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• 21. [Article] Temperature Changes in Human Skeletal Muscle during Single Leg Dynamic Knee Extension Exercise

  49 pages. A thesis presented to the Department of Uman Physiology and the Clark Honors College of the University of Oregon in partial fulfillment of the requirements for degree of Bachelor of Arts, Summer ...

  Citation × Citation Citation Abstract Copy Title: Temperature Changes in Human Skeletal Muscle during Single Leg Dynamic Knee Extension Exercise Author: Peck, Mairin Year: 2015 49 pages. A thesis presented to the Department of Uman Physiology and the Clark Honors College of the University of Oregon in partial fulfillment of the requirements for degree of Bachelor of Arts, Summer 2015. Title: Temperature Changes in Human Skeletal Muscle during Single Leg Dynamic Knee Extension Exercise Author: Peck, Mairin Year: 2015 49 pages. A thesis presented to the Department of Uman Physiology and the Clark Honors College of the University of Oregon in partial fulfillment of the requirements for degree of Bachelor of Arts, Summer 2015. Close

• 22. [Article] Estimation of Surface Water Temperature of the Tigris River System in Iraq

  Monitoring surface water temperatures (Tw) in lakes, rivers, and reservoirs is a key component of environmental management and influences water quality by affecting bio-geo chemical reaction rates, altering ...

  Citation × Citation Citation Abstract Copy Title: Estimation of Surface Water Temperature of the Tigris River System in Iraq Author: Al-Murib, M., Wells, Scott A., Talke, Stefan A. Year: 2017 Monitoring surface water temperatures (Tw) in lakes, rivers, and reservoirs is a key component of environmental management and influences water quality by affecting bio-geo chemical reaction rates, altering the saturation concentration of dissolved oxygen (DO), and influencing the susceptibility of fish to disease. Temperatures in the Tigris River, one of the largest rivers in the Middle East, are influenced by factors such as heat fluxes at the air-water and human activities such as direct discharge of water to the river. However, modeling and management of water temperature is limited by a paucity of in-situ data, which prevents calibration of models. In this study, we infill data gaps by estimating Tw using the thermal bands of both the Landsat 5 TM and Landsat 7 ETM+ sensors. These satellite-based estimates, typically measured once or twice a month with 60-120m resolution, are then used to develop a regression model that relates daily water temperature to daily air temperature and river flow. These estimates are used to define the Tw boundary conditions for a hydrodynamic and water quality model of the Tigris River based on a 2D implementation of the CE-QUAL-W2 (W2) numerical model. Initial results suggest that there is a significant agreement between modeled and remotely estimated data of Tw. Results suggest that short-wave solar radiation is the most important factor that controls seasonal Tw variations. However, anthropogenic influence is observed as a result of return irrigation flows and flows from Tharthar Lake. Title: Estimation of Surface Water Temperature of the Tigris River System in Iraq Author: Al-Murib, M., Wells, Scott A., Talke, Stefan A. Year: 2017 Monitoring surface water temperatures (Tw) in lakes, rivers, and reservoirs is a key component of environmental management and influences water quality by affecting bio-geo chemical reaction rates, altering the saturation concentration of dissolved oxygen (DO), and influencing the susceptibility of fish to disease. Temperatures in the Tigris River, one of the largest rivers in the Middle East, are influenced by factors such as heat fluxes at the air-water and human activities such as direct discharge of water to the river. However, modeling and management of water temperature is limited by a paucity of in-situ data, which prevents calibration of models. In this study, we infill data gaps by estimating Tw using the thermal bands of both the Landsat 5 TM and Landsat 7 ETM+ sensors. These satellite-based estimates, typically measured once or twice a month with 60-120m resolution, are then used to develop a regression model that relates daily water temperature to daily air temperature and river flow. These estimates are used to define the Tw boundary conditions for a hydrodynamic and water quality model of the Tigris River based on a 2D implementation of the CE-QUAL-W2 (W2) numerical model. Initial results suggest that there is a significant agreement between modeled and remotely estimated data of Tw. Results suggest that short-wave solar radiation is the most important factor that controls seasonal Tw variations. However, anthropogenic influence is observed as a result of return irrigation flows and flows from Tharthar Lake. Close

• 23. [Article] Can Significant Trends be Detected in Surface Air Temperature and Precipitation Over South America in Recent Decades?

  Trends in near-surface air temperature and precipitation over South America are examined for the periods 1975–2004 and 1955–2004, respectively, using multiple observational and climate model data sets. ...

  Citation × Citation Citation Abstract Copy Title: Can Significant Trends be Detected in Surface Air Temperature and Precipitation Over South America in Recent Decades? Author: de Barros Soares, Daniel, Lee, Huikyo, Loikith, Paul C., Barkhordarian, Armineh, Mechoso, Carlos R. Year: 2016 Trends in near-surface air temperature and precipitation over South America are examined for the periods 1975–2004 and 1955–2004, respectively, using multiple observational and climate model data sets. The results for observed near-surface air temperature show an overall warming trend over much of the continent, with the largest magnitudes over central Brazil. These observed trends are found to be statistically significant using pre-industrial control simulations from the fifth phase of the Coupled Model Intercomparison Project (CMIP5) as the baseline to estimate natural climate variability. The observed trends are compared with those obtained in natural-only CMIP5 simulations, in which only natural forcings (i.e. volcanoes and solar variability) are included, and in historical CMIP5 simulations, in which anthropogenic forcings (i.e. changes in the atmospheric composition) are further incorporated. The historical CMIP5 simulations are more successful in capturing the observed temperature trends than the simulations with natural forcings only. It is suggested that anthropogenic warming is already evident over much of South America. Unlike the warming trends, observed precipitation trends over South America are less spatially coherent with both negative and positive values across the continent. Significant positive trends are found over South America in only one of the data sets used, and over a region that roughly encompasses the southern part of La Plata Basin (southern Brazil, Uruguay, and northeastern Argentina) in all data sets used. The historical CMIP5 simulations do not capture this feature. No firm conclusions are reached, therefore, for anthropogenic influences on precipitation changes in the period selected for study. Title: Can Significant Trends be Detected in Surface Air Temperature and Precipitation Over South America in Recent Decades? Author: de Barros Soares, Daniel, Lee, Huikyo, Loikith, Paul C., Barkhordarian, Armineh, Mechoso, Carlos R. Year: 2016 Trends in near-surface air temperature and precipitation over South America are examined for the periods 1975–2004 and 1955–2004, respectively, using multiple observational and climate model data sets. The results for observed near-surface air temperature show an overall warming trend over much of the continent, with the largest magnitudes over central Brazil. These observed trends are found to be statistically significant using pre-industrial control simulations from the fifth phase of the Coupled Model Intercomparison Project (CMIP5) as the baseline to estimate natural climate variability. The observed trends are compared with those obtained in natural-only CMIP5 simulations, in which only natural forcings (i.e. volcanoes and solar variability) are included, and in historical CMIP5 simulations, in which anthropogenic forcings (i.e. changes in the atmospheric composition) are further incorporated. The historical CMIP5 simulations are more successful in capturing the observed temperature trends than the simulations with natural forcings only. It is suggested that anthropogenic warming is already evident over much of South America. Unlike the warming trends, observed precipitation trends over South America are less spatially coherent with both negative and positive values across the continent. Significant positive trends are found over South America in only one of the data sets used, and over a region that roughly encompasses the southern part of La Plata Basin (southern Brazil, Uruguay, and northeastern Argentina) in all data sets used. The historical CMIP5 simulations do not capture this feature. No firm conclusions are reached, therefore, for anthropogenic influences on precipitation changes in the period selected for study. Close

• 24. [Article] Towards Systematic Prediction of Urban Heat Islands: Grounding Measurements, Assessing Modeling Techniques

  While there exists extensive assessment of urban heat, we observe myriad methods for describing thermal distribution, factors that mediate temperatures, and potential impacts on urban populations. In addition, ...

  Citation × Citation Citation Abstract Copy Title: Towards Systematic Prediction of Urban Heat Islands: Grounding Measurements, Assessing Modeling Techniques Author: Voelkel, Jackson, Shandas, Vivek Year: 2017 While there exists extensive assessment of urban heat, we observe myriad methods for describing thermal distribution, factors that mediate temperatures, and potential impacts on urban populations. In addition, the limited spatial and temporal resolution of satellite-derived heat measurements may limit the capacity of decision makers to take effective actions for reducing mortalities in vulnerable populations whose locations require highly-refined measurements. Needed are high resolution spatial and temporal information for urban heat. In this study, we ask three questions: (1) how do urban heat islands vary throughout the day? (2) what statistical methods best explain the presence of temperatures at sub-meter spatial scales; and (3) what landscape features help to explain variation in urban heat islands? Using vehicle-based temperature measurements at three periods of the day in the Pacific Northwest city of Portland, Oregon (USA), we incorporate LiDAR-derived datasets, and evaluate three statistical techniques for modeling and predicting variation in temperatures during a heat wave. Our results indicate that the random forest technique best predicts temperatures, and that the evening model best explains the variation in temperature. The results suggest that ground-based measurements provide high levels of accuracy for describing the distribution of urban heat, its temporal variation, and specific locations where targeted interventions with communities can reduce mortalities from heat events. Title: Towards Systematic Prediction of Urban Heat Islands: Grounding Measurements, Assessing Modeling Techniques Author: Voelkel, Jackson, Shandas, Vivek Year: 2017 While there exists extensive assessment of urban heat, we observe myriad methods for describing thermal distribution, factors that mediate temperatures, and potential impacts on urban populations. In addition, the limited spatial and temporal resolution of satellite-derived heat measurements may limit the capacity of decision makers to take effective actions for reducing mortalities in vulnerable populations whose locations require highly-refined measurements. Needed are high resolution spatial and temporal information for urban heat. In this study, we ask three questions: (1) how do urban heat islands vary throughout the day? (2) what statistical methods best explain the presence of temperatures at sub-meter spatial scales; and (3) what landscape features help to explain variation in urban heat islands? Using vehicle-based temperature measurements at three periods of the day in the Pacific Northwest city of Portland, Oregon (USA), we incorporate LiDAR-derived datasets, and evaluate three statistical techniques for modeling and predicting variation in temperatures during a heat wave. Our results indicate that the random forest technique best predicts temperatures, and that the evening model best explains the variation in temperature. The results suggest that ground-based measurements provide high levels of accuracy for describing the distribution of urban heat, its temporal variation, and specific locations where targeted interventions with communities can reduce mortalities from heat events. Close

• 25. [Article] The Effects of Anthropogenic Stressors on Mercury Concentrations and Community Composition of Freshwater Zooplankton

  Methylmercury (MeHg) bioaccumulation in freshwater aquatic systems is impacted by anthropogenic stressors, including climate change and excess nutrients. The goal of this study was to determine how warmer ...

  Citation × Citation Citation Abstract Copy Title: The Effects of Anthropogenic Stressors on Mercury Concentrations and Community Composition of Freshwater Zooplankton Author: Jordan, Meredith Powers Year: 2016 Methylmercury (MeHg) bioaccumulation in freshwater aquatic systems is impacted by anthropogenic stressors, including climate change and excess nutrients. The goal of this study was to determine how warmer water temperatures and excess nutrients would impact zooplankton communities and phytoplankton concentrations, and in turn increase or decrease MeHg concentrations in freshwater zooplankton. I used a 2x2 factorial design to determine if the interaction of temperature and nutrients would impact plankton metrics and zooplankton MeHg concentrations. Mesocosms were filled with Hg-contaminated water and plankton from Cottage Grove Reservoir, Oregon, U.S.A, a waterbody that has experienced decades of elevated MeHg concentrations and corresponding fish consumption advisories due to run-off from Black Butte Mine tailings, located within the watershed. Treatment combinations of warmer temperature (increased by 0.5°C) and nutrient addition (a single pulse of excess nitrogen and phosphorous), control, and a combination of temperature and nutrients were applied to mesocosms. While plankton did respond to treatments, zooplankton biomass and phytoplankton concentrations did not have significant relationships to MeHg concentrations. However, a significant interactive effect of nutrients and temperature was present: nutrients appeared to buffer against increased MeHg concentrations when temperature was elevated. The mechanisms for this interaction appear to be related to a shift to larger body size and an increase in abundance of Daphnia over copepods. Findings suggest that community composition and species-specific differences in both zooplankton and phytoplankton could play a role in MeHg transfer to higher trophic levels. Title: The Effects of Anthropogenic Stressors on Mercury Concentrations and Community Composition of Freshwater Zooplankton Author: Jordan, Meredith Powers Year: 2016 Methylmercury (MeHg) bioaccumulation in freshwater aquatic systems is impacted by anthropogenic stressors, including climate change and excess nutrients. The goal of this study was to determine how warmer water temperatures and excess nutrients would impact zooplankton communities and phytoplankton concentrations, and in turn increase or decrease MeHg concentrations in freshwater zooplankton. I used a 2x2 factorial design to determine if the interaction of temperature and nutrients would impact plankton metrics and zooplankton MeHg concentrations. Mesocosms were filled with Hg-contaminated water and plankton from Cottage Grove Reservoir, Oregon, U.S.A, a waterbody that has experienced decades of elevated MeHg concentrations and corresponding fish consumption advisories due to run-off from Black Butte Mine tailings, located within the watershed. Treatment combinations of warmer temperature (increased by 0.5°C) and nutrient addition (a single pulse of excess nitrogen and phosphorous), control, and a combination of temperature and nutrients were applied to mesocosms. While plankton did respond to treatments, zooplankton biomass and phytoplankton concentrations did not have significant relationships to MeHg concentrations. However, a significant interactive effect of nutrients and temperature was present: nutrients appeared to buffer against increased MeHg concentrations when temperature was elevated. The mechanisms for this interaction appear to be related to a shift to larger body size and an increase in abundance of Daphnia over copepods. Findings suggest that community composition and species-specific differences in both zooplankton and phytoplankton could play a role in MeHg transfer to higher trophic levels. Close

• 26. [Article] Climate Change Assessment in Columbia River Basin (CRB) Using Copula Based on Coupling of Temperature and Precipitation

  The multi downscaled-scenario products allow us to better assess the uncertainty of the variations of precipitation and temperature in the current and future periods. Joint Probability distribution functions ...

  Citation × Citation Citation Abstract Copy Title: Climate Change Assessment in Columbia River Basin (CRB) Using Copula Based on Coupling of Temperature and Precipitation Author: Qin, Yueyue Year: 2015 The multi downscaled-scenario products allow us to better assess the uncertainty of the variations of precipitation and temperature in the current and future periods. Joint Probability distribution functions (PDFs), of both the climatic variables, might help better understand the interdependence of the two, and thus in-turn help in accessing the future with confidence. In the present study, we have used multi-modelled statistically downscaled ensemble of precipitation and temperature variables. The dataset used is multi-model ensemble of 10 Global Climate Models (GCMs) downscaled product from CMIP5 daily dataset, using the Bias Correction and Spatial Downscaling (BCSD) technique, generated at Portland State University. The multi-model ensemble PDFs of both precipitation and temperature is evaluated for summer (dry) and winter (wet) periods for 10 sub-basins across Columbia River Basin (CRB). Eventually, Copula is applied to establish the joint distribution of two variables on multi-model ensemble data. Results have indicated that the probabilistic distribution helps remove the limitations on marginal distributions of variables in question and helps in better prediction. The joint distribution is then used to estimate the change in trends of said variables in future, along with estimation of the probabilities of the given change. The joint distribution trends are varied, but certainly positive, for summer and winter time scales based on sub-basins. Dry season, generally, is indicating towards higher positive changes in precipitation than temperature (as compared to historical) across sub-basins with wet season inferring otherwise. Probabilities of changes in future, as estimated by the joint precipitation and temperature, also indicates varied degree and forms during dry season whereas the wet season is rather constant across all the sub-basins. Title: Climate Change Assessment in Columbia River Basin (CRB) Using Copula Based on Coupling of Temperature and Precipitation Author: Qin, Yueyue Year: 2015 The multi downscaled-scenario products allow us to better assess the uncertainty of the variations of precipitation and temperature in the current and future periods. Joint Probability distribution functions (PDFs), of both the climatic variables, might help better understand the interdependence of the two, and thus in-turn help in accessing the future with confidence. In the present study, we have used multi-modelled statistically downscaled ensemble of precipitation and temperature variables. The dataset used is multi-model ensemble of 10 Global Climate Models (GCMs) downscaled product from CMIP5 daily dataset, using the Bias Correction and Spatial Downscaling (BCSD) technique, generated at Portland State University. The multi-model ensemble PDFs of both precipitation and temperature is evaluated for summer (dry) and winter (wet) periods for 10 sub-basins across Columbia River Basin (CRB). Eventually, Copula is applied to establish the joint distribution of two variables on multi-model ensemble data. Results have indicated that the probabilistic distribution helps remove the limitations on marginal distributions of variables in question and helps in better prediction. The joint distribution is then used to estimate the change in trends of said variables in future, along with estimation of the probabilities of the given change. The joint distribution trends are varied, but certainly positive, for summer and winter time scales based on sub-basins. Dry season, generally, is indicating towards higher positive changes in precipitation than temperature (as compared to historical) across sub-basins with wet season inferring otherwise. Probabilities of changes in future, as estimated by the joint precipitation and temperature, also indicates varied degree and forms during dry season whereas the wet season is rather constant across all the sub-basins. Close

• 27. [Article] The Role of Atmospheric Circulation Patterns in Agroclimate Variability in Finland, 1961-2011

  This study evaluates interannual variations and trends in growing season daily temperature sum and daily precipitation sum in Finland during 1961–2011, and their connections to well known atmospheric circulation ...

  Citation × Citation Citation Abstract Copy Title: The Role of Atmospheric Circulation Patterns in Agroclimate Variability in Finland, 1961-2011 Author: Irannezhad, Masoud, Chen, Deliang, Kløve, Bjørn Year: 2016 This study evaluates interannual variations and trends in growing season daily temperature sum and daily precipitation sum in Finland during 1961–2011, and their connections to well known atmospheric circulation patterns. Changes in summer (June–August) climate partially explain changes in growing season daily temperature sum and daily precipitation sum over Finland, which naturally decreased from south to north. On a national scale, growing season warmed and became wetter during 1961–2011, as growing season daily temperature sum and daily precipitation sum significantly (p < 0.05) increased by 5.01 ± 3.17°C year–1 and 1.39 ± 0.91 mm year–1, respectively. The East Atlantic pattern was the most influential atmospheric circulation pattern for variations in growing season daily temperature sum (rho = 0.40) across Finland and the East Atlantic/West Russia pattern was most influential for growing season daily precipitation sum variability (rho = –0.54). There were significant (p < 0.05) increasing trends in growing season daily temperature sum and daily precipitation sum throughout Finland during 1961–2011. Increased growing season daily temperature sum was mainly observed in northern, central, western, eastern and coastal areas of south-western Finland. This warming was positively associated with the East Atlantic pattern in the north, centre and south, but negatively associated with the East Atlantic/West Russia pattern in eastern Finland. Increased GSP mostly occurred in southern, eastern, western, central, northern and north-western Finland. These wetting trends were positively correlated with the East Atlantic pattern in the north and negatively correlated with the Polar pattern in the south and the East Atlantic/West Russia pattern in the east, west, centre and north-east of Finland. The overall agroclimatic year-to-year variability in Finland between 1961 and 2011 was mostly linked to variations in the East Atlantic and East Atlantic/West Russia patterns. Title: The Role of Atmospheric Circulation Patterns in Agroclimate Variability in Finland, 1961-2011 Author: Irannezhad, Masoud, Chen, Deliang, Kløve, Bjørn Year: 2016 This study evaluates interannual variations and trends in growing season daily temperature sum and daily precipitation sum in Finland during 1961–2011, and their connections to well known atmospheric circulation patterns. Changes in summer (June–August) climate partially explain changes in growing season daily temperature sum and daily precipitation sum over Finland, which naturally decreased from south to north. On a national scale, growing season warmed and became wetter during 1961–2011, as growing season daily temperature sum and daily precipitation sum significantly (p < 0.05) increased by 5.01 ± 3.17°C year–1 and 1.39 ± 0.91 mm year–1, respectively. The East Atlantic pattern was the most influential atmospheric circulation pattern for variations in growing season daily temperature sum (rho = 0.40) across Finland and the East Atlantic/West Russia pattern was most influential for growing season daily precipitation sum variability (rho = –0.54). There were significant (p < 0.05) increasing trends in growing season daily temperature sum and daily precipitation sum throughout Finland during 1961–2011. Increased growing season daily temperature sum was mainly observed in northern, central, western, eastern and coastal areas of south-western Finland. This warming was positively associated with the East Atlantic pattern in the north, centre and south, but negatively associated with the East Atlantic/West Russia pattern in eastern Finland. Increased GSP mostly occurred in southern, eastern, western, central, northern and north-western Finland. These wetting trends were positively correlated with the East Atlantic pattern in the north and negatively correlated with the Polar pattern in the south and the East Atlantic/West Russia pattern in the east, west, centre and north-east of Finland. The overall agroclimatic year-to-year variability in Finland between 1961 and 2011 was mostly linked to variations in the East Atlantic and East Atlantic/West Russia patterns. Close

• 28. [Article] Comparison between Observed and Model-Simulated Atmospheric CirculationPatterns Associated with Extreme Temperature Days over North AmericaUsing CMIP5 Historical Simulations

  Circulation patterns associated with extreme temperature days over North America, as simulated by a suite of climate models, are compared with those obtained from observations. The authors analyze 17 coupled ...

  Citation × Citation Citation Abstract Copy Title: Comparison between Observed and Model-Simulated Atmospheric CirculationPatterns Associated with Extreme Temperature Days over North AmericaUsing CMIP5 Historical Simulations Author: Loikith, Paul C., Broccoli, Anthony J. Year: 2015 Circulation patterns associated with extreme temperature days over North America, as simulated by a suite of climate models, are compared with those obtained from observations. The authors analyze 17 coupled atmosphere–ocean general circulation models contributing to the fifth phase of the Coupled Model Intercomparison Project. Circulation patterns are defined as composites of anomalies in sea level pressure and 500-hPa geopotential height concurrent with days in the tails of temperature distribution. Several metrics used to systematically describe circulation patterns associated with extreme temperature days are applied to both the observed and model-simulated data. Additionally, self-organizing maps are employed as a means of comparing observed and model-simulated circulation patterns across the North American domain. In general, the multimodel ensemble resembles the observed patterns well, especially in areas removed from complex geographic features (e.g., mountains and coastlines). Individual model results vary; however, the majority of models capture the major features observed. The multimodel ensemble captures several key features, including regional variations in the strength and orientation of atmospheric circulation patterns associated with extreme temperatures, both near the surface and aloft, as well as variations with latitude and season. The results from this work suggest that these models can be used to comprehensively examine the role that changes in atmospheric circulation will play in projected changes in temperature extremes because of future anthropogenic climate warming. Title: Comparison between Observed and Model-Simulated Atmospheric CirculationPatterns Associated with Extreme Temperature Days over North AmericaUsing CMIP5 Historical Simulations Author: Loikith, Paul C., Broccoli, Anthony J. Year: 2015 Circulation patterns associated with extreme temperature days over North America, as simulated by a suite of climate models, are compared with those obtained from observations. The authors analyze 17 coupled atmosphere–ocean general circulation models contributing to the fifth phase of the Coupled Model Intercomparison Project. Circulation patterns are defined as composites of anomalies in sea level pressure and 500-hPa geopotential height concurrent with days in the tails of temperature distribution. Several metrics used to systematically describe circulation patterns associated with extreme temperature days are applied to both the observed and model-simulated data. Additionally, self-organizing maps are employed as a means of comparing observed and model-simulated circulation patterns across the North American domain. In general, the multimodel ensemble resembles the observed patterns well, especially in areas removed from complex geographic features (e.g., mountains and coastlines). Individual model results vary; however, the majority of models capture the major features observed. The multimodel ensemble captures several key features, including regional variations in the strength and orientation of atmospheric circulation patterns associated with extreme temperatures, both near the surface and aloft, as well as variations with latitude and season. The results from this work suggest that these models can be used to comprehensively examine the role that changes in atmospheric circulation will play in projected changes in temperature extremes because of future anthropogenic climate warming. Close

• 29. [Article] Reverse Gyrase is Not Necessary for Survival of Hyperthermophilic Archaeon Pyrococcus Furiosus

  Reverse gyrase is the only known topoisomerase enzyme with positive supercoiling activity on covalently-closed DNA. This positive supercoiling is required to prevent DNA from denaturation at high temperatures. ...

  Citation × Citation Citation Abstract Copy Title: Reverse Gyrase is Not Necessary for Survival of Hyperthermophilic Archaeon Pyrococcus Furiosus Author: Taghizadeh, Farshid, Bartlett, Michael S. Year: 2015 Reverse gyrase is the only known topoisomerase enzyme with positive supercoiling activity on covalently-closed DNA. This positive supercoiling is required to prevent DNA from denaturation at high temperatures. The gene that codes for this protein is present in all hyperthermophiles and absent from all mesophilic and thermophilic genomes, suggesting that this enzyme is the only hyperthermophile-specific protein. To investigate if this protein is vital for the cells, we knocked out its gene from the genome of living organism Pyrococcus furiosus. Pyrococcus furiosus is a hyperthermophilic archaeon that grows between 70°C to 103°C with an optimum growth temperature of 100°C. The knocking out process was done as follows. Recombinant DNA was made using Gibson Assembly technique. This DNA, which included a selection marker for ability to synthesize uracil, was used to transform Pyrococcus furiosus strain ‘COM1’. Uracil prototrophs were selected on growth medium lacking uracil, and the deletion of the target gene was confirmed using PCR. Mutants then were grown at different temperatures ranging from 75°C to 105°C and growth curves were compared to that of COM1. Although mutants do not survive at temperatures over 93°C, no significant difference was observed between the growth rate and density of COM1 and mutants in temperatures below that. We demonstrated that although reverse gyrase is not essential for cell survival, it shifts the maximum living temperature from 103°C to 93°C. Title: Reverse Gyrase is Not Necessary for Survival of Hyperthermophilic Archaeon Pyrococcus Furiosus Author: Taghizadeh, Farshid, Bartlett, Michael S. Year: 2015 Reverse gyrase is the only known topoisomerase enzyme with positive supercoiling activity on covalently-closed DNA. This positive supercoiling is required to prevent DNA from denaturation at high temperatures. The gene that codes for this protein is present in all hyperthermophiles and absent from all mesophilic and thermophilic genomes, suggesting that this enzyme is the only hyperthermophile-specific protein. To investigate if this protein is vital for the cells, we knocked out its gene from the genome of living organism Pyrococcus furiosus. Pyrococcus furiosus is a hyperthermophilic archaeon that grows between 70°C to 103°C with an optimum growth temperature of 100°C. The knocking out process was done as follows. Recombinant DNA was made using Gibson Assembly technique. This DNA, which included a selection marker for ability to synthesize uracil, was used to transform Pyrococcus furiosus strain ‘COM1’. Uracil prototrophs were selected on growth medium lacking uracil, and the deletion of the target gene was confirmed using PCR. Mutants then were grown at different temperatures ranging from 75°C to 105°C and growth curves were compared to that of COM1. Although mutants do not survive at temperatures over 93°C, no significant difference was observed between the growth rate and density of COM1 and mutants in temperatures below that. We demonstrated that although reverse gyrase is not essential for cell survival, it shifts the maximum living temperature from 103°C to 93°C. Close

• 30. [Article] Investigating Heat Shock Induced Double Strand Breaks in Caenorhabditis elegans Spermatocyte

  42 pages. A thesis presented to the Department of Biology and the Clark Honors College of the University of Oregon in partial fulfillment of the requirements for degree of Bachelor of Science, Spring 2...

  Citation × Citation Citation Abstract Copy Title: Investigating Heat Shock Induced Double Strand Breaks in Caenorhabditis elegans Spermatocyte Author: Schoellhorn, Kaycee Marie Year: 2017 42 pages. A thesis presented to the Department of Biology and the Clark Honors College of the University of Oregon in partial fulfillment of the requirements for degree of Bachelor of Science, Spring 2017 Title: Investigating Heat Shock Induced Double Strand Breaks in Caenorhabditis elegans Spermatocyte Author: Schoellhorn, Kaycee Marie Year: 2017 42 pages. A thesis presented to the Department of Biology and the Clark Honors College of the University of Oregon in partial fulfillment of the requirements for degree of Bachelor of Science, Spring 2017 Close