TY - JOUR A1 - Bassam, Rasha A1 - Hescheler, Jürgen A1 - Temiz Artmann, Aysegül A1 - Artmann, Gerhard A1 - Digel, Ilya T1 - Effects of spermine NONOate and ATP on the thermal stability of hemoglobin JF - BMC Biophysics N2 - Background Minor changes in protein structure induced by small organic and inorganic molecules can result in significant metabolic effects. The effects can be even more profound if the molecular players are chemically active and present in the cell in considerable amounts. The aim of our study was to investigate effects of a nitric oxide donor (spermine NONOate), ATP and sodium/potassium environment on the dynamics of thermal unfolding of human hemoglobin (Hb). The effect of these molecules was examined by means of circular dichroism spectrometry (CD) in the temperature range between 25°C and 70°C. The alpha-helical content of buffered hemoglobin samples (0.1 mg/ml) was estimated via ellipticity change measurements at a heating rate of 1°C/min. Results Major results were: 1) spermine NONOate persistently decreased the hemoglobin unfolding temperature T u irrespectively of the Na + /K + environment, 2) ATP instead increased the unfolding temperature by 3°C in both sodium-based and potassium-based buffers and 3) mutual effects of ATP and NO were strongly influenced by particular buffer ionic compositions. Moreover, the presence of potassium facilitated a partial unfolding of alpha-helical structures even at room temperature. Conclusion The obtained data might shed more light on molecular mechanisms and biophysics involved in the regulation of protein activity by small solutes in the cell. KW - Nitric Oxide Donor KW - NONOate KW - Circular Dichroism KW - Nitric Oxide Y1 - 2012 U6 - http://dx.doi.org/10.1186/2046-1682-5-16 SN - 2046-1682 VL - 5 PB - BioMed Central CY - London ER - TY - JOUR A1 - Bassam, Rasha A1 - Digel, Ilya A1 - Hescheler, Jürgen A1 - Temiz Artmann, Aysegül A1 - Artmann, Gerhard T1 - Effects of spermine NONOate and ATP on protein aggregation: light scattering evidences JF - BMC Biophysics Y1 - 2013 U6 - http://nbn-resolving.de/urn/resolver.pl?10.1186/2046-1682-6-1 SN - 2046-1682 SP - 1 EP - 14 PB - BioMed Central CY - London ER - TY - JOUR A1 - Wiegand, Sandra A1 - Dietrich, Sascha A1 - Hertel, Robert A1 - Bongaerts, Johannes A1 - Evers, Stefan A1 - Volland, Sonja A1 - Daniel, Rolf A1 - Liesegang, Heiko T1 - RNA-Seq of Bacillus licheniformis: active regulatory RNA features expressed within a productive fermentation JF - BMC genomics Y1 - 2013 SN - 1471-2164 VL - Vol. 14 SP - 667 PB - BioMed Central CY - London ER - TY - JOUR A1 - Arinkin, Vladimir A1 - Digel, Ilya A1 - Porst, Dariusz A1 - Temiz Artmann, Aysegül A1 - Artmann, Gerhard T1 - Phenotyping date palm varieties via leaflet cross-sectional imaging and artificial neural network application JF - BMC bioinformatics N2 - Background True date palms (Phoenix dactylifera L.) are impressive trees and have served as an indispensable source of food for mankind in tropical and subtropical countries for centuries. The aim of this study is to differentiate date palm tree varieties by analysing leaflet cross sections with technical/optical methods and artificial neural networks (ANN). Results Fluorescence microscopy images of leaflet cross sections have been taken from a set of five date palm tree cultivars (Hewlat al Jouf, Khlas, Nabot Soltan, Shishi, Um Raheem). After features extraction from images, the obtained data have been fed in a multilayer perceptron ANN with backpropagation learning algorithm. Conclusions Overall, an accurate result in prediction and differentiation of date palm tree cultivars was achieved with average prediction in tenfold cross-validation is 89.1% and reached 100% in one of the best ANN. Y1 - 2014 U6 - http://dx.doi.org/10.1186/1471-2105-15-55 SN - 1471-2105 VL - 15 IS - 55 SP - 1 EP - 8 ER - TY - JOUR A1 - Whitehead, Mark A1 - Öhlschläger, Peter A1 - Almajhdi, Fahad N. A1 - Alloza, Leonor A1 - Marzábal, Pablo A1 - Meyers, Ann E. A1 - Hitzeroth, Inga I. A1 - Rybicki, Edward P. T1 - Human papillomavirus (HPV) type 16 E7 protein bodies cause tumour regression in mice JF - BMC cancer Y1 - 2014 U6 - http://dx.doi.org/10.1186/1471-2407-14-367 SN - 1471-2407 IS - 14:367 SP - 1 EP - 15 PB - BioMed Central CY - London ER - TY - JOUR A1 - Küppers, Tobias A1 - Steffen, Victoria A1 - Hellmuth, Hendrik A1 - O'Connell, Timothy A1 - Bongaerts, Johannes A1 - Maurer, Karl-Heinz A1 - Wiechert, Wolfgang T1 - Developing a new production host from a blueprint: Bacillus pumilus as an industrial enzyme producer JF - Microbial cell factories Y1 - 2014 U6 - http://dx.doi.org/10.1186/1475-2859-13-46 SN - 1475-2859 (E-Journal) VL - 13 SP - Article No. 46 PB - BioMed Central CY - London ER - TY - JOUR A1 - Wiegand, Sandra A1 - Voigt, Birgit A1 - Albrecht, Dirk A1 - Bongaerts, Johannes A1 - Evers, Stefan A1 - Hecker, Michael A1 - Daniel, Rolf A1 - Liesegang, Heiko T1 - Fermentation stage-dependent adaptations of Bacillus licheniformis during enzyme production JF - Microbial Cell Factories Y1 - 2013 U6 - http://dx.doi.org/10.1186/1475-2859-12-120 SN - 1475-2859 VL - 12 SP - 120 PB - Biomed Central CY - London ER - TY - JOUR A1 - Müller, Janina A1 - Beckers, Mario A1 - Mußmann, Nina A1 - Bongaerts, Johannes A1 - Büchs, Jochen T1 - Elucidation of auxotrophic deficiencies of Bacillus pumilus DSM 18097 to develop a defined minimal medium JF - Microbial Cell Factories N2 - Background Culture media containing complex compounds like yeast extract or peptone show numerous disadvantages. The chemical composition of the complex compounds is prone to significant variations from batch to batch and quality control is difficult. Therefore, the use of chemically defined media receives more and more attention in commercial fermentations. This concept results in better reproducibility, it simplifies downstream processing of secreted products and enable rapid scale-up. Culturing bacteria with unknown auxotrophies in chemically defined media is challenging and often not possible without an extensive trial-and-error approach. In this study, a respiration activity monitoring system for shake flasks and its recent version for microtiter plates were used to clarify unknown auxotrophic deficiencies in the model organism Bacillus pumilus DSM 18097. Results Bacillus pumilus DSM 18097 was unable to grow in a mineral medium without the addition of complex compounds. Therefore, a rich chemically defined minimal medium was tested containing basically all vitamins, amino acids and nucleobases, which are essential ingredients of complex components. The strain was successfully cultivated in this medium. By monitoring of the respiration activity, nutrients were supplemented to and omitted from the rich chemically defined medium in a rational way, thus enabling a systematic and fast determination of the auxotrophic deficiencies. Experiments have shown that the investigated strain requires amino acids, especially cysteine or histidine and the vitamin biotin for growth. Conclusions The introduced method allows an efficient and rapid identification of unknown auxotrophic deficiencies and can be used to develop a simple chemically defined tailor-made medium. B. pumilus DSM 18097 was chosen as a model organism to demonstrate the method. However, the method is generally suitable for a wide range of microorganisms. By combining a systematic combinatorial approach based on monitoring the respiration activity with cultivation in microtiter plates, high throughput experiments with high information content can be conducted. This approach facilitates media development, strain characterization and cultivation of fastidious microorganisms in chemically defined minimal media while simultaneously reducing the experimental effort. Y1 - 2018 U6 - http://dx.doi.org/10.1186/s12934-018-0956-1 SN - 1475-2859 VL - 17 IS - 1 SP - Article No. 106 PB - BioMed Central ER -