bluuebunny/crossref_metadata_2025 huggingface dataset:
Proximity to Photosystem II is necessary for activation of Plastid Terminal Oxidase (PTOX) for photoprotection
Authors: Calzadilla Pablo Ignacio , Song Junliang , Gallois Patrick , Johnson Giles Nicholas
Published: January 2024

The Plastid Terminal Oxidase (PTOX) is a chloroplast localized plastoquinone oxygen oxidoreductase suggested to have the potential to act as a photoprotective safety valve for photosynthesis. However, PTOX overexpression in plants has been unsuccessful at inducing photoprotection, and the factors that control its activity remain elusive. Here, we show that significant PTOX activity is induced in response to high light in the model species Eutrema salsugineum and Arabidopsis thaliana. This activation correlates with structural reorganization of the thylakoid membrane. Over-expression of PTOX in mutants of Arabidopsis thaliana perturbed in thylakoid stacking also results in such activity, in contrast to wild type plants with normal granal structure. Further, PTOX activation protects against photoinhibition of Photosystem II and reduces reactive oxygen production under stress conditions. We conclude that structural re-arrangements of the thylakoid membranes, bringing Photosystem II and PTOX into proximity, are both required and sufficient for PTOX to act as a Photosystem II sink and play a role in photoprotection.
Shape morphing of hydrogels by harnessing enzyme enabled mechanoresponse
Authors: Zhang Kuan , Zhou Yu , Zhang Junsheng , Liu Qing , Hanenberg Christina , Mourran Ahmed , Wang Xin , Gao Xiang , Cao Yi , Herrmann Andreas , Zheng Lifei
Published: January 2024

Hydrogels have been designed to react to many different stimuli which find broad applications in tissue engineering and soft robotics. However, polymer networks bearing mechano-responsiveness, especially those displaying on-demand self-stiffening and self-softening behavior, are rarely reported. Here, we design a mechano-controlled biocatalytic system at the molecular level that is incorporated into hydrogels to regulate their mechanical properties at the material scale. The biocatalytic system consists of the protease thrombin and its inhibitor, hirudin, which are genetically engineered and covalently coupled to the hydrogel networks. The catalytic activity of thrombin is reversibly switched on by stretching of the hydrogels, which disrupts the noncovalent inhibitory interaction between both entities. Under cyclic tensile-loading, hydrogels exhibit self-stiffening or self-softening properties when substrates are present that can self-assemble to form new networks after being activated by thrombin or when cleavable peptide crosslinkers are constitutional components of the original network, respectively. Additionally, we demonstrate the programming of bilayer hydrogels to exhibit tailored shape-morphing behavior under mechanical stimulation. Our developed system provides proof of concept for mechanically controlled reversible biocatalytic processes, showcasing their potential for regulating hydrogels and proposing a biomacromolecular strategy for mechano-regulated soft functional materials.
De novo biosynthesis of the hops bioactive flavonoid xanthohumol in yeast
Authors: Yang Shan , Chen Ruibing , Cao Xuan , Wang Guodong , Zhou Yongjin J.
Published: January 2024

The flavonoid xanthohumol is an important flavor substance in the brewing industry that has a wide variety of bioactivities. However, its unstable structure results in its low content in beer. Microbial biosynthesis is considered a sustainable and economically viable alternative. Here, we harness the yeast Saccharomyces cerevisiae for the de novo biosynthesis of xanthohumol from glucose by balancing the three parallel biosynthetic pathways, prenyltransferase engineering, enhancing precursor supply, constructing enzyme fusion, and peroxisomal engineering. These strategies improve the production of the key xanthohumol precursor demethylxanthohumol (DMX) by 83-fold and achieve the de novo biosynthesis of xanthohumol in yeast. We also reveal that prenylation is the key limiting step in DMX biosynthesis and develop tailored metabolic regulation strategies to enhance the DMAPP availability and prenylation efficiency. Our work provides feasible approaches for systematically engineering yeast cell factories for the de novo biosynthesis of complex natural products.
A soft magnetoelectric finger for robots’ multidirectional tactile perception in non-visual recognition environments
Authors: Xu Yizhuo , Zhang Shanfei , Li Shuya , Wu Zhenhua , Li Yike , Li Zhuofan , Chen Xiaojun , Shi Congcan , Chen Peng , Zhang Pengyu , Dickey Michael D. , Su Bin
Published: January 2024

Robotic fingers with multidirectional tactile perception are of great importance for the robotic exploration of complex unknown space, especially in environments in which visualization is not possible. Unfortunately, most existing tactile sensors for robotic fingers cannot detect multidirectional forces, which greatly limits their potential for further development in navigating complex environments. Here, we demonstrate a soft magnetoelectric finger (SMF) that can achieve self-generated-signal and multidirectional tactile sensing. The SMF is composed of two parts: a ‘finger’ covered with a skin-like flexible sheath containing five liquid metal (LM) coils and a ‘phalangeal bone’ containing a magnet. Due to the changes in magnetic flux through the LM coils caused by external forces, diverse induced voltages are generated and collected in real-time, which can be explained by Maxwell’s numerical simulation. By the analysis of the signals generated by the five LM coils, the SMF can detect forces in varied directions and distinguish 6 different common objects with varied Young’s moduli with an accuracy of 97.46%. These capabilities make the SMF suitable for complex unknown space exploration tasks, as proved by the black box exploration. The SMF can enable the development of self-generated-signal and multidirectional tactile perception for future robots.
Schistosoma mansoni vaccine candidates identified by unbiased phage display screening in self-cured rhesus macaques
Authors: Woellner-Santos Daisy , Tahira Ana C. , Malvezzi João V. M. , Mesel Vinicius , Morales-Vicente David A. , Trentini Monalisa M. , Marques-Neto Lázaro M. , Matos Isaac A. , Kanno Alex I. , Pereira Adriana S. A. , Teixeira André A. R. , Giordano Ricardo J. , Leite Luciana C. C. , Pereira Carlos A. B. , DeMarco Ricardo , Amaral Murilo S. , Verjovski-Almeida Sergio
Published: January 2024

Schistosomiasis, a challenging neglected tropical disease, affects millions of people worldwide. Developing a prophylactic vaccine againstSchistosoma mansonihas been hindered by the parasite’s biological complexity. In this study, we utilized the innovative phage-display immunoprecipitation followed by a sequencing approach (PhIP-Seq) to screen the immune response of 10 infected rhesus macaques during self-cure and challenge-resistant phases, identifying vaccine candidates. Our high-throughputS. mansonisynthetic DNA phage-display library encoded 99.6% of 119,747 58-mer peptides, providing comprehensive coverage of the parasite’s proteome. Library screening with rhesus macaques’ antibodies, from the early phase of establishment of parasite infection, identified significantly enriched epitopes of parasite extracellular proteins known to be expressed in the digestive tract, shifting towards intracellular proteins during the late phase of parasite clearance. Immunization of mice with a selected pool of PhIP-Seq-enriched phage-displayed peptides from MEG proteins, cathepsins B, and asparaginyl endopeptidase significantly reduced worm burden in a vaccination assay. These findings enhance our understanding of parasite-host immune responses and provide promising prospects for developing an effective schistosomiasis vaccine.
Plasmonic photoconductive terahertz focal-plane array with pixel super-resolution
Authors: Li Xurong , Mengu Deniz , Yardimci Nezih T. , Turan Deniz , Charkhesht Ali , Ozcan Aydogan , Jarrahi Mona
Published: January 2024

Imaging systems operating in the terahertz part of the electromagnetic spectrum are attractive due to their ability to penetrate many opaque materials and provide unique spectral signatures of various chemicals. However, the use of terahertz imagers in real-world applications has been limited by the slow speed, large size, high cost and complexity of present systems, largely due to the lack of suitable terahertz focal-plane array detectors. Here we report a terahertz focal-plane array that can directly provide the spatial amplitude and phase distributions, along with the ultrafast temporal and spectral information of an imaged object. It consists of a two-dimensional array of ~0.3 million plasmonic photoconductive nanoantennas optimized to rapidly detect broadband terahertz radiation with a high signal-to-noise ratio. We utilized the multispectral nature of the amplitude and phase data captured by these plasmonic nanoantennas to image different objects, including super-resolved etched patterns in a silicon substrate and defects in battery electrodes. By eliminating the need for raster scanning and spatial terahertz modulation, our terahertz focal-plane array offers more than a 1,000-fold increase in the imaging speed compared with the state of the art and potentially suits a broad range of applications in industrial inspection, security screening and medical diagnosis, among others.
Multi-ancestry genome-wide association study of major depression aids locus discovery, fine mapping, gene prioritization and causal inference
Authors: Meng Xiangrui , Navoly Georgina , Giannakopoulou Olga , Levey Daniel F. , Koller Dora , Pathak Gita A. , Koen Nastassja , Lin Kuang , Adams Mark J. , Rentería Miguel E. , Feng Yanzhe , Gaziano J. Michael , Stein Dan J. , Zar Heather J. , Campbell Megan L. , van Heel David A. , Trivedi Bhavi , Finer Sarah , McQuillin Andrew , Bass Nick , Chundru V. Kartik , Martin Hilary C. , Huang Qin Qin , Valkovskaya Maria , Chu Chia-Yi , Kanjira Susan , Kuo Po-Hsiu , Chen Hsi-Chung , Tsai Shih-Jen , Liu Yu-Li , Kendler Kenneth S. , Peterson Roseann E. , Cai Na , Fang Yu , Sen Srijan , Scott Laura J. , Burmeister Margit , Loos Ruth J. F. , Preuss Michael H. , Actkins Ky’Era V. , Davis Lea K. , Uddin Monica , Wani Agaz H. , Wildman Derek E. , Aiello Allison E. , Ursano Robert J. , Kessler Ronald C. , Kanai Masahiro , Okada Yukinori , Sakaue Saori , Rabinowitz Jill A. , Maher Brion S. , Uhl George , Eaton William , Cruz-Fuentes Carlos S. , Martinez-Levy Gabriela A. , Campos Adrian I. , Millwood Iona Y. , Chen Zhengming , Li Liming , Wassertheil-Smoller Sylvia , Jiang Yunxuan , Tian Chao , Martin Nicholas G. , Mitchell Brittany L. , Byrne Enda M. , Awasthi Swapnil , Coleman Jonathan R. I. , Ripke Stephan ,   PGC-MDD Working Group,   China Kadoorie Biobank Collaborative Group,   the 23andMe Research Team,   Genes and Health Research Team,   BioBank Japan Project, Sofer Tamar , Walters Robin G. , McIntosh Andrew M. , Polimanti Renato , Dunn Erin C. , Stein Murray B. , Gelernter Joel , Lewis Cathryn M. , Kuchenbaecker Karoline
Published: January 2024

Most genome-wide association studies (GWAS) of major depression (MD) have been conducted in samples of European ancestry. Here we report a multi-ancestry GWAS of MD, adding data from 21 cohorts with 88,316 MD cases and 902,757 controls to previously reported data. This analysis used a range of measures to define MD and included samples of African (36% of effective sample size), East Asian (26%) and South Asian (6%) ancestry and Hispanic/Latin American participants (32%). The multi-ancestry GWAS identified 53 significantly associated novel loci. For loci from GWAS in European ancestry samples, fewer than expected were transferable to other ancestry groups. Fine mapping benefited from additional sample diversity. A transcriptome-wide association study identified 205 significantly associated novel genes. These findings suggest that, for MD, increasing ancestral and global diversity in genetic studies may be particularly important to ensure discovery of core genes and inform about transferability of findings.
Antimalarial artesunate–mefloquine versus praziquantel in African children with schistosomiasis: an open-label, randomized controlled trial
Authors: Bottieau Emmanuel , Mbow Moustapha , Brosius Isabel , Roucher Clémentine , Gueye Cheikh Tidiane , Mbodj Ousmane Thiam , Faye Babacar Thiendella , De Hondt Annelies , Smekens Bart , Arango Diana , Burm Christophe , Tsoumanis Achilleas , Paredis Linda , Van Herrewege Yven , Potters Idzi , Richter Joachim , Rosanas-Urgell Anna , Cissé Badara , Mboup Souleymane , Polman Katja
Published: January 2024

Schistosomiasis treatment entirely relies on a single drug, praziquantel, prompting research into alternative therapeutics. Here we evaluated the efficacy and safety of the antimalarial combination artesunate–mefloquine for the treatment of schistosomiasis in a proof-of-concept, pragmatic, open-label, randomized controlled trial in primary schools of six villages endemic for schistosomiasis in northern Senegal. Children (6–14 years) were eligible if Schistosoma eggs were detected by microscopy in urine and/or stool. In total, 726 children were randomized 1:1 to praziquantel (standard care: 40 mg kg−1 single dose; n = 364) or to artesunate–mefloquine (antimalarial dosage: artesunate 4 mg kg−1 and mefloquine 8 mg kg−1 daily for three consecutive days; n = 362). Eight children not meeting the inclusion criteria were excluded from efficacy analysis. Median age of the remaining 718 participants was 9 years; 399 (55.6%) were male, and 319 (44.4%) female; 99.3% were infected with Schistosoma haematobium and 15.2% with S. mansoni. Primary outcomes were cure rate, assessed by microscopy, and frequency of drug-related adverse effects of artesunate–mefloquine versus praziquantel at 4 weeks after treatment. Cure rate was 59.6% (208/349) in the artesunate–mefloquine arm versus 62.1% (211/340) in the praziquantel arm. The difference of −2.5% (95% confidence interval (CI) −9.8 to 4.8) met the predefined criteria of noninferiority (margin set at 10%). All drug-related adverse events were mild or moderate, and reported in 28/361 children receiving artesunate–mefloquine (7.8%; 95% CI 5.4 to 11.0) versus 8/363 (2.2%; 95% CI 1.1 to 4.3) receiving praziquantel (P < 0.001). Artesunate–mefloquine at antimalarial dosage was moderately safe and noninferior to standard-care praziquantel for the treatment of schistosomiasis, predominantly due to S. haematobium. Multicentric trials in different populations and epidemiological settings are needed to confirm these findings. ClinicalTrials.gov identifier: NCT03893097.
A neural mechanism for conserved value computations integrating information and rewards
Authors: Bromberg-Martin Ethan S. , Feng Yang-Yang , Ogasawara Takaya , White J. Kael , Zhang Kaining , Monosov Ilya E.
Published: January 2024

Behavioral and economic theory dictate that we decide between options based on their values. However, humans and animals eagerly seek information about uncertain future rewards, even when this does not provide any objective value. This implies that decisions are made by endowing information with subjective value and integrating it with the value of extrinsic rewards, but the mechanism is unknown. Here, we show that human and monkey value judgements obey strikingly conserved computational principles during multi-attribute decisions trading off information and extrinsic reward. We then identify a neural substrate in a highly conserved ancient structure, the lateral habenula (LHb). LHb neurons signal subjective value, integrating information’s value with extrinsic rewards, and the LHb predicts and causally influences ongoing decisions. Neurons in key input areas to the LHb largely signal components of these computations, not integrated value signals. Thus, our data uncover neural mechanisms of conserved computations underlying decisions to seek information about the future.
Structural basis of the human NAIP/NLRC4 inflammasome assembly and pathogen sensing
Authors: Matico Rosalie E. , Yu Xiaodi , Miller Robyn , Somani Sandeep , Ricketts M. Daniel , Kumar Nikit , Steele Ruth A. , Medley Quintus , Berger Scott , Faustin Benjamin , Sharma Sujata
Published: January 2024

The NLR family caspase activation and recruitment domain-containing 4 (NLRC4) inflammasome is a critical cytosolic innate immune machine formed upon the direct sensing of bacterial infection and in response to cell stress during sterile chronic inflammation. Despite its major role in instigating the subsequent host immune response, a more complete understanding of the molecular events in the formation of the NLRC4 inflammasome in humans is lacking. Here we identify Bacillus thailandensis type III secretion system needle protein (Needle) as a potent trigger of the human NLR family apoptosis inhibitory protein (NAIP)/NLRC4 inflammasome complex formation and determine its structural features by cryogenic electron microscopy. We also provide a detailed understanding of how type III secretion system pathogen components are sensed by human NAIP to form a cascade of NLRC4 protomer through a critical lasso-like motif, a ‘lock–key’ activation model and large structural rearrangement, ultimately forming the full human NLRC4 inflammasome. These results shed light on key regulatory mechanisms specific to the NLRC4 inflammasome assembly, and the innate immune modalities of pathogen sensing in humans.
General transcription factor from Escherichia coli with a distinct mechanism of action
Authors: Vasilyev Nikita , Liu Mengjie M. J. , Epshtein Vitaly , Shamovsky Ilya , Nudler Evgeny
Published: January 2024

Gene expression in Escherichia coli is controlled by well-established mechanisms that activate or repress transcription. Here, we identify CedA as an unconventional transcription factor specifically associated with the RNA polymerase (RNAP) σ70 holoenzyme. Structural and biochemical analysis of CedA bound to RNAP reveal that it bridges distant domains of β and σ70 subunits to stabilize an open-promoter complex. CedA does so without contacting DNA. We further show that cedA is strongly induced in response to amino acid starvation, oxidative stress and aminoglycosides. CedA provides a basal level of tolerance to these clinically relevant antibiotics, as well as to rifampicin and peroxide. Finally, we show that CedA modulates transcription of hundreds of bacterial genes, which explains its pleotropic effect on cell physiology and pathogenesis.
Laser-based angle-resolved photoemission spectroscopy with micrometer spatial resolution and detection of three-dimensional spin vector
Authors: Iwata Takuma , Kousa T. , Nishioka Y. , Ohwada K. , Sumida K. , Annese E. , Kakoki M. , Kuroda Kenta , Iwasawa H. , Arita M. , Kumar S. , Kimura A. , Miyamoto K. , Okuda T.
Published: January 2024

We have developed a state-of-the-art apparatus for laser-based spin- and angle-resolved photoemission spectroscopy with micrometer spatial resolution (µ-SARPES). This equipment is realized by the combination of a high-resolution photoelectron spectrometer, a 6 eV laser with high photon flux that is focused down to a few micrometers, a high-precision sample stage control system, and a double very-low-energy-electron-diffraction spin detector. The setup achieves an energy resolution of 1.5 (5.5) meV without (with) the spin detection mode, compatible with a spatial resolution better than 10 µm. This enables us to probe both spatially-resolved electronic structures and vector information of spin polarization in three dimensions. The performance of µ-SARPES apparatus is demonstrated by presenting ARPES and SARPES results from topological insulators and Au photolithography patterns on a Si (001) substrate.
An intelligent agriculture management system for rainfall prediction and fruit health monitoring
Authors: Kaplun Dmitrii , Deka Surajit , Bora Arunabh , Choudhury Nupur , Basistha Jyotishman , Purkayastha Bhaswadeep , Mazumder Ifthikaruz Zaman , Gulvanskii Vyacheslav , Sarma Kandarpa Kumar , Misra Debashis Dev
Published: January 2024

Contrary to popular belief, agriculture is becoming more data-driven with artificial intelligence and Internet-of-Things (IoT) playing crucial roles. In this paper, the integrated processing executed by various sensors combined as an IoT pack and driving an intelligent agriculture management system designed for rainfall prediction and fruit health monitoring have been included. The proposed system based on an AI aided model makes use of a Convolutional Neural Network (CNN) with long short-term memory (LSTM) layer for rainfall prediction and a CNN with SoftMax layer along with a few deep learning pre-trained models for fruit health monitoring. Another model that works as a combined rainfall predictor and fruit health recognizer is designed using a CNN + LSTM and a multi-head self-attention mechanism which proves to be effective. The entire system is cloud resident and available for use through an application.
Palladium-based pseudohomogeneous catalyst for highly selective aerobic oxidation of benzylic alcohols to aldehydes
Authors: Targhan Homa , Rezaei Aram , Aliabadi Alireza , Ramazani Ali , Zhao Zhefei , Zheng Huajun
Published: January 2024

This study presents a novel class of pseudohomogeneous catalysts (PHC) based on carbon quantum dots functionalized with terpyridine ligands (CQDs-Tpy) to immobilize and stabilize palladium nanoparticles (Pd NPs). Extensive characterization techniques clearly confirmed the successful stabilization of Pd NPs on CQDs-Tpy. The effectiveness of the catalyst was demonstrated in the selective aerobic oxidation of primary and secondary of benzylic alcohols to aldehydes in the absence of additives and phase transfer catalyst (PTC). Remarkably, the reactions predominantly yielded aldehydes without further oxidation to carboxylic acids. By employing low catalyst loadings (0.13 mol%), high conversions (up to 89%) and excellent selectivity (> 99%) of the aldehyde derivatives were achieved. Moreover, the CQDs-Tpy/Pd NPs catalyst displayed suitable catalytic activity and recyclability, offering potential economic advantages. This promising approach opens up new opportunities in the field of catalysis for designing subnanometric metal-based PHCs.
Synthesis, characterization, Hirshfeld surface analysis, antioxidant and selective β-glucuronidase inhibitory studies of transition metal complexes of hydrazide based Schiff base ligand
Authors: Farzia  , Rehman Sadia , Ikram Muhammad , Khan Adnan , Khan Rizwan , Sinnokrot Mutasem Omar , Khan Momin , AlAsmari Abdullah F. , Alasmari Fawaz , Alharbi Metab
Published: January 2024

The synthesis of N′-[(4-hydroxy-3-methoxyphenyl)methylidene] 2-aminobenzohydrazide (H-AHMB) was performed by condensing O-vanillin with 2-aminobenzohydrazide and was characterized by FTIR, high resolution ESI(+) mass spectral analysis, 1H and 13C-NMR. The compound H-AHMB was crystallized in orthorhombic Pbca space group and studied for single crystal diffraction analysis. Hirshfeld surface analysis was also carried out for identifying short interatomic interactions. The major interactions H…H, O…H and C…H cover the Hirshfeld surface of H-AHMB. The metal complexes [M(AHMB)n] where M = Co(II), Ni(II), Cu(II) and Zn(II) were prepared from metal chlorides and H-AHMB ligand. The bonding was unambigously assigned using FTIR and UV/vis analysis. The synthesized ligand H-AHMB and its metal complexes were studied for β-glucuronidase enzyme inhibition. Surprisingly the metal complexes were found more active than the parent ligand and even the standard drug. Zn-AHMB shown IC50 = 17.3 ± 0.68 µM compared to IC50 = 45.75 ± 2.16 µM shown by d-saccharic acid-1,4-lactone used as standard. The better activity by Zn-AHMB implying zinc based metallodrug for the treatment of diseases associated with β-glucuronidase enzyme. The DPPH radical scavenging activities were also studied for all the synthesized compounds. The Co-AHMB complex with IC50 = 98.2 ± 1.78 µM was the only candidate to scavenge the DPPH free radicals.
Photocatalytic removal of imidacloprid pesticide from wastewater using CdS QDs passivated by CQDs containing thiol groups
Authors: Targhan Homa , Rezaei Aram , Aliabadi Alireza , Ramazani Ali , Zhao Zhefei , Shen Xinyi , Zheng Huajun
Published: January 2024

Over the past decade, CdS QDs have become versatile semiconductors. Surface modification of CdS QDs has become an interesting case study, as it can eliminate surface defects and improve their photochemical properties. In this study, we report a new strategy of using carbon quantum dots containing a large number of thiol groups (CQDs-SH) as a passivating agent for the stabilization of CdS quantum dots (QDs). Various characterization techniques have clearly revealed that the CdS QDs have been successfully passivated by CQDs-SH. The photocatalytic performance of CQDs-SH/CdS QDs was investigated for the degradation of the insecticide imidacloprid from an aqueous solution. Parameters affecting the photodegradation process, including the light source, photocatalyst amount, initial concentration of the pollutant, radiation time, pH, oxidizing agent, and temperature, were investigated. Furthermore, the HPLC technique was applied to quantitatively analyze imidacloprid and its degradation products. The results of the HPLC analysis revealed that under simulated visible light at pH 9, imidacloprid scarcely existed after 90 min of irradiation (90.13% degradation). The LC–MS method was also used to detect the degradation products and investigate the mechanism of photodegradation of the pesticide. The results showed that the CQDs-SH/CdS QDs composite was a promising photocatalyst for the degradation of imidacloprid in wastewater.
Prognostic and immunological role of adaptor related protein complex 3 subunit mu2 in colon cancer
Authors: Jin Qianqian , Feng Jiahao , Yan Yang , Kuang Yong
Published: January 2024

The expression levels and prognostic role of AP3M2 in colorectal adenocarcinoma (CRAC) have yet to be fully unveiled. Our study comprehensively investigated the clinical significance of AP3M2 in colorectal cancer through an extensive bioinformatics data mining process (TCGA, GEO, GEPIA, Timer, Ualcan, ROCPLOT, and David), followed by experimental validation. We found AP3M2 is a cancer gene, which can be used to distinguish between colorectal cancer and colorectal adenomas, liver metastasis, lung metastasis, colorectal polyp. Higher AP3M2 expression levels were associated with longer overall survival in colon adenocarcinoma. AP3M2 might be the primary biomarker for oxaliplatin in colon cancer and an acquired resistance biomarker for oxaliplatin and 5-fu. AP3M2 was positively associated with CD274, CTLA4. AP3M2 might be associated with T-cell, NF-kappaB transcription factor activity, and response to hypoxia. AP3M2 could predict chemotherapy effectiveness and prognosis for colon cancer patients. AP3M2 might inhibit tumor growth via influencing tumor-infiltrating immune cells in the context of Tumor microenvironment. AP3M2 plays as an oncogene in CRAC and is suggested as a new potential biotarget for therapy.
Meldrum’s acid assisted formation of tetrahydroquinolin-2-one derivatives a short synthetic pathway to the biologically useful scaffold
Authors: Ryczkowska Małgorzata , Trocka Alicja , Hromova Anna , Makowiec Sławomir
Published: January 2024

A new method for the preparation of tetrahydroquinolin-2-one derivatives is presented. This approach involves a two-step reaction between enaminones and acylating agents, immediately followed by electrophilic cyclization, all within a single synthesis procedure, eliminating the need to isolate intermediates. The entire process is facilitated by the use of acyl Meldrum’s acids which not only shortens the preparation time of the substrates but also easily extends the range of substituents That can be used. The method’s scope and limitations were evaluated with various reagent combinations thus demonstrating its general applicability to the synthesis of tetrahydroquinolin-2-one core. Interestingly, some exceptions to the regular reaction pathway were observed when a strong EDG (electron donating group) was introduced via acyl Meldrum’s acids. The underlying mechanism of this phenomenon was elucidated during the investigation.
Origin and spatial population structure of Malagasy native chickens based on mitochondrial DNA
Authors: Yonezawa Takahiro , Mannen Hideyuki , Honma Kaho , Matsunaga Megumi , Rakotondraparany Felix , Ratsoavina Fanomezana Mihaja , Wu Jiaqi , Nishibori Masahide , Yamamoto Yoshio
Published: January 2024

Since Malagasy human culture became established in a multi-layered way by genetic admixture of Austronesian (Indonesia), Bantu (East Africa) and West Asian populations, the Malagasy native livestock should also have originated from these regions. While recent genetic studies revealed that Malagasy native dogs and goats were propagated from Africa, the origin of Malagasy native chickens is still controversial. Here, we conducted a phylogeographic analysis of the native chickens, focusing on the historical relationships among the Indian Ocean rim countries and based on mitochondrial D-loop sequences. Although previous work suggested that the rare Haplogroup D occurs with high frequencies in Island Southeast Asia–Pacific, East Africa and Madagascar, the major mitochondrial lineage in Malagasy populations is actually not Haplogroup D but the Sub-haplogroup C2, which is also observed in East Africa, North Africa, India and West Asia. We demonstrate that the Malagasy native chickens were propagated directly from West Asia (including India and North Africa), and not via East Africa. Furthermore, they display clear genetic differentiation within Madagascar, separated into the Highland and Lowland regions as seen in the human genomic landscape on this island. Our findings provide new insights for better understanding the intercommunion of material/non-material cultures within and around Madagascar.
Assessment of green lentil malt as a substrate for gluten-free beer brewing
Authors: Gasiński Alan , Kawa-Rygielska Joanna
Published: January 2024

The aim of this study was to analyze whether it is possible to brew beer without using cereals so that the produced beverage could be easily accessible for the population suffering from celiac disease and other gluten-related disorders. Green lentil seeds were malted and then mashed using a congress mashing procedure to assess their advantages and disadvantages in the brewing process. Based on the congress mashing procedure, the mashing process needed to produce beer was developed, and beers were produced from the lentil malts germinated during malting for 96 h, 120 h and 144 h. It was possible to produce beers from the lentil malts; however, they were characterized by a lower alcohol content, lower degree of attenuation and some discrepancies between the concentrations of various volatiles (such as acetaldehyde, ethyl acetate, and 1-propanol) compared to the control beer produced from barley malt.
Heavy metal transport with adsorption for instantaneous and exponential attenuation of concentration
Authors: Liang Ruishi , Isa Z. M.
Published: January 2024

Heavy metal pollutant is a serious problem in environmental pollution, and it is very difficult to eradicate once it enters the soil. As heavy metal adsorption has been proven to occur, the heavy metal’s behaviour can be modeled as a transport equation with adsorption. Previous adsorption term mostly due to the concentration alone, while in here, the desorption effect given by the rate of change of the concentration is also included. Also, the heavy metals are frequently considered to enter the soil after being dumped into the soil for a certain period of time. But, quick dumping onto the soil can introduce heavy metal instantaneously. Heavy metals entering the soil through leaching or when their concentration in the soil is influenced by chemical reactions, can all lead to the exponential decay of heavy metals entering the soil. Based on two-dimensional advection diffusion equation (ADE) with the new adsorption term, analytical solutions are obtained for the cases of instantaneous and exponential attenuation of heavy metals emission to soil by the method of Laplace transform. The results highlight the significant influence of emission type on the peak concentrations. If heavy metals are instantaneously enter the soil, the peak occurs in the range of 1–3 m radius from the point of emission on the first day, while for exponential attenuation the peak occurs close to the point of emission. Furthermore, there exists a correlation between retardation factors and heavy metal concentrations, where a decrease in retardation factors leads to an increase in heavy metal concentration. It is essential to investigate both types of heavy metals emission to provide valuable information for proper pollution management, effective environmental regulations and enforcement.
Chromosomal rearrangements played an important role in the speciation of rice rats of genus Cerradomys (Rodentia, Sigmodontinae, Oryzomyini)
Authors: Oliveira da Silva Willam , Malcher Stella Miranda , Ferguson-Smith Malcolm Andrew , O’Brien Patricia Caroline Mary , Rossi Rogério Vieira , Geise Lena , Pieczarka Julio Cesar , Nagamachi Cleusa Yoshiko
Published: January 2024

Rodents of the genus Cerradomys belong to tribe Oryzomyini, one of the most diverse and speciose groups in Sigmodontinae (Rodentia, Cricetidae). The speciation process in Cerradomys is associated with chromosomal rearrangements and biogeographic dynamics in South America during the Pleistocene era. As the morphological, molecular and karyotypic aspects of Myomorpha rodents do not evolve at the same rate, we strategically employed karyotypic characters for the construction of chromosomal phylogeny to investigate whether phylogenetic relationships using chromosomal data corroborate the radiation of Cerradomys taxa recovered by molecular phylogeny. Comparative chromosome painting using Hylaeamys megacephalus (HME) whole chromosome probes in C. langguthi (CLA), Cerradomys scotii (CSC), C. subflavus (CSU) and C. vivoi (CVI) shows that karyotypic variability is due to 16 fusion events, 2 fission events, 10 pericentric inversions and 1 centromeric repositioning, plus amplification of constitutive heterochromatin in the short arms of the X chromosomes of CSC and CLA. The chromosomal phylogeny obtained by Maximum Parsimony analysis retrieved Cerradomys as a monophyletic group with 97% support (bootstrap), with CSC as the sister to the other species, followed by a ramification into two clades (69% of branch support), the first comprising CLA and the other branch including CVI and CSU. We integrated the chromosome painting analysis of Eumuroida rodents investigated by HME and Mus musculus (MMU) probes and identified several syntenic blocks shared among representatives of Cricetidae and Muridae. The Cerradomys genus underwent an extensive karyotypic evolutionary process, with multiple rearrangements that shaped extant karyotypes. The chromosomal phylogeny corroborates the phylogenetic relationships proposed by molecular analysis and indicates that karyotypic diversity is associated with species radiation. Three syntenic blocks were identified as part of the ancestral Eumuroida karyotype (AEK): MMU 7/19 (AEK 1), MMU 14 (AEK 10) and MMU 12 (AEK 11). Besides, MMU 5/10 (HME 18/2/24) and MMU 8/13 (HME 22/5/11) should be considered as signatures for Cricetidae, while MMU 5/9/14, 5/7/19, 5 and 8/17 for Sigmodontinae.
High platelet reactivity strongly predicts early stent thrombosis in patients with drug-eluting stent implantation
Authors: Lim Subin , Hong Soon Jun , Kim Ju Hyeon , Cha Jung-Joon , Joo Hyung Joon , Park Jae Hyoung , Yu Cheol Woong , Kim Byeong-Keuk , Chang Kiyuk , Park Yongwhi , Song Young Bin , Ahn Sung Gyun , Suh Jung-Won , Lee Sang Yeub , Cho Jung Rae , Her Ae-Young , Jeong Young-Hoon , Kim Hyo-Soo , Kim Moo Hyun , Shin Eun-Seok , Lim Do-Sun ,   PTRG Investigators, Kim Hyun Kuk , Lee Jung Hee , Lee Byoung Kwon , Kim Weon , Park Kyung Woo , Moon Jae Yeon , Kwon Osung , Kim Chan Joon , Park Hyun-Woong , Lee Chang Hoon , Jang Woo Jin , Jin Han-Young , Chon Min Ku , Choi Ki Hong , Han Dong Hoon , Kang Min Gyu , Kang Jeehoon , Ki You Jeong , Park Jin Sup , Lee Seung-Jun , Lee Seung Hun , Lee Jong-Young , Cho Sung Won , Suh Jon , Bae Jang-Whan , You Seng Chan , Lim Do-Sun , Jeong Myung Ho
Published: January 2024

Stent thrombosis (ST) is a fatal complication after percutaneous coronary intervention (PCI). The association between P2Y12 reaction unit (PRU) level and stent thrombosis occurrence remains unclear. Based on the multicenter, observational PTRG-DES (Platelet function and genoType-Related long-term proGnosis in DES-treated patients) registry of patients with drug-eluting stents (DES) implantation, a total of 11,714 patients with PRU values were analyzed. We sought to identify the predictors of early stent thrombosis (EST) and compared the primary outcome, a composite of cardiac death, myocardial infarction, and revascularization, between EST and non-EST groups. EST, defined as definite ST within 1 month after index PCI, occurred in 51 patients. PRU values were significantly higher in the EST group (263.5 ± 70.8 vs. 217.5 ± 78.7, p < 0.001). In multivariable analysis, PRU ≥ 252 (OR, 5.10; 95% CI 1.58–16.46; p = 0.006) and aspirin reaction unit ≥ 414 (OR 4.85; 95% CI 1.07–21.97; p = 0.040) were independent predictors of EST. The cumulative incidence of primary composite outcome at one year was significantly higher in the EST group (38.2% vs. 3.9%, Log-rank p < 0.001). In patients treated with clopidogrel after successful DES implantation, EST was associated with higher platelet reactivities, and a greater risk of cardiovascular events.

Trial Registration: clinicaltrials.gov Identifier: NCT04734028.
Use of virtual monoenergetic images for reduction of extensive dental implant associated artifacts in photon-counting detector CT
Authors: Layer Yannik C. , Mesropyan Narine , Kupczyk Patrick A. , Luetkens Julian A. , Isaak Alexander , Dell Tatjana , Ernst Benjamin P. , Attenberger Ulrike I. , Kuetting Daniel
Published: January 2024

Aim of this study was to assess the impact of virtual monoenergetic images (VMI) on dental implant artifacts in photon-counting detector computed tomography (PCD-CT) compared to standard reconstructed polychromatic images (PI). 30 scans with extensive (≥ 5 dental implants) dental implant-associated artifacts were retrospectively analyzed. Scans were acquired during clinical routine on a PCD-CT. VMI were reconstructed for 100–190 keV (10 keV steps) and compared to PI. Artifact extent and assessment of adjacent soft tissue were rated using a 5-point Likert grading scale for qualitative assessment. Quantitative assessment was performed using ROIs in most pronounced hypodense and hyperdense artifacts, artifact-impaired soft tissue, artifact-free fat and muscle tissue. A corrected attenuation was calculated as difference between artifact-impaired tissue and tissue without artifacts. Qualitative assessment of soft palate and cheeks improved for all VMI compared to PI (Median PI: 1 (Range: 1–3) and 1 (1–3); e.g. VMI130 keV 2 (1–5); p < 0.0001 and 2 (1–4); p < 0.0001). In quantitative assessment, VMI130 keV showed best results with a corrected attenuation closest to 0 (PI: 30.48 ± 98.16; VMI130 keV: − 0.55 ± 73.38; p = 0.0026). Overall, photon-counting deducted VMI reduce the extent of dental implant-associated artifacts. VMI of 130 keV showed best results and are recommended to support head and neck CT scans.
Dynamic network link prediction with node representation learning from graph convolutional networks
Authors: Mei Peng , Zhao Yu hong
Published: January 2024

Dynamic network link prediction is extensively applicable in various scenarios, and it has progressively emerged as a focal point in data mining research. The comprehensive and accurate extraction of node information, as well as a deeper understanding of the temporal evolution pattern, are particularly crucial in the investigation of link prediction in dynamic networks. To address this issue, this paper introduces a node representation learning framework based on Graph Convolutional Networks (GCN), referred to as GCN_MA. This framework effectively combines GCN, Recurrent Neural Networks (RNN), and multi-head attention to achieve comprehensive and accurate representations of node embedding vectors. It aggregates network structural features and node features through GCN and incorporates an RNN with multi-head attention mechanisms to capture the temporal evolution patterns of dynamic networks from both global and local perspectives. Additionally, a node representation algorithm based on the node aggregation effect (NRNAE) is proposed, which synthesizes information including node aggregation and temporal evolution to comprehensively represent the structural characteristics of the network. The effectiveness of the proposed method for link prediction is validated through experiments conducted on six distinct datasets. The experimental outcomes demonstrate that the proposed approach yields satisfactory results in comparison to state-of-the-art baseline methods.
Synthesis, characterization, synergistic inhibition, and biological evaluation of novel Schiff base on 304 stainless steel in acid solution
Authors: Hosny Shimaa , Abdelfatah Aliaa , Gaber Ghalia A.
Published: January 2024

A novel Schiff base [4-(morpholin-4-yl) benzylidenyl]thiosemicarbazide (MBT) was created by reaction condensation. The molecules of the products were verified by IR,1HNMR, MS, and elemental techniques. The synergistic effect of KI with novel MBT on 304 stainless steel (SS) in acidic has been investigated experimentally and theoretically using DFT. The findings demonstrate that restriction efficacy on 304 SS improved with rising inhibitor concentrations, and this benefit was attributed to synergy when KI was injected. From EIS results, IE % increased with a higher concentration of MBT only and MBT + KI (from 100 to 600 ppm). MBT maximum IE % was 84.98%, at 600 ppm. MBT + KI, due to the I−ions synergistic effect, showed an IE% of about 95.48%, at 600 ppm. The adsorptions of MBT and MBT + KI on the surfaces of 304 SS are strongly fitted Langmuir adsorption isotherms. Thermodynamic parameters (Kads, ΔG0ads) were utilized. According to polarization findings, MBT behaves as a mixed-category antagonist. The Schiff base MBT was screened for its in vitro antimicrobial activities against some strains of bacteria and fungi. The result revealed that MBT proved to be an excellent candidate as a fungal agent being able to inhibit Aspergillus flavus.
Reduced reverse degree-based topological indices of graphyne and graphdiyne nanoribbons with applications in chemical analysis
Authors: Zaman Shahid , Hakami K. H. , Rasheed Sadaf , Agama Fekadu Tesgera
Published: January 2024

Graphyne and Graphdiyne Nanoribbons reveal significant prospective with diverse applications. In electronics, they propose unique electronic properties for high-performance nanoscale devices, while in catalysis, their excellent surface area and reactivity sort them valuable catalyst supports for numerous chemical reactions, contributing to progresses in sustainable energy and environmental remediation. The topological indices (TIs) are numerical invariants that provide important information about the molecular topology of a given molecular graph. These indices are essential in QSAR/QSPR analysis and play a significant role in predicting various physico-chemical characteristics. In this article, we present a formula for computing reduced reverse (RR) degree-based topological indices for graphyne and graphdiyne nanoribbons, including the RR Zagreb indices, RR hyper-Zagreb indices, RR forgotten index, RR atom bond connectivity index, and RR Geometric-arithmetic index. We also execute a graph-theoretical analysis and comparison to demonstrate the critical significance and validate the acquired results. Our findings provide insights into the structural and chemical properties of these nanoribbons and contribute to the development of new materials for various applications.
Enhancing heart disease prediction using a self-attention-based transformer model
Authors: Rahman Atta Ur , Alsenani Yousef , Zafar Adeel , Ullah Kalim , Rabie Khaled , Shongwe Thokozani
Published: January 2024

Cardiovascular diseases (CVDs) continue to be the leading cause of more than 17 million mortalities worldwide. The early detection of heart failure with high accuracy is crucial for clinical trials and therapy. Patients will be categorized into various types of heart disease based on characteristics like blood pressure, cholesterol levels, heart rate, and other characteristics. With the use of an automatic system, we can provide early diagnoses for those who are prone to heart failure by analyzing their characteristics. In this work, we deploy a novel self-attention-based transformer model, that combines self-attention mechanisms and transformer networks to predict CVD risk. The self-attention layers capture contextual information and generate representations that effectively model complex patterns in the data. Self-attention mechanisms provide interpretability by giving each component of the input sequence a certain amount of attention weight. This includes adjusting the input and output layers, incorporating more layers, and modifying the attention processes to collect relevant information. This also makes it possible for physicians to comprehend which features of the data contributed to the model's predictions. The proposed model is tested on the Cleveland dataset, a benchmark dataset of the University of California Irvine (UCI) machine learning (ML) repository. Comparing the proposed model to several baseline approaches, we achieved the highest accuracy of 96.51%. Furthermore, the outcomes of our experiments demonstrate that the prediction rate of our model is higher than that of other cutting-edge approaches used for heart disease prediction.
Analytical study of integrating downhole thermoelectric power generation with a coaxial borehole heat exchanger in geothermal wells
Authors: Qiao Yong , Shi Kaiyuan , Liu Junrong
Published: January 2024

Geothermal power generation employing Organic Rankine Cycle (ORC) technology is a widely acknowledged and conventional approach for harnessing geothermal energy. In an innovative advancement, we propose a novel design integrating downhole thermoelectric power generation with a coaxial borehole heat exchanger. This design aims to enhance the efficiency and sustainability of geothermal energy utilization. In this innovative design, the geothermal well is divided into two distinct sections: a power generation section and a heat exchanging section, achieved through the implementation of a packer positioned from the uppermost part of the targeted zone. The process involves the injection of cold fluid downhole via an insulated pipe. Subsequently, a portion of the injected fluid is directed to flow in reverse within the casing-tubing annulus above the packer, while another portion circulates into the casing-tubing annulus below the packer before ascending through the tubing. This dual flow mechanism establishes distinct cold and hot sources for the thermoelectric generator, a key feature facilitated by this innovative design. Analytical models detailing of downhole temperature distribution for thermoelectric power have been meticulously developed. A comprehensive case study, focusing on a geothermal well with 3000 m length of power generation section and 500 m heat exchanging section, has been conducted. The results indicate that a significant generating capacity could be achieved with a higher wellhead temperature, and the payback period under different carbon tax scenarios is about 6–8 year. Furthermore, the effects of injection rate, fluid diversion ratio, and casing-tubing configuration on power performance and thermal-electricity efficiency are also discussed. This method not only enables the concurrent harvesting of geothermal energy and power generation but also operates consistently throughout the year. The results thus emphasize the viability and economic feasibility of the proposed approach.