Evidence Inhibition Responds Reactively to the Salience of Distracting Information during Focused Attention

Along with target amplification, distractor inhibition is regarded as a major contributor to selective attention. Some theories suggest that the strength of inhibitory processing is proportional to the salience of the distractor (i.e., inhibition reacts to the distractor intensity). Other theories suggest that the strength of inhibitory processing does not depend on the salience of the distractor (i.e., inhibition does not react to the distractor intensity). The present study aimed to elucidate the relationship between the intensity of a distractor and its subsequent inhibition during focused attention. A flanker task with a variable distractor-target stimulus-onset asynchrony (SOA) was used to measure both distractor interference and distractor inhibition. We manipulated the intensity of the distractor in two separate ways, by varying its distance from the target (Experiment 1) and by varying its brightness (Experiment 2). The results indicate that more intense distractors were associated with both increased interference and stronger distractor inhibition. The latter outcome provides novel support for the reactive inhibition hypothesis, which posits that inhibition reacts to the strength of distractor input, such that more salient distractors elicit stronger inhibition.     

Domain-Specific Control of Selective Attention

Previous research has shown that loading information on working memory affects selective attention. However, whether the load effect on selective attention is domain-general or domain-specific remains unresolved. The domain-general effect refers to the findings that load in one content (e.g. phonological) domain in working memory influences processing in another content (e.g., visuospatial) domain. Attentional control supervises selection regardless of information domain. The domain-specific effect refers to the constraint of influence only when maintenance and processing operate in the same domain. Selective attention operates in a specific content domain. This study is designed to resolve this controversy. Across three experiments, we manipulated the type of representation maintained in working memory and the type of representation upon which the participants must exert control to resolve conflict and select a target into the focus of attention. In Experiments 1a and 1b, participants maintained digits and nonverbalized objects, respectively, in working memory while selecting a target in a letter array. In Experiment 2, we presented auditory digits with a letter flanker task to exclude the involvement of resource competition within the same input modality. In Experiments 3a and 3b, we replaced the letter flanker task with an object flanker task while manipulating the memory load on object and digit representation, respectively. The results consistently showed that memory load modulated distractibility only when the stimuli of the two tasks were represented in the same domain. The magnitude of distractor interference was larger under high load than under low load, reflecting a lower efficacy of information prioritization. When the stimuli of the two tasks were represented in different domains, memory load did not modulate distractibility. Control of processing priority in selective attention demands domain-specific resources.     

Distributed attention and focused attention: different modalities of use

In the present experiments two different attention modalities were investigated: focused and distributed attention. In Experiment 1 manual choice reaction times to lateralized visual stimuli were measured. Visual stimuli (rectangles or squares) were presented in one of six positions along the horizontal axis. In between each position a digit 1 to 5 was permanently displayed. The subjects were instructed to switch their attention to one of the five digits and to respond as fast as possible to the stimulus target flashed either on the right or on the left of the focus of attention. The only difference in Experiment 2 was that the digit stayed on 100 msec only. The results show the importance of a visual cue (Exp. 1) for focused attention. In the absence of a permanent visual cue (Exp. 2) only distributed attention can be employed.     

Word Boundaries Affect Visual Attention in Chinese Reading

In two experiments, we explored attention deployment during the reading of Chinese words using a probe detection task. In both experiments, Chinese readers saw four simplified Chinese characters briefly, and then a probe was presented at one of the character positions. The four characters constituted either one word or two words of two characters each. Reaction time was shorter when the probe was at the character 2 position than the character 3 position in the two-word condition, but not in the one-word condition. In Experiment 2, there were more trials and the materials were more carefully controlled, and the results replicated that of Experiment 1. These results suggest that word boundary information affects attentional deployment in Chinese reading.     

The automatic conservative: ideology-based attentional asymmetries in the processing of valenced information

Research has widely explored the differences between conservatives and liberals, and it has been also recently demonstrated that conservatives display different reactions toward valenced stimuli. However, previous studies have not yet fully illuminated the cognitive underpinnings of these differences. In the current work, we argued that political ideology is related to selective attention processes, so that negative stimuli are more likely to automatically grab the attention of conservatives as compared to liberals. In Experiment 1, we demonstrated that negative (vs. positive) information impaired the performance of conservatives, more than liberals, in an Emotional Stroop Task. This finding was confirmed in Experiment 2 and in Experiment 3 employing a Dot-Probe Task, demonstrating that threatening stimuli were more likely to attract the attention of conservatives. Overall, results support the conclusion that people embracing conservative views of the world display an automatic selective attention for negative stimuli.     

Attentional capture in rapid serial visual presentation

We examined whether attentional capture can occur during an attentional blink (AB). If attention were 'locked up' during an AB, capture should not occur. To test for capture, we varied the salience of the two targets (T1 and T2) or of a distractor. Salience was controlled by adjusting chromaticity at equiluminance to equate simple reaction times. Experiment 1 demonstrated that the extent of AB varied almost entirely with T2 salience, not with T1 salience. In Experiment 2, a salient distractor between T1 and T2 reduced the AB without affecting its temporal profile; a salient distractor after T2 had no effect on AB. We conclude that attentional capture can occur during the AB, and stimulus salience modulates, rather than overriding, the AB. Independent of the post-attentional (consolidation) mechanism primarily responsible for the AB, stimulus salience affects how an attention gate is triggered (Shih, 2000).     

Oculomotor evidence for top-down control following the initial saccade

The goal of the current study was to investigate how salience-driven and goal-driven processes unfold during visual search over multiple eye movements. Eye movements were recorded while observers searched for a target, which was located on (Experiment 1) or defined as (Experiment 2) a specific orientation singleton. This singleton could either be the most, medium, or least salient element in the display. Results were analyzed as a function of response time separately for initial and second eye movements. Irrespective of the search task, initial saccades elicited shortly after the onset of the search display were primarily salience-driven whereas initial saccades elicited after approximately 250 ms were completely unaffected by salience. Initial saccades were increasingly guided in line with task requirements with increasing response times. Second saccades were completely unaffected by salience and were consistently goal-driven, irrespective of response time. These results suggest that stimulus-salience affects the visual system only briefly after a visual image enters the brain and has no effect thereafter.     

Event-Related Potentials Dissociate Effects of Salience and Space in Biased Competition for Visual Representation

Background

Selective visual attention is the process by which the visual system enhances behaviorally relevant stimuli and filters out others. Visual attention is thought to operate through a cortical mechanism known as biased competition. Representations of stimuli within cortical visual areas compete such that they mutually suppress each others'' neural response. Competition increases with stimulus proximity and can be biased in favor of one stimulus (over another) as a function of stimulus significance, salience, or expectancy. Though there is considerable evidence of biased competition within the human visual system, the dynamics of the process remain unknown.

Methodology/Principal Findings

Here, we used scalp-recorded electroencephalography (EEG) to examine neural correlates of biased competition in the human visual system. In two experiments, subjects performed a task requiring them to either simultaneously identify two targets (Experiment 1) or discriminate one target while ignoring a decoy (Experiment 2). Competition was manipulated by altering the spatial separation between target(s) and/or decoy. Both experimental tasks should induce competition between stimuli. However, only the task of Experiment 2 should invoke a strong bias in favor of the target (over the decoy). The amplitude of two lateralized components of the event-related potential, the N2pc and Ptc, mirrored these predictions. N2pc amplitude increased with increasing stimulus separation in Experiments 1 and 2. However, Ptc amplitude varied only in Experiment 2, becoming more positive with decreased spatial separation.

Conclusions/Significance

These results suggest that N2pc and Ptc components may index distinct processes of biased competition—N2pc reflecting visual competitive interactions and Ptc reflecting a bias in processing necessary to individuate task-relevant stimuli.     

Folding and domain-domain interactions of the chaperone PapD measured by 19F NMR

The folding of the two-domain bacterial chaperone PapD has been studied to develop an understanding of the relationship between individual domain folding and the formation of domain-domain interactions. PapD contains six phenylalanine residues, four in the N-terminal domain and two in the C-terminal domain. To examine the folding properties of PapD, the protein was both uniformly and site-specifically labeled with p-fluoro-phenylalanine ((19)F-Phe) for (19)F NMR studies, in conjunction with those of circular dichroism and fluorescence. In equilibrium denaturation experiments monitored by (19)F NMR, the loss of (19)F-Phe native intensity for both the N- and C-terminal domains shows the same dependence on urea concentration. For the N-terminal domain the loss of native intensity is mirrored by the appearance of separate denatured resonances. For the C-terminal domain, which contains residues Phe 168 and Phe 205, intermediate as well as denatured resonances appear. These intermediate resonances persist at denaturant concentrations well beyond the loss of native resonance intensity and appear in kinetic refolding (19)F NMR experiments. In double-jump (19)F NMR experiments in which proline isomerization does not affect the refolding kinetics, the formation of domain-domain interactions is fast if the protein is denatured for only a short time. However, with increasing time of denaturation the native intensities of the N- and C-terminal domains decrease, and the denatured resonances of the N-terminal domain and the intermediate resonances of the C-terminal domain accumulate. The rate of loss of the N-terminal domain resonances is consistent with a cis to trans isomerization process, indicating that from an equilibrium denatured state the slow refolding of PapD is due to the trans to cis isomerization of one or both of the N-terminal cis proline residues. The data indicate that both the N- and C-terminal domains must fold into a native conformation prior to the formation of domain-domain interactions.     

Regulation of Sos Activity by Intramolecular Interactions

The guanine nucleotide exchange factor Sos mediates the coupling of receptor tyrosine kinases to Ras activation. To investigate the mechanisms that control Sos activity, we have analyzed the contribution of various domains to its catalytic activity. Using human Sos1 (hSos1) truncation mutants, we show that Sos proteins lacking either the amino or the carboxyl terminus domain, or both, display a guanine nucleotide exchange activity that is significantly higher compared with that of the full-length protein. These results demonstrate that both the amino and the carboxyl terminus domains of Sos are involved in the negative regulation of its catalytic activity. Furthermore, in vitro Ras binding experiments suggest that the amino and carboxyl terminus domains exert negative allosteric control on the interaction of the Sos catalytic domain with Ras. The guanine nucleotide exchange activity of hSos1 was not augmented by growth factor stimulation, indicating that Sos activity is constitutively maintained in a downregulated state. Deletion of both the amino and the carboxyl terminus domains was sufficient to activate the transforming potential of Sos. These findings suggest a novel negative regulatory role for the amino terminus domain of Sos and indicate a cooperation between the amino and the carboxyl terminus domains in the regulation of Sos activity.     

Distractor effects upon habituation of complex stimuli

In two experiments, rats were given serial forward (the target followed by the distractor) or backward (the distractor followed by the target) exposure to two compound flavor stimuli that could be either similar (Salt-X/AX) or dissimilar (Salt-X/AY, Experiment 1; Salt/AX, Experiment 2). Following pre-exposure, the Salt element was presented in a compound with a novel flavor, N. The salience or effectiveness of the Salt element was then assessed by presenting the new flavor, N, under a state of salt appetite. Experiments 1 and 2 revealed that the order of presentation modulated the habituation of the Salt element only when the distractor was similar to the target: the Salt element was more salient after forward than backward pre-exposure. In the groups Dissimilar the order of pre-exposure was irrelevant; however, when the Salt element was presented in compound with a second element (Salt-X, Experiment 1), its salience was preserved, whereas when it was presented alone (Salt, Experiment 2) its salience was significantly reduced. These results, which are discussed in terms of Wagner (1981) theory of habituation, inform about the way in which stimuli presented closely in time are processed.     

Effects of Haptic Information on the Perception of Dynamic 3-D Movement

This study examined effects of hand movement on visual perception of 3-D movement. I used an apparatus in which a cursor position in a simulated 3-D space and the position of a stylus on a haptic device could coincide using a mirror. In three experiments, participants touched the center of a rectangle in the visual display with the stylus of the force-feedback device. Then the rectangle''s surface stereoscopically either protruded toward a participant or indented away from the participant. Simultaneously, the stylus either pushed back participant''s hand, pulled away, or remained static. Visual and haptic information were independently manipulated. Participants judged whether the rectangle visually protruded or dented. Results showed that when the hand was pulled away, subjects were biased to perceive rectangles indented; however, when the hand was pushed back, no effect of haptic information was observed (Experiment 1). This effect persisted even when the cursor position was spatially separated from the hand position (Experiment 2). But, when participants touched an object different from the visual stimulus, this effect disappeared (Experiment 3). These results suggest that the visual system tried to integrate the dynamic visual and haptic information when they coincided cognitively, and the effect of haptic information on visually perceived depth was direction-dependent.     

Sequential Grouping Modulates the Effect of Non-Simultaneous Masking on Auditory Intensity Resolution

The presence of non-simultaneous maskers can result in strong impairment in auditory intensity resolution relative to a condition without maskers, and causes a complex pattern of effects that is difficult to explain on the basis of peripheral processing. We suggest that the failure of selective attention to the target tones is a useful framework for understanding these effects. Two experiments tested the hypothesis that the sequential grouping of the targets and the maskers into separate auditory objects facilitates selective attention and therefore reduces the masker-induced impairment in intensity resolution. In Experiment 1, a condition favoring the processing of the maskers and the targets as two separate auditory objects due to grouping by temporal proximity was contrasted with the usual forward masking setting where the masker and the target presented within each observation interval of the two-interval task can be expected to be grouped together. As expected, the former condition resulted in a significantly smaller masker-induced elevation of the intensity difference limens (DLs). In Experiment 2, embedding the targets in an isochronous sequence of maskers led to a significantly smaller DL-elevation than control conditions not favoring the perception of the maskers as a separate auditory stream. The observed effects of grouping are compatible with the assumption that a precise representation of target intensity is available at the decision stage, but that this information is used only in a suboptimal fashion due to limitations of selective attention. The data can be explained within a framework of object-based attention. The results impose constraints on physiological models of intensity discrimination. We discuss candidate structures for physiological correlates of the psychophysical data.     

An examination of dynamics crosstalk between SH2 and SH3 domains by hydrogen/deuterium exchange and mass spectrometry

The ability of proteins to regulate their own enzymatic activity can be facilitated by changes in structure or protein dynamics in response to external regulators. Because many proteins contain SH2 and SH3 domains, transmission of information between the domains is a potential method of allosteric regulation. To determine if ligand binding to one modular domain may alter structural dynamics in an adjacent domain, allowing potential transmission of information through the protein, we used hydrogen exchange and mass spectrometry to measure changes in protein dynamics in the SH3 and SH2 domains of hematopoietic cell kinase (Hck). Ligand binding to either domain had little or no effect on hydrogen exchange in the adjacent domain, suggesting that changes in protein structure or dynamics are not a means of SH2/SH3 crosstalk. Furthermore, ligands of varying affinity covalently attached to SH3/SH2 altered dynamics only in the domain to which they bind. Such results demonstrate that ligand binding may not structurally alter adjacent SH3/SH2 domains and implies that other aspects of protein architecture contribute to the multiple levels of regulation in proteins containing SH3 and SH2 domains.     

A fast and accurate procedure to collect and analyze unfolding fluorescence signal: the case of dystroglycan domains

Monitoring the fluorescence signal upon unfolding often represents a very effective method to rapidly retrieve the first preliminary structural information on a protein domain. The relationship between intrinsic fluorescence signals and unfolding of proteins are discussed, including several practical considerations for properly setting fluorescence experiments and the phenomenological equations required to analyze the spectra. In particular, a fast and accurate method which allows to minimize the deleterious effect of photobleaching is provided. A number of unfolding reactions relative to immunoglobulins (IgG and IgM) and to the different domains of the adhesion molecule dystroglycan are presented. Special attention is dedicated to a alpha-dystroglycan immunoglobulin-like domain showing a "reverse" behavior of the fluorescence signal as a function of the denaturing agent concentration.     

Evaluation of local field potential signals in decoding of visual attention

In the field of brain research, attention as one of the main issues in cognitive neuroscience is an important mechanism to be studied. The complicated structure of the brain cannot process all the information it receives at any moment. Attention, in fact, is considered as a possible useful mechanism in which brain concentrates on the processing of important information which is required at any certain moment. The main goal of this study is decoding the location of visual attention from local field potential signals recorded from medial temporal (MT) area of a macaque monkey. To this end, feature extraction and feature selection are applied in both the time and the frequency domains. After applying feature extraction methods such as the short time Fourier transform, continuous wavelet transform (CWT), and wavelet energy (scalogram), feature selection methods are evaluated. Feature selection methods used here are T-test, Entropy, receiver operating characteristic, and Bhattacharyya. Subsequently, different classifiers are utilized in order to decode the location of visual attention. At last, the performances of the employed classifiers are compared. The results show that the maximum information about the visual attention in area MT exists in the low frequency features. Interestingly, low frequency features over all the time-axis and all of the frequency features at the initial time interval in the spectrogram domain contain the most valuable information related to the decoding of spatial attention. In the CWT and scalogram domains, this information exists in the low frequency features at the initial time interval. Furthermore, high performances are obtained for these features in both the time and the frequency domains. Among different employed classifiers, the best achieved performance which is about 84.5 % belongs to the K-nearest neighbor classifier combined with the T-test method for feature selection in the time domain. Additionally, the best achieved result (82.9 %) is related to the spectrogram with the least number of selected features as large as 200 features using the T-test method and SVM classifier in the time−frequency domain.     

A novel structure-based encoding for machine-learning applied to the inference of SH3 domain specificity

MOTIVATION: Unravelling the rules underlying protein-protein and protein-ligand interactions is a crucial step in understanding cell machinery. Peptide recognition modules (PRMs) are globular protein domains which focus their binding targets on short protein sequences and play a key role in the frame of protein-protein interactions. High-throughput techniques permit the whole proteome scanning of each domain, but they are characterized by a high incidence of false positives. In this context, there is a pressing need for the development of in silico experiments to validate experimental results and of computational tools for the inference of domain-peptide interactions. RESULTS: We focused on the SH3 domain family and developed a machine-learning approach for inferring interaction specificity. SH3 domains are well-studied PRMs which typically bind proline-rich short sequences characterized by the PxxP consensus. The binding information is known to be held in the conformation of the domain surface and in the short sequence of the peptide. Our method relies on interaction data from high-throughput techniques and benefits from the integration of sequence and structure data of the interacting partners. Here, we propose a novel encoding technique aimed at representing binding information on the basis of the domain-peptide contact residues in complexes of known structure. Remarkably, the new encoding requires few variables to represent an interaction, thus avoiding the 'curse of dimension'. Our results display an accuracy >90% in detecting new binders of known SH3 domains, thus outperforming neural models on standard binary encodings, profile methods and recent statistical predictors. The method, moreover, shows a generalization capability, inferring specificity of unknown SH3 domains displaying some degree of similarity with the known data.     

Functional plasticity of CH domains

With the refinement of algorithms for the identification of distinct motifs from sequence databases, especially those using secondary structure predictions, new protein modules have been determined in recent years. Calponin homology (CH) domains were identified in a variety of proteins ranging from actin cross-linking to signaling and have been proposed to function either as autonomous actin binding motifs or serve a regulatory function. Despite the overall structural conservation of the unique CH domain fold, the individual modules display a quite striking functional variability. Analysis of the actopaxin/parvin protein family suggests the existence of novel (type 4 and type 5) CH domain families which require special attention, as they appear to be a good example for how CH domains may function as scaffolds for other functional motifs of different properties.     

Explanatory pluralism in evolutionary biology

The ontological dependence of one domain on another is compatible with the explanatory autonomy of the less basic domain. That autonomy results from the fact that the relationship between two domains can be very complex. In this paper I distinguish two different types of complexity, two ways the relationship between domains can fail to be transparent, both of which are relevant to evolutionary biology. Sometimes high level explanations preserve a certain type of causal or counterfactual information which would be lost at the lower level; I argue that this is central to the proper understanding of the adaptationist program. Sometimes high level kinds are multiply realised by lower level kinds: I argue that this is central to the understanding of macroevolution.