bluuebunny/crossref_metadata_2025_split huggingface dataset:
Influence of cover crop residue and residual herbicide on emergence dynamics of glyphosate-resistant Palmer amaranth (Amaranthus palmeri) in grain sorghum
Authors: Dhanda Sachin , Kumar Vipan , Dille J. Anita , Obour Augustine , Yeager Elizabeth A. , Holman Johnathan 
Published: April 2024

AbstractA field study was conducted from 2020 to 2023 at Kansas State University Agricultural Research Center near Hays, KS, to understand the emergence dynamics and periodicity of glyphosate-resistant (GR) Palmer amaranth (Amaranthus palmeri S. Watson) as influenced by cover crop (CC) residue and residual herbicide in grain sorghum [Sorghum bicolor (L.) Moench]. The study site was under a wheat (Triticum aestivum L.)–sorghum–fallow rotation with a natural seedbank of GR A. palmeri. Treatments included (1) fall-planted CC mixture [winter triticale (×Triticosecale Wittm. ex A. Camus [Secale × Triticum])/winter peas (Pisum sativum L.)/rapeseed (Brassica napus L.)/radish (Raphanus sativus L.)] after wheat harvest and terminated at triticale heading stage (next spring before sorghum planting) with glyphosate alone or (2) glyphosate plus acetochlor/atrazine, (3) chemical fallow (no CC but treated with acetochlor/atrazine and dicamba before sorghum planting), and (4) nontreated control (no CC and no herbicide). Results indicated that CC terminated with glyphosate plus acetochlor/atrazine had a delayed and reduced cumulative emergence of GR A. palmeri as compared with chemical fallow and CC terminated with glyphosate alone across all 3 yr. Compared with chemical fallow, the CC terminated with glyphosate alone and glyphosate plus acetochlor/atrazine required 66 to 643 and 105 to 1,257 more cumulative growing degree days, respectively, to achieve 90% cumulative emergence of GR A. palmeri across all 3 yr. The combined effect of CC residue with glyphosate plus acetochlor/atrazine reduced the total emergence counts of GR A. palmeri by 42% to 56% and 82% to 94% as compared with chemical fallow and nontreated control, respectively. These results suggest that fall-planted CC combined with a residual herbicide at termination can be utilized for GR A. palmeri suppression in grain sorghum.
Virtual Hydrological Laboratories: Developing the Next Generation of Conceptual Models to Support Decision Making Under Change
Authors: Thyer Mark , Gupta Hoshin , Westra Seth , McInerney David , Maier Holger R. , Kavetski Dmitri , Jakeman Anthony , Croke Barry , Simmons Craig , Partington Daniel , Shanafield Margaret , Tague Christina 
Published: April 2024

AbstractAs hydrological systems are pushed outside the envelope of historical experience, the ability of current hydrological models to serve as a basis for credible prediction and decision making is increasingly challenged. Conceptual models are the most common type of surface water hydrological model used for decision support due to reasonable performance in the absence of change, ease of use and computational speed that facilitate scenario, sensitivity and uncertainty analysis. Hence, conceptual models in effect represent the current “shopfront” of hydrological science as seen by practitioners. However, these models have notable limitations in their ability to resolve internal catchment processes and subsequently capture hydrological change. New thinking is needed to confront the challenges faced by the current generation of conceptual models in dealing with a changing environment. We argue the next generation of conceptual models should combine the parsimony of conceptual models with our best available scientific understanding. We propose a strategy to develop such models using multiple hydrological lines of evidence. This strategy includes using appropriately selected physically resolved models as “Virtual Hydrological Laboratories” to test and refine the simpler models' ability to predict future hydrological changes. This approach moves beyond the sole focus on “predictive skill” measured using metrics of historical performance, facilitating the development of the next generation of conceptual models with hydrological fidelity (i.e., models that “get the right answers for the right reasons”). This quest is more than a scientific curiosity; it is expected by policy makers who need to know what to plan for.
The Role of Parameterizations and Model Coupling on Simulations of Energy and Water Balances – Investigations With the Atmospheric Model WRF and the Hydrologic Model WRF‐Hydro
Authors: Sofokleous I. , Bruggeman A. , Camera C. 
Published: April 2024

AbstractThe distributed hydrologic model WRF‐Hydro can operate in a fully‐coupled mode with the atmospheric Weather, Research and Forecasting (WRF) model. WRF‐Hydro enhances the modeling of terrestrial hydrologic processes in coupled WRF/WRF‐Hydro by simulating lateral surface and subsurface water flows. The objectives of this study are (a) to examine the effect of WRF‐Hydro on the surface energy and water balance in fully‐coupled WRF/WRF‐Hydro simulations and (b) to examine the impact of five WRF physics parameterizations on WRF‐Hydro streamflow. The study area is the Mediterranean island of Cyprus and 31 mountainous watersheds. The domain‐average soil moisture was 20% higher in the coupled WRF/WRF‐Hydro, relative to the standalone WRF model, during a 1‐year simulation. The higher soil moisture could explain the increase in latent heat (36%) and evapotranspiration (33%). The increase in these fluxes was less with a modification in the model transpiration parameterization to represent nocturnal transpiration and the use of remote sensing leaf area index data. The simulated precipitation of the coupled model increased up to 3%, relative to WRF. Two‐year long WRF‐Hydro simulations gave a median Nash‐Sutcliffe Efficiency for daily streamflow of the 31 watersheds of 0.5 for observed precipitation forcing and between −1.9 and 0.2 for the forcing of the five WRF parameterizations. This study showed that the enhancement of the standalone WRF model with lateral water flow processes in the coupled mode with WRF‐Hydro modifies the terrestrial energy and water balance. The improved terrestrial process representation should be considered for future hydrological cycle studies with WRF.
Explicit Habit‐Prediction in the Lagrangian Super‐Particle Ice Microphysics Model McSnow
Authors: Welss Jan‐Niklas , Siewert C. , Seifert A. 
Published: April 2024

AbstractThe Monte‐Carlo ice microphysics model McSnow is extended by an explicit habit prediction scheme, combined with the hydrodynamic theory of Böhm. Böhm's original cylindrical shape assumption for prolates is compared against recent lab results, showing that interpolation between cylinder and prolate yields the best agreement. For constant temperature and supersaturation, the predicted mass, size, and density of the ice crystals agree well with the laboratory results, and a comparison with real clouds using the polarizability ratio shows regimes capable of improvement. An updated form of the inherent growth function to describe the primary habit growth tendencies is proposed and combined with a habit‐dependent ventilation coefficient. The modifications contrast the results from general mass size relations and significantly impact the main ice microphysical processes. Depending on the thermodynamic regime, ice habits significantly alter depositional growth and affect aggregation and riming. The influence of primary ice behavior on precipitation formation needs to be considered in future development of microphysical parameterizations, but the consideration of secondary habits and the geometry of aggregates should be further improved in future work.
Insights Into Changing Interglacial Conditions in Subarctic Canada From MIS 11 Through MIS 5e From Seasonally Resolved Speleothem Records
Authors: Batchelor Cameron J. , McGee David , Shakun Jeremy D. , Woodhead Jon , Jost Adam B. , Arnold Sarah , Horne Greg , Kinsley Christopher W. , Freudenburg‐Puricelli Markey 
Published: April 2024

AbstractHigh‐resolution records from past interglacial climates help constrain future responses to global warming, yet are rare. Here, we produce seasonally resolved climate records from subarctic‐Canada using micron‐scale measurements of oxygen isotopes (δ18O) in speleothems with apparent annual growth bands from three interglacial periods—Marine Isotope Stages (MIS) 11, 9, and 5e. We find 3‰ lower δ18O values during MIS 11 than MIS 5e, despite MIS 11 likely being warmer. We explore controls on high‐latitude speleothem δ18O and suggest low MIS 11 δ18O values reflect greater contribution of cold‐season precipitation to dripwater from longer annual ground thaw durations. Other potential influences include changes in precipitation source and/or increased fraction of cold‐season precipitation from diminished sea ice in MIS 11. Our study highlights the potential for high‐latitude speleothems to yield detailed isotopic records of Northern Hemisphere interglacial climates beyond the reach of Greenland ice cores and offers a framework for interpreting them.
Central neurocytoma exhibits radial glial cell signatures with FGFR3 hypomethylation and overexpression
Authors: Lee Yeajina , Chowdhury Tamrin , Kim Sojin , Yu Hyeon Jong , Kim Kyung-Min , Kang Ho , Kim Min-Sung , Kim Jin Wook , Kim Yong-Hwy , Ji So Young , Hwang Kihwan , Han Jung Ho , Hwang Jinha , Yoo Seong-Keun , Lee Kyu Sang , Choe Gheeyoung , Won Jae-Kyung , Park Sung-Hye , Lee Yong Kyu , Shin Joo Heon , Park Chul-Kee , Kim Chae-Yong , Kim Jong-Il 
Published: April 2024

AbstractWe explored the genomic events underlying central neurocytoma (CN), a rare neoplasm of the central nervous system, via multiomics approaches, including whole-exome sequencing, bulk and single-nuclei RNA sequencing, and methylation sequencing. We identified FGFR3 hypomethylation leading to FGFR3 overexpression as a major event in the ontogeny of CN that affects crucial downstream events, such as aberrant PI3K-AKT activity and neuronal development pathways. Furthermore, we found similarities between CN and radial glial cells based on analyses of gene markers and CN tumor cells and postulate that CN tumorigenesis is due to dysregulation of radial glial cell differentiation into neurons. Our data demonstrate the potential role of FGFR3 as one of the leading drivers of tumorigenesis in CN.
Very long wave infrared quantum dot photodetector up to 18 μm
Authors: Xue Xiaomeng , Hao Qun , Chen Menglu 
Published: April 2024

AbstractColloidal quantum dots (CQDs) are of interest for optoelectronic devices because of the possibility of high-throughput solution processing and the wide energy gap tunability from ultraviolet to infrared wavelengths. People may question about the upper limit on the CQD wavelength region. To date, although the CQD absorption already reaches terahertz, the practical photodetection wavelength is limited within mid-wave infrared. To figure out challenges on CQD photoresponse in longer wavelength, would reveal the ultimate property on these nanomaterials. What’s more, it motivates interest in bottom-up infrared photodetection with less than 10% cost compared with epitaxial growth semiconductor bulk. In this work, developing a re-growth method and ionic doping modification, we demonstrate photodetection up to 18 μm wavelength on HgTe CQD. At liquid nitrogen temperature, the responsivity reaches 0.3 A/W and 0.13 A/W, with specific detectivity 6.6 × 108 Jones and 2.3 × 109 Jones for 18 μm and 10 μm CQD photoconductors, respectively. This work is a step toward answering the general question on the CQD photodetection wavelength limitation.
Endothelial DR6 in blood-brain barrier malfunction in Alzheimer’s disease
Authors: Huang Xiaomin , Qi Junhua , Su Yixun , Zhou Ying , Wang Qi , Huang Taida , Xue Dongdong , Zeng Yunxin , Verkhratsky Alexei , Zhou Benjie , Chen Hui , Yi Chenju 
Published: April 2024

AbstractThe impairment of the blood-brain barrier (BBB) has been increasingly recognised as a critical element in the early pathogenesis of Alzheimer’s disease (AD), prompting a focus on brain endothelial cells (BECs), which serve as the primary constituents of the BBB. Death receptor 6 (DR6) is highly expressed in brain vasculature and acts downstream of the Wnt/β-catenin pathway to promote BBB formation during development. Here, we found that brain endothelial DR6 levels were significantly reduced in a murine model of AD (APPswe/PS1dE9 mice) at the onset of amyloid-β (Aβ) accumulation. Toxic Aβ25-35 oligomer treatment recapitulated the reduced DR6 in cultured BECs. We further showed that suppressing DR6 resulted in BBB malfunction in the presence of Aβ25-35 oligomers. In contrast, overexpressing DR6 increased the level of BBB functional proteins through the activation of the Wnt/β-catenin and JNK pathways. More importantly, DR6 overexpression in BECs was sufficient to rescue BBB dysfunction in vitro. In conclusion, our findings provide new insight into the role of endothelial DR6 in AD pathogenesis, highlighting its potential as a therapeutic target to tackle BBB dysfunction in early-stage AD progression.
Growth of millimeter-sized 2D metal iodide crystals induced by ion-specific preference at water-air interfaces
Authors: Zhong Jingxian , Zhou Dawei , Bai Qi , Liu Chao , Fan Xinlian , Zhang Hehe , Li Congzhou , Jiang Ran , Zhao Peiyi , Yuan Jiaxiao , Li Xiaojiao , Zhan Guixiang , Yang Hongyu , Liu Jing , Song Xuefen , Zhang Junran , Huang Xiao , Zhu Chao , Zhu Chongqin , Wang Lin 
Published: April 2024

AbstractConventional liquid-phase methods lack precise control in synthesizing and processing materials with macroscopic sizes and atomic thicknesses. Water interfaces are ubiquitous and unique in catalyzing many chemical reactions. However, investigations on two-dimensional (2D) materials related to water interfaces remain limited. Here we report the growth of millimeter-sized 2D PbI2 single crystals at the water-air interface. The growth mechanism is based on an inherent ion-specific preference, i.e. iodine and lead ions tend to remain at the water-air interface and in bulk water, respectively. The spontaneous accumulation and in-plane arrangement within the 2D crystal of iodide ions at the water-air interface leads to the unique crystallization of PbI2 as well as other metal iodides. In particular, PbI2 crystals can be customized to specific thicknesses and further transformed into millimeter-sized mono- to few-layer perovskites. Additionally, we have developed water-based techniques, including water-soaking, spin-coating, water-etching, and water-flow-assisted transfer to recycle, thin, pattern, and position PbI2, and subsequently, perovskites. Our water-interface mediated synthesis and processing methods represents a significant advancement in achieving simple, cost-effective, and energy-efficient production of functional materials and their integrated devices.
A modular and synthetic biosynthesis platform for de novo production of diverse halogenated tryptophan-derived molecules
Authors: Reed Kevin B. , Brooks Sierra M. , Wells Jordan , Blake Kristin J. , Zhao Minye , Placido Kira , d’Oelsnitz Simon , Trivedi Adit , Gadhiyar Shruti , Alper Hal S. 
Published: April 2024

AbstractHalogen-containing molecules are ubiquitous in modern society and present unique chemical possibilities. As a whole, de novo fermentation and synthetic pathway construction for these molecules remain relatively underexplored and could unlock molecules with exciting new applications in industries ranging from textiles to agrochemicals to pharmaceuticals. Here, we report a mix-and-match co-culture platform to de novo generate a large array of halogenated tryptophan derivatives in Escherichia coli from glucose. First, we engineer E. coli to produce between 300 and 700 mg/L of six different halogenated tryptophan precursors. Second, we harness the native promiscuity of multiple downstream enzymes to access unexplored regions of metabolism. Finally, through modular co-culture fermentations, we demonstrate a plug-and-play bioproduction platform, culminating in the generation of 26 distinct halogenated molecules produced de novo including precursors to prodrugs 4-chloro- and 4-bromo-kynurenine and new-to-nature halogenated beta carbolines.
Unveiling unique microbial nitrogen cycling and nitrification driver in coastal Antarctica
Authors: Han Ping , Tang Xiufeng , Koch Hanna , Dong Xiyang , Hou Lijun , Wang Danhe , Zhao Qian , Li Zhe , Liu Min , Lücker Sebastian , Shi Guitao 
Published: April 2024

AbstractLargely removed from anthropogenic delivery of nitrogen (N), Antarctica has notably low levels of nitrogen. Though our understanding of biological sources of ammonia have been elucidated, the microbial drivers of nitrate (NO3−) cycling in coastal Antarctica remains poorly understood. Here, we explore microbial N cycling in coastal Antarctica, unraveling the biological origin of NO3− via oxygen isotopes in soil and lake sediment, and through the reconstruction of 1968 metagenome-assembled genomes from 29 microbial phyla. Our analysis reveals the metabolic potential for microbial N2 fixation, nitrification, and denitrification, but not for anaerobic ammonium oxidation, signifying a unique microbial N-cycling dynamic. We identify the predominance of complete ammonia oxidizing (comammox) Nitrospira, capable of performing the entire nitrification process. Their adaptive strategies to the Antarctic environment likely include synthesis of trehalose for cold stress, high substrate affinity for resource utilization, and alternate metabolic pathways for nutrient-scarce conditions. We confirm the significant role of comammox Nitrospira in the autotrophic, nitrification process via 13C-DNA-based stable isotope probing. This research highlights the crucial contribution of nitrification to the N budget in coastal Antarctica, identifying comammox Nitrospira clade B as a nitrification driver.
Diverse and abundant phages exploit conjugative plasmids
Authors: Quinones-Olvera Natalia , Owen Siân V. , McCully Lucy M. , Marin Maximillian G. , Rand Eleanor A. , Fan Alice C. , Martins Dosumu Oluremi J. , Paul Kay , Sanchez Castaño Cleotilde E. , Petherbridge Rachel , Paull Jillian S. , Baym Michael 
Published: April 2024

AbstractPhages exert profound evolutionary pressure on bacteria by interacting with receptors on the cell surface to initiate infection. While the majority of phages use chromosomally encoded cell surface structures as receptors, plasmid-dependent phages exploit plasmid-encoded conjugation proteins, making their host range dependent on horizontal transfer of the plasmid. Despite their unique biology and biotechnological significance, only a small number of plasmid-dependent phages have been characterized. Here we systematically search for new plasmid-dependent phages targeting IncP and IncF plasmids using a targeted discovery platform, and find that they are common and abundant in wastewater, and largely unexplored in terms of their genetic diversity. Plasmid-dependent phages are enriched in non-canonical types of phages, and all but one of the 65 phages we isolated were non-tailed, and members of the lipid-containing tectiviruses, ssDNA filamentous phages or ssRNA phages. We show that plasmid-dependent tectiviruses exhibit profound differences in their host range which is associated with variation in the phage holin protein. Despite their relatively high abundance in wastewater, plasmid-dependent tectiviruses are missed by metaviromic analyses, underscoring the continued importance of culture-based phage discovery. Finally, we identify a tailed phage dependent on the IncF plasmid, and find related structural genes in phages that use the orthogonal type 4 pilus as a receptor, highlighting the evolutionarily promiscuous use of these distinct contractile structures by multiple groups of phages. Taken together, these results indicate plasmid-dependent phages play an under-appreciated evolutionary role in constraining horizontal gene transfer via conjugative plasmids.
Semaphorin 3A causes immune suppression by inducing cytoskeletal paralysis in tumour-specific CD8+ T cells
Authors: Barnkob Mike B. , Michaels Yale S. , André Violaine , Macklin Philip S. , Gileadi Uzi , Valvo Salvatore , Rei Margarida , Kulicke Corinna , Chen Ji-Li , Jain Vitul , Woodcock Victoria K. , Colin-York Huw , Hadjinicolaou Andreas V. , Kong Youxin , Mayya Viveka , Mazet Julie M. , Mead Gracie-Jennah , Bull Joshua A. , Rijal Pramila , Pugh Christopher W. , Townsend Alain R. , Gérard Audrey , Olsen Lars R. , Fritzsche Marco , Fulga Tudor A. , Dustin Michael L. , Jones E. Yvonne , Cerundolo Vincenzo 
Published: April 2024

AbstractSemaphorin-3A (SEMA3A) functions as a chemorepulsive signal during development and can affect T cells by altering their filamentous actin (F-actin) cytoskeleton. The exact extent of these effects on tumour-specific T cells are not completely understood. Here we demonstrate that Neuropilin-1 (NRP1) and Plexin-A1 and Plexin-A4 are upregulated on stimulated CD8+ T cells, allowing tumour-derived SEMA3A to inhibit T cell migration and assembly of the immunological synapse. Deletion of NRP1 in both CD4+ and CD8+ T cells enhance CD8+ T-cell infiltration into tumours and restricted tumour growth in animal models. Conversely, over-expression of SEMA3A inhibit CD8+ T-cell infiltration. We further show that SEMA3A affects CD8+ T cell F-actin, leading to inhibition of immune synapse formation and motility. Examining a clear cell renal cell carcinoma patient cohort, we find that SEMA3A expression is associated with reduced survival, and that T-cells appear trapped in SEMA3A rich regions. Our study establishes SEMA3A as an inhibitor of effector CD8+ T cell tumour infiltration, suggesting that blocking NRP1 could improve T cell function in tumours.
Bright, efficient, and stable pure-green hyperfluorescent organic light-emitting diodes by judicious molecular design
Authors: Lee Yi-Ting , Chan Chin-Yiu , Matsuno Nanami , Uemura Shigetada , Oda Susumu , Kondo Masakazu , Weerasinghe Rangani Wathsala , Hu Yanmei , Lestanto Gerardus N. Iswara , Tsuchiya Youichi , Li Yufang , Hatakeyama Takuji , Adachi Chihaya 
Published: April 2024

AbstractTo fulfill ultra-high-definition display, efficient and bright green organic light-emitting diodes with Commission Internationale de l’Éclairage y-coordinate ≥ 0.7 are required. Although there are some preceding reports of highly efficient devices based on pure-green multi-resonance emitters, the efficiency rolloff and device stabilities for those pure-green devices are still unsatisfactory. Herein, we report the rational design of two pure-green multi-resonance emitters for achieving highly stable and efficient pure-green devices with CIEx,ys that are close to the NTSC and BT. 2020 standards. In this study, our thermally activated delayed fluorescence OLEDs based on two pure-green multi-resonance emitters result in CIEy up to 0.74. In hyperfluorescent device architecture, the CIExs further meet the x-coordinate requirements, i.e., NTSC (0.21) and BT. 2020 (0.17), while keeping their CIEys ~ 0.7. Most importantly, hyperfluorescent devices display the high maximum external quantum efficiencies of over 25% and maximum luminance of over 105 cd m−2 with suppressed rolloffs (external quantum efficiency of ~20% at 104 cd m−2) and long device stabilities with LT95s of ~ 600 h.