Continuous cultivation of Saccharomyces cerevisiae. II. Growth on ethanol under transient-state conditions

Growth of Saccharomyces cerevisiae LBG H 1022 on ethanol under transient-state conditions was studied. As a cultivation device, an aerated Chemap fermentor combined with continuously working gas analyzers for oxygen and carbon dioxide was used. Yeast cell dry matter, substrate concentration, specific oxygen uptake, specific carbon dioxide release, and respiration quotient were measured during the different transient states. Depending on which range of the dilution rate the initial steady state was found, we obtain different responses to the shift experiment. For the lower range, up to D = 0.07, we deal with damped oscillations ranging above and below the steady-state values. For the higher specific growth rates, the rate of damping is strongly enhanced and the shape of the curves becomes an asymptotic approach to the final steady states.     

Structure and Function of Nucleoside Hydrolases from Physcomitrella patens and Maize Catalyzing the Hydrolysis of Purine,Pyrimidine, and Cytokinin Ribosides

We present a comprehensive characterization of the nucleoside N-ribohydrolase (NRH) family in two model plants, Physcomitrella patens (PpNRH) and maize (Zea mays; ZmNRH), using in vitro and in planta approaches. We identified two NRH subclasses in the plant kingdom; one preferentially targets the purine ribosides inosine and xanthosine, while the other is more active toward uridine and xanthosine. Both subclasses can hydrolyze plant hormones such as cytokinin ribosides. We also solved the crystal structures of two purine NRHs, PpNRH1 and ZmNRH3. Structural analyses, site-directed mutagenesis experiments, and phylogenetic studies were conducted to identify the residues responsible for the observed differences in substrate specificity between the NRH isoforms. The presence of a tyrosine at position 249 (PpNRH1 numbering) confers high hydrolase activity for purine ribosides, while an aspartate residue in this position confers high activity for uridine. Bud formation is delayed by knocking out single NRH genes in P. patens, and under conditions of nitrogen shortage, PpNRH1-deficient plants cannot salvage adenosine-bound nitrogen. All PpNRH knockout plants display elevated levels of certain purine and pyrimidine ribosides and cytokinins that reflect the substrate preferences of the knocked out enzymes. NRH enzymes thus have functions in cytokinin conversion and activation as well as in purine and pyrimidine metabolism.Nucleoside hydrolases or nucleoside N-ribohydrolases (NRHs; EC 3.2.2.-) are glycosidases that catalyze the cleavage of the N-glycosidic bond in nucleosides to enable the recycling of the nucleobases and Rib (Fig. 1A). The process by which nucleosides and nucleobases are recycled is also known as salvaging and is a way of conserving energy, which would otherwise be needed for the de novo synthesis of purine- and pyrimidine-containing compounds. During the salvage, bases and nucleosides can be converted into nucleoside monophosphates by the action of phosphoribosyltransferases and nucleoside kinases, respectively, and further phosphorylated into nucleoside diphosphates and triphosphates (Moffatt et al., 2002; Zrenner et al., 2006; Fig. 1B). Uridine kinase and uracil phosphoribosyl transferase are key enzymes in the pyrimidine-salvaging pathway in plants (Mainguet et al., 2009; Chen and Thelen, 2011). Adenine phosphoribosyltransferase and adenosine kinase (ADK) are important in purine salvaging (Moffatt and Somerville, 1988; Moffatt et al., 2002), and their mutants cause reductions in fertility or sterility, changes in transmethylation, and the formation of abnormal cell walls. In addition, both enzymes were also reported to play roles in cytokinin metabolism (Moffatt et al., 1991, 2000; von Schwartzenberg et al., 1998; Schoor et al., 2011). Cytokinins (N⁶-substituted adenine derivatives) are plant hormones that regulate cell division and numerous developmental events (Mok and Mok, 2001; Sakakibara, 2006). Cytokinin ribosides are considered to be transport forms and have little or no activity.Open in a separate windowFigure 1.A, Scheme of the reactions catalyzed by plant NRHs when using purine (inosine), pyrimidine (uridine), and cytokinin (iPR) ribosides as the substrates. B, Simplified schematic overview of cytokinin, purine, and pyrimidine metabolism in plants. The diagram is adapted from the work of Stasolla et al. (2003) and Zrenner et al. (2006) with modifications. The metabolic components shown are as follows: 1, cytokinin nucleotide phosphoribohydrolase; 2, adenine phosphoribosyltransferase; 3, adenosine kinase; 4, 5′-nucleotidase; 5, adenosine phosphorylase; 6, purine/pyrimidine nucleoside ribohydrolase; 7, cytokinin oxidase/dehydrogenase; 8, AMP deaminase; 9, hypoxanthine phosphoribosyltransferase; 10, inosine kinase; 11, inosine-guanosine phosphorylase; 12, IMP dehydrogenase; 13, xanthine dehydrogenase; 14, 5′-nucleotidase; 15, GMP synthase; 16, hypoxanthine-guanine phosphoribosyltransferase; 17, guanosine deaminase; 18, guanine deaminase; 19, guanosine kinase; 20, uracil phosphoribosyltransferase; 21, uridine cytidine kinase; 22, pyrimidine 5′-nucleotidase; 23, cytidine deaminase; 24, adenosine/adenine deaminase. CK, Cytokinin; CKR, cytokinin riboside; CKRMP, cytokinin riboside monophosphate.NRHs are metalloproteins first identified and characterized in parasitic protozoa such as Trypanosoma, Crithidia, and Leishmania species that rely on the import and salvage of nucleotide derivatives. They have since been characterized in other organisms such as bacteria, yeast, and insects (Versées and Steyaert, 2003) but never in mammals (Parkin et al., 1991). They have been divided into four classes based on their substrate specificity: nonspecific NRHs, which hydrolyze inosine and uridine (IU-NRHs; Parkin et al., 1991; Shi et al., 1999); purine-specific inosine/adenosine/guanosine NRHs (Parkin, 1996); the 6-oxopurine-specific guanosine/inosine NRHs (Estupiñán and Schramm, 1994); and the pyrimidine nucleoside-specific cytidine/uridine NRHs (CU-NRHs; Giabbai and Degano, 2004). All NRHs exhibit a stringent specificity for the Rib moiety and differ in their preferences regarding the nature of the nucleobase. Crystal structures are available for empty NRH or in complex with inhibitors from Crithidia fasciculata (CfNRH; Degano et al., 1998), Leishmania major (LmNRH; Shi et al., 1999), and Trypanosoma vivax (TvNRH; Versées et al., 2001, 2002). The structures of two CU-NRHs from Escherichia coli, namely YeiK (Iovane et al., 2008) and YbeK (rihA; Muzzolini et al., 2006; Garau et al., 2010), are also available. NRHs are believed to catalyze N-glycosidic bond cleavage by a direct displacement mechanism. An Asp from a conserved motif acts as a general base and abstracts a proton from a catalytic water molecule, which then attacks the C1′ atom of the Rib moiety of the nucleoside. Kinetic isotope-effect studies on CfNRH (Horenstein et al., 1991) showed that the substrate’s hydrolysis proceeds via an oxocarbenium ion-like transition state and is preceded by protonation at the N7 atom of the purine ring, which lowers the electron density on the purine ring and destabilizes the N-glycosidic bond. A conserved active-site His is a likely candidate for this role in IU-NRHs and CU-NRHs. In the transition state, the C1′-N9 glycosidic bond is almost 2 Å long, with the C1′ atom being sp² hybridized while the C3′ atom adopts an exo-conformation, and the whole ribosyl moiety carries a substantial positive charge (Horenstein et al., 1991).Several NRH enzymes have been identified in plants, including a uridine-specific NRH from mung bean (Phaseolus radiatus; Achar and Vaidyanathan, 1967), an inosine-specific NRH (EC 3.2.2.2) and a guanosine-inosine-specific NRH, both from yellow lupine (Lupinus luteus; Guranowski, 1982; Szuwart et al., 2006), and an adenosine-specific NRH (EC 3.2.2.7) from coffee (Coffea arabica), barley (Hordeum vulgare), and wheat (Triticum aestivum; Guranowski and Schneider, 1977; Chen and Kristopeit, 1981; Campos et al., 2005). However, their amino acid sequences have not been reported so far. A detailed study of the NRH gene family from Arabidopsis (Arabidopsis thaliana) has recently been reported (Jung et al., 2009, 2011). The AtNRH1 enzyme exhibits highest hydrolase activity toward uridine and xanthosine. It can also hydrolyze the cytokinin riboside N⁶-(2-isopentenyl)adenosine (iPR), which suggests that it may also play a role in cytokinin homeostasis. However, Riegler et al. (2011) analyzed the phenotypes of homozygous nrh1 and nrh2 single mutants along with the homozygous double mutants and concluded that AtNRHs are probably unimportant in cytokinin metabolism.Here, we identify and characterize plant IU-NRHs from two different model organisms, Physcomitrella patens and maize (Zea mays), combining structural, enzymatic, and in planta functional approaches. The moss P. patens was chosen to represent the bryophytes, which can be regarded as being evolutionarily basal terrestrial plants, and is suitable for use in developmental and metabolic studies (Cove et al., 2006; von Schwartzenberg, 2009), while maize is an important model system for cereal crops. We report the crystal structures of NRH enzymes from the two plant species, PpNRH1 and ZmNRH3. Based on these structures, we performed site-directed mutagenesis experiments and kinetic analyses of point mutants of PpNRH1 in order to identify key residues involved in nucleobase interactions and catalysis. To analyze the physiological role of the PpNRHs, single knockout mutants were generated. NRH deficiency caused significant changes in the levels of purine, pyrimidine, and cytokinin metabolites relative to those seen in the wild type, illustrating the importance of these enzymes in nucleoside and cytokinin metabolism.     

Interaction of antimicrobial dermaseptin and its fluorescently labeled analogues with phospholipid membranes.

Dermaseptin, a 34 amino-acid residue antimicrobial polypeptide [Mor, A., Nguyen, V. H., Delfour, A., Migliore-Samour, D., & Nicolas, P. (1991) Biochemistry 30, 8824-8830] was synthesized and selectively labeled at its N-terminal amino acid with either 7-nitrobenz-2-oxa-1,3-diazole-4-yl (NBD), rhodamine, or fluorescein. The fluorescent emission spectra of the NBD-labeled dermaseptin displayed a blue-shift upon binding to small unilamellar vesicles (SUV), reflecting the relocation of the fluorescent probe to an environment of increased apolarity. Titrations of solutions containing NBD-labeled dermaseptin with SUV composed of zwitterionic or acidic phospholipids were used to generate binding isotherms, from which were derived surface partition constants of (0.66 +/- 0.06) x 10(4) M-1 and (2.8 +/- 0.3) x 10(4) M-1, respectively. The shape of the binding isotherms, as well as fluorescence energy transfer measurements, suggests that some aggregation of membrane-bound peptide monomers occurs in acidic but not in zwitterionic vesicles. The preferential susceptibility of the peptide to proteolysis when bound to zwitterionic but not to acidic SUV suggests that these aggregates might then penetrate a relatively short distance into the hydrophobic region of the acidic membrane. Furthermore, the results provide good correlation between the peptide's strong binding and its ability to permeate membranes composed of acidic phospholipids, as revealed by a dissipation of diffusion potential and a release of entrapped calcein from SUV.     

Changes in 1-aminocyclopropane-1-carboxylic-acid content of cut carnation flowers in relation to their senescence

The rise in ethylene production accompanying the respiration climacteric and senescence of cut carnation flowers (Dianthus caryophyllus L. cv. White Sim) was associated with a 30-fold increase in the concentration of 1-aminocyclopropane-1-carboxylic acid (ACC) in the petals (initial content 0.3 nmol/g fresh weight). Pretreatment of the flowers with silver thiosulfate (STS) retarded flower senescence and prevented the increase in ACC concentration in the petals. An increase in ACC in the remaining flower parts, which appeared to precede the increase in the petals, was only partially prevented by the STS pretreatment. Addition of aminoxyacetic acid (2 mM) to the solution in which the flowers were kept completely inhibited accumulation of ACC in all flower parts.Abbreviations ACC 1-aminocyclopropane-1-carboxylic acid - AOA -aminoxyacetic acid - STS silver thiosulfate complex     

Evidence for the existence of gastric cytoprotective effect of atropine and cimetidine in humans

The effects of cimetidine (12.5 mg i.m.) and atropine (0.125 mg i.m.) were studied on the basal (BAO) and pentagastrin (6 micrograms X kg-1 s.c.)-stimulated (MAO) gastric acid secretion; the gastric mucosal microbleeding provoked by one-day treatment with indomethacin (4 X 25 mg orally) in patients with chronic disorders of the joints. The extent of the gastric microbleeding was measured by spectrophotometric determination of haemoglobin in gastric lavage fluid. The aims of this study were to determine the doses of cimetidine and atropine in humans without any significant inhibitory effects either on the basal or on the maximal gastric acid output to evaluate the cytoprotective action of these doses of cimetidine and atropine on the indomethacin-induced gastric microbleeding in the man. It was found that cimetidine (12.5 mg i.m.) and atropine (0.125 mg i.m.) did not cause any significant inhibition either of the BAO or of the MAO; indomethacin (4 X 25 mg orally) significantly increased gastric microbleeding in the patients; cimetidine and atropine, in the above doses, were able to prevent significantly indomethacin-induced gastric microbleeding in the patients. These results provide evidence for the existence of gastric cytoprotective effects of cimetidine and atropine in humans.     

Effects of Estrogen and Phytoestrogen Treatment on an In Vitro Model of Recurrent Stroke on HT22 Neuronal Cell Line

An increase of stroke incidence occurs in women with the decline of estrogen levels following menopause. This ischemic damage may recur, especially soon after the first insult has occurred. We evaluated the effects of estrogen and phytoestrogen treatment on an in vitro recurrent stroke model using the HT22 neuronal cell line. HT22 cells were treated with 17β-estradiol or genistein 1 h after the beginning of the first of two oxygen and glucose deprivation/reoxygenation (OGD/R) cycles. During the second OGD, there was a deterioration of some components of the electron transport chain, such as cytochrome c oxidase subunit 1 with a subsequent increase of reactive oxygen species (ROS) production. Accordingly, there was also an increase of apoptotic phenomena demonstrated by poly(ADP-ribose) polymerase 1 cleavage, Caspase-3 activity, and Annexin V levels. The recurrent ischemic injury also raised the hypoxia-inducible factor 1α and glucose transporter 1 levels, as well as the ratio between the lipidated and cytosolic forms of microtubule-associated protein 1A/1B-light chain 3 (LC3-II/LC3-I). We found a positive effect of estradiol and genistein treatment by partially preserving the impaired cell viability after the recurrent ischemic injury; however, this positive effect does not seem to be mediated neither by blocking apoptosis processes nor by decreasing ROS production. This work contribute to the better understanding of the molecular mechanisms triggered by recurrent ischemic damage in neuronal cells and, therefore, could help with the development of an effective treatment to minimize the consequences of this pathology.     

Receptor-mediated delivery of siRNAs by tethered nucleic acid base-paired interactions

We report a new strategy for cell-type-specific delivery of functional siRNAs into cells. The method involves the noncovalent attachment of siRNAs to ligand-conjugated oligodeoxynucleotides via nucleic acid base-paired interactions. The resulting complexes can be directly applied to cells, leading to specific cellular uptake and gene silencing. The method is simple, economical, and can be easily adapted for other cell surface receptors. Here we show the application of this method for the delivery of siRNAs to folate receptor-expressing cells.     

A Food-Grade Enzyme Preparation with Modest Gluten Detoxification Properties

Background and Aims

Celiac sprue is a life-long disease characterized by an intestinal inflammatory response to dietary gluten. A gluten-free diet is an effective treatment for most patients, but accidental ingestion of gluten is common, leading to incomplete recovery or relapse. Food-grade proteases capable of detoxifying moderate quantities of dietary gluten could mitigate this problem.

Methods

We evaluated the gluten detoxification properties of two food-grade enzymes, aspergillopepsin (ASP) from Aspergillus niger and dipeptidyl peptidase IV (DPPIV) from Aspergillus oryzae. The ability of each enzyme to hydrolyze gluten was tested against synthetic gluten peptides, a recombinant gluten protein, and simulated gastric digests of whole gluten and whole-wheat bread. Reaction products were analyzed by mass spectrometry, HPLC, ELISA with a monoclonal antibody that recognizes an immunodominant gluten epitope, and a T cell proliferation assay.

Results

ASP markedly enhanced gluten digestion relative to pepsin, and cleaved recombinant α2-gliadin at multiple sites in a non-specific manner. When used alone, neither ASP nor DPPIV efficiently cleaved synthetic immunotoxic gluten peptides. This lack of specificity for gluten was especially evident in the presence of casein, a competing dietary protein. However, supplementation of ASP with DPPIV enabled detoxification of moderate amounts of gluten in the presence of excess casein and in whole-wheat bread. ASP was also effective at enhancing the gluten-detoxifying efficacy of cysteine endoprotease EP-B2 under simulated gastric conditions.

Conclusions

Clinical studies are warranted to evaluate whether a fixed dose ratio combination of ASP and DPPIV can provide near-term relief for celiac patients suffering from inadvertent gluten exposure. Due to its markedly greater hydrolytic activity against gluten than endogenous pepsin, food-grade ASP may also augment the activity of therapeutically relevant doses of glutenases such as EP-B2 and certain prolyl endopeptidases.     

CXCL12-mediated guidance of migrating embryonic stem cell-derived neural progenitors transplanted into the hippocampus

Stem cell therapies for neurodegenerative disorders require accurate delivery of the transplanted cells to the sites of damage. Numerous studies have established that fluid injections to the hippocampus can induce lesions in the dentate gyrus (DG) that lead to cell death within the upper blade. Using a mouse model of temporal lobe epilepsy, we previously observed that embryonic stem cell-derived neural progenitors (ESNPs) survive and differentiate within the granule cell layer after stereotaxic delivery to the DG, replacing the endogenous cells of the upper blade. To investigate the mechanisms for ESNP migration and repair in the DG, we examined the role of the chemokine CXCL12 in mice subjected to kainic acid-induced seizures. We now show that ESNPs transplanted into the DG show extensive migration through the upper blade, along the septotemporal axis of the hippocampus. Seizures upregulate CXCL12 and infusion of the CXCR4 antagonist AMD3100 by osmotic minipump attenuated ESNP migration. We also demonstrate that seizures promote the differentiation of transplanted ESNPs toward neuronal rather than astrocyte fates. These findings suggest that ESNPs transplanted into the adult rodent hippocampus migrate in response to cytokine-mediated signals.