bluuebunny/crossref_metadata_2025_split huggingface dataset:
CYTOCHROME C OXIDASE: Structure and Spectroscopy
Authors: Michel H. , Behr J. , Harrenga A. , Kannt A. 
Published: July 2002

▪ Abstract  Cytochrome c oxidase, the terminal enzyme of the respiratory chains of mitochondria and aerobic bacteria, catalyzes electron transfer from cytochrome c to molecular oxygen, reducing the latter to water. Electron transfer is coupled to proton translocation across the membrane, resulting in a proton and charge gradient that is then employed by the F0F1-ATPase to synthesize ATP. Over the last years, substantial progress has been made in our understanding of the structure and function of this enzyme. Spectroscopic techniques such as EPR, absorbance and resonance Raman spectroscopy, in combination with site-directed mutagenesis work, have been successfully applied to elucidate the nature of the cofactors and their ligands, to identify key residues involved in proton transfer, and to gain insight into the catalytic cycle and the structures of its intermediates. Recently, the crystal structures of a bacterial and a mitochondrial cytochrome c oxidase have been determined. In this review, we provide an overview of the crystal structures, summarize recent spectroscopic work, and combine structural and spectroscopic data in discussing mechanistic aspects of the enzyme. For the latter, we focus on the structure of the oxygen intermediates, proton-transfer pathways, and the much-debated issue of how electron transfer in the enzyme might be coupled to proton translocation.
FOREST CANOPIES: Methods, Hypotheses, and Future Directions
Authors: Lowman Margaret D. , Wittman Philip K. 
Published: July 2002

▪ Abstract  Forest canopies contain a major portion of the diversity of organisms on Earth and constitute the bulk of photosynthetically active foliage and biomass in forest ecosystems. For these reasons, canopy research has become integral to the management of forest ecosystems, and to our better understanding of global change. Ecological research in forest canopies is relatively recent and has been primarily descriptive in scope. The development of new methods of canopy access has enabled scientists to conduct more quantified research in tree crowns. Studies of sessile organisms, mobile organisms, and canopy interactions and processes have emerged as subdisciplines of canopy biology, each requiring different methods for collecting data. Canopy biology is beginning to shift from a descriptive autecology of individuals to a more complex ecosystem approach, although some types of field work are still limited by access. Questions currently addressed in canopy research are extremely diverse but emphasize comparisons with respect to spatial and temporal variation. Spatial scales range from leaves (e.g. quantifying the number of mites on individual phylloplanes) to trees (e.g. measuring photosynthesis between sun and shade leaves), to forest stands (e.g. measuring turbulence above the canopy), and entire landscapes (e.g. comparing mammals between different forest types). Temporal variation is of particular significance in tropical forest canopies, where populations of organisms and their resources have diurnal, seasonal, or even annual periodicity. As the methods for canopy access improve, more rigorous hypotheses-driven field studies remain a future priority of this newly coalesced discipline.
FLOW CONTROL WITH NONCIRCULAR JETS
Authors: Gutmark E. J. , Grinstein F. F. 
Published: July 2002

▪ Abstract  Noncircular jets have been the topic of extensive research in the last fifteen years. These jets were identified as an efficient technique of passive flow control that allows significant improvements of performance in various practical systems at a relatively low cost because noncircular jets rely solely on changes in the geometry of the nozzle. The applications of noncircular jets discussed in this review include improved large- and small-scale mixing in low- and high-speed flows, and enhanced combustor performance, by improving combustion efficiency, reducing combustion instabilities and undesired emissions. Additional applications include noise suppression, heat transfer, and thrust vector control (TVC). The flow patterns associated with noncircular jets involve mechanisms of vortex evolution and interaction, flow instabilities, and fine-scale turbulence augmentation. Stability theory identified the effects of initial momentum thickness distribution, aspect ratio, and radius of curvature on the initial flow evolution. Experiments revealed complex vortex evolution and interaction related to self-induction and interaction between azimuthal and axial vortices, which lead to axis switching in the mean flow field. Numerical simulations described the details and clarified mechanisms of vorticity dynamics and effects of heat release and reaction on noncircular jet behavior. The research on noncircular jets has also led to technology transfer. A topic that started as an academic curiosity—an interesting flow phenomenon—subsequently has had various industrial applications. The investigations reviewed include experimental, theoretical, numerical, and technological aspects of the subject.
PROGRAMMED TRANSLATIONAL FRAMESHIFTING
Authors: Farabaugh P. J. 
Published: July 2002

▪ Abstract  Errors that alter the reading frame occur extremely rarely during translation, yet some genes have evolved sequences that efficiently induce frameshifting. These sequences, termed programmed frameshift sites, manipulate the translational apparatus to promote non-canonical decoding. Frameshifts are mechanistically diverse. Most cause a −1 shift of frames; the first such site was discovered in a metazoan retrovirus, but they are now known to be dispersed quite widely among evolutionarily diverse species. +1 frameshift sites are much less common, but again dispersed widely. The rarest form are the translational hop sites which program the ribosome to bypass a region of several dozen nucleotides. Each of these types of events are stimulated by distinct mechanisms. All of the events share a common phenomenology in which the programmed frameshift site causes the ribosome to pause during elongation so that the kinetically unfavorable alternative decoding event can occur. During this pause most frameshifts occur because one or more ribosome-bound tRNAs slip between cognate or near-cognate codons. However, even this generalization is not entirely consistent, since some frameshifts occur without slippage. Because of their similarity to rarer translational errors, programmed frameshift sites provide a tool with which to probe the mechanism of frame maintenance.
PROTEIN CRYSTALLIZATION
Authors: Durbin S. D. , Feher G. 
Published: July 2002

▪ Abstract  Crystallization is necessary to obtain the three-dimensional structure of proteins and nucleic acids; it often represents the bottleneck in structure determination. Our understanding of crystallization mechanisms is still incomplete. In this review, we emphasize fundamental aspects of the crystallization process.Protein-protein contacts in crystals are complex, involving a delicate balance of specific and nonspecific interactions. Depending on solution conditions, these interactions can lead to nucleation of crystals or to amorphous aggregation; this stage of crystallization has been successfully studied by light scattering. Post nucleation crystal growth may proceed by mechanisms involving crystal defects or two-dimensional nucleation, as observed by atomic force and interference microscopy. Cessation of growth has been observed but remains incompletely understood. Impurities may play important roles during all stages of crystallization. Phase diagrams can guide optimization of conditions for nucleation and subsequent crystal growth; a theoretical understanding relating these to the intermolecular interactions is beginning to develop.
AUDITORY PSYCHOPHYSICS AND PERCEPTION
Authors: Hirsh Ira J. , Watson Charles S. 
Published: July 2002

▪ Abstract  In this review of auditory psychophysics and perception, we cite some important books, research monographs, and research summaries from the past decade. Within auditory psychophysics, we have singled out some topics of current importance: Cross-Spectral Processing, Timbre and Pitch, and Methodological Developments. Complex sounds and complex listening tasks have been the subject of new studies in auditory perception. We review especially work that concerns auditory pattern perception, with emphasis on temporal aspects of the patterns and on patterns that do not depend on the cognitive structures often involved in the perception of speech and music. Finally, we comment on some aspects of individual differences that are sufficiently important to question the goal of characterizing auditory properties of the typical, average, adult listener. Among the important factors that give rise to these individual differences are those involved in selective processing and attention.
Specialized Neural Systems Underlying Representations of Sequential Movements
Authors: Harrington Deborah L. , Rao Stephen M. , Haaland Kathleen Y. , Bobholz Julie A. , Mayer Andrew R. , Binder Jeffrey R. , Cox Robert W. 
Published: July 2002

Abstract
The ease by which movements are combined into skilled actions depends on many factors, including the complexity of movement sequences. Complexity can be defined by the surface structure of a sequence, including motoric properties such as the types of effectors, and by the abstract or sequence-specific structure, which is apparent in the relations amongst movements, such as repetitions. It is not known whether different neural systems support the cognitive and the sensorimotor processes underlying different structural properties of sequential actions. We investigated this question using whole-brain functional magnetic resonance imaging (fMRI) in healthy adults as they performed sequences of five key presses involving up to three fingers. The structure of sequences was defined by two factors that independently lengthen the time to plan sequences before movement: the number of different fingers (1-3; surface structure) and the number of finger transitions (0-4; sequence-specific structure). The results showed that systems involved in visual processing (extrastriate cortex) and the preparation of sensory aspects of movement (rostral inferior parietal and ventral premotor cortex (PMv)) correlated with both properties of sequence structure. The number of different fingers positively correlated with activation intensity in the cerebellum and superior parietal cortex (anterior), systems associated with sensorimotor, and kinematic representations of movement, respectively. The number of finger transitions correlated with activation in systems previously associated with sequence-specific processing, including the inferior parietal and the dorsal premotor cortex (PMd), and in interconnecting superior temporal-middle frontal gyrus networks. Different patterns of activation in the left and right inferior parietal cortex were associated with different sequences, consistent with the speculation that sequences are encoded using different mnemonics, depending on the sequence-specific structure. In contrast, PMd activation correlated positively with increases in the number of transitions, consistent with the role of this area in the retrieval or preparation of abstract action plans. These findings suggest that the surface and the sequence-specific structure of sequential movements can be distinguished by distinct distributed systems that support their underlying mental operations.
Age Differences in Behavior and PET Activation Reveal Differences in Interference Resolution in Verbal Working Memory
Authors: Jonides John , Marshuetz Christina , Smith Edward E. , Reuter-Lorenz Patricia A. , Koeppe Robert A. , Hartley Alan 
Published: July 2002

Abstract
Older adults were tested on a verbal working memory task that used the item-recognition paradigm. On some trials of this task, response-conflict was created by presenting test-items that were familiar but were not members of a current set of items stored in memory. These items required a negative response, but their familiarity biased subjects toward a positive response. Younger subjects show an interference effect on such trials, and this interference is accompanied by activation of a region of left lateral prefrontal cortex. However, there has been no evidence that the activation in this region is causally related to the interference that the subjects exhibit. In the present study, we demonstrate that older adults show more behavioral interference than younger subjects on this task, and they also show no reliable activation at the same lateral prefrontal site. This leads to the conclusion that this prefrontal site is functionally involved in mediating resolution among conflicting responses or among conflicting representations in working memory.
Visual Discrimination Task Improvement: A Multi-Step Process Occurring During Sleep
Authors: Stickgold Robert , Whidbee Dana , Schirmer Beth , Patel Vipul , Hobson J. Allan 
Published: July 2002

Abstract
Performance on a visual discrimination task shows longterm improvement after a single training session. When tested within 24 hr of training, improvement, was not observed unless subjects obtained at least 6 hr of postraining sleep prior to retesting, in which case improvement was proportional to the amount of sleep in excess of 6 hr. For subjects averaging 8 hr of sleep, overnight improvement was proportional to the amount of slow wave sleep (SWS) in the first quarter of the night, as well as the amount of rapid eye movement sleep (REM) in the last quarter. REM during the intervening 4 hr did not appear to contribute to improvement. A two-step process, modeling throughput as the product of the amount of early SWS and late REM, accounts for 80 percent of intersubject variance. These results suggest that, in the case of this visual discrimination task, both SWS and REM are required to consolidate experience-dependent neuronal changes into a form that supports improved task performance.
Anterior Cingulate and the Monitoring of Response Conflict: Evidence from an fMRI Study of Overt Verb Generation
Authors: Barch Deanna M. , Braver Todd S. , Sabb Fred W. , Noll Douglas C. 
Published: July 2002

Abstract
Studies of a range of higher cognitive functions consistently activate a region of anterior cingulate cortex (ACC), typically posterior to the genu and superior to the corpus collosum. In particular, this ACC region appears to be active in task situations where there is a need to override a prepotent response tendency, when responding is underdetermined, and when errors are made. We have hypothesized that the function of this ACC region is to monitor for the presence of “crosstalk” or competition between incompatible responses. In prior work, we provided initial support for this hypothesis, demonstrating ACC activity in the same region both during error trials and during correct trials in task conditions designed to elicit greater response competition. In the present study, we extend our testing of this hypothesis to task situations involving underdetermined responding. Specifically, 14 healthy control subjects performed a verb-generation task during event-related functional magnetic resonance imaging (fMRI), with the on-line acquisition of overt verbal responses. The results demonstrated that the ACC, and only the ACC, was more active in a series of task conditions that elicited competition among alternative responses. These conditions included a greater ACC response to: (1) Nouns categorized as low vs. high constraint (i.e., during a norming study, multiple verbs were produced with equal frequency vs. a single verb that produced much more frequently than any other); (2) the production of verbs that were weak associates, rather than, strong associates of particular nouns; and (3) the production of verbs that were weak associates for nouns categorized as high constraint. We discuss the implication of these results for understanding the role that the ACC plays in human cognition.
Motor Area Activity During Mental Rotation Studied by Time-Resolved Single-Trial fMRI
Authors: Richter Wolfgang , Somorjai Ray , Summers Randy , Jarmasz Mark , Menon Ravi S. , Gati Joseph S. , Georgopoulos Apostolos P. , Tegeler Carola , Ugurbil Kamil , Kim Seong-Gi 
Published: July 2002

Abstract
The functional equivalence of overt movements and dynamic imagery is of fundamental importance in neuroscience. Here, we investigated the participation of the neocortical motor areas in a classic task of dynamic imagery, Shepard and Metzler's mental rotation task, by time-resolved single-trial functional Magnetic Resonance Imaging (fMRI). The subjects performed the mental-rotation task 16 times, each time with different object pairs. Functional images were acquired for each pair separately, and the onset times and widths of the activation peaks in each area of interest were compared to the response times. We found a bilateral involvement of the superior parietal lobule, lateral premotor area, and supplementary motor area in all subjects; we found, furthermore, that those areas likely participate in the very act of mental rotation. We also found an activation in the left primary motor cortex, which seemed to be associated with the right-hand button press at the end of the task period.
Deficits in Visual Feature Binding Under Isoluminant Conditions
Authors: Lehky Sidney R. 
Published: July 2002

Abstract
The contribution of the magnocellular stream to visual feature binding was examined psychophysically through the use of isoluminant stimuli. Subjects were presented with three briefly flashed colored letters arranged in an array and asked to identify the shape and color of the center letter. The rate of illusory conjunctions was much higher when the letters were isoluminant with a gray background, compared to when the letters were either brighter or dimmer. Over 90% of conjunction errors involved pairing the wrong shape with the correct color, rather than vice versa. Directing attention to the target location with a nonisoluminant cue did not reduce illusory conjunctions. High rates of binding errors under isoluminance are interpreted here in terms of abnormalities in visual form processing rather than an attentional effect. In another experiment designed to examine the role of synchrony in feature binding, the rate of illusory conjunctions was highest when flanking letters were presented before the central target letter and not synchronously.
The Strategic Control of Gaze Direction in the Tower of London Task
Authors: Hodgson Timothy L. , Bajwa Adnan , Owen Adrian M. , Kennard Christopher 
Published: July 2002

Abstract
In this paper, we describe a novel approach to the study of problem solving involving the detailed analysis of natural scanning eye movements during the “one-touch” Tower-of-London (TOL) task. We showed subjects a series of pictures depicting two arrangements of colored balls in pockets within the uper and lower halves of a computer display. The task was to plan (but not to execute)the shortest movement sequence required to rearrange the balls in one half of the display (the workspace)to match the arrangement in the opposite half (the Goalspace)and indicate the minimum number of moves required for problem solution. We report that subjects are more likely to look towards the Goalspace in the initial period after picture presentation, but bias gaze towards the Workspace during the middle of trials. Towards the end of a trial, subjects are once again more likely to fixate the Goalspace. This pattern is found regardless of whether the subjects solve problems by rearranging the balls in the lower or uper visual fields, demonstrating that this strategy correlates with discreate phases in problem solving. A second experiment showed that efficient planners direct their gaze selectively towards the problem critical balls in the workspace. In contrast, Individuals who make errors spend more time looking at irrelevant items and are strongly influenced by the movement strategy needed to solve the preceding problem. We conclude that efficient solution of the TOL requires the capacity to generate and flexibly shift between control sets, including those underlying ocular scanning. The role of working memory and the prefrontal cerebral cortex in the task are discussed.
The Effects of Divided Attention on Encoding- and Retrieval-Related Brain Activity: A PET Study of Younger and Older Adults
Authors: Anderson Nicole D. , Iidaka Tetsuya , Cabeza Roberto , Kapur Shitij , McIntosh Anthony R. , Craik Fergus I. M. 
Published: July 2002

Abstract
Divided attention (DA) disrupts episodic encoding, but has little effect on episodic retrieval. Furthermore, normal aging is associated with episodic memory impairments, and when young adults are made to encode information under DA conditions, their memory performance is reduced and resembles that of old adults working under full attention (FA) conditions. Together, these results suggest a common neurocognitive mechanism by which aging and DA during encoding disrupt memory performance. In the current study, we used PET to investigate younger and older adults' brain activity during encoding and retrieval under FA and DA conditions. In FA conditions, the old adults showed reduced activity in prefrontal regions that younger adults activated preferentially during encoding or retrieval, as well as increased activity in prefrontal regions young adults did not activate. These results indicate that prefrontal functional specificity of episodic memory is reduced by aging. During encoding, DA reduced memory performance, and reduced brain activity in left-prefrontal and medial-temporal lobe regions for both age groups, indicating that DA during encoding interferes with encoding processes that lead to better memory performance. During retrieval, memory performance and retrieval-related brain activity were relatively immune to DA for both age groups, suggesting that DA during retrieval does not interfere with the brain systems necessary for successful retrieval. Finally, left inferior prefrontal activity was reduced similarly by aging and by DA during encoding, suggesting that the behavioral correspondence between these effects is the result of a reduced ability to engage in elaborate encoding operations.
The Representation of Objects in the Human Occipital and Temporal Cortex
Authors: Ishai Alumit , Ungerleider Leslie G. , Martin Alex , Haxby James V. 
Published: July 2002

AbstractRecently, we identified, using fMRI, three bilateral regions in the ventral temporal cortex that responded preferentially to faces, houses, and chairs [Ishai, A., Ungerleider, L. G., Martin, A., Schouten, J. L., & Haxby, J. Y. (1999). Distributed representation of objects in the human ventral visual pathway. Proceedings of the National Academy of Sciences, U.S.A., 96, 9379-9384]. Here, we report differential patterns of activation, similar to those seen in the ventral temporal cortex, in bilateral regions of the ventral occipital cortex. We also found category-related responses in the dorsal occipital cortex and in the superior temporal sulcus. Moreover, rather than activating discrete, segregated areas, each category was associated with its own differential pattern of response across a broad expanse of cortex. The distributed patterns of response were similar across tasks (passive viewing, delayed matching) and presentation formats (photographs, line drawings). We propose that the representation of objects in the ventral visual pathway, including both occipital and temporal regions, is not restricted to small, highly selective patches of cortex but, instead, is a distributed representation of information about object form. Within this distributed system, the representation of faces appears to be less extensive as compared to the representations of nonface objects.