Robustness of central carbohydrate metabolism in developing maize kernels

The central carbohydrate metabolism provides the precursors for the syntheses of various storage products in seeds. While the underlying biochemical map is well established, little is known about the organization and flexibility of carbohydrate metabolic fluxes in the face of changing biosynthetic demands or other perturbations. This question was addressed in developing kernels of maize (Zea mays L.), a model system for the study of starch and sugar metabolism. ¹³C-labeling experiments were carried out with inbred lines, heterotic hybrids, and starch-deficient mutants that were selected to cover a wide range of performances and kernel phenotypes. In total, 46 labeling experiments were carried out using either [U-¹³C₆]glucose or [U-¹³C₁₂]sucrose and up to three stages of kernel development. Carbohydrate flux distributions were estimated based on glucose isotopologue abundances, which were determined in hydrolysates of starch by using quantitative ¹³C-NMR and GC-MS. Similar labeling patterns in all samples indicated robustness of carbohydrate fluxes in maize endosperm, and fluxes were rather stable in response to glucose or sucrose feeding and during development. A lack of ADP-glucose pyrophosphorylase in the bt2 and sh2 mutants triggered significantly increased hexose cycling. In contrast, other mutations with similar kernel phenotypes had no effect. Thus, the distribution of carbohydrate fluxes is stable and not determined by sink strength in maize kernels.     

A neutral molecule in a cation-binding site: specific binding of a PEG-SH to acetylcholinesterase from Torpedo californica

The crystal structure of acetylcholinesterase from Torpedo californica complexed with the uncharged inhibitor, PEG-SH-350 (containing mainly heptameric polyethylene glycol with a terminal thiol group) is determined at 2.3 A resolution. This is an untypical acetylcholinesterase inhibitor, since it lacks the cationic moiety typical of the substrate (acetylcholine). In the crystal structure, the elongated ligand extends along the whole of the deep and narrow active-site gorge, with the terminal thiol group bound near the bottom, close to the catalytic site. Unexpectedly, the cation-binding site (formed by the faces of aromatic side-chains) is occupied by CH(2) groups of the inhibitor, which are engaged in C-H...pi interactions that structurally mimic the cation-pi interactions made by the choline moiety of acetylcholine. In addition, the PEG-SH molecule makes numerous other weak but specific interactions of the C-H...O and C-H...pi types.     

Trends and dietary determinants of overweight and obesity in a multiethnic population

Objectives : To describe trends in BMI among different ethnic groups in Hawaii and to explore the relation of nutrient and food intake with excess weight. Research Methods and Procedures : We pooled demographic, anthropometric, and nutritional data derived from a detailed diet history for 159, 683 participants of 18 population‐based epidemiological studies conducted in Hawaii over a 25‐year period. The age‐adjusted prevalence of excess weight (BMI ≥ 25 kg/m²) was estimated for 5‐year intervals. To explore dietary determinants of excess weight, we computed odds ratios using logistic regression. Results : During the study period, the prevalence of excess weight increased considerably among all ethnic groups. Native Hawaiians had the highest and Asian Americans had the lowest prevalence of excess weight at all times. Although the percentage of calories consumed from carbohydrates increased, the percentage of calories from fat decreased over time. On an individual level, fat and protein consumption predicted a higher BMI, and dietary fiber intake predicted a lower BMI. Similarly, a higher consumption of meat, poultry, and fish was related to excess weight, whereas fruit and vegetable intake were inversely associated with excess weight. After stratification by ethnicity, the associations were not materially altered among women, but carbohydrates seemed to have a stronger association with excess weight among Native Hawaiian and Japanese men than among white men. Discussion : In this large ethnically diverse population, plant‐based foods and dietary fiber emerged as a potential protective factor against excess weight regardless of ethnicity.     

Crystal structure of calf spleen purine nucleoside phosphorylase with two full trimers in the asymmetric unit: important implications for the mechanism of catalysis

The crystal structure of the binary complex of trimeric purine nucleoside phosphorylase (PNP) from calf spleen with the acyclic nucleoside phosphonate inhibitor 2,6-diamino-(S)-9-[2-(phosphonomethoxy)propyl]purine ((S)-PMPDAP) is determined at 2.3A resolution in space group P2(1)2(1)2(1). Crystallization in this space group, which is observed for the first time with a calf spleen PNP crystal structure, is obtained in the presence of calcium atoms. In contrast to the previously described cubic space group P2(1)3, two independent trimers are observed in the asymmetric unit, hence possible differences between monomers forming the biologically active trimer could be detected, if present. Such differences would be expected due to third-of-the-sites binding documented for transition-state events and inhibitors. However, no differences are noted, and binding stoichiometry of three inhibitor molecules per enzyme trimer is observed in the crystal structure, and in the parallel solution studies using isothermal titration calorimetry and spectrofluorimetric titrations. Presence of phosphate was shown to modify binding stoichiometry of hypoxanthine. Therefore, the enzyme was also crystallized in space group P2(1)2(1)2(1) in the presence of (S)-PMPDAP and phosphate, and the resulting structure of the binary PNP/(S)-PMPDAP complex was refined at 2.05A resolution. No qualitative differences between complexes obtained with and without the presence of phosphate were detected, except for the hydrogen bond contact of Arg84 and a phosphonate group, which is observed only in the former complex in three out of six independent monomers. Possible hydrogen bonds observed in the enzyme complexed with (S)-PMPDAP, in particular a putative hydrogen bonding contact N(1)-H cdots, three dots, centered Glu201, indicate that the inhibitor binds in a tautomeric or ionic form in which position N(1) acts as a hydrogen bond donor. This points to a crucial role of this hydrogen bond in defining specificity of trimeric PNPs and is in line with the proposed mechanism of catalysis in which this contact helps to stabilize the negative charge that accumulates on O(6) of the purine base in the transition state. In the present crystal structure the loop between Thr60 and Ala65 was found in a different conformation than that observed in crystal structures of trimeric PNPs up to now. Due to this change a new wide entrance is opened into the active site pocket, which is otherwise buried in the interior of the protein. Hence, our present crystal structure provides no obvious indication for obligatory binding of one of the substrates before binding of a second one; it is rather consistent with random binding of substrates. All these results provide new data for clarifying the mechanism of catalysis and give reasons for the non-Michaelis kinetics of trimeric PNPs.     

Activity of reduced ubiquinone: Cytochrome c oxidoreductase with various ubiquinol-isoprenologues as substrate and corresponding inhibitory effect of antimycin in yeast

1. Reduced ubiquinones-1, -2, -3, -4 and -6 were used as substrates for ubiquinol: cytochrome c oxidoreductase.2. The portion of antimycin-sensitive activity depends on the concentration of ubiquinol and on the pH. Only reduced ubiquinone-2 and reduced ubiquinone-3 show high activities the main part of which is sensitive to antimycin.3. The antimycin effect curve of ubiquinol: cytochrome c oxidoreductase is linear in shape with reduced ubiquinone-2 as substrate but sigmoidal with reduced ubiquinone-3 and succinate. Ubiquinol-3: cytochrome c oxidoreductase activity contains a portion scarcely affected by antimycin. About 300 pmoles of antimycin per mg protein, enough to inhibit succinate, NADH- and reduced ubiquinone-2:cytochrome c oxidoreductase almost totally, affect ubiquinol-3: cytochrome c oxidoreductase to only about 80% and another 300 pmoles of antimycin are needed for the next 10% of inhibition.4. The activities of succinate- and NADH: cytochrome c oxidoreductase are stimulated by ubiquinones-2 and -3. The shapes of the inhibition curves by antimycin of the stimulated activities are sigmoidal. About twice the amount of antimycin is necessary to inhibit stimulated activities to the same value as the unstimulated.5. The non-ionic detergent Lubrol WX is not effective in stimulating enzymatic activities. However, in the presence of 0.6 M sorbitol, it converts the linear antimycin effect curve with reduced ubiquinone-2 as substrate, into sigmoidal.6. NADH- and succinate: cytochrome c oxidoreductase activities and reduced ubiquinone-2 and reduced ubiquinone-3: cytochrome c oxidoreductase activities become deactivated with increasing concentrations of the non-ionic detergent Lubrol WX. The activity with reduced ubiquinone-2 as substrate is less resistant to the action of the detergent than with reduced ubiquinone-3. The b-cytochromes do not become CO-reactive by this treatment.7. Deoxycholate in low concentrations does not stimulate ubiquinol: cytochrome c oxidoreductase activity. It converts the inhibition curve by antimycin from sigmoidal to linear with increasing concentrations of the detergent with all substrates tested. The amount of antimycin needed for 90% inhibition of reduced ubiquinone activities is about the same under these conditions as with succinate, NADH or reduced ubiquinol in untreated particles.8. The results are discussed with respect to the theories of the electron transport mechanism and of the inhibition by antimycin of the electron flow through the bc₁-segment of the respiratory chain in beef heart.     

Large-amplitude internal waves sustain coral health during thermal stress

Ocean warming is a major threat for coral reefs causing widespread coral bleaching and mortality. Potential refugia are thus crucial for coral survival. Exposure to large-amplitude internal waves (LAIW) mitigated heat stress and ensured coral survival and recovery during and after an extreme heat anomaly. The physiological status of two common corals, Porites lutea and Pocillopora meandrina, was monitored in host and symbiont traits, in response to LAIW-exposure throughout the unprecedented 2010 heat anomaly in the Andaman Sea. LAIW-exposed corals of both species survived and recovered, while LAIW-sheltered corals suffered partial and total mortality in P. lutea and P. meandrina, respectively. LAIW are ubiquitous in the tropics and potentially generate coral refuge areas. As thermal stress to corals is expected to increase in a warming ocean, the mechanisms linking coral bleaching to ocean dynamics will be crucial to predict coral survival on a warming planet.     

DNS-Reduplikationsmuster bei den Riesen-Geschlechtschromosomen von Microtus agrestis

Summary The X-chromosome of Microtus agrestis (2 n=50), comprising about 20 per cent of the homogametic haploid (AX) set, is the largest X-chromosome reported so far in placental mammals. It is four times the size of the X possessed by a great majority of mammals, including the human and the mouse. The Y-chromosome is also enormous, almost three-fifths the size of the X.The present cytological study concerned somatic interphase and prophase nuclei as well as the DNA replication pattern revealed by labeling cultured bone marrow cells with tritiated thymidine.In the male nuclus, the entire Y as well as the long arm and proximal part of the short arm of the X are late labeling and positively heteropycnotic. In the female, one entire X is late labeling and condensed, while the other X shows the same labeling pattern as the male X. Thus the pattern of inactivation of this huge X is such that in each diploid nucleus of both sexes, the amount of euchromatic X-chromosome material is the same as it is in the majority of placental mammals in which the X comprises about five per cent of the haploid set.

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Wesentliche Teile der vorliegenden Arbeit werden von Gertraud Flinspach als Dissertation der Medizinischen Fakultät der Universität Freiburg i.Br. vorgelegt.     

Diversity and dispersal of a ubiquitous protein family: acyl-CoA dehydrogenases

Acyl-CoA dehydrogenases (ACADs), which are key enzymes in fatty acid and amino acid catabolism, form a large, pan-taxonomic protein family with at least 13 distinct subfamilies. Yet most reported ACAD members have no subfamily assigned, and little is known about the taxonomic distribution and evolution of the subfamilies. In completely sequenced genomes from approximately 210 species (eukaryotes, bacteria and archaea), we detect ACAD subfamilies by rigorous ortholog identification combining sequence similarity search with phylogeny. We then construct taxonomic subfamily-distribution profiles and build phylogenetic trees with orthologous proteins. Subfamily profiles provide unparalleled insight into the organisms’ energy sources based on genome sequence alone and further predict enzyme substrate specificity, thus generating explicit working hypotheses for targeted biochemical experimentation. Eukaryotic ACAD subfamilies are traditionally considered as mitochondrial proteins, but we found evidence that in fungi one subfamily is located in peroxisomes and participates in a distinct β-oxidation pathway. Finally, we discern horizontal transfer, duplication, loss and secondary acquisition of ACAD genes during evolution of this family. Through these unorthodox expansion strategies, the ACAD family is proficient in utilizing a large range of fatty acids and amino acids—strategies that could have shaped the evolutionary history of many other ancient protein families.     

Mammographic density and hormone receptor expression in breast cancer: the Multiethnic Cohort Study

Background: It is unclear whether mammographic breast density, a strong risk factor for breast cancer, predicts subtypes of breast cancer defined by estrogen receptor (ER) and/or progesterone receptor (PR) expression. Methods: In a nested case–control study, we compared the breast density of 667 controls and 607 breast cancer cases among women of Caucasian, Japanese, and Native Hawaiian ancestry in the Hawaii component of the Multiethnic Cohort Study. A reader blinded to disease status performed computer assisted density assessment on prediagnostic mammograms. Receptor status was obtained from the statewide Hawaii Tumor Registry. Tumors were classified into ER+PR+ (n = 341), ER−PR− (n = 50), ER+PR−/ER−PR+ (n = 64), and unstaged/unknown (n = 152). Mean percent density values were computed for women with more than one mammogram. Polytomous logistic regression was used to estimate odds ratios (OR) and 95% confidence intervals (CI) while adjusting for confounders. Results: Mean percent density was significantly greater for ER+PR+ but not for ER−PR− tumors compared to controls after adjusting for age: 37.3%, 28.9% versus 29.4%, respectively. The overall OR per 10% increase in percent density were similar for ER+PR+ and ER+PR−/ER−PR+ tumors: 1.26 (95% CI 1.17–1.36) and 1.23 (95% CI 1.07–1.42), respectively. However, percent density was not found to be a predictor for ER−PR− tumors (OR 1.00, 95% CI 0.84–1.18). The results did not differ by ethnicity, nor by menopausal status, parity, or HRT use. Conclusions: Our findings indicate that within a multiethnic population, women with higher breast density have an increased risk for ER+PR+ but not ER−PR− tumors.