From Ribbons to Networks: Hierarchical Organization of DNA-Grafted Supramolecular Polymers

DNA-grafted supramolecular polymers (SPs) allow the programmed organization of DNA in a highly regular, one-dimensional array. Oligonucleotides are arranged along the edges of pyrene-based helical polymers. Addition of complementary oligonucleotides triggers the assembly of individual nanoribbons resulting in the development of extended supramolecular networks. Network formation is enabled by cooperative coaxial stacking interactions of terminal GC base pairs. The process is accompanied by structural changes in the pyrene polymer core that can be followed spectroscopically. Network formation is reversible, and disassembly into individual ribbons is realized either via thermal denaturation or by addition of a DNA separator strand.

The use of plant-based bioassays in homeopathic basic research.

OBJECTIVES The objective was to evaluate homeopathic basic research studies that use plant-based bioassays. With this in view, a compilation was made of the findings of three systematic literature reviews covering plant-based bioassays in the three fields of healthy, abiotically, or biotically stressed plants. This compilation focused on investigations using advanced experimental methods and detailed descriptions, also with the aim of supporting the design of future experiments. METHODS Publications included had to report on studies into the effects of homeopathic preparations on whole plants, seeds, plant parts and cells. Outcomes had to be measured by established procedures and statistically evaluated. A Manuscript Information Score (MIS) was applied using predefined criteria to identify publications with sufficient information for adequate interpretation (MIS ≥ 5). Additional evaluation focused on the use of adequate controls to investigate specific effects of homeopathic preparations, and on the use of systematic negative control (SNC) experiments to ensure the stability of the bioassay. Only a fraction of the studies reported here were performed with 'ultra high' dilutions, whereas other studies were performed with moderate or high dilutions. RESULTS A total of 157 publications were identified, describing a total of 167 experimental studies. 84 studies included statistics and 48 had a MIS ≥ 5, thus allowing adequate interpretation. 29 studies had adequate controls to identify specific effects of homeopathic preparations, and reported significant effects of decimal and centesimal homeopathic potencies, including dilution levels beyond Avogadro's number. 10 studies reported use of SNC experiments, yielding evidence for the stability of the experimental set-up. CONCLUSION Plant models appear to be a useful approach for investigating basic research questions relating to homeopathic preparations, but more independent replication trials are needed in order to verify the results found in single experiments. Adequate controls and SNC experiments should be implemented on a routine basis to exclude false-positive results.

Treatment of optic neuritis with erythropoietin (TONE): a randomised, double-blind, placebo-controlled trial-study protocol.

INTRODUCTION Optic neuritis leads to degeneration of retinal ganglion cells whose axons form the optic nerve. The standard treatment is a methylprednisolone pulse therapy. This treatment slightly shortens the time of recovery but does not prevent neurodegeneration and persistent visual impairment. In a phase II trial performed in preparation of this study, we have shown that erythropoietin protects global retinal nerve fibre layer thickness (RNFLT-G) in acute optic neuritis; however, the preparatory trial was not powered to show effects on visual function. METHODS AND ANALYSIS Treatment of Optic Neuritis with Erythropoietin (TONE) is a national, randomised, double-blind, placebo-controlled, multicentre trial with two parallel arms. The primary objective is to determine the efficacy of erythropoietin compared to placebo given add-on to methylprednisolone as assessed by measurements of RNFLT-G and low-contrast visual acuity in the affected eye 6 months after randomisation. Inclusion criteria are a first episode of optic neuritis with decreased visual acuity to ≤0.5 (decimal system) and an onset of symptoms within 10 days prior to inclusion. The most important exclusion criteria are history of optic neuritis or multiple sclerosis or any ocular disease (affected or non-affected eye), significant hyperopia, myopia or astigmatism, elevated blood pressure, thrombotic events or malignancy. After randomisation, patients either receive 33 000 international units human recombinant erythropoietin intravenously for 3 consecutive days or placebo (0.9% saline) administered intravenously. With an estimated power of 80%, the calculated sample size is 100 patients. The trial started in September 2014 with a planned recruitment period of 30 months. ETHICS AND DISSEMINATION TONE has been approved by the Central Ethics Commission in Freiburg (194/14) and the German Federal Institute for Drugs and Medical Devices (61-3910-4039831). It complies with the Declaration of Helsinki, local laws and ICH-GCP. TRIAL REGISTRATION NUMBER NCT01962571.

Investigating the Role of Small, Acid-Soluble Spore Proteins (SASPs) in the Resistance of Clostridium Perfringens Spores to Heat.

BACKGROUND: Clostridium perfringens type A food poisoning is caused by enterotoxigenic C. perfringens type A isolates that typically possess high spore heat-resistance. The molecular basis for C. perfringens spore heat-resistance remains unknown. In the current study, we investigated the role of small, acid-soluble spore proteins (SASPs) in heat-resistance of spores produced by C. perfringens food poisoning isolates. RESULTS: Our current study demonstrated the presence of all three SASP-encoding genes (ssp1, 2 and 3) in five surveyed C. perfringens clinical food poisoning isolates. beta-Glucuronidase assay showed that these ssp genes are expressed specifically during sporulation. Consistent with these expression results, our study also demonstrated the production of SASPs by C. perfringens food poisoning isolates. When the heat sensitivities of spores produced by a ssp3 knock-out mutant of a C. perfringens food poisoning isolate was compared with that of spores of the wild-type strain, spores of the ssp3 mutant were found to exhibit a lower decimal reduction value (D value) at 100 degrees C than exhibited by the spores of wild-type strain. This effect was restored by complementing the ssp3 mutant with a recombinant plasmid carrying wild-type ssp3, suggesting that the observed differences in D values between spores of wild-type versus ssp3 mutant was due to the specific inactivation of ssp3. Furthermore, our DNA protection assay demonstrated that C. perfringens SASPs can protect DNA from DNase I digestion. CONCLUSION: The results from our current study provide evidences that SASPs produced by C. perfringens food poisoning isolates play a role in protecting their spores from heat-damage, which is highly significant and relevant from a food safety perspective. Further detailed studies on mechanism of action of SASPs from C. perfringens should help in understanding the mechanism of protection of C. perfringens spores from heat-damage.

Proceedings of the Seventeenth Annual Biochemical Engineering Symposium

This is the seventeenth of a series of symposia devoted to talks by students about their biochemical engineering research. The first, third, fifth, ninth, twelfth, and sixteenth were at Kansas State University, the second and fourth were at the University of Nebraska-Lincoln, the sixth was in Kansas City and was hosted by Iowa State University, the seventh, tenth, thirteenth, and seventeenth were at Iowa State University, the eighth and fourteenth were at the University of Missouri–Columbia, and the eleventh and fifteenth were at Colorado State University. Next year's symposium will be at the University of Colorado. Symposium proceedings are edited by faculty of the host institution. Because final publication usually takes place elsewhere, papers here are brief, and often cover work in progress. ContentsThe Effect of Polymer Dosage Conditions on the Properties of ProteinPolyelectrolyte Precipitates, K. H. Clark and C. E. Glatz, Iowa State University An Immobilized Enzyme Reactor/Separator for the Hydrolysis of Casein by Subtilisin Carlsberg, A. J. Bream, R. A. Yoshisato, and G. R. Carmichael, University of Iowa Cell Density Measurements in Hollow Fiber Bioreactors, Thomas Blute, Colorado State University The Hydrodynamics in an Air-Lift Reactor, Peter Sohn, George Y. Preckshot, and Rakesh K. Bajpai, University of Missouri–Columbia Local Liquid Velocity Measurements in a Split Cylinder Airlift Column, G. Travis Jones, Kansas State University Fluidized Bed Solid Substrate Trichoderma reesei Fermentation, S. Adisasmito, H. N. Karim, and R. P. Tengerdy, Colorado State University The Effect of 2,4-D Concentration on the Growth of Streptanthus tortuosis Cells in Shake Flask and Air-Lift Permenter Culture, I. C. Kong, R. D. Sjolund, and R. A. Yoshisato, University of Iowa Protein Engineering of Aspergillus niger Glucoamylase, Michael R. Sierks, Iowa State University Structured Kinetic Modeling of Hybidoma Growth and Monoclonal Antibody Production in Suspension Cultures, Brian C. Batt and Dhinakar S. Kampala, University of Colorado Modelling and Control of a Zymomonas mobilis Fermentation, John F. Kramer, M. N. Karim, and J. Linden, Colorado State University Modeling of Brettanomyces clausenii Fermentation on Mixtures of Glucose and Cellobiose, Max T. Bynum and Dhinakar S. Kampala, University of Colorado, Karel Grohmann and Charles E. Yyman, Solar Energy Research Institute Master Equation Modeling and Monte Carlo Simulation of Predator-Prey Interactions, R. 0. Fox, Y. Y. Huang, and L. T. Fan, Kansas State University Kinetics and Equilibria of Condensation Reactions Between Two Different Monosaccharides Catalyzed by Aspergillus niger Glucoamylase, Sabine Pestlin, Iowa State University Biodegradation of Metalworking Fluids, S. M. Lee, Ayush Gupta, L. E. Erickson, and L. T. Fan, Kansas State University Redox Potential, Toxicity and Oscillations in Solvent Fermentations, Kim Joong, Rakesh Bajpai, and Eugene L. Iannotti, University of Missouri–Columbia Using Structured Kinetic Models for Analyzing Instability in Recombinant Bacterial Cultures, William E. Bentley and Dhinakar S. Kompala, University of Colorado

Proceedings of the Twenty-First Annual Biochemical Engineering Symposium

The 21st Annual Biochemical Engineering Symposium was held at Colorado State University on April 20, 1991. The primary goals of this symposium series are to provide an opportunity for students to present and publish their research work and to promote informal discussions on biochemical engineering research. Contents High Density Fed-Batch Cultivation and Energy Metabolism of Bacillus thuringtensis; W.-M. Liu, V. Bihari, M. Starzak, and R.K. Bajpai Influences of Medium Composition and Cultivation Conditions on Recombinant Protein Production by Bacillus subtilis; K. Park, P.M. Linzmaier, and K.F. Reardon Characterization of a Foreign Gene Expression in a Recombinant T7 Expression System Infected with λ Phages; F. Miao and D.S. Kompala Simulation of an Enzymatic Membrane System with Forced Periodic Supply of Substrate; N. Nakaiwa, M. Yashima, L.T. Fan, and T. Ohmori Batch Extraction of Dilut Acids in a Hollow Fiber Module; D.G. O'Brien and C.E. Glatz Evaluation of a New Electrophoretic Device for Protein Purification; M.-J. Juang and R.G. Harrison Crossflow Microfiltration and Membrane Fouling for Yeast Cell Suspension; S. Redkar and R. Davis Interaction of MBP-β-Galactosidase Fusion Protein with Starch; L. Taladriz and Z. Nikolov Predicting the Solubility of Recombinant Proteins in Escherichia coli; D.L. Wilkinson and R.G. Harrison Evolution of a Phase-Separated, Gravity-Independent Bioractor; P.E. Villeneuve and E.H. Dunlop A Strategy for the Decontamination of Soils Containing Elevated Levels of PCP; S. Ghoshal, S. K. Banelji, and RK. Bajpai Practical Considerations for Implementation of a Field Scale In-Situ Bioremediation Project; J.P. McDonald, CA Baldwin, and L.E. Erickson Parametric Sensitivity Studies of Rhizopus oligosporus Solid Substrate Fermentation; J. Sargantanis, M.N. Karim, and V.G. Murphy, and RP. Tengerdy Production of Acetyl-Xylan Esterase from Aspergillus niger; M.R Samara and J.C. Linden Biological and Latex Particle Partitioning in Aqueous Two-Phase Systems; D.T.L. Hawker, RH. Davis, P.W. Todd, and R Lawson Novel Bioreactor /Separator for Microbial Desulfurization of Coal; H. Gecol, RH. Davis, and J .R Mattoon Effect of Plants and Trees on the Fate, Transport and Biodegradation of Contaminants in the Soil and Ground Water; W. Huang, E. Lee, J.F. Shimp, L.C. Davis, L.E. Erickson, and J.C. Tracy Sound Production by Interfacial Effects in Airlift Reactors; J. Hua, T.-Y. Yiin, LA Glasgow, and L.E. Erickson Soy Yogurt Fermentation of Rapid Hydration Hydrothermal Cooked Soy Milk; P. Tuitemwong, L.E. Erickson, and D.Y.C. Fung Influence of Carbon Source on Pentachlorophenol Degradation by Phanerochaete chrysosportum in Soil; C.-Y.M. Hsieh, RK. Bajpai, and S.K. Banerji Cellular Responses of Insect Cells Spodopiera frugiperda -9 to Hydrodynamic Stresses; P.L.-H. Yeh and RK. Bajpa1 A Mathematical Model for Ripening of Cheddar Cheese; J. Kim, M. Starzak, G.W. Preckshoi, and R.K. Bajpai

Edad dentaria : adecuación regional de los métodos de Nolla y Demirjian

El presente trabajo aborda los métodos de estimación de las edades dentarias en una población representativa de la región de Cuyo en la República Argentina. Si bien los métodos desarrollados para medir el desarrollo dentario constituyen herramientas de gran utilidad, éstos han sido formulados en conjuntos poblacionales muy acotados. Por ello, el objetivo general de este trabajo ha sido aplicar los métodos tradicionales de medición, obtener datos referenciales de la edad dentaria y evaluar el error de estimación de estos métodos para medir la edad dentaría en la población en estudio. Se calcularon las edades dentarias por los métodos de Nolla y Demirjian sobre 374 estudios panorámicos de niños y adolescentes entre 5 y 17 años, previa estratificación nutricional de la población en estudio y se compararon con edades cronológicas decimales. Los datos obtenidos fueron sometidos a prueba estadística ANOVA y prueba de correlación de Pearson mediante paquete estadístico Graphpad Prism 5. Los resultados obtenidos presentaron correlación adecuada r = 0,92; p < 0,0001, sin embargo revelaron diferencias estadísticamente significativas entre la edad cronológica y las edades dentarias calculadas Test ANOVA p < 0,0001, lo que expresó la limitación diagnóstica de los métodos estudiados al aplicarlos en esta población. El método de Nolla produjo una subestimación, lo que reflejó que nuestra población estuvo atrasada entre 4 y 6 meses respecto a la muestra estudiada para el método. En cambio, el método de Demirjian arrojó una sobrestimación, lo que indicó que nuestra población estuvo adelantada respecto de la muestra estudiada para la realización del método. Estas correcciones calculadas permiten realizar la correcta estimación de la edad dentaria al ser aplicadas a la población de nuestra región.

Lipids in ocean particulate matter and bottom sediments

Lipid contents both in particulate matter and bottom sediments decreases with passage from the shelf toward the open ocean. Lipid concentration in particulate matter collected by a separator (Ls) decreases by a factor of 7 (from 7.05 to 0.95 % of dry matter), while in particulate matter collected on filters (Lf) it decreases by a factor of 13 (from 78 to 6 µg/l) in the vicinity of the Limpopo River and by a factor of 6 (from 74 to 13 µg/l) in the vicinity of the Zambezi River. Concentration of Lf also decreased with depth. In the upper sediment layers lipid concentration was 0.0028-0.039% of dry matter; all mud samples were richer in lipids, than sand samples. During sedimentogenesis there is an increase in proportion of lipids relative to other classes of organic matter, proportion of low-polarity compounds increases among the lipids, and proportion of hydrocarbons rises among these compounds. Sediments inherit composition of particulate matter to the greatest degree in the vicinity of river mouths.

Análisis de equivalencias entre una lista de epígrafes, un tesauro y un sistema de clasificación

Se analizó la equivalencia entre tres sistemas de organización del conocimiento (SOC), identificándose 235 epígrafes de la Lista de Encabezamientos de Materia para Bibliotecas (LEMB) y 174 descriptores del Tesauro de la Unesco (TU) referidos a Bibliotecología. Se tradujeron todos ellos a notaciones de la Clasificación Decimal Universal (CDU), obteniéndose 286 notaciones simples y precoordinadas. Los resultados fueron: Entre LEMB y CDU: sin equivalencia: 27 epígrafes (11,4); equivalencia parcial (epígrafe más específico que notación): 9 (3,9) y equivalencia exacta: 199 (84,6). La equivalencia exacta fue sin precoordinación: 117 (49,6), precoordinación entre clases principales: 60 (25,4) y precoordinación con auxiliares: 22 (9,6). Entre TU y CDU los resultados fueron: sin equivalencia: 33 descriptores (19,0); equivalencia parcial (descriptor más específico que notación): 25 (14,3): equivalencia exacta: 116 (66,7). La equivalencia exacta también fue de tres tipos: sin precoordinación: 74 (42,5), precoordinación entre clases principales 31 (17,9), precoordinación con auxiliares: 11 (6,3). Se establecieron 205 equivalencias de los tres SOC (71,7), hecho que sugiere que CDU puede actuar como SOC intermediario entre los otros dos.

Chemical composition, characteristics and age of glauconites at DSDP Leg 66 Holes

During the analysis of "glaucony" recovered during Leg 66, off Mexico, we reviewed the data on previously studied glaucony layers in active margin areas. We found the depth of Leg 66 glaucony sediments to be significantly greater than conventionally assumed appropriate to their genesis (100-500 m). Accordingly, we hypothesize their occurrence at unusual depth to be due to (1) transport of shallow sediments and redeposition at greater depths, (2) margin subsidence, or (3) genesis at greater depth than is generally assumed. For the area off Mexico, we reject (1). (2) has already been verified in Japan and is possible as an explanation for the present phenomenon without excluding (3), which we investigate in this chapter.

Relative contents of principal diatom groups in suspended matter and surface layer bottom sediments from the Indian Ocean

Data on relative contents of principal diatom groups in suspended matter collected by a separator on the way of the ship and in bottom sediments from different areas of the Indian Ocean are presented in the paper.

Composition of ocean suspended matter

Compositions of different types of ocean suspended matter are under consideration.

Análisis de equivalencias entre una lista de epígrafes, un tesauro y un sistema de clasificación

Se analizó la equivalencia entre tres sistemas de organización del conocimiento (SOC), identificándose 235 epígrafes de la Lista de Encabezamientos de Materia para Bibliotecas (LEMB) y 174 descriptores del Tesauro de la Unesco (TU) referidos a Bibliotecología. Se tradujeron todos ellos a notaciones de la Clasificación Decimal Universal (CDU), obteniéndose 286 notaciones simples y precoordinadas. Los resultados fueron: Entre LEMB y CDU: sin equivalencia: 27 epígrafes (11,4); equivalencia parcial (epígrafe más específico que notación): 9 (3,9) y equivalencia exacta: 199 (84,6). La equivalencia exacta fue sin precoordinación: 117 (49,6), precoordinación entre clases principales: 60 (25,4) y precoordinación con auxiliares: 22 (9,6). Entre TU y CDU los resultados fueron: sin equivalencia: 33 descriptores (19,0); equivalencia parcial (descriptor más específico que notación): 25 (14,3): equivalencia exacta: 116 (66,7). La equivalencia exacta también fue de tres tipos: sin precoordinación: 74 (42,5), precoordinación entre clases principales 31 (17,9), precoordinación con auxiliares: 11 (6,3). Se establecieron 205 equivalencias de los tres SOC (71,7), hecho que sugiere que CDU puede actuar como SOC intermediario entre los otros dos.

Análisis de equivalencias entre una lista de epígrafes, un tesauro y un sistema de clasificación

Se analizó la equivalencia entre tres sistemas de organización del conocimiento (SOC), identificándose 235 epígrafes de la Lista de Encabezamientos de Materia para Bibliotecas (LEMB) y 174 descriptores del Tesauro de la Unesco (TU) referidos a Bibliotecología. Se tradujeron todos ellos a notaciones de la Clasificación Decimal Universal (CDU), obteniéndose 286 notaciones simples y precoordinadas. Los resultados fueron: Entre LEMB y CDU: sin equivalencia: 27 epígrafes (11,4); equivalencia parcial (epígrafe más específico que notación): 9 (3,9) y equivalencia exacta: 199 (84,6). La equivalencia exacta fue sin precoordinación: 117 (49,6), precoordinación entre clases principales: 60 (25,4) y precoordinación con auxiliares: 22 (9,6). Entre TU y CDU los resultados fueron: sin equivalencia: 33 descriptores (19,0); equivalencia parcial (descriptor más específico que notación): 25 (14,3): equivalencia exacta: 116 (66,7). La equivalencia exacta también fue de tres tipos: sin precoordinación: 74 (42,5), precoordinación entre clases principales 31 (17,9), precoordinación con auxiliares: 11 (6,3). Se establecieron 205 equivalencias de los tres SOC (71,7), hecho que sugiere que CDU puede actuar como SOC intermediario entre los otros dos.