Uprooting of Vetiver Uprooting Resistance of Vetiver Grass (Vetiveria zizanioides)

Vetiver grass (Vetiveria zizanioides), also known as Chrysopogon zizanioides, is a graminaceous plant native to tropical and subtropical India. The southern cultivar is sterile; it flowers but sets no seeds. It is a densely tufted, perennial grass that is considered sterile outside its natural habitat. It grows 0.5–1.5 m high, stiff stems in large clumps from a much branched root stock. The roots of vetiver grass are fibrous and reported to reach depths up to 3 m thus being able to stabilize the soil and its use for this purpose is promoted by the World Bank. Uprooting tests were carried out on vetiver grass in Spain in order to ascertain the resistance the root system can provide when torrential runoffs and sediments are trying to uproot the plant. Uprooting resistance of each plant was correlated to the shoot and root morphological characteristics. In order to investigate any differences between root morphology of vetiver grass in its native habitat reported in the literature, and the one planted in a sub-humid environment in Spain, excavation techniques were used to show root distribution in the soil. Results show that vetiver grass possesses the root strength to withstand torrential runoff. Planted in rows along the contours, it may act as a barrier to the movement of both water and soil. However, the establishment of the vetiver lags behind the reported rates in its native tropical environment due to adverse climatic conditions in the Mediterranean. This arrested development is the main limitation to the use of vetiver in these environments although its root strength is more than sufficient.     

An Experimental Approach to the Investigation of the Universal Period-Tripling System

Biophysics - The universal period-tripling system has been discovered in various astronomical, geophysical, and biological phenomena in the range of periods from 1.64 billion years to 50 years; we...     

A Proteomic Investigation of Hepatic Resistance to Ascaris in a Murine Model

The helminth Ascaris causes ascariasis in both humans and pigs. Humans, especially children, experience significant morbidity including respiratory complications, growth deficits and intestinal obstruction. Given that 800 million people worldwide are infected by Ascaris, this represents a significant global public health concern. The severity of the symptoms and associated morbidity are related to the parasite burden and not all hosts are infected equally. While the pathology of the disease has been extensively examined, our understanding of the molecular mechanisms underlying resistance and susceptibility to this nematode infection is poor. In order to investigate host differences associated with heavy and light parasite burden, an experimental murine model was developed utilising Ascaris-susceptible and -resistant mice strains, C57BL/6J and CBA/Ca, respectively, which experience differential burdens of migratory Ascaris larvae in the host lungs. Previous studies identified the liver as the site where this difference in susceptibility occurs. Using a label free quantitative proteomic approach, we analysed the hepatic proteomes of day four post infection C57BL/6J and CBA/Ca mice with and without Ascaris infection to identify proteins changes potentially linked to both resistance and susceptibility amongst the two strains, respectively. Over 3000 proteins were identified in total and clear intrinsic differences were elucidated between the two strains. These included a higher abundance of mitochondrial proteins, particularly those associated with the oxidative phosphorylation pathway and reactive oxygen species (ROS) production in the relatively resistant CBA/Ca mice. We hypothesise that the increased ROS levels associated with higher levels of mitochondrial activity results in a highly oxidative cellular environment that has a dramatic effect on the nematode’s ability to successfully sustain a parasitic association with its resistant host. Under infection, both strains had increased abundances in proteins associated with the oxidative phosphorylation pathway, as well as the tricarboxylic acid cycle, with respect to their controls, indicating a general stress response to Ascaris infection. Despite the early stage of infection, some immune-associated proteins were identified to be differentially abundant, providing a novel insight into the host response to Ascaris. In general, the susceptible C57BL/6J mice displayed higher abundances in immune-associated proteins, most likely signifying a more active nematode cohort with respect to their CBA/Ca counterparts. The complement component C8a and S100 proteins, S100a8 and S100a9, were highly differentially abundant in both infected strains, signifying a potential innate immune response and the importance of the complement pathway in defence against macroparasite infection. In addition, the signatures of an early adaptive immune response were observed through the presence of proteins, such as plastin-2 and dipeptidyl peptidase 1. A marked decrease in proteins associated with translation was also observed in both C57BL/6J and CBA/Ca mice under infection, indicative of either a general response to Ascaris or a modulatory effect by the nematode itself. Our research provides novel insights into the in vivo host-Ascaris relationship on the molecular level and provides new research perspectives in the development of Ascaris control and treatment strategies.     

Diurnal Cycling in Root Resistance to Water Movement

The occurrence of diurnal changes in root resistance of cotton was studied by measuring the flow of water through 35-to70-day-old root systems under a pressure of 3.10 bars or a vacuum of 0.88 bar. The volume of exudate obtained under constant pressure or constant vacuum was 2 to 3 times greater near midday than near midnight indicating that the root resistance apparently was 2 to 3 times greater at night than during the day. The salt concentration of the exudate also cycled; the concentration was lowest at midday and highest at night, hence there was little diurnal variation in the total amount of salt moved per hour. The cycle for volume of exduate, salt concentration, and apparent root resistance had a period of 22 to 26 hours at 24°C. The cycle gradually died away 2 to 3 days after removal of the shoots. The diurnal variations appeared to be controlled by signals from the shoots because the phase of the cycles could be reset by changing the light-dark cycle under which the plants were grown. Cycling was eliminated by exposure to 8 or more days of continuous light before removing the shoots, and cycling could not be entrained by a 6 hour light-6hour dark cycle. Bubbling nitrogen gas through the nutrient medium stopped cycling. A possible role of ion or growth regulator action is discussed.     

Experimental and Computational Investigation of the Role of Stress Fiber Contractility in the Resistance of Osteoblasts to Compression

The mechanical behavior of the actin cytoskeleton has previously been investigated using both experimental and computational techniques. However, these investigations have not elucidated the role the cytoskeleton plays in the compression resistance of cells. The present study combines experimental compression techniques with active modeling of the cell’s actin cytoskeleton. A modified atomic force microscope is used to perform whole cell compression of osteoblasts. Compression tests are also performed on cells following the inhibition of the cell actin cytoskeleton using cytochalasin-D. An active bio-chemo-mechanical model is employed to predict the active remodeling of the actin cytoskeleton. The model incorporates the myosin driven contractility of stress fibers via a muscle-like constitutive law. The passive mechanical properties, in parallel with active stress fiber contractility parameters, are determined for osteoblasts. Simulations reveal that the computational framework is capable of predicting changes in cell morphology and increased resistance to cell compression due to the contractility of the actin cytoskeleton. It is demonstrated that osteoblasts are highly contractile and that significant changes to the cell and nucleus geometries occur when stress fiber contractility is removed.     

Investigation of Pyrazine Formation Pathways in Glucose-Ammonia Model Systems

Model systems of d-glucose and ammonia with metal ions, oxygen, antioxidants, and sodium hydroxide were reacted at 100°C (solution temp.) for 2~18 hr to investigate pyrazine formation pathways. Pyrazines identified in these model systems were unsubstituted-, 2-methyl-, 2,5-dimethyl-, 2,6-dimethyl-, 2-ethyl-, 2,3-dimethyl-, 2-ethyl-5-methyl-, 2-ethyl-6-methyl-, 2,3,5-trimethyl-, 2-ethyl-3-methyl-, 2-vinyl-, 2-ethyl-3,5-dimethyl-, 2-ethyl-3,6-dimethyl- and ethyl vinyl-. Results show that α-amino carbonyl compounds acted as intermediates to form various pyrazines. For example, 2-methylpyrazine may be formed from the condensation of α-amino-α-hydroxy acetaldehyde and α-amino acetone following the elimination of a water molecule.

We propose that the formation of a pyrazine ring from dihydropyrazine is due to the dehydration of hydroxy dihydropyrazine rather than the dehydrogenation of dihydropyrazine. This explains the formation of an alkyl group (e.g., an ethyl group) from the sugar moiety.

We propose ten α-amino carbonyl intermediates from the alkylpyrazines which we obtained, and their formation schemes are discussed.     

An Investigation of the Components of SEGREGATION-DISTORTER Systems in DROSOPHILA MELANOGASTER

The problems of the Segregation-Distorter system are approached and unified in terms of an orthodox quantitative genetic system. It is shown that the SD system involves positive and negative modifier genes of varying strengths, that there is no major Stabiliser gene, and that the Activator gene is not unique. It is further argued that the SD phenomenon is mainly male limited, with "female effects" being of small magnitude.     

Model Selection in Systems Biology Depends on Experimental Design

Experimental design attempts to maximise the information available for modelling tasks. An optimal experiment allows the inferred models or parameters to be chosen with the highest expected degree of confidence. If the true system is faithfully reproduced by one of the models, the merit of this approach is clear - we simply wish to identify it and the true parameters with the most certainty. However, in the more realistic situation where all models are incorrect or incomplete, the interpretation of model selection outcomes and the role of experimental design needs to be examined more carefully. Using a novel experimental design and model selection framework for stochastic state-space models, we perform high-throughput in-silico analyses on families of gene regulatory cascade models, to show that the selected model can depend on the experiment performed. We observe that experimental design thus makes confidence a criterion for model choice, but that this does not necessarily correlate with a model''s predictive power or correctness. Finally, in the special case of linear ordinary differential equation (ODE) models, we explore how wrong a model has to be before it influences the conclusions of a model selection analysis.     

Documenting Differences between Early Stone Age Flake Production Systems: An Experimental Model and Archaeological Verification

This study investigates morphological differences between flakes produced via “core and flake” technologies and those resulting from bifacial shaping strategies. We investigate systematic variation between two technological groups of flakes using experimentally produced assemblages, and then apply the experimental model to the Cutting 10 Mid -Pleistocene archaeological collection from Elandsfontein, South Africa. We argue that a specific set of independent variables—and their interactions—including external platform angle, platform depth, measures of thickness variance and flake curvature should distinguish between these two technological groups. The role of these variables in technological group separation was further investigated using the Generalized Linear Model as well as Linear Discriminant Analysis. The Discriminant model was used to classify archaeological flakes from the Cutting 10 locality in terms of their probability of association, within either experimentally developed technological group. The results indicate that the selected independent variables play a central role in separating core and flake from bifacial technologies. Thickness evenness and curvature had the greatest effect sizes in both the Generalized Linear and Discriminant models. Interestingly the interaction between thickness evenness and platform depth was significant and played an important role in influencing technological group membership. The identified interaction emphasizes the complexity in attempting to distinguish flake production strategies based on flake morphological attributes. The results of the discriminant function analysis demonstrate that the majority of flakes at the Cutting 10 locality were not associated with the production of the numerous Large Cutting Tools found at the site, which corresponds with previous suggestions regarding technological behaviors reflected in this assemblage.     

Fractal Analysis of Plant Root Systems

The morphology of root systems of crop plants was analysed byfractal geometry using an image processing system. Results indicatethat these root systems have a fractal structure (D; 1.48     

An Experimental Framework for Generating Evolvable Chemical Systems in the Laboratory

Most experimental work on the origin of life has focused on either characterizing the chemical synthesis of particular biochemicals and their precursors or on designing simple chemical systems that manifest life-like properties such as self-propagation or adaptive evolution. Here we propose a new class of experiments, analogous to artificial ecosystem selection, where we select for spontaneously forming self-propagating chemical assemblages in the lab and then seek evidence of a response to that selection as a key indicator that life-like chemical systems have arisen. Since surfaces and surface metabolism likely played an important role in the origin of life, a key experimental challenge is to find conditions that foster nucleation and spread of chemical consortia on surfaces. We propose high-throughput screening of a diverse set of conditions in order to identify combinations of “food,” energy sources, and mineral surfaces that foster the emergence of surface-associated chemical consortia that are capable of adaptive evolution. Identification of such systems would greatly advance our understanding of the emergence of self-propagating entities and the onset of adaptive evolution during the origin of life.     

Responses of the Root Systems of Sunflower and Maize to Unidirectional Stem Flexure

Plants of two contrasting species of herbaceous annuals, thedicot sunflower (Helianthus annuusL.) and the monocot maize(Zea maysL.), grown in the glasshouse were subjected to regularunidirectional stem flexure. Differences in morphology and mechanicalproperties of roots and shoots were then investigated. Rootsystems were divided into quadrants around the axis of stimulationand differences in root morphology and mechanics between thezones were investigated. There were considerable differencesbetween roots in the leeward and windward zones compared withroots perpendicular to the axis of stimulation. First-orderlateral roots in both species were thicker, more rigid and morenumerous. These results suggest that plant roots respond locallyto mechanical stimulation. There were, however, also differencesin the responses of the two species. In sunflower, the tap rootand stem base became elliptical in cross section with the majoraxis lying in the plane of stimulation. The lateral roots offlexed sunflowers in both the leeward and windward zones showedsimilar growth responses: roots were thicker, more numerousand weighed more than those in the perpendicular zones. However,only leeward roots showed significant differences in their mechanicalproperties; roots were more rigid, stronger and stiffer. Incontrast, the leeward roots of maize were thicker and more numerous,with a greater biomass than the windward roots. However, onlyroots in the windward zone were stiffer than those in the perpendicularzone. These differences between sunflower and maize are relatedto their contrasting anchorage mechanics.Copyright 1998 Annalsof Botany Company Anchorage, biomechanics, adaptive growth, roots, thigmomorphogenesis,Helianthus annuusL.,Zea maysL.     

Hepatitis C Virus Experimental Model Systems and Antiviral drug Research

An estimated 130 million people worldwide are chronically infected with hepatitis C virus (HCV) making it a leading cause of liver disease worldwide. Because the currently available therapy of pegylated interferon-alpha and ribavirin is only effective in a subset of patients, the development of new HCV antivirals is a healthcare imperative. This review discusses the experimental models available for HCV antiviral drug research, recent advances in HCV antiviral drug development, as well as active research be...     

An Experimental Test of Resistance to Cheatgrass Invasion: Limiting Resources at Different Life Stages

Variable densities of an invasive species may represent variation in invasion resistance, due to variation in resource availability. This study determined whether low- and high-density cheatgrass (Bromus tectorum L.) patches within a shadscale-bunchgrass community of western Utah, USA, can be explained by variation in resource availability. It also explored the possible role of seed limitation and enemy pressure on invasion patterns. Two parallel field experiments were conducted:(1) increasing resources within low-density cheatgrass patches and, conversely (2) reducing resources within high-density cheatgrass patches. Treatments were applied at three life stages separately and across all stages. In low-density cheatgrass patches (assumed to represent high resistance), a disturbance that reduced soil compaction had the strongest positive effect, significantly increasing biomass by 250% and density by 104% in comparison to the control. The second strongest effect was reducing neighbors (native grasses), which significantly increased cheatgrass biomass and density. These results indicate that resources are present in low-density cheatgrass patches, but they are unavailable without disturbance and/or are exploited by competitors, and hence represent resistance to invasion. In high-density cheatgrass patches (assumed to represent low resistance), nitrogen availability was important in maintaining cheatgrass densities. Reducing nitrogen (via sucrose addition) significantly decreased density (by 37%) but not biomass. Life stages of cheatgrass were differentially affected by these resource manipulations. In addition, herbivore (primarily grasshoppers) and pathogen (head smut) pressures were documented to affect cheatgrass density, but did not explain resistance patterns. Instead, we found that differential resource availability explains the observed variation in cheatgrass density, and variation in natural resistance.     

An Experimental Investigation into the Response of Some New Zealand Sand Dune Species to Salt Spray

The tolerance to salt spray of 29 species, mainly from New Zealandsand dunes, was investigated. Plants were grown in water culturein a glasshouse and subjected to overhead salt spraying at intervals.Growth rates in many species were reduced by salt spray buta significant decrease occurred only in six native herbs. However,many species showed sensitivity in leaf necrosis. Tolerant speciesincluded Scirpoides nodosa, Elymus farctus and Desmoschoenusspiralis. Ammophila arenaria, tolerant of spray as an adult,was less so when younger. There was little correlation between tolerance to salt sprayand tolerance to root salinity. Some species were tolerant toboth, e.g. S. nodosa and E. farctus, and some intolerant toboth, e.g. Wahlenbergia congesta. One species, Lupinus arboreus,was glycophytic in respect to root salt but tolerant of aerialsalt. Other species, such as Senecio elegans L. and Austrofestucalittoralis, were intolerant of salt spray but tolerant of mediumroot salinities. For some species salt spray tolerance correlated well with fielddistribution, e.g. D. spiralis and Bromus diandrus. However,some species present in semi-fixed dunes close to the sea havemuch lower tolerance than would be expected from their fieldsituation, e.g. W. congesta. This apparent inconsistency couldbe explained by the ameliorating high rainfall on the West Coast,or protection by ridges. One environmental variable alone, suchas salt spray, could not explain the field distribution formany species. Salt spray, growth rate, live leaf area, New Zealand, dune species, root salinity     

An Experimental Investigation of the Effect of Bacillus megaterium on Apatite Dissolution

Field observations suggest that some mineral dissolution rates can be enhanced by microbial activity indirectly, without direct contact with the mineral surface. A series of apatite dissolution experiments was performed to better understand this rate enhancement process. Far-from equilibrium abiotic apatite dissolution rates, measured in mixed-flow reactors at 25°C were enhanced by increasing concentration of aqueous organic acids and decreasing aqueous phosphate activity, demonstrating the existence of indirect pathways for microbial rate enhancement. Further apatite dissolution experiments were performed in closed-system reactors in the presence of Bacillus megaterium , a common heterotrophic aerobe. Experiments were designed to allow the bacteria to be either in direct contact or indirect contact with the apatite; in the latter case, the microbes were physically separated from the apatite using dialysis bags. Apatite dissolution in indirect contact with Bacillus megaterium was 50 to 900% faster than abiotic controls. Bacterial rate enhancement was, however, 3 to over 10 times lower when Bacillus megaterium was in direct contract versus indirect contact with the apatite surfaces. These results show that (1) bacteria can accelerate rates without being in physical contact with the dissolving mineral, and (2) microbially mediated dissolution may be less effective when bacteria are in direct contact with mineral surfaces. Supression of mineral dissolution is interpreted to stem from the preferential colonization of reactive sites on the mineral surface.