gebhart/patrepeval huggingface dataset:
The World Mushroom Industry: Trends and Technological Development (2006)

Approximately 14,000 described species of the 1.5 million fungi estimated in the world produce fruiting bodies that are large enough to be considered as mushrooms. The world market for the mushroom industry in 2005 was valued at over $45 billion. The mushroom industry can be divided into three main categories: edible mushrooms, medicinal mushroom products, and wild mushrooms. International bodies/forums have developed for each of these segments of the mushroom industry that have helped to bring them to the forefront of international attention: (1) International Society of Mushroom Science, for edible mushrooms; (2) World Society for Mushroom Biology and Mushroom Products, for mushroom biology and medicinal mushroom products; and (3) International Workshop on Edible Mycorrhizal Mushrooms, for some wild mushrooms. The three international bodies/forums have done much to promote each of their respective fields, not the least of which is bringing together scientists in international forums for useful discussions, encouraging research, and the dissemination of valuable information. The outlook for many of the known mushroom species is bright. Production of mushrooms worldwide has been steadily increasing, mainly due to contributions from developing countries such as China, India, and Vietnam. There is also increasing experimentally based evidence to support centuries of observations regarding the nutritional and medicinal benefits of mushrooms. The value of mushrooms has recently been promoted to tremendous levels with medicinal mushrooms trials conducted for HIV/AIDS patients in Africa, generating encouraging results. However, harvests of highly prized edible mycorrhiza mushrooms are continuously decreasing. This has triggered research into devising methods for improved cultivation. It is hoped that there will be even more research into this area, so that larger quantities can be massively harvested through semicultivation methods. Technological developments in the mushroom industry in general have witnessed increasing production capacities, innovations in cultivation technologies, improvements to final mushroom goods, and utilization of mushrooms' natural qualities for environmental benefits. However, there is always the need to maintain current trends and to continue to seek out new opportunities. The challenge is to recognize opportunities such as increasing consumption capabilities with the increase in world population and to take advantage of this by promoting the consumption of mushrooms.
Réactions de cyclisation de pentynyl‐2 pyrimidones‐4 (1983)

Abstract Les amidines acétyléniques HC≡C‐CH 2 ) n ‐C(=NH)NH 2 condensées avec des esters β‐cétoniques, permettent d'accéder à des pyrimidones portant une chaîne acétylénique en 2. Le chauffage de ces composés entraîne deux types de cyclisation. La cyclisation par attaque nucléophile de l'azote amidé sur la triple liaison est très minoritaire. Une cyclo‐addition mettant en jeu la triple liaison et un système azadiénique, formant un inter‐médiaire tricyclique peu stable et dont on isole les produits de rétrocyclisation, constitue la voie principale.
Carbonic anhydrase inhibitor suppresses invasion of renal cancer cells in vitro (2000)

Acidification of the extracellular milieu of malignant tumors is reported to increase the invasive behavior of cancer cells. In normal tissues, production of acid is catalyzed by carbonic anhydrases (CAs), some of which are known to be overexpressed in certain cancers. To investigate the functional role of CA activity in such cancer cells, we analyzed the effect of acetazolamide, a potent CA inhibitor, on the invasive capacity of four renal carcinoma cell lines (Caki-1, Caki-2, ACHN, and A-498). We found that 10 microM acetazolamide inhibited the relative invasion rate of these cell lines between 18-74%. The Caki-2 and ACHN cell lines displayed the highest responsiveness, and their responses clearly depended on the acetazolamide concentration in the culture medium. Immunocytochemical and Western blotting results identified the presence of CA isoenzyme II in the cytoplasm of all four cell lines and CA XII on the plasma membrane in three of four cell lines. Because acetazolamide alone reduced invasiveness of these cancer cells in vitro, we conclude that the CAs overexpressed in these renal cancer cells contribute to invasiveness, at least in vitro, and suggest that CA inhibitors may also reduce invasiveness in other tumors that overexpress one or more CAs.
Dynamic load balancing without packet reordering (2007)

Dynamic load balancing is a popular recent technique that protects ISP networks from sudden congestion caused by load spikes or link failures. Dynamic load balancing protocols, however, require schemes for splitting traffic across multiple paths at a fine granularity. Current splitting schemes present a tussle between slicing granularity and packet reordering. Splitting traffic at the granularity of packets quickly and accurately assigns the desired traffic share to each path, but can reorder packets within a TCP flow, confusing TCP congestion control. Splitting traffic at the granularity of a flow avoids packet reordering but may overshoot the desired shares by up to 60% in dynamic environments, resulting in low end-to-end network goodput Contrary to popular belief, we show that one can systematically split a single flow across multiple paths without causing packet reordering. We propose FLARE, a new traffic splitting algorithm that operates on bursts of packets, carefully chosen to avoid reordering. Using a combination of analysis and trace-driven simulations, we show that FLARE attains accuracy and responsiveness comparable to packet switching without reordering packets. FLARE is simple and can be implemented with a few KB of router state
Omega-3 Fatty Acids and Mood Disorders (2006)

Deficits in omega-3 fatty acids have been identified as a contributing factor to mood disorders and offer a potential rational treatment approach. This review identifies a number of hypotheses and studies for consideration. In particular, the authors argue for studies clarifying the efficacy of omega-3 supplementation for unipolar and bipolar depressive disorders, both as individual and augmentation treatment strategies, and for studies pursuing which omega-3 fatty acid, eicosapentaenoic acid (EPA) or docosahexaenoic acid (DHA), is likely to provide the greatest benefit.
Utility of Kallikrein-Related Peptidases (KLKs) as Cancer Biomarkers (2008)

KLKs have biomarker utility in many cancer types but individually lack sufficient specificity or sensitivity to be used in clinical practice; however, groups of KLKs and other candidate biomarkers may offer improved performance.
Gnotobiotic pigs-derivation and rearing. (1978)

The procurement, rearing, nutrition and microbiological monitoring of gnotobiotic pigs and a method for conditioning of primary, colostrum-deprived, specific pathogen free pigs is described. As compared to the established hysterectomy and closed hysterotomy methods for the derivation of gnotobiotic piglets an alternative approach, open caesarian section with the sow maintained under general halothane-nitrous oxide anaesthesia and the introduction of each fetus into the sterile isolator via a liquid germicidal trap, was found to be more efficient and equally successful in providing viable and microbiologically sterile piglets. Two sterile commercially available milk diets, a special formula for orphan animals and condensed cow's milk, when the latter was supplemented with injectable vitamin E, selenium and iron, proved adequate for satisfactory health of the animals. Two types of pelleted starter rations, sterilized by 4.5 megarads of gamma irradiation, provided adequately for the nutritional needs of older gnotobiotic pigs. Results of microbiological monitoring indicated that the surgical and rearing methods employed were capable of preventing contamination of the animals with bacteria, mycoplasma, yeasts, molds, protozoa and helminths but probably could not exclude occasional vertically transmitted viral infections. Exposure of the animals for four weeks to selected strains of lactobacilli, fecal streptococci and Escherichia coli did not result in visible disease while they were maintained in isolators and conditioned them for transfer into a conventional microbial environment.
Pyrazoline bisphosphonate esters as novel antiinflammatory and antiarthritic agents (1993)

Vinylidenebisphosphonic acid tetraethyl ester (1) and diazo ketones 7a-1 in ether at 22 degrees C yield pyrazoline bisphosphonate tetraethyl esters 8a-1 in moderate to good yield. These compounds were evaluated in animal models of arthritis: rat adjuvant-induced polyarthritis (AIP) and murine antigen-induced arthritis (AIA) and a murine model of chronic inflammation, the delayed type hypersensitivity granuloma reaction (DTH-GRA). (5-Benzoyl-2,4-dihydro-3H-pyrazol-3-ylidene)-bisphosphonic acid tetraethyl ester (8a), and [5-(3-fluorobenzoyl)-2,4-dihydro-3H-pyraxol-3-ylidene]- bisphosphonic acid tetraethyl ester (8d) significantly inhibited the arthritis models, AIP (15 mg/kg) and AIA (25 mg/kg), as well as the DTH-GRA (25 mg/kg). Conversion of 8a to the corresponding bisphosphonic acid, 10a, resulted in loss of activity. Compounds with alkyl substituents on the pyrazoline nitrogen, 9a-d, were inactive in the DTH-GRA. These results show that 8a and 8d have novel antiinflammatory activity and are capable of inhibiting chronic arthritis and inflammation in animals. Such compounds might be useful in man for treating chronic tissue injury associated with arthropathies such as inflammatory joint disease as well as other chronic inflammatory diseases.
Cloning and Expression of Human Arylsulfatase A (1989)

A full length cDNA for human arylsulfatase A was cloned and sequenced. The predicted amino acid sequence comprises 507 residues. A putative signal peptide of 18 residues is followed by the NH2-terminal sequence of placental arylsulfatase A. One of the arylsulfatase A peptides ends 3 residues ahead of the predicted COOH terminus. This indicates that proteolytic processing of arylsulfatase A is confined to the cleavage of the signal peptide. The predicted sequence contains three potential N-glycosylation sites, two of which are likely to be utilized. The sequence shows no homology to any of the known sequences of lysosomal enzymes but a 35% identity to human steroid sulfatase. Transfection of monkey and baby hamster kidney cells resulted in an up to 200-fold increase of the arylsulfatase A activity. The arylsulfatase A was located in lysosome-like structures and transported to dense lysosomes in a mannose 6-phosphate receptor-dependent manner. The arylsulfatase A cDNA hybridizes to 2.0- and 3.9-kilobase species in RNA from human fibroblasts and human liver. RNA species of similar size were detected in metachromatic leukodystrophy fibroblasts of two patients, in which synthesis of arylsulfatase A polypeptides was either detectable or absent.
Enhanced Seed Oil Production in Canola by Conditional Expression of Brassica napus LEAFY COTYLEDON1 and LEC1-LIKE in Developing Seeds (2011)

The seed oil content in oilseed crops is a major selection trait to breeders. In Arabidopsis (Arabidopsis thaliana), LEAFY COTYLEDON1 (LEC1) and LEC1-LIKE (L1L) are key regulators of fatty acid biosynthesis. Overexpression of AtLEC1 and its orthologs in canola (Brassica napus), BnLEC1 and BnL1L, causes an increased fatty acid level in transgenic Arabidopsis plants, which, however, also show severe developmental abnormalities. Here, we use truncated napin A promoters, which retain the seed-specific expression pattern but with a reduced expression level, to drive the expression of BnLEC1 and BnL1L in transgenic canola. Conditional expression of BnLEC1 and BnL1L increases the seed oil content by 2% to 20% and has no detrimental effects on major agronomic traits. In the transgenic canola, expression of a subset of genes involved in fatty acid biosynthesis and glycolysis is up-regulated in developing seeds. Moreover, the BnLEC1 transgene enhances the expression of several genes involved in Suc synthesis and transport in developing seeds and the silique wall. Consistently, the accumulation of Suc and Fru is increased in developing seeds of the transgenic rapeseed, suggesting the increased carbon flux to fatty acid biosynthesis. These results demonstrate that BnLEC1 and BnL1L are reliable targets for genetic improvement of rapeseed in seed oil production.
Role of angiotensin II on decidualization in human endometrium (2002)

The results showed that (1) Ang II content was 116.8±8.42 pg/g wet weight in decidual tissue collected week 5 of gestation. Ang II levels gradually increased as gestation proceeded. The highest value occurred in week 7 groups (7th w vs 5th w group P<0.01). (2) Considerable Ang II R was detected in human decidual tissue at week 6--8 of gestation. The Ang II subtype I (AT_(1)) receptor antagonist Losartant (Dup 753) caused substantial displacement, whereas the Ang II subtype II (AT_(2)) receptor antagonist (PD 123319) did not cause detectable displacement. Thus the AT_(1) receptor was the predominant receptor expressed in human decidua at the early stage of pregnancy. (3) Ang II significantly stimulated PRL release in human decidual cells in a dose-dependent mode. The inhibitor of Ang II converting enzyme (ACEI) induced the decreased of PRL secretion slightly. All the results indicated that Ang II plays an important role in the deciduialization of human endometrium, and is involved in embryo implantation and the maintance of gestation.
The effect of particle design on cellular internalization pathways (2008)

The interaction of particles with cells is known to be strongly influenced by particle size, but little is known about the interdependent role that size, shape, and surface chemistry have on cellular internalization and intracellular trafficking. We report on the internalization of specially designed, monodisperse hydrogel particles into HeLa cells as a function of size, shape, and surface charge. We employ a top-down particle fabrication technique called PRINT that is able to generate uniform populations of organic micro- and nanoparticles with complete control of size, shape, and surface chemistry. Evidence of particle internalization was obtained by using conventional biological techniques and transmission electron microscopy. These findings suggest that HeLa cells readily internalize nonspherical particles with dimensions as large as 3 mum by using several different mechanisms of endocytosis. Moreover, it was found that rod-like particles enjoy an appreciable advantage when it comes to internalization rates, reminiscent of the advantage that many rod-like bacteria have for internalization in nonphagocytic cells.
Glucose Uptake in Clostridium beijerinckii NCIMB 8052 and the Solvent-Hyperproducing Mutant BA101 (2001)

Glucose uptake and accumulation by Clostridium beijerinckii BA101, a butanol hyperproducing mutant, were examined during various stages of growth. Glucose uptake in C. beijerinckii BA101 was repressed 20% by 2-deoxyglucose and 25% by mannose, while glucose uptake in C. beijerinckii 8052 was repressed 52 and 28% by these sugars, respectively. We confirmed the presence of a phosphoenolpyruvate (PEP)-dependent phosphotransferase system (PTS) associated with cell extracts of C. beijerinckii BA101 by glucose phosphorylation by PEP. The PTS activity associated with C. beijerinckii BA101 was 50% of that observed for C. beijerinckii 8052. C. beijerinckii BA101 also demonstrated lower PTS activity for fructose and glucitol. Glucose phosphorylation by cell extracts derived from both C. beijerinckii BA101 and 8052 was also dependent on the presence of ATP, a finding consistent with the presence of glucokinase activity in C. beijerinckii extracts. ATP-dependent glucose phosphorylation was predominant during the solventogenic stage, when PEP-dependent glucose phosphorylation was dramatically repressed. A nearly twofold-greater ATP-dependent phosphorylation rate was observed for solventogenic stage C. beijerinckii BA101 than for solventogenic stage C. beijerinckii 8052. These results suggest that C. beijerinckii BA101 is defective in PTS activity and that C. beijerinckii BA101 compensates for this defect with enhanced glucokinase activity, resulting in an ability to transport and utilize glucose during the solventogenic stage.
Hydroxyapatite Cement: II. Obliteration and Reconstruction of the Cat Frontal Sinus (1991)

Frontal sinus obliteration and reconstruction can be performed with autogenous grafts or synthetic implants, each of which has significant limitations. Hydroxyapatite cement, which can be shaped intraoperatively and sets to a microporous hydroxyapatite implant, was applied to this problem. Nine cats had the anterior table of their frontal sinus unilaterally removed and the sinus cavity stripped of its mucosa. Hydroxyapatite cement was used to obliterate the cavity and reconstruct the overlying anterior table defect. The unoperated side served as the control, and the animals were sacrificed up to 18 months postoperatively. There were no adverse reactions, infections, mucoceles, or implant extrusions. The normal anatomic contour of the forehead region overlying the hydroxyapatite cement implants was maintained in all animals. Histologic examination of undecalcified whole sinus sections revealed progressive replacement of the implants with woven bone without a loss of volume. Replacement of the hydroxyapatite cement by woven bone is postulated to occur through a combination of implant resorption coupled with osteoconduction. The use of hydroxyapatite cement proved successful for the reconstruction and obliteration of cat frontal sinuses, and may be appropriate for the same application in humans.
A model compartmental syndrome in man with particular reference to the quantification of nerve function (1977)

A human model system was used to investigate the effect of increased tissue pressure on different parameters of the function of the nerves and muscles in the anterior compartment of the leg. Abnormalities of sensation, strength, motor nerve-conduction velocity, and compound muscle-action-potential amplitude occurred in a parallel fashion when the intracompartmental pressure exceeded a threshold value. This threshold was significantly lowered by elevation of the extremity. Grossly abnormal functional parameters were consistently elicited when the peripheral pulse remained intact. The motor nerve-conduction velocity and compound muscle-action-potential amplitude appear to be reliable, non-invasive, and quantitative parameters of the physiological status of the neuromuscular tissue within the compartment.
Molecular Dynamics Characterization of the C2 Domain of Protein Kinase Cβ (2002)

Protein kinase C (PKC) isozymes comprise a family of related enzymes that play a central role in many intracellular eukaryotic signaling events. Isozyme specificity is mediated by association of each PKC isozyme with specific anchoring proteins, termed RACKs. The C2 domain of betaPKC contains at least part of the RACK-binding sites. Because the C2 domain contains also a RACK-like sequence (termed pseudo-RACK), it was proposed that this pseudo-RACK site mediates intramolecular interaction with one of the RACK-binding sites in the C2 domain itself, stabilizing the inactive conformation of betaPKC. BetaPKC depends on calcium for its activation, and the C2 domain contains the calcium-binding sites. The x-ray structure of the C2 domain of betaPKC shows that three Ca(2+) ions can be coordinated by two opposing loops at one end of the domain. Starting from this x-ray structure, we have performed molecular dynamics (MD) calculations on the C2 domain of betaPKC bound to three Ca(2+) ions, to two Ca(2+) ions, and in the Ca(2+)-free state, in order to analyze the effect of calcium on the RACK-binding sites and the pseudo-RACK sites, as well as on the loops that constitute the binding site for the Ca(2+) ions. The results show that calcium stabilizes the beta-sandwich structure of the C2 domain and thus affects two of the three RACK-binding sites within the C2 domain. Also, the interactions between the third RACK-binding site and the pseudo-RACK site are not notably modified by the removal of Ca(2+) ions. On that basis, we predict that the pseudo-RACK site within the C2 domain masks a RACK-binding site in another domain of betaPKC, possibly the V5 domain. Finally, the MD modeling shows that two Ca(2+) ions are able to interact with two molecules of O-phospho-l-serine. These data suggest that Ca(2+) ions may be directly involved in PKC binding to phosphatidylserine, an acidic lipid located exclusively on the cytoplasmic face of membranes, that is required for PKC activation.
Endocytosis (1997)

Mammalian cells take up extracellular material by a variety of different mechanisms that are collectively termed endocytosis. Endocytic mechanisms serve many important cellular functions including the uptake of extracellular nutrients, regulation of cell-surface receptor expression, maintenance of cell polarity, and antigen presentation. Endocytic pathways are also utilized by viruses, toxins, and symbiotic microorganisms to gain entry into cells. One of the best-characterized endocytic mechanisms is receptor-mediated endocytosis via clathrin-coated pits. This type of endocytosis constitutes the major emphasis of this review, with a brief discussion of other endocytic mechanisms and their comparison with the receptor-mediated pathway. This review describes and evaluates critically current understanding of the mechanisms of entry of plasma membrane components such as the receptor-ligand complexes and membrane lipids as well as the extracellular fluid into cells. The intracellular sorting and trafficking of these molecules upon internalization are also described. The roles of endocytosis in physiological and pathological processes are discussed. These include maintenance of cell polarization, antigen presentation, glucose transport, atherosclerosis, Alzheimer's disease, and the endocytosis of toxins and viruses.
Pathway analysis, engineering, and physiological considerations for redirecting central metabolism (1996)

The rate and yield of producing a metabolite is ultimately limited by the ability to channel metabolic fluxes from central metabolism to the desired biosynthesis pathway. Redirection of central metabolism thus is essential to high-efficiency production of biochemicals. This task begins with pathway analysis, which considers only the stoichiometry of the reaction networks but not the regulatory mechanisms. An approach extended from convex analysis is used to determine the basic reaction modes, which allows the determination of optimal and suboptimal flux distributions, yield, and the dispensable sets of reactions. Genes responsible for reactions in the same dispensable set can be deleted simultaneously. This analysis serves as an initial guideline for pathway engineering. Using this analysis, we successfully constructed an Escherichia coli strain that can channel the metabolic flow from carbohydrate to the aromatic pathway with theoretical yield. This analysis also predicts a novel cycle involving phosphoenolpyruvate (PEP) carboxykinase (Pck) and the glyoxylate shunt, which can substitute the tricarboxylic acid cycle with only slightly less efficiency. However, the full cycle could not be confirmed in vivo, possibly because of the regulatory mechanism not considered in the pathway analysis.In addition to the kinetic regulation, we have obtained evidence suggesting that central metabolites are involved in specific regulons in E. coli. Overexpression of PEP-forming enzymes (phosphoenolpyruvate synthase [Pps] and Pck) stimulates the glucose consumption rate, represses the heat shock response, and negatively regulates the Ntr regulon. These results suggest that some glycolytic intermediates may serve as a signal in the regulation of the phosphotransferase system, heat shock response, and nitrogen regulation. However, the role of central metabolites in these regulations has not been determined conclusively. (c) 1996 John Wiley & Sons, Inc.