No description available.

The primary objective of this research was to develop and implement a new approach to on-line adaptive radiation therapy (ART) in which daily imaging, plan adaptation and radiation delivery are temporally integrated and performed concurrently. The advantages of this approach are: reduction of treatment time compared to conventional on-line ART; ability to perform a complete plan re-optimization with minimal extension of treatment time; ability to detect and correct for intra-fractional patient motion. This work was motivated by an initial study which compared four radiosurgery techniques. This study was the first quantitative analysis of the correlation between patient anatomy and the quality of treatment plans produced by different radiosurgery techniques. A number of different relationships, both qualitative and quantitative, were discovered between patient anatomy and dosimetric parameters for different techniques. The results were used to successfully predetermine the optimal radiosurgery technique based on patient anatomy. The first step in developing a new approach to on-line ART involved accelerating plan adaptation (re-optimization) using direct aperture optimization (DAO). A series of techniques for adapting the original treatment plan to correct for the deterioration of dose distribution quality caused by the anatomical deformations were investigated. Through modification of the DAO algorithm the optimization search space was reduced and the plan adaptation was significantly accelerated. Next, a new approach to on-line ART was proposed and investigated, in which accelerated plan adaptation and radiation delivery were integrated together and performed concurrently. A fundamental advantage of this approach is that most of the plan re-optimization was performed during radiation delivery, so the time spent adapting the original plan did not significantly increase the overall treatment time. Finally, daily imaging, accelerated plan adaptation and radiation delivery were all temporally integrated using an integrated Linac/Cone Beam CT system. Intra-fractional patient images were used to successfully re-optimize the original treatment plan in near real-time to account for anatomy deformations. This thesis concludes that integration of daily imaging, plan adaptation and radiation delivery for near real-time ART is both feasible and advantageous. With further advances in related technologies, it promises to become a part of clinical practice in the near future.

The primary objective of this research was to develop and implement a new approach to on-line adaptive radiation therapy (ART) in which daily imaging, plan adaptation and radiation delivery are temporally integrated and performed concurrently. The advantages of this approach are: reduction of treatment time compared to conventional on-line ART; ability to perform a complete plan re-optimization with minimal extension of treatment time; ability to detect and correct for intra-fractional patient motion. This work was motivated by an initial study which compared four radiosurgery techniques. This study was the first quantitative analysis of the correlation between patient anatomy and the quality of treatment plans produced by different radiosurgery techniques. A number of different relationships, both qualitative and quantitative, were discovered between patient anatomy and dosimetric parameters for different techniques. The results were used to successfully predetermine the optimal radiosurgery technique based on patient anatomy. The first step in developing a new approach to on-line ART involved accelerating plan adaptation (re-optimization) using direct aperture optimization (DAO). A series of techniques for adapting the original treatment plan to correct for the deterioration of dose distribution quality caused by the anatomical deformations were investigated. Through modification of the DAO algorithm the optimization search space was reduced and the plan adaptation was significantly accelerated. Next, a new approach to on-line ART was proposed and investigated, in which accelerated plan adaptation and radiation delivery were integrated together and performed concurrently. A fundamental advantage of this approach is that most of the plan re-optimization was performed during radiation delivery, so the time spent adapting the original plan did not significantly increase the overall treatment time. Finally, daily imaging, accelerated plan adaptation and radiation delivery were all temporally integrated using an integrated Linac/Cone Beam CT system. Intra-fractional patient images were used to successfully re-optimize the original treatment plan in near real-time to account for anatomy deformations. This thesis concludes that integration of daily imaging, plan adaptation and radiation delivery for near real-time ART is both feasible and advantageous. With further advances in related technologies, it promises to become a part of clinical practice in the near future.

The primary objective of this research was to develop and implement a new approach to on-line adaptive radiation therapy (ART) in which daily imaging, plan adaptation and radiation delivery are temporally integrated and performed concurrently. The advantages of this approach are: reduction of treatment time compared to conventional on-line ART; ability to perform a complete plan re-optimization with minimal extension of treatment time; ability to detect and correct for intra-fractional patient motion. This work was motivated by an initial study which compared four radiosurgery techniques. This study was the first quantitative analysis of the correlation between patient anatomy and the quality of treatment plans produced by different radiosurgery techniques. A number of different relationships, both qualitative and quantitative, were discovered between patient anatomy and dosimetric parameters for different techniques. The results were used to successfully predetermine the optimal radiosurgery technique based on patient anatomy. The first step in developing a new approach to on-line ART involved accelerating plan adaptation (re-optimization) using direct aperture optimization (DAO). A series of techniques for adapting the original treatment plan to correct for the deterioration of dose distribution quality caused by the anatomical deformations were investigated. Through modification of the DAO algorithm the optimization search space was reduced and the plan adaptation was significantly accelerated. Next, a new approach to on-line ART was proposed and investigated, in which accelerated plan adaptation and radiation delivery were integrated together and performed concurrently. A fundamental advantage of this approach is that most of the plan re-optimization was performed during radiation delivery, so the time spent adapting the original plan did not significantly increase the overall treatment time. Finally, daily imaging, accelerated plan adaptation and radiation delivery were all temporally integrated using an integrated Linac/Cone Beam CT system. Intra-fractional patient images were used to successfully re-optimize the original treatment plan in near real-time to account for anatomy deformations. This thesis concludes that integration of daily imaging, plan adaptation and radiation delivery for near real-time ART is both feasible and advantageous. With further advances in related technologies, it promises to become a part of clinical practice in the near future. / Science, Faculty of / Physics and Astronomy, Department of / Graduate

No description available.

Whitefish (Coregonus lavaretus) populations diverge into morphs that differ in body size along a benthic-limnetic axis and throughout the depth of the water column. This process is assumedly initiated by the presence of northern pike (Esox lucius) and is followed by morphological adaptations to available food resources. In this study eight populations of whitefish was studied with the purpose of increasing the knowledge about adaptive trait utility in the feeding apparatus of whitefish. This was done by analyzing the mean and absolute maximum and minimum prey size ingested by fish along four morphological trait gradients. The morphological traits was body size, gill raker number and density, and gape size. The results show clear evidence of morphological adaptations in both the benthic and limnetic habitat, furthermore, when comparing the two prey size responses (mean and absolute values) it becomes clear that none of the studied whitefish is physically constrained in terms of the largest prey they can ingest. However, large fish seem to be limited in eating small prey sizes. Interestingly, I also found strong indicators for filter feeding adaptation for one of the studied populations.

Adaptive radiations provide exceptional opportunities to examine the relationships between natural selection, adaptation, and speciation. Neotropical Adelpha butterflies may represent such a radiation, characterized by extraordinary breadth in host plant use and wing color patterns. In this study, we use genome-wide RAD markers to reconstruct the complex evolutionary history of Adelpha and the closely related temperate genus, Limenitis. Despite the presence of significant missing data, a variety of phylogenetic methods produce similar and highly supported trees. These well-resolved phylogenies allow for the identification of an ecologically important shift to a toxic host plant family, as well as the confirmation of rampant wing pattern mimicry throughout the genus. Taken together, our results support the hypothesis that the colonization of novel host plants represents a key evolutionary innovation that is fueling ongoing adaptive diversification within this large, phenotypically diverse butterfly radiation.

A previous approach to robust intensity-modulated radiation therapy (IMRT) treatment planning for moving tumours in the lung involves solving a single planning problem before treatment and using the resulting solution in all of the subsequent treatment sessions. In this thesis, we develop two adaptive robust IMRT optimization approaches for lung cancer, which involve using information gathered in prior treatment sessions to guide the reoptimization of the treatment for the next session. The first method is based on updating an estimate of the uncertain effect, while the second is based on additionally updating the dose requirements to account for prior errors in dose. We present computational results using real patient data for both methods and an asymptotic analysis for the first method. Through these results, we show that both methods lead to improvements in the final dose distribution over the traditional robust approach, but differ greatly in their daily dose performance.

A previous approach to robust intensity-modulated radiation therapy (IMRT) treatment planning for moving tumours in the lung involves solving a single planning problem before treatment and using the resulting solution in all of the subsequent treatment sessions. In this thesis, we develop two adaptive robust IMRT optimization approaches for lung cancer, which involve using information gathered in prior treatment sessions to guide the reoptimization of the treatment for the next session. The first method is based on updating an estimate of the uncertain effect, while the second is based on additionally updating the dose requirements to account for prior errors in dose. We present computational results using real patient data for both methods and an asymptotic analysis for the first method. Through these results, we show that both methods lead to improvements in the final dose distribution over the traditional robust approach, but differ greatly in their daily dose performance.

Endemic species flocks inhabiting ancient lakes, oceanic islands and other long-lived isolated habitats are often interpreted as adaptive radiations. Yet molecular evidence for directional selection during species flocks radiation is scarce. Using partial transcriptomes of 64 species of Lake Baikal (Siberia, Russia) endemic amphipods and two nonendemic outgroups, we report a revised phylogeny of this species flock and analyse evidence for positive selection within the endemic lineages. We confirm two independent invasions of amphipods into Baikal and demonstrate that several morphological features of Baikal amphipods, such as body armour and reduction in appendages and sensory organs, evolved in several lineages in parallel. Radiation of Baikal amphipods has been characterized by short phylogenetic branches and frequent episodes of positive selection which tended to be more frequent in the early phase of the second invasion of amphipods into Baikal when the most intensive diversification occurred. Notably, signatures of positive selection are frequent in genes encoding mitochondrial membrane proteins with electron transfer chain and ATP synthesis functionality. In particular, subunits of both the membrane and substrate-level ATP synthases show evidence of positive selection in the plankton species Macrohectopus branickii, possibly indicating adaptation to active plankton lifestyle and to survival under conditions of low temperature and high hydrostatic pressures known to affect membranes functioning. Other functional categories represented among genes likely to be under positive selection include Ca-binding muscle-related proteins, possibly indicating adaptation to Ca-deficient low mineralization Baikal waters.