Microbial systems biology: new frontiers open to predictive microbiology

The field of Systems Biology is a rapidly evolving area of research. It follows on from the previous experimental and theoretical 'omics' revolution in biology. Now that we have through the use of these tools many 'indices' of biological systems available the next step is to actually start composing the systems that these indices specify. In this paper we will discuss the developments in the field of Systems Biology as they pertain to predictive food microbiology and give an example of state of the art current approaches. The data discussed in the case study deal with the resistance of the yeast Saccharomyces cerevisiae towards environmental temperature changes through adaptation of its metabolism, protein signalling and gene-expression. The results are integrated and its implications for the definition of new experiments discussed; the iteration between experiment driven model definition and model driven experimentation being characteristic for contemporary Systems Biology approaches. The stress condition discussed represents in no way a practical situation in food microbiology but what it teaches may well be applied in such cases. We will indicate how the latter may be achieved.     

Culture supernatant of Shiga toxin-producing Escherichia coli strains provoke fluid accumulation in rabbit ileal loops

In the present study, in order to get a better insight into the mechanism of action of cyclophosphamide (CY) in rheumatoid arthritis (RA), we monitored the changes in lymphocytes' expression of leukocyte function associated antigen 1 (LFA-1). A group of 28 patients with refractory severe RA were treated with CY and methylprednisolone (MO) intravenously. Using flow cytometry we evaluated the changes in LFA-1 molecule expression on peripheral lymphocytes. In the analyzed group of patients the proportion of LFA-1 "dim" cells was reduced. After the treatment the ratio was partly normalized. Twelve months after cessation of the therapy high proportion of LFA-1 "dim" was observed only among CY/MP treated patients. The changes were related to clinical improvement. Based on the obtained data, it seems, that the treatment affecting the expression of LFA-1 may slow down lymphocyte migration and by that limit chronic inflammation within the synovium.     

Hardware Sequencing of Inflatable Nonlinear Actuators for Autonomous Soft Robots

Soft robots are an interesting alternative for classic rigid robots in applications requiring interaction with organisms or delicate objects. Elastic in?atable actuators are one of the preferred actuation mechanisms for soft robots since they are intrinsically safe and soft. However, these pneumatic actuators each require a dedicated pressure supply and valve to drive and control their actuation sequence. Because of the relatively large size of pressure supplies and valves compared to electrical leads and electronic controllers, tethering pneumatic soft robots with multiple degrees of freedom is bulky and unpractical. Here, a new approach is described to embed hardware intelligence in soft robots where multiple actuators are attached to the same pressure supply, and their actuation sequence is programmed by the interaction between nonlinear actuators and passive ?ow restrictions. How to model this hardware sequencing is discussed, and it is demonstrated on an 8‐degree‐of‐freedom walking robot where each limb comprises two actuators with a sequence embedded in their hardware. The robot is able to carry pay loads of 800 g in addition to its own weight and is able to walk at travel speeds of 3 body lengths per minute, without the need for complex on‐board valves or bulky tethers.     

A simple intrinsic measure for rapid crack propagation in bimodal polyethylene pipe grades validated by elastic–plastic fracture mechanics analysis of data from instrumented Charpy impact test

Conventional test procedures, such as the S4 test to analyze the resistance against rapid crack propagation (RCP) of plastic pipe materials are characterized by usage of a lot of material, are far from saving of time and they are‐in need of special experimental set‐ups. Therefore, in the last decade, small‐scale accelerated reliable tests (SMART) are developed ‐ worldwide to overcome the disadvantage of such conventional tests. In this article, fracture mechanics based analysis of instrumented Charpy impact test data for a set of bimodal high‐density polyethylene pipe grades are compared with data of the conventional Charpy impact test. From this comparison the Charpy impact strength at ?30°C comes forth as a robust reproducible measure of the resistance to RCP and it is therefore proposed as a SMART method to rank materials with respect to RCP resistance. POLYM. ENG. SCI., 57:13–21, 2017. © 2016 Society of Plastics Engineers     

Dissolved organic matter, aluminium and iron interactions: precipitation induced by metal/carbon ratio, pH and competition

To better understand the precipitation behaviour of dissolved organic matter induced by interactions with metals, a systematic titration experiment was conducted mimicking the soil solution conditions in an acidic, sandy soil. The variables of interest included the type of metal species (Al, Fe), the redox state [Fe(II), Fe(III)], the pH (3.5, 4.0, 4.5), the metal to organic carbon (M/C) ratio and the competition between Al and Fe. Precipitation of DOM–Al appeared to be strongly correlated with M/C ratio and the pH. For Fe(II) only little precipitation occurred, while the strongest flocculation degree was found after addition of Fe(III). In contrast to Al, hardly any correlation between DOM–Fe precipitation and pH was observed. Both reduction and oxidation of Fe was found and exhibited a strong effect on the precipitated amounts of DOM and Fe. In competition, Al determined the precipitation behaviour at lower M/C ratios (<0.10), while at higher M/C ratios Fe determined the flocculation. Below a M/C ratio of 0.06 Al was the dominant metal in the precipitates, especially at lower pH levels, while the opposite trend was found at M/C ratios above 0.06. Overall, Fe(III) gave the strongest flocculation, although Al influenced the impact of Fe(III) interactions with DOM in relation to pH and M/C ratio.     

Quantum dots with a paramagnetic coating as a bimodal molecular imaging probe

MRI detectable and targeted quantum dots were developed. To that aim, quantum dots were coated with paramagnetic and pegylated lipids, which resulted in a relaxivity, r(1), of nearly 2000 mM(-1)s(-1) per quantum dot. The quantum dots were functionalized by covalently linking alphavbeta3-specific RGD peptides, and the specificity was assessed and confirmed on cultured endothelial cells. The bimodal character, the high relaxivity, and the specificity of this nanoparticulate probe make it an excellent contrast agent for molecular imaging purposes.     

Protein Experiment: Scientific Data Processing Platform for On-Flight Experiment Tuning

In 2009, the PROTEIN experiment was run on board of the Columbus module of the International Space Station to investigate the crystallization of proteins in microgravity using the Protein Crystallization Diagnostics Facility. This instrument was designed to allow almost real time modification of remote-operated space experiments on request by the Science Team. The complexity of the experiments and the expected high volume of raw scientific data required the development of ad-hoc analysis tools in order to provide scientist with a quick and in-depth picture of experiment progress. The integrated data analysis platform presented in this paper allowed early inspection of running experiment results and provided information for impromptu, fine-tuning experimental conditions. The feedback loop starting with remote data acquisition, followed by on ground analysis performed by the platform and finishing with experiment redesign and update, is described through several examples.     

Girls with spinal cord injury: Social and job-related participation and psychosocial outcomes.

Objective: To examine social and job-related participation among girls with spinal cord injury (SCI) and relationships between participation, depression, and quality of life. Participants and Setting: This sample included 97 girls (aged 7–17 years) who had sustained SCI at least 1 year prior to interview, and who were receiving care at three pediatric SCI centers within a single hospital system. Measures: Participants completed the Children’s Assessment of Participation and Enjoyment, Children’s Depression Inventory, and Pediatric Quality of Life Inventory. Caregivers completed a demographics form. Results: Girls participated more often in social activities than in job-related activities and participated in social activities with a more diverse group and further from home. A broader context of social participation was related to lower depression, which in turn was related to higher quality of life. Higher frequency of job-related participation was related to lower depression, which in turn was related to higher quality of life. Conclusions: Social and job-related participation are related to psychosocial outcomes among girls with SCI. Participation in social and job-related activities should be a focus of rehabilitation for girls, because the skills gained from this involvement may help build resilience against future obstacles to socialization and employment. (PsycINFO Database Record (c) 2010 APA, all rights reserved)     

Development of engineered cementitious composites with limestone powder and blast furnace slag

Nowadays limestone powder and blast furnace slag (BFS) are widely used in concrete as blended materials in cement. The replacement of Portland cement by limestone powder and BFS can lower the cost and enhance the greenness of concrete, since the production of these two materials needs less energy and causes less CO₂ emission than Portland cement. Moreover, the use of limestone powder and BFS improves the properties of fresh and hardened concrete, such as workability and durability. Engineered cementitious composites (ECC) is a class of ultra ductile fiber reinforced cementitious composites, characterized by high ductility, tight crack width control and relatively low fiber content. The limestone powder and BFS are used to produce ECC in this research. The mix proportion is designed experimentally by adjusting the amount of limestone powder and BFS, accompanied by four-point bending test and uniaxial tensile test. This study results in an ECC mix proportion with the Portland cement content as low as 15% of powder by weight. This mixture, at 28 days, exhibits a high tensile strain capacity of 3.3%, a tight crack width of 57 μm and a moderate compressive strength of 38 MPa. In order to promote a wide use of ECC, it was tried to simplify the mixing of ECC with only two matrix materials, i.e. BFS cement and limestone powder, instead of three matrix materials. By replacing Portland cement and BFS in the aforementioned ECC mixture with BFS cement, the ECC with BFS cement and limestone powder exhibits a tensile strain capacity of 3.1%, a crack width of 76 μm and a compressive strength of 40 MPa after 28 days of curing.     

Systematic clinical examinations for identification of latent udder health types in Danish dairy herds

A cross-sectional study was conducted to explore the applicability of systematic clinical examinations of udders as an additional tool for the evaluation of udder health status on dairy farms. During 2000, each of the 16 dairy farms was visited 5 times; 20 cows per farm were chosen at random at each visit for clinical udder examination immediately after milking. The clinical examination included both pathological and morphological variables. One examination per cow was included in the analysis (n = 707 cows). Principal component analysis (PCA) was performed in 3 steps. First, 19 variables characterizing udder and teats were analyzed (PCA 1). Second, the variables parity and stage of lactation were included (PCA 2). Finally, somatic cell count (SCC) and milk yield (PCA 3) were included. The PCA resulted in 4 components that explained 30% of the variation of the data: 1) small udder, 2) distressed udder, 3) mastitis udder, and 4) soiled udder. Variables with high positive correlation to the "small udder" were small udder shape, short teats, and first parity. Impaired teat surface, hard udder texture, and a long udder shape were related to the "distressed udder." The "mastitis udder" was characterized by the clinical variables asymmetry between front quarters, asymmetry between hind quarters, knotty tissue, and acute clinical mastitis. Reduced milk yield and high SCC were related to the "mastitis udder," whereas low SCC was related to the "small udder." The "soiled udder" was related to early lactation. Including this information in the assessment of udder health may be of substantial value for data analysis in farms with suspected under-reporting of clinical mastitis.