Escherichia coli are bacteria found in bowels of warm blooded animals. Most subspecies are harmless and part of the normal gut flora. However, E. coli have the ability to exchange genetic material with other bacteria, and some E. coli have acquired genes coding for virulence factors. VTEC, E. coli with the ability to produce verotoxin are commonly found in cattle, but certain types can cause severe disease in humans, known as enterohaemorrhagic E. coli, EHEC.     In this study, isolates of E. coli and other bacteria in the family Enterobacteriaceae from calves were subtyped and clustered using MALDI-TOF. Ten strains were selected for experimental competition analysis against E. coli MG1655.     The aim of the study was to identify strains of bacteria with the potential to outcompete VTEC in the cattle host and decrease the risk of human infections.     Three of the bacterial strains were able to outcompete the laboratory strain, and in future studies these strains can be analysed when competing against VTEC. The rest of the strains were outcompeted. Four known strains of VTEC were analysed competing the laboratory strain, showing weak ability to compete. Finally, a highly pathogenic strain of VTEC was analysed against Escherichia coli Nissle 1917, known for its ability to outcompete many strains of bacteria. Nissle could not outcompete the tested VTEC strain under the tested conditions.     In conclusion the majority of the bacterial strains isolated from calves were identified as E. coli and three of the isolates showed good ability to compete against the laboratory strain.

Verotoxin-producing Escherichia coli (VTEC) of serotype O157:H7 is a pathogen causing illness in humans worldwide. The path and nature of transmission from and among cattle is important knowledge when it comes to preventing cases of disease in humans. Two concepts potentially playing an important role in transmission of VTEC O157:H7 are super-shedding and super-spreading. Super-shedders are individuals (here calves) shedding a high amount of bacteria. Super-spreaders are individuals (here calves) spreading the disease in a higher extent compared to the rest of the population investigated. Little is known about these phenomenons’ effect on transmission as well as the relation between them. Therefore, it is important to investigate this further. The purpose of this master thesis was to get a better understanding of how super-spreaders can be identified. One way to identify super-spreaders and explore the transmission of a pathogen is to investigate molecular data using computational methods. Here, a literature study with a systematic approach was conducted in order to scan the literature for such methods. In this first phase of the master thesis three methods, all constructing transmission trees, were identified as relevant methods for the second phase. These methods are called outbreaker2, phybreak and TransPhylo. In the second phase of the master thesis, 32 whole genome sequences of VTEC O157:H7 collected from four different cattle farms were investigated using the methods outbreaker2 and phybreak. Both methods were able to identify samples infecting more secondary cases compared to the rest of the investigated population. Some of these samples came from the environment, possibly shedding light on the importance of the pathogen's ability to survive outside of the host, and therefore playing an important role in transmission of the disease. The rest of the samples infecting more secondary cases were from calves, and a minority of these were super-shedders. From this the importance of the relation between super-shedders and super-spreaders can neither be confirmed nor denied. Outbreaker2 suggested that the spread of the pathogen is frequently occurring between the four neighbouring farms, while phybreak instead suggested that the spread mostly occurs within the farms. From this, a scenario explaining that the transmission possibly occurs within farms is presented.

The Virginia Tech Equilibrium Chemistry (VTEC) code is a keyboard interactive, user friendly, chemical equilibrium solver for use on a personal computer. The code is particularly suitable for a teaching / learning environment. For a set of reactants at a defined thermodynamic state given by a user, the program will select all species in the JANAF thermochemical database which could exist in the products. The program will then calculate equilibrium composition, flame temperature, and other thermodynamic properties for many common cases. Examples in this thesis show VTEC's ability to predict chemical equilibrium compositions and flame temperature for selected reactions, and demonstrate how VTEC can substitute for and aid in the design of lab experiments, and identify trends in parametric studies. The 1976 NASA Lewis Chemical Equilibrium Code (CEC76) from which VTEC has been adapted uses Lagrangian multipliers to minimize free energy. CEC76 was written for mainframe computer use. Later versions of CEC76, adapted for personal computer use are available for a fee and have a very minimal user interface. / Master of Science

Carbon dioxide sequestration is one of many mitigation tools available to help reduce carbon dioxide emissions while other disposal/repurposing methods are being investigated. Geologic sequestration is the most stable option for long-term storage of carbon dioxide (CO2), with significant CO2 trapping occurring through mineralization within the first 20-50 years. A fiber optic based monitoring system has been proposed to provide real time concentrations of CO2 at various points throughout the geologic formation. The proposed sensor is sensitive to the refractive index (RI) of substances in direct contact with the sensing component. As RI is a measurement of light propagating through a bulk medium relative to light propagating through a vacuum, the extraction of the effects of any specific component of that medium to the RI remains very difficult. Therefore, a requirement for a selective barrier to be able to prevent confounding substances from being in contact with the sensor and specifically isolate CO2 is necessary. As such a method to evaluate the performance of the selective element of the sensor was investigated. Polybenzimidazole (PBI) and VTEC polyimide (PI) 1388 are high performance polymers with good selectivity for CO2 used in high temperature gas separations. These polymers were spin coated onto a glass substrate and cured to form ultra-thin (>10 μm) membranes for gas separation. At a range of pressures (0.14 –0.41 MPa) and a set temperature of 24.2±0.8 °C, intrinsic permeabilities to CO2 and nitrogen (N2) were investigated as they are the gases of highest prevalence in underground aquifers. Preliminary RI testing for proof of concept has yielded promising results when the sensor is exposed exclusively to CO2 or N2. However, the use of both PBI and VTEC PI in these trials resulted in CO2 selectivities of 0.72 to 0.87 and 0.33 to 0.63 respectively, for corresponding feed pressures of 0.14 to 0.41 MPa. This indicates that both of the polymers are more selective for N2 and should not be used in CO2 sensing applications as confounding gas permeants, specifically N2, will interfere with the sensing element. / Graduate / 0428 / 0495 / 0542 / ben.t.davies@gmail.com

This thesis is a proof-of-concept project that aims at modify and reuse existing communication protocols of wireless vehicle to vehicle communication in order to build a prototype of a real time graphical application that runs in an embedded environment. The application is a 2D visualization of the flow of material at a quarry and is built on top of existing communication protocols that enable wireless vehicle to vehicle communication according to the 802.11p standard for intelligent transport solutions. These communication protocols have already been used within the Volvo group in other research rojects, but not in a context of a real-time graphical 2D visualization. The application runs on an ALIX embedded motherboard and combined with the necessary hardware represent one node that makes the communication network. The visualization monitors the position of every active node in the network and the flow of material between material locations and crusher that process the material at the quarry. The visualization is implemented in C/C++ using Qt 4.6.2 Graphics View framework.