Cortical division zone establishment in plant cells

Plant cell division is spatially organized to maintain a critical cell volume and to control growth directionality. The correct orientation of the separating cell wall is secured by means of specialized cytoskeletal structures that guide the newly formed cell plate toward a predefined cortical position. A ring of microtubules called preprophase band defines a cortical zone that corresponds to the future division plane. Coincident with the disappearance of the preprophase band microtubules, cortical actin is removed at the corresponding position, leaving an actin-depleted zone that persists throughout mitosis. Here, we review the spatial and structural organization of the cortical division zone and discuss evidence that implicate the plasma membrane in division plane establishment.     

Management of Laguna Alalay: a case study of lake restoration in Andean valleys in Bolivia

We describe the limnological changes between 1989 and 2006 in an urban, shallow lake, Laguna Alalay, located in the Andean valley of Cochabamba (Bolivia). Until 1960, water diversion to the lake was used to lower the inundation risk of Cochabamba city. In the 1980s and 1990s, the high waterfowl diversity and recreational services provided by the lake increased its conservation value. However, the population increase and the discharge of wastewater rich in nutrients increased eutrophication, and the lake became characterized by an annual alternation of submerged macrophytes and phytoplankton. The main aim of the present study is to analyze the response of the lake to manipulations implemented by local authorities: (a) sediment removal and accidental introduction of the exotic fish species Odontesthes bonariensis in 1997 and (b) manual mass removal of floating macrophytes during 2004–2006. The sediment removal and species introduction had several unpredictable consequences for the functioning of the lake, namely the transition to a permanent turbid water state and the persistent dominance of floating macrophytes. A general conclusion of our study is that any lake recovery measures in Bolivia should consider not only ecological, but also socio-economic and political aspects. Taking these into account, restoration of the submerged macrophyte-dominated state may not be that universally desirable as is widely held.     

Small Cab-like proteins retard degradation of photosystem II-associated chlorophyll in Synechocystis sp. PCC 6803: kinetic analysis of pigment labeling with 15N and 13C

Isotope (Na(15)NO(3), ((15)NH(4))SO(4) or [(13)C]glucose) labeling was used to analyze chlorophyll synthesis and degradation rates in a set of Synechocystis mutants that lacked single or multiple small Cab-like proteins (SCPs), as well as photosystem I or II. When all five small Cab-like proteins were inactivated in the wild-type background, chlorophyll stability was not affected unless the scpABCDE(-) strain was grown at a moderately high light intensity of 100-300 micromol photons m(-2) s(-1). However, the half-life time of chlorophyll was 5-fold shorter in the photosystem I-less/scpABCDE(-) strain than in the photosystem I-less strain even when grown at low light intensity (~3 micromol photons m(-2) s(-1)) (32 +/- 5 and 161 +/- 25 h, respectively). In other photosystem I-less mutants that lacked one to four of the scp genes the chlorophyll lifetime was in between these two values, with the chlorophyll lifetime generally decreasing with an increasing number of inactivated scps. In contrast, the chlorophyll biosynthesis rate was only marginally affected by inactivation of scps except when all five scp genes were deleted. Small Cab-like protein deficiency did not significantly affect photoinhibition or turnover of photosystem II-associated beta-carotene. It is concluded that SCPs do not alter the stability of functional photosystem II complexes but retard the degradation of photosystem II-associated chlorophyll, consistent with the proposed involvement of SCPs in photosystem II re-assembly or/and repair processes by temporarily binding chlorophyll while photosystem II protein components are being replaced.     

Comparison of long-term numerical and experimental total knee replacement wear during simulated gait loading

Pre-clinical experimental wear testing of total knee replacement (TKR) components is an invaluable tool for evaluating new implant designs and materials. However, wear testing can be a lengthy and expensive process, and hence parametric studies evaluating the effects of geometric, loading, or alignment perturbations may at times be cost-prohibitive. The objectives of this study were to develop an adaptive FE method capable of simulating wear of a polyethylene tibial insert and to compare predicted kinematics, weight loss due to wear, and wear depth contours to results from a force-controlled experimental knee simulator. Finite element-based computational wear predictions were performed to 5 million gait cycles using both force- and displacement-controlled inputs. The displacement-controlled inputs, by accurately matching the experimental tibiofemoral motion, provided an evaluation of the simple wear theory. The force-controlled inputs provided an evaluation of the overall numerical method by simultaneously predicting both kinematics and wear. Analysis of the predicted wear convergence behavior indicated that 10 iterations, each representing 500,000 gait cycles, were required to achieve numerical accuracy. Using a wear factor estimated from the literature, the predicted kinematics, polyethylene wear contours, and weight loss were in reasonable agreement with the experimental data, particularly for the stance phase of gait. Although further development of the simplified wear theory is important, the initial predictions are encouraging for future use in design phase implant evaluation. In contrast to the experimental testing which occurred over approximately 2 months, computational wear predictions required only 2h.     

Modeling amino acid metabolism in mammalian cells-toward the development of a model library

Amino acids are necessary to mammalian cell cultures both for protein synthesis and as an energy source. In this study, we present an unstructured mathematical model describing (i) cell growth and death kinetics and (ii) metabolism of glucose and 19 amino acids for HEK-293 and CHO IFN-gamma cell cultures. The proposed mathematical framework is in good agreement with experimental data for both cell lines. It accommodates the inclusion of expressions for other cellular activities, such as the production of recombinant viral vectors or proteins, and can be used as the basis for the development of a model library for mammalian cell cultures.     

Predicting protein-protein interactions from protein domains using a set cover approach

One goal of contemporary proteome research is the elucidation of cellular protein interactions. Based on currently available protein-protein interaction and domain data, we introduce a novel method, maximum specificity set cover (MSSC), for the prediction of protein-protein interactions. In our approach, we map the relationship between interactions of proteins and their corresponding domain architectures to a generalized weighted set cover problem. The application of a greedy algorithm provides sets of domain interactions which explain the presence of protein interactions to the largest degree of specificity. Utilizing domain and protein interaction data of S. cerevisiae, MSSC enables prediction of previously unknown protein interactions, links that are well supported by a high tendency of coexpression and functional homogeneity of the corresponding proteins. Focusing on concrete examples, we show that MSSC reliably predicts protein interactions in well-studied molecular systems, such as the 26S proteasome and RNA polymerase II of S. cerevisiae. We also show that the quality of the predictions is comparable to the maximum likelihood estimation while MSSC is faster. This new algorithm and all data sets used are accessible through a Web portal at http://ppi-cse.nd.edu     

Cytochrome P450 bio-affinity detection coupled to gradient HPLC: on-line screening of affinities to cytochrome P4501A2 and 2D6

Here we describe novel on-line human CYP1A2 and CYP2D6 Enzyme Affinity Detection (EAD) systems coupled to gradient HPLC. The use of the systems lies in the detection of individual inhibitory ligands in mixtures (e.g. metabolic mixtures or herbal extracts) towards two relevant drug metabolizing human CYPs. The systems can rapidly detect individual compounds in mixtures with affinities to CYP1A2 or 2D6. The HPLC-EAD systems were first evaluated and validated in flow injection analysis mode. IC50 values of known ligands for both CYPs, tested both in flow injection and in HPLC mode, were well comparable with those measured in microplate reader formats. Both EAD systems were also connected to gradient HPLC and used to screen known compound mixtures for the presence of CYP1A2 and 2D6 inhibitors. Finally, the on-line CYP2D6 EAD system was used to screen for the inhibitory activities of stereoisomers of a mixture of five methylenedioxy-alkylamphetamines (XTC analogs) on a chiral analytical column.     

From phenotype to genotype: whole tissue profiling for plant breeding

Fourier transform infrared spectroscopy (FT-IR) was used to obtain ‘holistic’ metabolic fingerprints from a wide range of plants to differentiate species, population, single plant genotype, and chromosomal constitution differences. Sample preparation simply entailed the maceration of fresh leaves with water, and these samples were then dried and analysed by reflectance FT-IR where spectral acquisition was typically 10 s. All samples gave reproducible, characteristic biological infrared absorption spectra and these were analysed by chemometric methods. FT-IR is not biased to any particular chemical species and thus the whole tissue profiles produced measure the total biochemical makeup of the test sample; that is to say it represents a plant phenotype. We show that by simple cluster analysis these phenotypic measurements can be related to the genotypes of the plants and can reliably differentiate closely related individuals. We believe that this approach provides a valuable new tool for the rapid metabolomic profiling of plants, with applications to plant breeding and the assessment of substantial equivalency for genetically-modified plants.     

Nutritional stress reduces flight performance and exploratory behavior in a butterfly

Anthropogenic global change, including agricultural intensification and climate change, poses a substantial challenge to many herbivores due to a reduced availability of feeding resources. The concomitant food stress is expected to detrimentally affect performance, amongst others in dispersal-related traits. Thus, while dispersal is of utmost importance to escape from deteriorating habitat conditions, such conditions may negatively feedback on the ability to do so. Therefore, we here investigate the impact of larval and adult food stress on traits related to dispersal ability, including morphology, physiology, flight performance, and exploratory behavior, in a butterfly. We show that inadequate nutrition during development and in the adult stage dim inishes flight performance, despite som e reallocation of somatic resources. Detrimental effects of food stress on flight performance were mainly caused by reductions in body mass and storage reserves. Similar results were found for exploratory behavior. Furthermore, exploratory behavior was found to be (moderately) repeatable at the individual level, which might indicate the existence of a personality trait. This notion is further supported by the fact that flight performance and exploratory behavior were positively correlated, potentially suggesting the existence of a dispersal syndrome. In summary, our findings may have important implications for dispersal in natural environments, as the conditions requiring dispersal the m ost impair flight ability and thereby likely dispersal rates.     

A Continental-Scale Validation of Ecosystem Service Models

Ecosystems - Faced with environmental degradation, governments worldwide are developing policies to safeguard ecosystem services (ES). Many ES models exist to support these policies, but they are...