Background: Research surrounding the steeplechase is scarce, with most research focusing primarily on how biomechanical factors relate to maintaining running speed while crossing barriers. One area that has not been ...Background: Research surrounding the steeplechase is scarce, with most research focusing primarily on how biomechanical factors relate to maintaining running speed while crossing barriers. One area that has not been well explored is the relationship between biomechanical factors and hurdling economy. The purpose of this study was to investigate how pel:formance times and biomechanical variables relate to hurdling economy during the steeplechase. Methods: This was accomplished by measuring running economy of collegiate and professional steeplechasers while rmming with and without hurdles. Biomechanical measures of approach velocity, takeoff distance, clearance height, and lead knee extension while hurdling, as well as steeplechase performance times were correlated to a ratio of running economy with and without hurdles. Results: While oxygen uptake was 2.6% greater for the laps requiring five barriers, there was no correlation between steeplechase performance time and the ratio of running economy during the hurdle and non-hurdle laps. Results also indicated no correlation between the aforementioned biomechanical variables and ratio of running economy during the hurdle and non-hurdle laps. Conclusion: Increasing approach velocity did not negatively affect running economy. Increased approach velocity is a benefit for maintenance of race pace, but does not hurt economy of movement.展开更多
Mechanisms of kin selection have been studied to explain how siblings grow together, but the findings remain controversial. This can be ascribed to the use of single indicators without considering other factors. Three...Mechanisms of kin selection have been studied to explain how siblings grow together, but the findings remain controversial. This can be ascribed to the use of single indicators without considering other factors. Three ecotypes of Arabidopsis were used to examine kin responses of siblings growing together. Plant traits of leaves, plant shape, reproductive activity, and roots were investigated. We found that Arabidopsis recognized their kin neighbors, showed selective responses to distinct plant traits among ecotypes, and modes of responses were dependent on neighbor's growing distance. If single traits were used to judge kin response performance, the results were chaotic. However, by developing and studying an integrated performance value based on multiple traits, we determined that Ler showed similar integrated performances at all planting distances, while the integrated performance of Col was ranked mainly as medium distancedistance small distance large distance, which suggested kin cooperation. However, in comparison to medium and small distances, at which performance was consistent with kin recognition, we found that at large distance, strangers of Ws performed better than kin plants, which suggested competition. Thus, we conclude that kin recognition could be affected by plant competition conditions that are the result of growing distance, and that the integrated performance of individuals was more suitable to evaluate kin interactions of plant species.展开更多
Human activity has been shown to influence how animals assess the risk of predation, but we know little about the spatial scale of such impacts. We quantified how vigilance and flight behavior in mule deer Odocoileus ...Human activity has been shown to influence how animals assess the risk of predation, but we know little about the spatial scale of such impacts. We quantified how vigilance and flight behavior in mule deer Odocoileus hemionus varied with distance from an area of concentrated human activity--a subalpine field station. An observer walked trails at various distances away from the station looking for deer. Upon encounter, the observer walked toward the focal animal and noted the distance at which it alerted and directed its attention to the approaching human (Alert Distance; AD), and the distance at which it fled (Flight Initiation Distance;. FID). AD and FID both increased nonlinearly with distance from the center of the field station, reaching pla- teaus around 250 m and 750 m, respectively. Deer also tended to flee by stotting or running, rather than by walking, when far from the station but they walked away when near the station. These results indicate that deer perceive lower risk near a focused area of human activity, and that vigilance and flight behaviors respond on somewhat different spatial scales. The concept of a spatial "human footprint" on behavior may be useful for understanding how human activities affect wildlife展开更多
Point placement of urea is an efficient technology to improve urea use efficiency in transplanted rice(Oryza sativa L.), but it is largely unknown how nutrient composition in the point placement and the distance from ...Point placement of urea is an efficient technology to improve urea use efficiency in transplanted rice(Oryza sativa L.), but it is largely unknown how nutrient composition in the point placement and the distance from placement site to the plant influence rice root distribution and growth, nutrient uptake, and rice grain yield. A controlled greenhouse experiment was conducted using both N-and P-deficient soil with point placement of N only or N and P together(N + P) at a distance close to or far from the plant,in comparison to an N-spilt application and a no-N control. Both nutrient composition and distance significantly affected rice root growth. Compared with the N point placement, the N + P point placement led to smaller root length and mass densities, higher specific root length(SRL) around the placement site, smaller root system, higher straw mass and grain yield, and higher N and P uptake. The difference between the N + P and N point placements was greater when close to the plant than when far from the plant. It is suggested that higher SRL around the placement site is essential for improving nutrient uptake and rice grain yield, and simultaneous point placement of N and P has a synergistic effect on rice growth.展开更多
Proteins are dynamic,fluctuating between multiple conformational states.Protein dynamics,spanning orders of magnitude in time and space,allow proteins to perform specific functions.Moreover,under certain conditions,pr...Proteins are dynamic,fluctuating between multiple conformational states.Protein dynamics,spanning orders of magnitude in time and space,allow proteins to perform specific functions.Moreover,under certain conditions,proteins can morph into a different set of conformations.Thus,a complete understanding of protein structural dynamics can provide mechanistic insights into protein function.Here,we review the latest developments in methods used to determine protein ensemble structures and to characterize protein dynamics.Techniques including X-ray crystallography,cryogenic electron microscopy,and small angle scattering can provide structural information on specific conformational states or on the averaged shape of the protein,whereas techniques including nuclear magnetic resonance,fluorescence resonance energy transfer(FRET),and chemical cross-linking coupled with mass spectrometry provide information on the fluctuation of the distances between protein domains,residues,and atoms for the multiple conformational states of the protein.In particular,FRET measurements at the single-molecule level allow rapid resolution of protein conformational states,where information is otherwise obscured in bulk measurements.Taken together,the different techniques complement each other and their integrated use can offer a clear picture of protein structure and dynamics.展开更多
Elucidating protein translational regulation is crucial for understanding cellular function and drug development.A key molecule in protein translation is ribosome,which is a super-molecular complex extensively studied...Elucidating protein translational regulation is crucial for understanding cellular function and drug development.A key molecule in protein translation is ribosome,which is a super-molecular complex extensively studied for more than a half century.The structure and dynamics of ribosome complexes were resolved recently thanks to the development of X-ray crystallography,Cryo-EM,and single molecule biophysics.Current studies of the ribosome have shown multiple functional states,each with a unique conformation.In this study,we analyzed the RNA-protein distances of ribosome(2.5 MDa)complexes and compared these changes among different ribosome complexes.We found that the RNA-protein distance is significantly correlated with the ribosomal functional state.Thus,the analysis of RNA-protein binding distances at important functional sites can distinguish ribosomal functional states and help understand ribosome functions.In particular,the mechanism of translational attenuation by nascent peptides and antibiotics was revealed by the conformational changes of local functional sites.展开更多
Motivated by several long-lasting mechanistic questions for biomolecular proton pumps,we have engaged in developing hybrid quantum mechanical/molecular mechanical(QM/MM) methods that allow an efficient and reliable de...Motivated by several long-lasting mechanistic questions for biomolecular proton pumps,we have engaged in developing hybrid quantum mechanical/molecular mechanical(QM/MM) methods that allow an efficient and reliable description of long-range proton transport in transmembrane proteins.In this review,we briefly discuss several relevant issues:the need to develop a "multi-scale" generalized solvent boundary potential(GSBP) for the analysis of chemical events in large trans-membrane proteins,approaches to validate such a protocol,and the importance of improving the flexibility of QM/MM Hamiltonian.Several recent studies of model and realistic protein systems are also discussed to help put the discussions into context.Collectively,these studies suggest that the QM/MM-GSBP framework based on an approximate density functional theory(SCC-DFTB) as QM holds the promise to strike the proper balance between computational efficiency,accuracy and generality.With additional improvements in the methodology and recent developments by others,especially powerful sampling techniques,this "multi-scale" framework will be able to help unlock the secrets of proton pumps and other biomolecular machines.展开更多
Although high quality multiple sequence alignment is an essential task in bioinforma- tics, it becomes a big dilemma nowadays due to the gigantic explosion in the amount of molecular data. The most consuming time and ...Although high quality multiple sequence alignment is an essential task in bioinforma- tics, it becomes a big dilemma nowadays due to the gigantic explosion in the amount of molecular data. The most consuming time and space phase is the distance matrix computation. This paper addresses this issue by proposing a vectorized parallel method that accomplishes the huge number of similarity comparisons faster in less space. Per- formance tests on real biological datasets using core-iT show superior results in terms of time and space.展开更多
文摘Background: Research surrounding the steeplechase is scarce, with most research focusing primarily on how biomechanical factors relate to maintaining running speed while crossing barriers. One area that has not been well explored is the relationship between biomechanical factors and hurdling economy. The purpose of this study was to investigate how pel:formance times and biomechanical variables relate to hurdling economy during the steeplechase. Methods: This was accomplished by measuring running economy of collegiate and professional steeplechasers while rmming with and without hurdles. Biomechanical measures of approach velocity, takeoff distance, clearance height, and lead knee extension while hurdling, as well as steeplechase performance times were correlated to a ratio of running economy with and without hurdles. Results: While oxygen uptake was 2.6% greater for the laps requiring five barriers, there was no correlation between steeplechase performance time and the ratio of running economy during the hurdle and non-hurdle laps. Results also indicated no correlation between the aforementioned biomechanical variables and ratio of running economy during the hurdle and non-hurdle laps. Conclusion: Increasing approach velocity did not negatively affect running economy. Increased approach velocity is a benefit for maintenance of race pace, but does not hurt economy of movement.
基金National Natural Science Foundation of China(31470560)
文摘Mechanisms of kin selection have been studied to explain how siblings grow together, but the findings remain controversial. This can be ascribed to the use of single indicators without considering other factors. Three ecotypes of Arabidopsis were used to examine kin responses of siblings growing together. Plant traits of leaves, plant shape, reproductive activity, and roots were investigated. We found that Arabidopsis recognized their kin neighbors, showed selective responses to distinct plant traits among ecotypes, and modes of responses were dependent on neighbor's growing distance. If single traits were used to judge kin response performance, the results were chaotic. However, by developing and studying an integrated performance value based on multiple traits, we determined that Ler showed similar integrated performances at all planting distances, while the integrated performance of Col was ranked mainly as medium distancedistance small distance large distance, which suggested kin cooperation. However, in comparison to medium and small distances, at which performance was consistent with kin recognition, we found that at large distance, strangers of Ws performed better than kin plants, which suggested competition. Thus, we conclude that kin recognition could be affected by plant competition conditions that are the result of growing distance, and that the integrated performance of individuals was more suitable to evaluate kin interactions of plant species.
文摘Human activity has been shown to influence how animals assess the risk of predation, but we know little about the spatial scale of such impacts. We quantified how vigilance and flight behavior in mule deer Odocoileus hemionus varied with distance from an area of concentrated human activity--a subalpine field station. An observer walked trails at various distances away from the station looking for deer. Upon encounter, the observer walked toward the focal animal and noted the distance at which it alerted and directed its attention to the approaching human (Alert Distance; AD), and the distance at which it fled (Flight Initiation Distance;. FID). AD and FID both increased nonlinearly with distance from the center of the field station, reaching pla- teaus around 250 m and 750 m, respectively. Deer also tended to flee by stotting or running, rather than by walking, when far from the station but they walked away when near the station. These results indicate that deer perceive lower risk near a focused area of human activity, and that vigilance and flight behaviors respond on somewhat different spatial scales. The concept of a spatial "human footprint" on behavior may be useful for understanding how human activities affect wildlife
基金supported by the Major Sate Basic Research Development Program of China (No. 2013CB127401)the National Science Foundation of China (No. 41271309)the Postdoctoral Science Foundation of Jiangsu (No. 140064C)
文摘Point placement of urea is an efficient technology to improve urea use efficiency in transplanted rice(Oryza sativa L.), but it is largely unknown how nutrient composition in the point placement and the distance from placement site to the plant influence rice root distribution and growth, nutrient uptake, and rice grain yield. A controlled greenhouse experiment was conducted using both N-and P-deficient soil with point placement of N only or N and P together(N + P) at a distance close to or far from the plant,in comparison to an N-spilt application and a no-N control. Both nutrient composition and distance significantly affected rice root growth. Compared with the N point placement, the N + P point placement led to smaller root length and mass densities, higher specific root length(SRL) around the placement site, smaller root system, higher straw mass and grain yield, and higher N and P uptake. The difference between the N + P and N point placements was greater when close to the plant than when far from the plant. It is suggested that higher SRL around the placement site is essential for improving nutrient uptake and rice grain yield, and simultaneous point placement of N and P has a synergistic effect on rice growth.
基金supported by the National Key R&D Program of China(No.2018YFA0507700)
文摘Proteins are dynamic,fluctuating between multiple conformational states.Protein dynamics,spanning orders of magnitude in time and space,allow proteins to perform specific functions.Moreover,under certain conditions,proteins can morph into a different set of conformations.Thus,a complete understanding of protein structural dynamics can provide mechanistic insights into protein function.Here,we review the latest developments in methods used to determine protein ensemble structures and to characterize protein dynamics.Techniques including X-ray crystallography,cryogenic electron microscopy,and small angle scattering can provide structural information on specific conformational states or on the averaged shape of the protein,whereas techniques including nuclear magnetic resonance,fluorescence resonance energy transfer(FRET),and chemical cross-linking coupled with mass spectrometry provide information on the fluctuation of the distances between protein domains,residues,and atoms for the multiple conformational states of the protein.In particular,FRET measurements at the single-molecule level allow rapid resolution of protein conformational states,where information is otherwise obscured in bulk measurements.Taken together,the different techniques complement each other and their integrated use can offer a clear picture of protein structure and dynamics.
基金partially supported by National Institute of Health(R21/R33-GM078601 and R01-GM100701)National Science Foundation(MCB-1151343)in the US
文摘Elucidating protein translational regulation is crucial for understanding cellular function and drug development.A key molecule in protein translation is ribosome,which is a super-molecular complex extensively studied for more than a half century.The structure and dynamics of ribosome complexes were resolved recently thanks to the development of X-ray crystallography,Cryo-EM,and single molecule biophysics.Current studies of the ribosome have shown multiple functional states,each with a unique conformation.In this study,we analyzed the RNA-protein distances of ribosome(2.5 MDa)complexes and compared these changes among different ribosome complexes.We found that the RNA-protein distance is significantly correlated with the ribosomal functional state.Thus,the analysis of RNA-protein binding distances at important functional sites can distinguish ribosomal functional states and help understand ribosome functions.In particular,the mechanism of translational attenuation by nascent peptides and antibiotics was revealed by the conformational changes of local functional sites.
基金supported in part by NIH grant R01-GM084028NSF grant CHE-0957285+1 种基金U.S.Department of Energy Genomics:GTL and Sci-DAC Programs (DEFG02-04ER25627)supported in part by the National Science Foundation through a major instrumentation grant (CHE-0840494)
文摘Motivated by several long-lasting mechanistic questions for biomolecular proton pumps,we have engaged in developing hybrid quantum mechanical/molecular mechanical(QM/MM) methods that allow an efficient and reliable description of long-range proton transport in transmembrane proteins.In this review,we briefly discuss several relevant issues:the need to develop a "multi-scale" generalized solvent boundary potential(GSBP) for the analysis of chemical events in large trans-membrane proteins,approaches to validate such a protocol,and the importance of improving the flexibility of QM/MM Hamiltonian.Several recent studies of model and realistic protein systems are also discussed to help put the discussions into context.Collectively,these studies suggest that the QM/MM-GSBP framework based on an approximate density functional theory(SCC-DFTB) as QM holds the promise to strike the proper balance between computational efficiency,accuracy and generality.With additional improvements in the methodology and recent developments by others,especially powerful sampling techniques,this "multi-scale" framework will be able to help unlock the secrets of proton pumps and other biomolecular machines.
文摘Although high quality multiple sequence alignment is an essential task in bioinforma- tics, it becomes a big dilemma nowadays due to the gigantic explosion in the amount of molecular data. The most consuming time and space phase is the distance matrix computation. This paper addresses this issue by proposing a vectorized parallel method that accomplishes the huge number of similarity comparisons faster in less space. Per- formance tests on real biological datasets using core-iT show superior results in terms of time and space.