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Essential amino acids

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https://www.readbyqxmd.com/read/28734207/in-silico-designing-of-therapeutic-protein-enriched-with-branched-chain-amino-acids-for-the-dietary-treatment-of-chronic-liver-disease
#1
Sunil L, Prasanna Vasu
Leucine, isoleucine, and valine are three essential branched-chain amino acids (BCAA) account for 40-45% of total essential amino acids. BCAA stimulates protein synthesis primarily in skeletal muscles, and it can directly transport to circulatory blood stream bypassing the liver. Hence, a protein enriched with BCAA is an important therapeutic target for the dietary treatment of chronic liver disease. The present study is to design a synthetic protein enriched with BCAA and the challenge is to maximize the BCAA content, keeping the balanced ratio of leucine, isoleucine, valine - 2: 1: 1...
July 12, 2017: Journal of Molecular Graphics & Modelling
https://www.readbyqxmd.com/read/28732234/computational-modelling-of-genome-scale-metabolic-networks-and-its-application-to-cho-cell-cultures
#2
REVIEW
Živa Rejc, Lidija Magdevska, Tilen Tršelič, Timotej Osolin, Rok Vodopivec, Jakob Mraz, Eva Pavliha, Nikolaj Zimic, Tanja Cvitanović, Damjana Rozman, Miha Moškon, Miha Mraz
Genome-scale metabolic models (GEMs) have become increasingly important in recent years. Currently, GEMs are the most accurate in silico representation of the genotype-phenotype link. They allow us to study complex networks from the systems perspective. Their application may drastically reduce the amount of experimental and clinical work, improve diagnostic tools and increase our understanding of complex biological phenomena. GEMs have also demonstrated high potential for the optimisation of bio-based production of recombinant proteins...
July 8, 2017: Computers in Biology and Medicine
https://www.readbyqxmd.com/read/28731688/the-%C3%AF-configuration-of-the-www-motif-of-a-short-trp-rich-peptide-is-critical-for-targeting-bacterial-membranes-disrupting-preformed-biofilms-and-killing-methicillin-resistant-staphylococcus-aureus
#3
D Zarena, Biswajit Mishra, Tamara Lushnikova, Fangyu Wang, Guangshun Wang
Tryptophan-rich peptides, being short and suitable for large-scale chemical synthesis, are attractive candidates for developing a new generation of antimicrobials to combat antibiotic-resistant bacteria (superbugs). Although there are numerous pictures for membrane-bound structure of a single tryptophan (W), how multiple Trp amino acids assemble themselves and interact with bacterial membranes are poorly understood. This communication presents the three-dimensional structure for an eight-residue Trp-rich peptide (WWWLRKIW-NH2 with 50% W) determined by the improved 2D NMR method, which includes the measurements of 13C and 15N chemical shifts at natural abundance...
July 21, 2017: Biochemistry
https://www.readbyqxmd.com/read/28729872/plc-mediated-signaling-pathway-in-pollen-tubes-regulates-the-gametophytic-self-incompatibility-of-pyrus-species
#4
Haiyong Qu, Yaqin Guan, Yongzhang Wang, Shaolin Zhang
Among the Rosaceae species, the gametophytic self-incompatibility (GSI) is controlled by a single multi-allelic S locus, which is composed of the pistil-S and pollen-S genes. The pistil-S gene encodes a polymorphic ribonuclease (S-RNase), which is essential for identifying self-pollen. However, the S-RNase system has not been fully characterized. In this study, the self-S-RNase inhibited the Ca(2+)-permeable channel activity at pollen tube apices and the selectively decreased phospholipase C (PLC) activity in the plasma membrane of Pyrus pyrifolia pollen tubes...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28729559/effects-of-poly-%C3%AE-glutamic-acid-%C3%AE-pga-on-plant-growth-and-its-distribution-in-a-controlled-plant-soil-system
#5
Lei Zhang, Xueming Yang, Decai Gao, Lingli Wang, Jie Li, Zhanbo Wei, Yuanliang Shi
To demonstrate the responses of plant (Pakchoi) and soil to poly-γ-glutamic acid (γ-PGA) is essential to better understand the pathways of the promotional effect of γ-PGA on plant growth. In this study, the effects of γ-PGA on soil nutrient availability, plant nutrient uptake ability, plant metabolism and its distribution in a plant-soil system were tested using labeled γ-PGA synthesized from (13)C1-(15)N-L-glutamic acid (L-Glu). γ-PGA significantly improved plant uptake of nitrogen (N), phosphorus (P), and potassium (K) and hence increased plant biomass...
July 20, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28728360/isolation-and-characterization-of-a-novel-gossypol-degrading-bacteria-bacillus-subtilis-strain-rbs
#6
Yunhua Zhang, Lijuan Chen, Zhengyou Zhang, Li Dai, Ying Liu, Maoji Cheng
Objective: An experiment was conducted to isolate gossypol-degrading bacteria and assessed its potential for gossypol degradation. Methods: Rumen liquid was collected from the rumen of cows through fistula from the experimental pasture. Approximately 1 ml of the rumen liquid was spread onto basal medium plates containing 2 g/l gossypol as the only source of carbon and was then cultured at 39°C to isolate gossypol-degrading bacteria. The isolated colonies were cultured for 6 h and then observed their size and shape by the microscope and scanning electron microscope...
June 27, 2017: Asian-Australasian Journal of Animal Sciences
https://www.readbyqxmd.com/read/28727119/nitrogen-from-ammonia-is-as-efficient-as-that-from-free-amino-acids-or-protein-for-improving-growth-performance-of-pigs-fed-diets-deficient-in-nonessential-amino-acid-nitrogen
#7
W D Mansilla, J K Htoo, C F M de Lange
Inclusion of NPN in diets may compensate the deficient supply of nonessential AA (NEAA) in very low CP levels. To assess this, 2 studies were conducted to determine the effect of supplementing NPN and specific NEAA to diets severely deficient in NEAA nitrogen (NEAA-N) on growth performance of pigs. In Exp. 1, 48 gilts (initial BW 15.2 ± 1.3 kg; 2 pigs per pen; 6 pens per treatment) were randomly assigned to 1 of the 4 dietary treatments: 1) positive control (Pos Ctrl), not deficient in essential AA (EAA) and total N, with all N supplied from intact protein (casein and soybean meal) or crystalline EAA, (2) negative control (Neg Ctrl), supplying the same amount of potentially limiting EAA as Pos Ctrl but deficient in NEAA-N, 3) Neg Ctrl plus 1...
July 2017: Journal of Animal Science
https://www.readbyqxmd.com/read/28727031/mammary-nutrient-uptake-in-multiparous-sows-fed-supplementary-arginine-during-gestation-and-lactation
#8
U Krogh, N Oksbjerg, A C Storm, T Feyera, P K Theil
Arginine is the precursor for the synthesis of nitric oxide and may increase mammary plasma flow (MPF), which may in turn increase mammary nutrient uptake. Quantifying mammary nutrient uptake improves our understanding of mammary nutrient metabolism and may potentially allow identification of limiting nutrients for colostrum and milk production. Thus, the objectives of the present study were 1) to study the impact of 25 g/d of crystalline Arg (ARG) on MPF and uptake of nutrients by the mammary glands compared with an isonitrogenous supply of Ala (51 g/d; control [CON]) fed to a total of 8 sows from d 30 of gestation until weaning on d 28 of lactation and 2) to quantify mammary nutrient uptake in late gestation and in early and at peak lactation...
June 2017: Journal of Animal Science
https://www.readbyqxmd.com/read/28726323/characterization-of-a-cathepsin-d-protease-from-cho-cell-free-medium-and-mitigation-of-its-impact-on-the-stability-of-a-recombinant-therapeutic-protein
#9
Amareth Lim, Brandon L Doyle, Gerard M Kelly, Angelia M Reed-Bogan, Lawrence H Breen, Parviz A Shamlou, Peter K Lambooy
During purification process development of a recombinant therapeutic protein, an endoproteolytic activity endogenous to the Chinese hamster ovary (CHO) cells and leading to degradation at particular hydrophobic amino acid residues (e.g., Phe and Trp) was observed when processing at acidic pH. The presence of residual levels of protease activity in purified protein batches affected the inherent activity of the product when stored as a solution. In order to develop a robust purification strategy to minimize this undesirable impact, identification and characterization of this protease was essential to ultimately ensure that a solution formulation was stable for many years...
July 20, 2017: Biotechnology Progress
https://www.readbyqxmd.com/read/28726187/best-practices-for-media-selection-for-mammalian-cells
#10
REVIEW
Paul J Price
Cell culture medium is a complex mixture of nutrients and growth factors that, along with the physical environment, can either help or destroy your experiment or production run. Nutritional requirements differ with different cell types and functions, as do optimal pH and osmolality. As cell growth proceeds, different cells will utilize amino acids and other components at different rates. By controlling for ammonia, free radicals, heavy metal toxicity, pH shifts, fluctuations in osmolality, nutrient depletion, and chemical and biological contaminants, you will optimize the chances of success...
July 19, 2017: In Vitro Cellular & Developmental Biology. Animal
https://www.readbyqxmd.com/read/28724766/a-unique-t-cell-receptor-amino-acid-sequence-selected-by-htlv-i-tax301-309-specific-cytotoxic-t-cells-in-hla-a24-02-asymptomatic-carriers-and-adult-t-cell-leukemia-lymphoma-patients
#11
Yuko Ishihara, Yukie Tanaka, Seiichiro Kobayashi, Koji Kawamura, Hideki Nakasone, Ayumi Gomyo, Jin Hayakawa, Masaharu Tamaki, Yu Akahoshi, Naonori Harada, Machiko Kusuda, Kazuaki Kameda, Tomotaka Ugai, Hidenori Wada, Kana Sakamoto, Miki Sato, Kiriko Terasako-Saito, Misato Kikuchi, Shun-Ichi Kimura, Aki Tanihara, Shinichi Kako, Kaoru Uchimaru, Yoshinobu Kanda
We previously reported that the T-cell receptor (TCR) repertoire of HTLV-I Tax301-309-specific CD8(+) cytotoxic T-cells (Tax-CTLs) was highly restricted and a particular amino acid sequence motif, "PDR", was conserved among HLA-A*24:02(+) ATL patients who have undergone allogeneic hematopoietic cell transplantation (allo-HSCT). Furthermore, we found that donor-derived PDR+CTLs selectively expanded in ATL long-term HSCT survivors with strong CTL activity against HTLV-I. On the other hand, the TCR repertoires in Tax-CTL of asymptomatic HTLV-I carriers (ACs) remain unclear...
July 19, 2017: Journal of Virology
https://www.readbyqxmd.com/read/28723573/proteomic-and-metabolomic-characterization-of-a-mammalian-cellular-transition-from-quiescence-to-proliferation
#12
Ho-Joon Lee, Mark P Jedrychowski, Arunachalam Vinayagam, Ning Wu, Ng Shyh-Chang, Yanhui Hu, Chua Min-Wen, Jodene K Moore, John M Asara, Costas A Lyssiotis, Norbert Perrimon, Steven P Gygi, Lewis C Cantley, Marc W Kirschner
There exist similarities and differences in metabolism and physiology between normal proliferative cells and tumor cells. Once a cell enters the cell cycle, metabolic machinery is engaged to facilitate various processes. The kinetics and regulation of these metabolic changes have not been properly evaluated. To correlate the orchestration of these processes with the cell cycle, we analyzed the transition from quiescence to proliferation of a non-malignant murine pro-B lymphocyte cell line in response to IL-3...
July 18, 2017: Cell Reports
https://www.readbyqxmd.com/read/28723152/impact-of-environment-on-the-biomass-composition-of-soybean-glycine-max-seeds
#13
Tamara McClure, Jean Christophe Cocuron, Veronika Osmark, Leah McHale, Ana Paula Alonso
Factors including genetics, fertilization, and climatic conditions, can alter the biomass composition of soybean seeds, consequently impacting their market value and usage. This study specifically determined the content of protein and oil, as well as the composition of proteinogenic amino acids and fatty acids in seeds from ten diverse soybean cultivars grown in four different sites. The results highlighted that different environments produce a different composition for the ten cultivars under investigation...
July 19, 2017: Journal of Agricultural and Food Chemistry
https://www.readbyqxmd.com/read/28722406/possible-molecular-mechanisms-by-which-an-essential-oil-blend-from-star-anise-rosemary-thyme-and-oregano-and-saponins-increase-the-performance-and-ileal-protein-digestibility-of-growing-broilers
#14
Henry Reyer, Jürgen Zentek, Klaus Männer, Ibrahim M I Youssef, Tobias Aumüller, Julian Weghuber, Klaus Wimmers, Andreas Müller
Phytogenic feed additives represent a potential alternative to antibiotics with attributed health and growth promoting effects. Chickens supplemented with an essential oil blend, a Quillaja saponin blend or a combination of both phytogenic preparations showed a comprehensively and significantly improved apparent ileal digestibility of crude protein and amino acids compared to control birds. Accordingly, holistic transcriptomic analyses of jejunum and liver samples indicated alterations of macromolecule transporters and processing pathways likely culminating in an increased uptake and metabolizing of carbohydrates and fatty acids...
July 19, 2017: Journal of Agricultural and Food Chemistry
https://www.readbyqxmd.com/read/28722222/catalase2-functions-for-seedling-post-germinative-growth-by-scavenging-h2-o2-and-stimulating-acx2-3-activity-in-arabidopsis
#15
Wen-Cheng Liu, Tong-Tong Han, Hong-Mei Yuan, Zhen-Dong Yu, Lin-Yu Zhang, Bing-Lei Zhang, Shuang Zhai, Si-Qiu Zheng, Ying-Tang Lu
Increased fatty acid β-oxidation is essential for early post-germinative growth in seedlings, but high levels of H2 O2 produced by β-oxidation can induce oxidative stress. Whether and how catalase (CAT) functions in fine-tuning H2 O2 homeostasis during seedling growth remain unclear. Here, we report that CAT2 functions in early seedling growth. Compared to the wild type, the cat2-1 mutant, with elevated H2 O2 levels, exhibited reduced root elongation on sucrose (Suc)-free medium, mimicking soils without exogenous sugar supply...
July 19, 2017: Plant, Cell & Environment
https://www.readbyqxmd.com/read/28721586/homology-modeling-and-prediction-of-the-amino-acid-residues-participating-in-the-transfer-of-acetyl-coa-to-arylalkylamine-by-the-n-acetyltransferase-from-chryseobacterium-sp
#16
Shinji Takenaka, Takahiro Ozeki, Kosei Tanaka, Ken-Ichi Yoshida
OBJECTIVES: To predict the amino acid residues playing important roles in acetyl-CoA and substrate binding and to study the acetyl group transfer mechanism of Chryseobacterium sp. 5-3B N-acetyltransferase (5-3B NatA). RESULTS: A 3-dimensional homology model of 5-3B NatA was constructed to compare the theoretical structure of this compound with the structures of previously reported proteins belonging to the bacterial GCN5 N-acetyltransferase family. Homology modeling of the 5-3B NatA structure and a characterization of the enzyme's kinetic parameters identified the essential amino acid residues involved in binding and acetyl-group transfer...
July 18, 2017: Biotechnology Letters
https://www.readbyqxmd.com/read/28721399/nutritional-and-functional-properties-of-fishmeal-produced-from-fresh-by-products-of-cod-gadus-morhua-l-and-saithe-pollachius-virens
#17
Ola Ween, Janne K Stangeland, Turid S Fylling, Grete Hansen Aas
Fresh by-products of whitefish such as cod and saithe is processed to fishmeal (FM) on-board seagoing Norwegian trawlers. The aim of this study was to document the properties of whitefish FM (WFM) protein with respect to, physicochemical and bioactive properties. Analysis of the proximate composition of representative seasonal WFM batches show that the production is robust without much variance. The mean protein (61.9 ± 1.2), fat (8.9 ± 1.1%), moisture (5 ± 1.2%) and ash content (22.4 ± 0.8%), reflect the use of lean and bony raw-material...
July 2017: Heliyon
https://www.readbyqxmd.com/read/28720589/dynamic-role-of-the-tether-helix-in-pip2-dependent-gating-of-a-g-protein-gated-potassium-channel
#18
Emre Lacin, Prafulla Aryal, Ian W Glaaser, Karthik Bodhinathan, Eric Tsai, Nidaa Marsh, Stephen J Tucker, Mark S P Sansom, Paul A Slesinger
G protein-gated inwardly rectifying potassium (GIRK) channels control neuronal excitability in the brain and are implicated in several different neurological diseases. The anionic phospholipid phosphatidylinositol 4,5 bisphosphate (PIP2) is an essential cofactor for GIRK channel gating, but the precise mechanism by which PIP2 opens GIRK channels remains poorly understood. Previous structural studies have revealed several highly conserved, positively charged residues in the "tether helix" (C-linker) that interact with the negatively charged PIP2 However, these crystal structures of neuronal GIRK channels in complex with PIP2 provide only snapshots of PIP2's interaction with the channel and thus lack details about the gating transitions triggered by PIP2 binding...
July 18, 2017: Journal of General Physiology
https://www.readbyqxmd.com/read/28720097/a-versatile-papaya-mosaic-virus-papmv-vaccine-platform-based-on-sortase-mediated-antigen-coupling
#19
Ariane Thérien, Mikaël Bédard, Damien Carignan, Gervais Rioux, Louis Gauthier-Landry, Marie-Ève Laliberté-Gagné, Marilène Bolduc, Pierre Savard, Denis Leclerc
BACKGROUND: Flexuous rod-shaped nanoparticles made of the coat protein (CP) of papaya mosaic virus (PapMV) have been shown to trigger innate immunity through engagement of toll-like receptor 7 (TLR7). PapMV nanoparticles can also serve as a vaccine platform as they can increase the immune response to fused peptide antigens. Although this approach shows great potential, fusion of antigens directly to the CP open reading frame (ORF) is challenging because the fused peptides can alter the structure of the CP and its capacity to self assemble into nanoparticles-a property essential for triggering an efficient immune response to the peptide...
July 18, 2017: Journal of Nanobiotechnology
https://www.readbyqxmd.com/read/28718766/structural-insights-into-the-light-driven-auto-assembly-process-of-the-water-oxidizing-mn4cao5-cluster-in-photosystem-ii
#20
Miao Zhang, Martin Bommer, Ruchira Chatterjee, Rana Hussein, Junko Yano, Holger Dau, Jan Kern, Holger Dobbek, Athina Zouni
In plants, algae and cyanobacteria, Photosystem II (PSII) catalyzes the light-driven splitting of water at a protein-bound Mn4CaO5-cluster, the water-oxidizing complex (WOC). In the photosynthetic organisms, the light-driven formation of the WOC from dissolved metal ions is a key process because it is essential in both initial activation and continuous repair of PSII. Structural information is required for understanding of this chaperone-free metal-cluster assembly. For the first time, we obtained a structure of PSII from Thermosynechococcus elongatus without the Mn4CaO5-cluster...
July 18, 2017: ELife
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