19
Dafna A Windhorst, Ralph C A Rippe, Viara R Mileva-Seitz, Frank C Verhulst, Vincent W V Jaddoe, Gerard Noppe, Elisabeth F C van Rossum, Erica L T van den Akker, Henning Tiemeier, Marinus H van IJzendoorn, Marian J Bakermans-Kranenburg
It has been shown that following exposure to mild perinatal adversity, children have greater susceptibility to both the negative and positive aspects of their subsequent environment. In a large population-based cohort study (N = 1,776), we investigated whether mild perinatal adversity moderated the association between maternal harsh parenting and children's hair cortisol levels, a biomarker of chronic stress. Mild perinatal adversity was defined as late preterm birth (gestational age at birth of 34-37 weeks, 6 days) or small for gestational age (birth weight between the 2...
April 2017: Developmental Psychobiology
https://www.readbyqxmd.com/read/28285351/cavin-3-prkcdbp-deficiency-reduces-the-density-of-caveolae-in-smooth-muscle
#20
Baoyi Zhu, Karl Swärd, Mari Ekman, Bengt Uvelius, Catarina Rippe
Cavins belong to a family of proteins that contribute to the formation of caveolae, which are membrane organelles with functional roles in muscle and fat. Here, we investigate the effect of cavin-3 ablation on vascular and urinary bladder structure and function. Arteries and urinary bladders from mice lacking cavin-3 (knockout: KO) and from controls (wild type: WT) were examined. Our studies revealed that the loss of cavin-3 resulted in ∼40% reduction of the caveolae protein cavin-1 in vascular and bladder smooth muscle...
June 2017: Cell and Tissue Research
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