julilili42/papers huggingface dataset:
Spectral Slope and Lempel–Ziv Complexity as Robust Markers of Brain States during Sleep and Wakefulness
2024-03-01

Nonoscillatory measures of brain activity such as the spectral slope and Lempel–Ziv complexity are affected by many neurological disorders and modulated by sleep. A multitude of frequency ranges, particularly a broadband (encompassing the full spectrum) and a narrowband approach, have been used especially for estimating the spectral slope. However, the effects of choosing different frequency ranges have not yet been explored in detail. Here, we evaluated the impact of sleep stage and task engagement (resting, attention, and memory) on slope and complexity in a narrowband (30–45 Hz) and broadband (1–45 Hz) frequency range in 28 healthy male human subjects (21.54 ± 1.90 years) using a within-subject design over 2 weeks with three recording nights and days per subject. We strived to determine how different brain states and frequency ranges affect slope and complexity and how the two measures perform in comparison. In the broadband range, the slope steepened, and complexity decreased continuously from wakefulness to N3 sleep. REM sleep, however, was best discriminated by the narrowband slope. Importantly, slope and complexity also differed between tasks during wakefulness. While narrowband complexity decreased with task engagement, the slope flattened in both frequency ranges. Interestingly, only the narrowband slope was positively correlated with task performance. Our results show that slope and complexity are sensitive indices of brain state variations during wakefulness and sleep. However, the spectral slope yields more information and could be used for a greater variety of research questions than Lempel–Ziv complexity, especially when a narrowband frequency range is used.
Newborn screening in metachromatic leukodystrophy – European consensus-based recommendations on clinical management
2024-03-01

Metachromatic leukodystrophy (MLD) is a rare autosomal recessive lysosomal storage disorder resulting from arylsulfatase A enzyme deficiency, leading to toxic sulfatide accumulation. As a result affected individuals exhibit progressive neurodegeneration. Treatments such as hematopoietic stem cell transplantation (HSCT) and gene therapy are effective when administered pre-symptomatically. Newborn screening (NBS) for MLD has recently been shown to be technically feasible and is indicated because of available treatment options. However, there is a lack of guidance on how to monitor and manage identified cases. This study aims to establish consensus among international experts in MLD and patient advocates on clinical management for NBS-identified MLD cases.A real-time Delphi procedure using eDELPHI software with 22 experts in MLD was performed. Questions, based on a literature review and workshops, were answered during a seven-week period. Three levels of consensus were defined: A) 100%, B) 75-99%, and C) 50-74% or &gt;75% but &gt;25% neutral votes. Recommendations were categorized by agreement level, from strongly recommended to suggested. Patient advocates participated in discussions and were involved in the final consensus.The study presents 57 statements guiding clinical management of NBS-identified MLD patients. Key recommendations include timely communication by MLD experts with identified families, treating early-onset MLD with gene therapy and late-onset MLD with HSCT, as well as pre-treatment monitoring schemes. Specific knowledge gaps were identified, urging prioritized research for future evidence-based guidelines.Consensus-based recommendations for NBS in MLD will enhance harmonized management and facilitate integration in national screening programs. Structured data collection and monitoring of screening programs are crucial for evidence generation and future guideline development. Involving patient representatives in the development of recommendations seems essential for NBS programs.
X-Ray Polarization of the Black Hole X-Ray Binary 4U 1630–47 Challenges the Standard Thin Accretion Disk Scenario
2024-03-01

Abstract A large energy-dependent X-ray polarization degree is detected by the Imaging X-ray Polarimetry Explorer (IXPE) in the high-soft emission state of the black hole X-ray binary 4U 1630–47. The highly significant detection (at ≈50 σ confidence level) of an unexpectedly high polarization, rising from ∼6% at 2 keV to ∼10% at 8 keV, cannot be easily reconciled with standard models of thin accretion disks. In this work, we compare the predictions of different theoretical models with the IXPE data and conclude that the observed polarization properties are compatible with a scenario in which matter accretes onto the black hole through a thin disk covered by a partially ionized atmosphere flowing away at mildly relativistic velocities.
X-Ray Polarimetry of the Dipping Accreting Neutron Star 4U 1624–49
2024-03-01

Abstract We present the first X-ray polarimetric study of the dipping accreting neutron star 4U 1624−49 with the Imaging X-ray Polarimetry Explorer. We report a detection of polarization in the nondip time intervals with a confidence level of 99.99%. We find an average polarization degree (PD) of 3.1% ± 0.7% and a polarization angle of 81° ± 6° east of north in the 2–8 keV band. We report an upper limit on the PD of 22% during the X-ray dips with 95% confidence. The PD increases with energy, reaching from 3.0% ± 0.9% in the 4–6 keV band to 6% ± 2% in the 6–8 keV band. This indicates the polarization likely arises from Comptonization. The high PD observed is unlikely to be produced by Comptonization in the boundary layer or spreading layer alone. It can be produced by the addition of an extended geometrically thin slab corona covering part of the accretion disk, as assumed in previous models of dippers, and/or a reflection component from the accretion disk.
Protein NirP1 regulates nitrite reductase and nitrite excretion in cyanobacteria
2024-03-01

Abstract When the supply of inorganic carbon is limiting, photosynthetic cyanobacteria excrete nitrite, a toxic intermediate in the ammonia assimilation pathway from nitrate. It has been hypothesized that the excreted nitrite represents excess nitrogen that cannot be further assimilated due to the missing carbon, but the underlying molecular mechanisms are unclear. Here, we identified a protein that interacts with nitrite reductase, regulates nitrogen metabolism and promotes nitrite excretion. The protein, which we named NirP1, is encoded by an unannotated gene that is upregulated under low carbon conditions and controlled by transcription factor NtcA, a central regulator of nitrogen homeostasis. Ectopic overexpression of nirP1 in Synechocystis sp. PCC 6803 resulted in a chlorotic phenotype, delayed growth, severe changes in amino acid pools, and nitrite excretion. Coimmunoprecipitation experiments indicated that NirP1 interacts with nitrite reductase, a central enzyme in the assimilation of ammonia from nitrate/nitrite. Our results reveal that NirP1 is widely conserved in cyanobacteria and plays a crucial role in the coordination of C/N primary metabolism by targeting nitrite reductase.
Neural signatures of shared subjective affective engagement and disengagement during movie viewing
2024-03-01

Abstract When watching a negative emotional movie, we differ from person to person in the ease with which we engage and the difficulty with which we disengage throughout a temporally evolving narrative. We investigated neural responses of emotional processing, by considering inter‐individual synchronization in subjective emotional engagement and disengagement. The neural underpinnings of these shared responses are ideally studied in naturalistic scenarios like movie viewing, wherein individuals emotionally engage and disengage at their own time and pace throughout the course of a narrative. Despite the rich data that naturalistic designs can bring to the study, there is a challenge in determining time‐resolved behavioral markers of subjective engagement and disengagement and their underlying neural responses. We used a within‐subject cross‐over design instructing 22 subjects to watch clips of either neutral or sad content while undergoing functional magnetic resonance imaging (fMRI). Participants watched the same movies a second time while continuously annotating the perceived emotional intensity, thus enabling the mapping of brain activity and emotional experience. Our analyses revealed that between‐participant similarity in waxing (engagement) and waning (disengagement) of emotional intensity was directly related to the between‐participant similarity in spatiotemporal patterns of brain activation during the movie(s). Similar patterns of engagement reflected common activation in the bilateral ventromedial prefrontal cortex, regions often involved in self‐referenced evaluation and generation of negative emotions. Similar patterns of disengagement reflected common activation in central executive and default mode network regions often involved in top‐down emotion regulation. Together this work helps to better understand cognitive and neural mechanisms underpinning engagement and disengagement from emotionally evocative narratives.
Organic carbon loading of soils determines the fate of added fresh plant-derived organic matter
2024-03-01

It is crucial to promote soil carbon sequestration while reducing CO2 emissions to mitigate climate change. However, the extent of increasing actual soil carbon storage depends on the amount and composition of organic matter input, including its fate during decomposition and soil organic matter (SOM) formation via microbial transformation. With respect to the need to increase carbon sequestration in soil and sustain soil fertility, it is of great interest to better understand how soils with different organic matter content react to amendment with fresh organic matter. Here, we incubated three agricultural soils representing a gradient in C content, adding two different 13C labeled plant residues varying in carbon-to-nitrogen ratio. Carbon mineralization was monitored together with the analysis of the 13CO2 signatures. After the incubation, 13C compound-specific PLFAs, microbial necromass, and enzyme activities were analyzed. This study demonstrates that the carbon return on investment, thus the amount of retained fresh carbon in relation to the amount of added organic matter, clearly depends on the amount of native soil carbon. Notably, the addition of fresh organic matter to carbon-deficient soils leads to a higher specific CO2 release compared to soils with high carbon loading, which can be attributed to the differences in the soil microorganisms' response. The CO2 release of the soil with the lowest C-content was 2.1 and 2.0 mg g−1 soil for treatment with oat and pea litter addition, respectively, whereas for the soil with the highest C-content, CO2 release was 1.7 mg g−1 soil for oat treatment and 1.6 mg g−1 soil for pea treatment. Thus, higher SOC contents sustain a higher ‘return on investment’ for the fresh carbon that is amended to soils. With plant litter amendments the microbial community shifted towards a higher fungi-to-bacteria ratio (F/B). This shift in the microbial community was more pronounced (F/B ranging from 0.04 to 0.11) with the addition of oat litter (low quality) compared to pea litter (high quality). Hence, it is important to consider the fate of organic amendments with different N availability when aiming to rebuild soil carbon stocks in degraded soils. Soil management should focus on sustaining soil carbon in balance with current carbon stocks to avoid the vicious circle of soils losing carbon in conjunction with increased greenhouse gas release.
A Neopragmatic Perspective on the Processual Nature of Landscape—Coastal Land Loss in Louisiana in the Context of Scientific Findings, Social Patterns of Interpretation, and Individual Experience
2024-03-01

The changes on the Louisiana coast due to land loss can be understood as a process, and the social construction of these processes is highly complex. Due to this complexity, we will examine these social patterns of interpretation as well as individual experiences of coastal land loss in Louisiana within a neopragmatic meta-theoretical framework using several methods, data, researcher perspectives, forms of representation, and theories, with a special focus on the construction of coastal land loss by the media. For this purpose, comments below a YouTube video on a hurricane event on Grand Isle, Louisiana, as well as on-site interviews with people affected by coastal land loss, were qualitatively analyzed. The results were interpreted with the help of various theories such as the theory of three landscapes, Dahrendorf’s conflict theory, Bourdieu’s theory of social capital, and Luhmann’s autopoietic systems theory. The research reveals patterns of interpretation, categorization, and evaluation of processes from an internal and external perspective that are highly morally charged.
Revisiting the Helium and Hydrogen Accretion Indicators at TWA 27B: Weak Mass Flow at Near-freefall Velocity
2024-03-01

Abstract TWA 27B (2M1207b) is the first directly imaged planetary-mass ( M p ≈ 5 M J ) companion and was observed at 0.9–5.3 μ m with ​​​JWST/NIRSpec. To understand the accretion properties of TWA 27B, we search for continuum-subtracted near-infrared helium and hydrogen emission lines and measure their widths and luminosities. We detect the He i triplet at 4.3 σ and all Paschen-series lines covered by NIRSpec (Pa α , Pa β , Pa γ , Pa δ ) at 4 σ –5 σ . The three brightest Brackett-series lines (Br α , Br β , Br γ ) as well as Pf γ and Pf δ are tentative detections at 2 σ –3 σ . We provide upper limits on the other hydrogen lines, including on H α through Hubble Space Telescope archival data. Three lines can be reliably deconvolved to reveal an intrinsic width Δ v intrsc = (67 ± 9) km s −1 , which is 60% of the surface freefall velocity. The line luminosities seem significantly too high to be due to chromospheric activity. Converting line luminosities to an accretion rate yields <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML" overflow="scroll"> <mml:mover accent="true"> <mml:mrow> <mml:mi>M</mml:mi> </mml:mrow> <mml:mrow> <mml:mo>̇</mml:mo> </mml:mrow> </mml:mover> <mml:mo>≈</mml:mo> <mml:mn>5</mml:mn> <mml:mo>×</mml:mo> <mml:msup> <mml:mrow> <mml:mn>10</mml:mn> </mml:mrow> <mml:mrow> <mml:mo>−</mml:mo> <mml:mn>9</mml:mn> </mml:mrow> </mml:msup> <mml:mspace width="0.25em"/> <mml:msub> <mml:mrow> <mml:mi>M</mml:mi> </mml:mrow> <mml:mrow> <mml:mi mathvariant="normal">J</mml:mi> </mml:mrow> </mml:msub> <mml:mspace width="0.25em"/> <mml:msup> <mml:mrow> <mml:mi>yr</mml:mi> </mml:mrow> <mml:mrow> <mml:mo>−</mml:mo> <mml:mn>1</mml:mn> </mml:mrow> </mml:msup> </mml:math> when using scaling relationships for planetary masses, and <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML" overflow="scroll"> <mml:mover accent="true"> <mml:mrow> <mml:mi>M</mml:mi> </mml:mrow> <mml:mrow> <mml:mo>̇</mml:mo> </mml:mrow> </mml:mover> <mml:mo>≈</mml:mo> <mml:mn>0.1</mml:mn> <mml:mo>×</mml:mo> <mml:msup> <mml:mrow> <mml:mn>10</mml:mn> </mml:mrow> <mml:mrow> <mml:mo>−</mml:mo> <mml:mn>9</mml:mn> </mml:mrow> </mml:msup> <mml:mspace width="0.25em"/> <mml:msub> <mml:mrow> <mml:mi>M</mml:mi> </mml:mrow> <mml:mrow> <mml:mi mathvariant="normal">J</mml:mi> </mml:mrow> </mml:msub> <mml:mspace width="0.25em"/> <mml:msup> <mml:mrow> <mml:mi>yr</mml:mi> </mml:mrow> <mml:mrow> <mml:mo>−</mml:mo> <mml:mn>1</mml:mn> </mml:mrow> </mml:msup> </mml:math> with extrapolated stellar scalings. Several of these lines represent the first detections at an accretor of such low mass. The weak accretion rate implies that formation is likely over. This analysis shows that JWST can be used to measure low line-emitting mass accretion rates onto planetary-mass objects, motivates deeper searches for the mass reservoir feeding TWA 27B, and hints that other young directly imaged objects might—hitherto unbeknownst—also be accreting.
Phototrophic Fe(II) oxidation by Rhodopseudomonas palustris TIE‐1 in organic and Fe(II)‐rich conditions
2024-03-01

Abstract Rhodopseudomonas palustris TIE‐1 grows photoautotrophically with Fe(II) as an electron donor and photoheterotrophically with a variety of organic substrates. However, it is unclear whether R. palustris TIE‐1 conducts Fe(II) oxidation in conditions where organic substrates and Fe(II) are available simultaneously. In addition, the effect of organic co‐substrates on Fe(II) oxidation rates or the identity of Fe(III) minerals formed is unknown. We incubated R. palustris TIE‐1 with 2 mM Fe(II), amended with 0.6 mM organic co‐substrate, and in the presence/absence of CO 2 . We found that in the absence of CO 2 , only the organic co‐substrates acetate, lactate and pyruvate, but not Fe(II), were consumed. When CO 2 was present, Fe(II) and all organic substrates were consumed. Acetate, butyrate and pyruvate were consumed before Fe(II) oxidation commenced, whereas lactate and glucose were consumed at the same time as Fe(II) oxidation proceeded. Lactate, pyruvate and glucose increased the Fe(II) oxidation rate significantly (by up to threefold in the case of lactate). 57 Fe Mössbauer spectroscopy revealed that short‐range ordered Fe(III) oxyhydroxides were formed under all conditions. This study demonstrates phototrophic Fe(II) oxidation proceeds even in the presence of organic compounds, and that the simultaneous oxidation of organic substrates can stimulate Fe(II) oxidation.
Plant geographic distribution influences chemical defences in native and introduced Plantago lanceolata populations
2024-03-01

Abstract Plants growing outside their native range may be confronted by new regimes of herbivory, but how this affects plant chemical defence profiles has rarely been studied. Using Plantago lanceolata as a model species, we investigated whether introduced populations show significant differences from native populations in several growth and chemical defence traits. Plantago lanceolata (ribwort plantain) is an herbaceous plant species native to Europe and Western Asia that has been introduced to numerous countries worldwide. We sampled seeds from nine native and 10 introduced populations that covered a broad geographic and environmental range and performed a greenhouse experiment, in which we infested half of the plants in each population with caterpillars of the generalist herbivore Spodoptera littoralis . We then measured size‐related and resource‐allocation traits as well as the levels of constitutive and induced chemical defence compounds in roots and shoots of P. lanceolata . When we considered the environmental characteristics of the site of origin, our results revealed that populations from introduced ranges were characterized by an increase in chemical defence compounds without compromising plant biomass. The concentrations of iridoid glycosides and verbascoside, the major anti‐herbivore defence compounds of P. lanceolata , were higher in introduced populations than in native populations. In addition, introduced populations exhibited greater rates of herbivore‐induced volatile organic compound emission and diversity, and similar chemical diversity based on untargeted analyses of leaf methanol extracts. In conclusion, the geographic origin of the populations had a significant influence on morphological and chemical plant traits, suggesting that P. lanceolata populations are not only adapted to different environments in their native range, but also in their introduced range. Read the free Plain Language Summary for this article on the Journal blog.
The latest freshwater giants: a new Peltocephalus (Pleurodira: Podocnemididae) turtle from the Late Pleistocene of the Brazilian Amazon
2024-03-01

Overkill of large mammals is recognized as a key driver of Pleistocene megafaunal extinctions in the Americas and Australia. While this phenomenon primarily affected mega-mammals, its impact on large Quaternary reptiles has been debated. Freshwater turtles, due to the scarcity of giant forms in the Quaternary record, have been largely neglected in such discussions. Here we present a new giant podocnemidid turtle, Peltocephalus maturin sp. nov., from the Late Pleistocene Rio Madeira Formation in the Brazilian Amazon, that challenges this assumption. Morphological and phylogenetic analyses of the holotype, a massive partial lower jaw, reveal close affinities to extant Amazonian species and suggest an omnivorous diet. Body size regressions indicate Pe. maturin possibly reached about 180 cm in carapace length and is among the largest freshwater turtles ever found. This finding presents the latest known occurrence of giant freshwater turtles, hinting at coexistence with early human inhabitants in the Amazon.
Influence of malocclusion and orthodontic treatment in the masticatory efficiency of patients with craniofacial disorders
2024-03-01

This study evaluates masticatory efficiency in orthodontic patients with craniofacial disorders compared to controls without, considering the effect of an orthodontic appliance and malocclusion. A total of 119 participants (7-21 years), divided into a craniofacial disorder and control group (n = 42 and n = 77; mean age 13.5 ± 5.2 and 14.2 ± 3.3 years) were included. Masticatory efficiency was evaluated using a standard food model test, where masticated test food bodies were analyzed, and parameters like particle number (n) and area (mm<sup>2</sup>) were recorded. This study newly introduced the masticatory efficiency index (MEI), which encompasses the above terms (number and area), with a high MEI being an indicator of high masticatory ability. Younger orthodontic patients with a craniofacial disorder had a significantly decreased MEI (0.50 ± 0.25 n/mm<sup>2</sup>) compared to patients without (1.10 ± 0.48 n/mm<sup>2</sup>; p = 0.02). The presence of a crossbite significantly decreased masticatory efficiency, particularly in craniofacial disorder patients (0.69 ± 1.44 n/mm<sup>2</sup>) versus controls (0.89 ± 1.00 n/mm<sup>2</sup>, p = 0.04). As treatment progressed with age and fixed appliances, mastication group differences became non-significant, suggesting that patients with a craniofacial disorder were catching up to healthy controls in the rehabilitation of their masticatory function. Considering an early diagnosis of malocclusion during orthodontic therapy in combination with speech therapy can avoid negative malocclusion effects with growth, caused by muscle imbalances.
Dual role of mesenchymal stem/stromal cells and their cell‐free extracellular vesicles in colorectal cancer
2024-03-01

Abstract Colorectal cancer (CRC) is one of the main causes of cancer‐related deaths. However, the surgical control of the CRC progression is difficult, and in most cases, the metastasis leads to cancer‐related mortality. Mesenchymal stem/stromal cells (MSCs) with potential translational applications in regenerative medicine have been widely researched for several years. MSCs could affect tumor development through secreting exosomes. The beneficial properties of stem cells are attributed to their cell–cell interactions as well as the secretion of paracrine factors in the tissue microenvironment. For several years, exosomes have been used as a cell‐free therapy to regulate the fate of tumor cells in a tumor microenvironment. This review discusses the recent advances and current understanding of assessing MSC‐derived exosomes for possible cell‐free therapy in CRC.