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Schneider, D.

Publications and source records attributed to Schneider, D..

At least 19 recordsLinked to original sources

Why Is Spontaneous Blink Timing Informative? An Adaptive Scheduling Perspective

Spontaneous eye blinks have long been linked to cognitive processing, yet how task demands shape blink timing and its relationship to behavioral performance remains unclear. We examined spontaneous blink behavior in 576 adults performing two variants of the Continuous Performance Task (CPT). Blink occurrence and timing were most strongly modulated by the experimental condition in the more demanding CPT-AX task, whereas their association with response time was stronger in the CPT-X task, where more consistent blink timing predicted faster responses. This dissociation suggests that task structure changes not only blink behavior but also the behavioral relevance of blink timing. These findings are consistent with an adaptive scheduling account of spontaneous blinking and provide a conceptual framework for understanding when and why blink timing contains chronometric information about ongoing cognition.

neuroscience↗

Mentally transformed representations in memory are linked to their originals

Working memory is an active workspace for manipulating encoded information. Neural decoding studies show that following mental transformation, the encoded original remains represented alongside the transformation product despite offering little to no functional merit. To test why, we employed multivariate EEG-decoding while participants mentally rotated a memorized orientation grating, encoded an additional grating, and were finally retro-cued whether the rotation product or the additional item would be probed. This tested whether retention of the original reflected (1) perceptual encoding, (2) deep encoding and persistent storage, or (3) a link to the transformation product. The original was decodable after rotation, and encoding an additional item, suggesting its retention was not merely perceptual. Next, contingent on the retrocue, the original and rotation product were retained or dropped together: the original remained decodable only when the rotation product was selected. Therefore, the original did not persist because it was deeply encoded; its retention depended on attentional selection of the transformation product. Yet, we found no evidence that retaining the original was beneficial. Our results show that mental transformation links the transformation product to its source representation, reflecting a dependent representational structure. We speculate that this structure may afford behavioral flexibility in dynamic environments.

neuroscience↗

Spontaneous eye blinks as temporal markers of internal attention

While eye blinks interrupt the flow of visual information, their timing may reveal the temporal organisation of cognitive processing. Here, we asked whether the temporal distribution of blinks across trials provides a time-resolved signature of attentional focusing in working memory. In Experiment 1, blink-locked EEG analyses showed that blink timing was aligned with neural activity reflecting attentional focusing on a relevant memory representation. In Experiment 2, participants remembered the same visual information across conditions, but the relevant item was cued either early during storage, or later with presentation of the memory probe. Blink-frequency profiles shifted accordingly, increasing after the cue when selection was possible early and after the probe when selection was delayed. Post-cue blinks in the early-selection condition were also associated with better memory performance. Thus, our findings establish eye-blink frequency profiles as an unobtrusive chronometric signal for tracking latent cognitive processing in settings where neuroimaging is not feasible.

neuroscience↗

Enriching the Human Stool Microeukaryotes for Shotgun Sequencing

The human gut microbiome harbours a diverse community of microeukaryotes, predominantly fungi, which may potentially play important roles in gut ecology and homeostasis. Despite their potential, the study of gut microeukaryotes has been hampered by the limited sensitivity of standard sequencing approaches, which struggle to capture DNA from low-abundance microorganisms against the overwhelming background of bacterial biomass. To address this, we developed a method to selectively enrich for microeukaryotic cells in human faecal samples by depleting bacterial cells prior to metagenomic sequencing. Through systematic comparison and optimisation at each processing step, we established a robust standard operating procedure (SOP) for microeukaryotic cell enrichment. By benchmarking this SOP across eight human faecal samples with three technical replicates each, we showed that it consistently increased microeukaryote representation in metagenomic libraries, greater microeukaryotic taxonomic diversity, and a reduced proportion of unclassified taxa. Together, these improvements enabled substantially deeper characterisation of the microeukaryotic fraction of the human gut microbiome.

microbiology↗

pamiR: INVESTIGATING PLANT CELLS ONE ORGANELLE AT A TIME

Functional genetic redundancy (FGR) within gene families limits the discovery of gene function in plants because single-gene perturbations often fail to produce informative phenotypes. Artificial microRNAs (amiRNAs) provide a strategy to silence multiple related genes simultaneously. However, the existing amiRNA-based libraries used for genetic gene function discovery in plants do not account for the subcellular localization of gene products, which can lead to pleiotropic or difficult-to-interpret phenotypes. Plastids are essential plant cell organelles that integrate central metabolic and signaling processes, including photosynthesis, hormone biosynthesis, and environmental responses. Here we introduce pamiR, a plastid-targeted amiRNA library designed to enable organelle-specific gene function discovery in Arabidopsis thaliana. Using plastid proteomic datasets, we identified high-confidence plastid-localized proteins and designed amiRNAs to target their gene(s) (families) minimizing FGR. This amiRNA library was introduced in a vector with fluorescence-accumulating seed technology enabling rapid, herbicide-free selection and screening in the first generation. Validation by next-generation sequencing, confirmed high representation and uniform distribution of amiRNAs within pamiR. Proof-of-concept screens recovered mutants affecting known and additional candidate genes involved in photosynthesis and abscisic acid biosynthesis. Therefore, the pamiR library provides a fast platform for plastid-focused genetic screens that is compatible with existing mutant collections. One-sentence summaryThe plastid amiRNA (pamiR) library enables organelle-specific forward genetics without functional genetic redundancy.

plant biology↗

Investigating Effects of Outcome Controllability and Error Attribution on Proactive Attentional Control: Insights from EEG and Cognitive Modelling

Sense of agency (SoA), the experience of controlling ones actions and their consequences, is crucial for self-representation and adaptive goal-directed behavior. Classic comparator models explain SoA as the match between predicted and actual sensorimotor outcomes, whereas inference-based and Bayesian accounts emphasize cue integration and probabilistic weighting. Besides the influence of action-outcome contingencies on SoA, the feedback effect of perceived SoA on cognitive processing is also crucial for cognitive performance. Much of todays cognitive work is performed through interaction with devices that are not entirely reliable or are prone to operator error. Against this background, it is of particular interest whether the impact of an expectancy violation differs depending on whether the outcome is attributed to a malfunctioning system or to ones own mistake. To investigate this, the present EEG study deploys manipulated performance feedback in a color-discrimination task, while EEG was recorded. Thirty-five participants performed in this task with periods of veridical feedback, periods with feedback simulating an increased error rate, and periods of feedback suggesting malfunctioning response buttons. Behavioral performance was decomposed using the EZ-diffusion model, and time-frequency EEG analyses focused on event-related alpha, beta, and theta oscillations. The participants responded significantly slower in the self-attribution of errors condition compared to neutral feedback, and also significantly slower in the system-attribution of errors condition compared to self-attribution of errors. Decomposing behavior using drift-diffusion modeling indicates that a general decrease of response times with manipulated feedback can be attributed to decreased drift rates, whereas the difference between the self and system error conditions are reflected in the non-decision time. In the EEG, the manipulated feedback was reflected in attenuated decreases of occipital alpha and sensorimotor beta power during the cue-target interval. Furthermore, system-versus self-attributed errors elicited stronger feedback-locked midfrontal theta responses. Our findings suggest a functional dissociation within the agency inference process, where perceived controllability regulates preparatory investment of cognitive resources, while the attribution of action-outcome discrepancies seem to modulate sensory processes or motor-execution.

neuroscience↗

The structured hairpin region of the bacterial ESCRT-III protein IM30 orchestrates stress-induced condensate formation

Biomolecular condensates are well characterized in eukaryotes, but their role in bacteria remains largely elusive. In the cyanobacteriumn Synechocystis sp. PCC 6803, the protein IM30, a member of the ESCRT-III superfamily of membrane remodeling proteins, forms stress-induced puncta across diverse environmental challenges, indicating a general adaptive response. Live-cell imaging reveals that IM30 is uniformly distributed throughout the cytoplasm at low concentrations but assembles into puncta upon exceeding a critical saturation threshold, a hallmark of liquid-liquid phase separation. Crucially, stress triggers puncta formation even below this threshold, suggesting stress lowers the phase-separation barrier. Super-resolution microscopy confirms spherical, condensate-like morphologies, while FRAP demonstrates rapid fluorescence recovery, consistent with with a fluid interior and dynamic exchange between puncta and the cytosol. Cellular IM30 levels exceed the in vitro determined critical concentration, placing the protein in a supersaturated state primed for condensation. Domain mapping identifies the structured 1-3 helical hairpin as the minimal phase separation driver; in contrast, the disordered 4-6 segment alone cannot phase-separate. Phase separation occurs within a physiologically relevant pH range (4.5-6.5), matching the localized acidification of the cyanobacterial cytoplasm at damaged thylakoid membranes. This directly links membrane stress, pH changes, and IM30 recruitment. Collectively, these findings establish IM30 puncta as bona fide, stress-responsive biomolecular condensates that function as rapid stress sensors and effectors, providing a mechanistic framework for phase separation and condensate formation by bacterial ESCRT-III proteins during environmental adaptation.

biochemistry↗

Diffuse predictions stabilize and reshape the neural code during working memory encoding

Predictions can alter working memory (WM) representations. However, its effects may have been mischaracterized due to the use of precise predictions in previous experiments, where exact properties of upcoming memory items are cued in advance. Here we investigated a more ecologically valid scenario, in which we assessed the impact of diffuse predictions, where advance cues provided only partial knowledge about the targets. To investigate the resultant nature of the target representations in WM, we performed a series of multivariate analyses of EEG data. Forty participants judged whether a probe grating was rotated clockwise or counterclockwise relative to a memorized orientation, which was either predictable or unpredictable. Each memory item was preceded by a central color cue (red, green, or blue). In half of the trials, two of these (predictive) colors cued two non-overlapping 90{degrees} segments of orientations that the grating was sampled from. Thus, participants knew the range of possible orientations of these items, but not their exact orientation. In the other half of the trials, a third (non-predictive) color was presented, signaling that the item could have any possible orientation. Behavioral results revealed higher accuracy for predictable items, with systematic biases toward the center of the cued segment. EEG results revealed equally successful decoding of orientation for both predictable and unpredictable items during memory encoding. However, cross-condition decoding was significantly weaker than within-condition decoding, suggesting that the encoding format changed between conditions. Representational similarity analysis showed higher similarity between predictable items, with a representational bias towards the cued segment. Covariance matrices showed lower variance for predictable items while the representational space of predictable items was shrunk. These effects were absent during the maintenance phase. Together, our findings suggest that diffuse predictions alter the geometric layout of the neural representations and stabilize the neural code during WM encoding.

neuroscience↗

Neural reinstatement of features in audiovisual working memory indicatesobject-based retrieval

Selective attention allows us to prioritize or retrieve task-relevant features and items from working memory. However, previous work has largely relied on unisensory paradigms, leaving open the question of how attentional mechanisms act on audiovisual working memory representations. Here, using an EEG-based audiovisual delayed-match-to-sample task, we investigate whether attention to audiovisual working memory contents operates on the level of individual unisensory features or bound cross-modal objects. On each trial, participants memorized an audiovisual item. At test, they were randomly presented with either an auditory, visual, or an audiovisual probe stimulus and indicated whether the latter matched their working memory content. Compared with recalling the entire audiovisual object, recall of unisensory visual or auditory features resulted in poorer behavioral performance and elevated midfrontal theta power. Multivariate pattern analyses (MVPA) showed that task-irrelevant feature representations were retrieved in both auditory and visual probe trials, consistent with object-based retrieval. Moreover, these results shed light on the representational structure underlying cross-modal feature storage in working memory, suggesting that audiovisual features are stored as bound objects and that attentional selection of individual object features in one modality spreads to cross-modal object features in another modality. In task conditions where such incidental recall of task-irrelevant features is detrimental to task performance, this places greater demands on cognitive control mechanisms.

neuroscience↗

PlantCV v4: Image analysis software for high-throughput plant phenotyping

PlantCV is an open-source Python project aimed at developing tools to address a range of image-based, plant phenotyping questions. PlantCV has been used for more than 10 years to automate trait collection from image data and the newest release, PlantCV version 4, continues to lower the barrier to entry for users without substantial coding experience through extensive example use-case tutorials and simplified installation. In addition to usability, we document added functionality since the release of PlantCV v2, including support for more image types such as fluorescence, thermal, and hyperspectral data. Finally, we describe the development of a new subpackage focused on morphological trait measurements like leaf angle, and demonstrate its utility as compared to more manual methods of data collection. CORE IDEASO_LIPlantCV is an open-source, open-development, Python-based software package that has a new release for improved functionality and usability to make image analysis flexible and easier for researchers without a coding background. C_LIO_LIPlantCV is now capable of handling new data types that are relevant to researchers, such as thermal and hyperspectral, and has built in functionality for extracting information from these image types. C_LIO_LIThe software project aims to lower the barrier to entry into image analysis for researchers by providing numerous, versioned, interactive tutorials that cover most common use cases, particularly in plant science. C_LI

plant biology↗

Membrane binding of a cyanobacterial ESCRT-III protein crucially involves the helix α1-3 hairpin conserved in all superfamily members

IM30, the inner membrane-associated protein of 30 kDa (also known as Vipp1) is essential for thylakoid membrane biogenesis and/or maintenance in chloroplasts and cyanobacteria. IM30 and its bacterial homolog PspA belong to the ESCRT-III superfamily, proteins previously thought to be restricted to eukaryotes and archaea. Despite low sequence similarity, IM30 shares key structural and functional features with eukaryotic ESCRT-IIIs, including a conserved 1-2 helical hairpin core and the ability to form oligomeric barrel- or rod assemblies that mediate membrane remodeling. Using IM30 variants, we now show that initial membrane recruitment of IM30 is driven by electrostatic interactions between the positively charged 1-3 helical hairpin and negatively charged lipid surfaces, paralleling the role of charged helical regions in some eukaryotic ESCRT-IIIs. This likely initiates lateral assembly of IM30 into higher-order barrel or rod structures on the membrane. Once assembled, 0 helices within these oligomers engage and stabilize internalized membrane tubules, mirroring membrane interaction strategies of eukaryotic ESCRT-IIIs, which use both N-terminal sequences and charged residues on 1/2. Thus, our findings demonstrate a conserved membrane binding and remodeling mechanism across the ESCRT-III superfamily, underscoring an evolutionary link in membrane dynamics between pro- and eukaryotes. SignificanceIM30, a membrane-associated protein found in cyanobacteria and chloroplasts, along with its bacterial homolog PspA, belongs to the ESCRT-III superfamily. Despite low sequence conservation, these proteins share structural and functional features with eukaryotic ESCRT-III proteins. We show that IM30 binds membranes via a conserved structural motif, followed by lateral assembly into higher-order complexes. This supports a mechanism of membrane remodeling that is conserved in prokaryotic and eukaryotic members of the ESCRT-III superfamily.

biochemistry↗

The bacterial ESCRT-III PspA rods thin lipid tubules and and increase membrane curvature through helix α0 interactions

The phage shock protein A (PspA), a bacterial member of the ESCRT-III superfamily, forms rod-shaped helical assemblies that internalize membrane tubules. The N-terminal helix 0 of PspA (and other ESCRT-III members) has been suggested to act as a membrane anchor, the detailed mechanism, however, of how it binds to membranes and eventually triggers membrane fusion and/or fission events remains unclear. By solving a total of 15 cryo-electron microscopy (cryo-EM) structures of PspA and a truncation lacking the N-terminal helix 0 in the presence of EPL membranes, we show in molecular detail how PspA interacts with and remodels membranes: binding of the N-terminal helix 0 in the outer tubular membrane leaflet induces membrane curvature, supporting membrane tubulation by PspA. Detailed molecular dynamics simulations and free energy computations of interactions between the helix 0 and negatively charged membranes suggest a compensating mechanism between helix/membrane interactions and the energy contributions required for membrane bending. The energetic considerations are in line with the membrane structures observed in the cryo-EM images of tubulated membrane vesicles, fragmented vesicles inside tapered PspA rods, and shedded vesicles emerging at the thinner PspA rod ends. Our results provide insights into the molecular determinants and a potential mechanism of vesicular membrane remodeling mediated by a member of the ESCRT-III superfamily. SummaryThe rods of bacterial ESCRT-III protein PspA internalize and thin membrane tubules by overcoming the required bending energy through progressive membrane binding of the N-terminal helix in the PspA assembly.

biophysics↗

Time-resolved effects of cold atmospheric plasma on E. coli GW-AmxH19 transcriptome and proteome in an emulated wastewater environment

Cold atmospheric plasma (CAP) has been shown to be effective against a variety of microorganisms. In this study, we described effects on an Escherichia coli strain isolated from hospital wastewater caused by a treatment with physical plasma. E. coli GW-AmxH19 was incubated in artificial wastewater and treated for 15 minutes with CAP. Transcriptomes and proteomes were monitored at different timepoints within a 24 h period to differentiate between immediate physiological responses and adaptations in the recovery phase. Reduction of viable cells was on average at 90%. The short-term response of the surviving cells to physical plasma aims at repairing and protecting cellular structures from plasma-induced damages, mainly provoked by reactive oxygen and nitrogen species. Notably, CAP induced a temporary transcription of genes from a conjugative plasmid carrying antibiotic resistance determinants. The late response during recovery phase is dominated by a massive activation of two prophages turning cold plasma treatment into a novel possible strategy to induce the lytic cycle of prophages. This study is the first report on the combined analysis of transcriptional and translational effects of CAP on an environmental bacterial isolate in a time-resolved manner. Chances and risks of considering CAP as an additional purification step in wastewater treatment plants are depicted and discussed.

microbiology↗

Tracking neural representations of attended and unattended features in multisensory working memory over time

Working memory supports goal-directed behavior by maintaining task-relevant information. However, a growing number of studies shows that even task-irrelevant features are automatically encoded and can interfere with the recall of task-relevant information. While this phenomenon is well documented in unisensory contexts, it remains unclear whether and how task-irrelevant information persists in multisensory working memory. We examine the role of cross-modal binding by tracking the dynamic neural representation of audio-visual objects under varying selective attention conditions, using an EEG-based audio-visual delayed-match-to-sample task. Participants attended to either auditory or visual features (selective attention), or to both features (conjunction) of two sequential audio-visual items and subsequently compared those task-relevant features to an audio-visual probe. Further, to investigate the influence of bottom-up factors on cross-modal binding, we manipulated spatial congruency by presenting both features from either the same (i.e., in the center) or from disparate positions. Behaviorally, task-irrelevant features interfered with performance even under selective attention, consistent with automatic cross-modal binding and encoding into working memory. This interference was even stronger with spatially disparate presentation, suggesting that bottom-up attentional dynamics strengthen cross-modal bindings and their subsequent storage. Condition-level representational similarity analysis (RSA) showed that EEG activity patterns under selective attention more closely resembled those of conjunction trials than unisensory trials, indicating that task-irrelevant features were incorporated into multisensory object-level representations. This conjunction-similarity persisted in attend-visual trials, but declined over time in attend-auditory trials, reflecting partial filtering of task-irrelevant orientations. Crucially, activity patterns never shifted fully towards an auditory-only profile, indicating that irrelevant visual features were not fully excluded. In addition, feature-level RSA corroborated that both sound frequency-specific and orientation-specific information were present in EEG activity patterns, irrespective of the attended modality. Overall, these results demonstrate the persistence of task-irrelevant information in multisensory working memory and offer critical insights into how attentional processes shape its representational architecture.

neuroscience↗

Motor control processes moderate visual working memory gating

Gating processes that regulate sensory input into visual working memory (WM) and the execution of planned actions share neural mechanisms, suggesting a mutual interaction. In a preregistered study (OSF), we examined how this interaction may result in sensory interference during WM storage using a delayed-match-to-sample task. Participants (12 male, 20 female) memorized the color of a target stimulus for later report on a color wheel. The shape of the target indicated which hand they would adjust the color wheel with. During the retention interval, an interference task was presented, requiring a response with either the same or different hand as the main task. In half of the interference trials, the interfering task cue was also colored to introduce visual interference. EEG results showed early motor planning during sensory encoding, evidenced by mu/beta suppression contralateral to the responding hand. The interference task only impaired WM performance when it included an irrelevant color, indicating that the interference effect was primarily driven by the irrelevant sensory information. In addition, color reporting in the WM task was biased toward the irrelevant color. This was more pronounced when both tasks were performed with the same hand, suggesting a selective gating mechanism dependent on motor control processes. This effect was mitigated by a control mechanism, which was evident in frontal theta activity, where higher power predicted lower bias on the single-trial level. Our findings thus reveal that sensory WM updating can be induced by interfering motor actions, which can be compensated by a reactive control mechanism. SIGNIFICANCE STATEMENTWorking memory is increasingly recognized not just as a passive information storage but as an active mechanism that constructs prospective representations to guide future actions. We investigated how future-oriented plans regulate the entry of new information for maintenance. We found that when a stored memory is linked to a response, it becomes particularly vulnerable to interference from sensory input that demands the same response. We also identified neural signatures of this interaction where a control mechanism mitigates interference from irrelevant information. These findings provide key insights into the fundamental architecture of memory, demonstrating for the first time that prospective motor codes not only shape the use of stored information but also influence how new information is integrated into working memory.

neuroscience↗

Electrophysiological resting-state signatures link polygenic scores to general intelligence

Intelligence is associated with important life outcomes. Behavioral, genetic, structural, and functional brain correlates of intelligence have been studied for decades, but questions remain as to how genetics are related to trait expression and what intermediary role brain properties play. This study investigated these mediations in a representative sample of 434 individuals, comprising young and older adults. Polygenic scores (PGS) for intelligence were calculated. Resting-state EEG recordings were analyzed using graph theory quantifying functional connectivity across different frequencies. We tested whether global and local graph metrics like efficiency and clustering mediated the association between PGS and intelligence. PGS significantly predicted variance in intelligence and were related to frequency-specific graph metrics in areas predominantly located in parieto-frontal regions, which in turn were associated with intelligence. These findings, which are based on the first study linking PGS to intelligence using EEG-derived graph metrics, advance our understanding of the neurogenetics of intelligence.

neuroscience↗

A necroptotic-to-apoptotic signaling axis underlies inflammatory bowel disease

Inflammatory bowel disease (IBD) is a chronic condition caused by altered cytokine signaling, maladaptive immunity, dysbiosis, and intestinal barrier dysfunction. Patients with IBD receive therapy to correct these imbalances and achieve remission. However, most patients relapse, suggesting that pathological mechanisms persist during remission. Here, we show that excess epithelial cell death is an underlying feature of IBD that arises in patients in remission and on advanced therapy. Mechanistically, nascent inflammation reprograms epithelial cells into a macrophage-like state that promotes RIPK1-independent necroptotic signaling, then triggers iNOS-mediated mitochondrial apoptosis of absorptive epithelial cells and PUMA-mediated intestinal stem cell death. These findings reveal aberrant epithelial cell death signaling as a hallmark of IBD that occurs early in mucosal lesion development and persists despite current therapeutic approaches. One-Sentence SummaryEpithelial cell death is dysregulated in patients with inflammatory bowel disease.

cell biology↗

Movement ecology of captive-bred axolotls in restored and artificial wetlands: conservation insights for amphibian reintroductions and translocations

Amphibians are among the most endangered vertebrates globally due to habitat loss, environmental degradation, and urban expansion. The Mexican axolotl (Ambystoma mexicanum), a critically endangered aquatic species endemic to Xochimilco, exemplifies these challenges. This study evaluates the viability of restored and artificial wetlands for axolotl conservation by comparing movement patterns, home range sizes, and habitat use. Using VHF telemetry, we tracked captive-bred axolotls released into both environments. Axolotls survived and foraged successfully in both sites, with those in La Cantera Oriente (LCO) exhibiting larger home ranges and greater daily distances traveled than those in Xochimilco. A quadratic relationship between water temperature and movement indicated a narrow thermal preference. Additionally, age and sex influenced movement patterns, with younger axolotls and females traveling greater distances. Recaptured individuals gained weight, suggesting successful adaptation, although two axolotls were lost to avian predation in Xochimilco after the study concluded. These findings highlight the potential of artificial wetlands like LCO for axolotl conservation by providing stable conditions that may mitigate habitat degradation and climate change impacts. The study recommends integrating native and artificial habitats into conservation strategies, incorporating predator awareness training before release, and ongoing habitat monitoring to enhance survival outcomes for this iconic species.

ecology↗