bluuebunny/crossref_metadata_2025 huggingface dataset:
Identification of novel molecular subtypes to improve the classification framework of nasopharyngeal carcinoma
Authors: Lin Wanzun , Chen Xiaochuan , Huang Zongwei , Ding Qin , Yang Hanxuan , Li Ying , Lin Duo , Lin Jun , Zhang Haojiong , Yang Xuelian , Li Chao , Chen Chuanben , Qiu Sufang
Published: January 2024

Background

Nasopharyngeal carcinoma (NPC) treatment is largely based on a ‘one-drug-fits-all’ strategy in patients with similar pathological characteristics. However, given its biological heterogeneity, patients at the same clinical stage or similar therapies exhibit significant clinical differences. Thus, novel molecular subgroups based on these characteristics may better therapeutic outcomes.

Methods

Herein, 192 treatment-naïve NPC samples with corresponding clinicopathological information were obtained from Fujian Cancer Hospital between January 2015 and January 2018. The gene expression profiles of the samples were obtained by RNA sequencing. Molecular subtypes were identified by consensus clustering. External NPC cohorts were used as the validation sets.

Results

Patients with NPC were classified into immune, metabolic, and proliferative molecular subtypes with distinct clinical features. Additionally, this classification was repeatable and predictable as validated by the external NPC cohorts. Metabolomics has shown that arachidonic acid metabolites were associated with NPC malignancy. We also identified several key genes in each subtype using a weighted correlation network analysis. Furthermore, a prognostic risk model based on these key genes was developed and was significantly associated with disease-free survival (hazard ratio, 1.11; 95% CI, 1.07–1.16;P < 0.0001), which was further validated by an external NPC cohort (hazard ratio, 7.71; 95% CI, 1.39–42.73;P < 0.0001). Moreover, the 1-, 3-, and 5-year areas under the curve were 0.84 (95% CI, 0.74–0.94), 0.81 (95% CI, 0.73–0.89), and 0.82 (95% CI, 0.73–0.90), respectively, demonstrating a high predictive value.

Conclusions

Overall, we defined a novel classification of nasopharyngeal carcinoma (immune, metabolism, and proliferation subtypes). Among these subtypes, metabolism and proliferation subtypes were associated with advanced stage and poor prognosis of NPC patients, whereas the immune subtype was linked to early stage and favorable prognosis.
TRPM8 inhibits substance P release from primary sensory neurons via PKA/GSK-3beta to protect colonic epithelium in colitis
Authors: Zhang Zehua , Yan Xiaohan , Kang Le , Leng Zhuyun , Ji Yingjie , Yang Shuangzhu , Du Xiaojing , Fang Kang , Wang Zeyu , Li Zhaoxing , Sun Mingchuang , Zhao Ziying , Feng Anqi , Chen Zhukai , Zhang Shihan , Wan Dong , Chen Tao , Xu Meidong
Published: January 2024

Transient receptor potential melastatin 8 (TRPM8) is a cold sensory receptor in primary sensory neurons that regulates various neuronal functions. Substance P (SP) is a pro-inflammatory neuropeptide secreted by the neurons, and it aggravates colitis. However, the regulatory role of TRPM8 in SP release is still unclear. Our study aimed to investigate TRPM8’s role in SP release from primary sensory neurons during colitis and clarify the effect of SP on colonic epithelium. We analyzed inflammatory bowel disease patients’ data from the Gene Expression Omnibus dataset. Dextran sulfate sodium (DSS, 2.5%)-induced colitis in mice, mouse dorsal root ganglion (DRG) neurons, ND7/23 cell line, and mouse or human colonic organoids were used for this experiment. Our study found that TRPM8, TAC1 and WNT3A expression were significantly correlated with the severity of ulcerative colitis in patients and DSS-induced colitis in mice. The TRPM8 agonist (menthol) and the SP receptor antagonist (Aprepitant) can attenuate colitis in mice, but the effects were not additive. Menthol promoted calcium ion influx in mouse DRG neurons and inhibited the combination and phosphorylation of PKAca from the cAMP signaling pathway and GSK-3β from the Wnt/β-catenin signaling pathway, thereby inhibiting the effect of Wnt3a-driven β-catenin on promoting SP release in ND7/23 cells. Long-term stimulation with SP inhibited proliferation and enhanced apoptosis in both mouse and human colonic organoids. Conclusively, TRPM8 inhibits SP release from primary sensory neurons by inhibiting the interaction between PKAca and GSK-3β, thereby inhibiting the role of SP in promoting colonic epithelial apoptosis and relieving colitis.
Caloric restriction leads to druggable LSD1-dependent cancer stem cells expansion
Authors: Pallavi Rani , Gatti Elena , Durfort Tiphanie , Stendardo Massimo , Ravasio Roberto , Leonardi Tommaso , Falvo Paolo , Duso Bruno Achutti , Punzi Simona , Xieraili Aobuli , Polazzi Andrea , Verrelli Doriana , Trastulli Deborah , Ronzoni Simona , Frascolla Simone , Perticari Giulia , Elgendy Mohamed , Varasi Mario , Colombo Emanuela , Giorgio Marco , Lanfrancone Luisa , Minucci Saverio , Mazzarella Luca , Pelicci Pier Giuseppe
Published: January 2024

Caloric Restriction (CR) has established anti-cancer effects, but its clinical relevance and molecular mechanism remain largely undefined. Here, we investigate CR’s impact on several mouse models of Acute Myeloid Leukemias, including Acute Promyelocytic Leukemia, a subtype strongly affected by obesity. After an initial marked anti-tumor effect, lethal disease invariably re-emerges. Initially, CR leads to cell-cycle restriction, apoptosis, and inhibition of TOR and insulin/IGF1 signaling. The relapse, instead, is associated with the non-genetic selection of Leukemia Initiating Cells and the downregulation of double-stranded RNA (dsRNA) sensing and Interferon (IFN) signaling genes. The CR-induced adaptive phenotype is highly sensitive to pharmacological or genetic ablation of LSD1, a lysine demethylase regulating both stem cells and dsRNA/ IFN signaling. CR + LSD1 inhibition leads to the re-activation of dsRNA/IFN signaling, massive RNASEL-dependent apoptosis, and complete leukemia eradication in ~90% of mice. Importantly, CR-LSD1 interaction can be modeled in vivo and in vitro by combining LSD1 ablation with pharmacological inhibitors of insulin/IGF1 or dual PI3K/MEK blockade. Mechanistically, insulin/IGF1 inhibition sensitizes blasts to LSD1-induced death by inhibiting the anti-apoptotic factor CFLAR. CR and LSD1 inhibition also synergize in patient-derived AML and triple-negative breast cancer xenografts. Our data provide a rationale for epi-metabolic pharmacologic combinations across multiple tumors.
iPSC-derived models of PACS1 syndrome reveal transcriptional and functional deficits in neuron activity
Authors: Rylaarsdam Lauren , Rakotomamonjy Jennifer , Pope Eleanor , Guemez-Gamboa Alicia
Published: January 2024

PACS1 syndrome is a neurodevelopmental disorder characterized by intellectual disability and distinct craniofacial abnormalities resulting from a de novo p.R203W variant in phosphofurin acidic cluster sorting protein 1 (PACS1). PACS1 is known to have functions in the endosomal pathway and nucleus, but how the p.R203W variant affects developing neurons is not fully understood. Here we differentiated stem cells towards neuronal models including cortical organoids to investigate the impact of the PACS1 syndrome-causing variant on neurodevelopment. While few deleterious effects were detected in PACS1(+/R203W)neural precursors, mature PACS1(+/R203W)glutamatergic neurons exhibited impaired expression of genes involved in synaptic signaling processes. Subsequent characterization of neural activity using calcium imaging and multielectrode arrays revealed the p.R203W PACS1 variant leads to a prolonged neuronal network burst duration mediated by an increased interspike interval. These findings demonstrate the impact of the PACS1 p.R203W variant on developing human neural tissue and uncover putative electrophysiological underpinnings of disease.
Generating dual structurally and functionally skin-mimicking hydrogels by crosslinking cell-membrane compartments
Authors: Wu Feng , Ren Yusheng , Lv Wenyan , Liu Xiaobing , Wang Xinyue , Wang Chuhan , Cao Zhenping , Liu Jinyao , Wei Jie , Pang Yan
Published: January 2024

The skin is intrinsically a cell-membrane-compartmentalized hydrogel with high mechanical strength, potent antimicrobial ability, and robust immunological competence, which provide multiple protective effects to the body. Methods capable of preparing hydrogels that can simultaneously mimic the structure and function of the skin are highly desirable but have been proven to be a challenge. Here, dual structurally and functionally skin-mimicking hydrogels are generated by crosslinking cell-membrane compartments. The crosslinked network is formed via free radical polymerization using olefinic double bond-functionalized extracellular vesicles as a crosslinker. Due to the dissipation of stretching energy mediated by vesicular deformation, the obtained compartment-crosslinked network shows enhanced mechanical strength compared to hydrogels crosslinked by regular divinyl monomers. Biomimetic hydrogels also exhibit specific antibacterial activity and adequate ability to promote the maturation and activation of dendritic cells given the existence of numerous extracellular vesicle-associated bioactive substances. In addition, the versatility of this approach to tune both the structure and function of the resulting hydrogels is demonstrated through introducing a second network by catalyst-free click reaction-mediated crosslinking between alkyne-double-ended polymers and azido-decorated extracellular vesicles. This study provides a platform to develop dual structure- and function-controllable skin-inspired biomaterials.
Catalytic hydrogenation of olefins by a multifunctional molybdenum-sulfur complex
Authors: Xue Minghui , Peng Zhiqiang , Tao Keyan , Jia Jiong , Song Datong , Tung Chen-Ho , Wang Wenguang
Published: January 2024

Exploration of molybdenum complexes as homogeneous hydrogenation catalysts has garnered significant attention, but hydrogenation of unactivated olefins under mild conditions are scarce. Here, we report the synthesis of a molybdenum complex, [Cp*Mo(Ph2PC6H4S−CH = CH2)(Py)]+ (2), which exhibits intriguing reactivity toward C2H2 and H2 under ambient pressure. This vinylthioether complex showcases efficient catalytic activity in the hydrogenation of various aromatic and aliphatic alkenes, demonstrating a broad substrate scope without the need for any additives. The catalytic pathway involves an uncommon oxidative addition of H2 to the cationic Mo(II) center, resulting in a Mo(IV) dihydride intermediate. Moreover, complex 2 also shows catalytic activity toward C2H2, leading to the production of polyacetylene and the extension of the vinylthioether ligand into a pendant triene chain.
Phytophagy impacts the quality and quantity of plant carbon resources acquired by mutualistic arbuscular mycorrhizal fungi
Authors: Bell C. A. , Magkourilou E. , Ault J. R. , Urwin P. E. , Field K. J.
Published: January 2024

Arbuscular mycorrhizal (AM) fungi associate with the roots of many plant species, enhancing their hosts access to soil nutrients whilst obtaining their carbon supply directly as photosynthates. AM fungi often face competition for plant carbon from other organisms. The mechanisms by which plants prioritise carbon allocation to mutualistic AM fungi over parasitic symbionts remain poorly understood. Here, we show that host potato plants (Solanum tuberosum cv. Désirée) selectively allocate carbon resources to tissues interacting with AM fungi rather than those interacting with phytophagous parasites (the nematode Globodera pallida). We found that plants reduce the supply of hexoses but maintain the flow of plant-derived fatty acids to AM fungi when concurrently interacting with parasites. Transcriptomic analysis suggest that plants prioritise carbon transfer to AM fungi by maintaining expression of fatty acid biosynthesis and transportation pathways, whilst decreasing the expression of mycorrhizal-induced hexose transporters. We also report similar findings from a different plant host species (Medicago truncatula) and phytophagous pest (the aphid Myzus persicae). These findings suggest a general mechanism of plant-driven resource allocation in scenarios involving multiple symbionts.
The origin and structural evolution of de novo genes in Drosophila
Authors: Peng Junhui , Zhao Li
Published: January 2024

Recent studies reveal that de novo gene origination from previously non-genic sequences is a common mechanism for gene innovation. These young genes provide an opportunity to study the structural and functional origins of proteins. Here, we combine high-quality base-level whole-genome alignments and computational structural modeling to study the origination, evolution, and protein structures of lineage-specific de novo genes. We identify 555 de novo gene candidates in D. melanogaster that originated within the Drosophilinae lineage. Sequence composition, evolutionary rates, and expression patterns indicate possible gradual functional or adaptive shifts with their gene ages. Surprisingly, we find little overall protein structural changes in candidates from the Drosophilinae lineage. We identify several candidates with potentially well-folded protein structures. Ancestral sequence reconstruction analysis reveals that most potentially well-folded candidates are often born well-folded. Single-cell RNA-seq analysis in testis shows that although most de novo gene candidates are enriched in spermatocytes, several young candidates are biased towards the early spermatogenesis stage, indicating potentially important but less emphasized roles of early germline cells in the de novo gene origination in testis. This study provides a systematic overview of the origin, evolution, and protein structural changes of Drosophilinae-specific de novo genes.
Cebp1 and Cebpβ transcriptional axis controls eosinophilopoiesis in zebrafish
Authors: Li Gaofei , Sun Yicong , Kwok Immanuel , Yang Liting , Wen Wanying , Huang Peixian , Wu Mei , Li Jing , Huang Zhibin , Liu Zhaoyuan , He Shuai , Peng Wan , Bei Jin-Xin , Ginhoux Florent , Ng Lai Guan , Zhang Yiyue
Published: January 2024

Eosinophils are a group of granulocytes well known for their capacity to protect the host from parasites and regulate immune function. Diverse biological roles for eosinophils have been increasingly identified, but the developmental pattern and regulation of the eosinophil lineage remain largely unknown. Herein, we utilize the zebrafish model to analyze eosinophilic cell differentiation, distribution, and regulation. By identifying eslec as an eosinophil lineage-specific marker, we establish a Tg(eslec:eGFP) reporter line, which specifically labeled cells of the eosinophil lineage from early life through adulthood. Spatial-temporal analysis of eslec+ cells demonstrates their organ distribution from larval stage to adulthood. By single-cell RNA-Seq analysis, we decipher the eosinophil lineage cells from lineage-committed progenitors to mature eosinophils. Through further genetic analysis, we demonstrate the role of Cebp1 in balancing neutrophil and eosinophil lineages, and a Cebp1-Cebpβ transcriptional axis that regulates the commitment and differentiation of the eosinophil lineage. Cross-species functional comparisons reveals that zebrafish Cebp1 is the functional orthologue of human C/EBPεP27 in suppressing eosinophilopoiesis. Our study characterizes eosinophil development in multiple dimensions including spatial-temporal patterns, expression profiles, and genetic regulators, providing for a better understanding of eosinophilopoiesis.
Finding the gap: neuromorphic motion-vision in dense environments
Authors: Schoepe Thorben , Janotte Ella , Milde Moritz B. , Bertrand Olivier J. N. , Egelhaaf Martin , Chicca Elisabetta
Published: January 2024

Animals have evolved mechanisms to travel safely and efficiently within different habitats. On a journey in dense terrains animals avoid collisions and cross narrow passages while controlling an overall course. Multiple hypotheses target how animals solve challenges faced during such travel. Here we show that a single mechanism enables safe and efficient travel. We developed a robot inspired by insects. It has remarkable capabilities to travel in dense terrain, avoiding collisions, crossing gaps and selecting safe passages. These capabilities are accomplished by a neuromorphic network steering the robot toward regions of low apparent motion. Our system leverages knowledge about vision processing and obstacle avoidance in insects. Our results demonstrate how insects might safely travel through diverse habitats. We anticipate our system to be a working hypothesis to study insects’ travels in dense terrains. Furthermore, it illustrates that we can design novel hardware systems by understanding the underlying mechanisms driving behaviour.
The mechanism of low blue light-induced leaf senescence mediated by GmCRY1s in soybean
Authors: Li Zhuang , Lyu Xiangguang , Li Hongyu , Tu Qichao , Zhao Tao , Liu Jun , Liu Bin
Published: January 2024

Leaf senescence is a crucial trait that has a significant impact on crop quality and yield. Previous studies have demonstrated that light is a key factor in modulating the senescence process. However, the precise mechanism by which plants sense light and control senescence remains largely unknown, particularly in crop species. In this study, we reveal that the reduction in blue light under shading conditions can efficiently induce leaf senescence in soybean. The blue light receptors GmCRY1s rather than GmCRY2s, primarily regulate leaf senescence in response to blue light signals. Our results show that GmCRY1s interact with DELLA proteins under light-activated conditions, stabilizing them and consequently suppressing the transcription of GmWRKY100 to delay senescence. Conversely, LBL reduces the interaction between GmCRY1s and the DELLA proteins, leading to their degradation and premature senescence of leaves. Our findings suggest a GmCRY1s-GmDELLAs-GmWRKY100 regulatory cascade that is involved in mediating LBL-induced leaf senescence in soybean, providing insight into the mechanism of how light signals regulate leaf senescence. Additionally, we generate GmWRKY100 knockout soybeans that show delayed leaf senescence and improved yield under natural field conditions, indicating potential applications in enhancing soybean production by manipulating the leaf senescence trait.
Boosting a practical Li-CO2 battery through dimerization reaction based on solid redox mediator
Authors: Li Wei , Zhang Menghang , Sun Xinyi , Sheng Chuanchao , Mu Xiaowei , Wang Lei , He Ping , Zhou Haoshen
Published: January 2024

Li-CO2 batteries offer a promising avenue for converting greenhouse gases into electricity. However, the inherent challenge of direct electrocatalytic reduction of inert CO2 often results in the formation of Li2CO3, causing a dip in output voltage and energy efficiency. Our innovative approach involves solid redox mediators, affixed to the cathode via a Cu(II) coordination compound of benzene-1,3,5-tricarboxylic acid. This technique effectively circumvents the shuttle effect and sluggish kinetics associated with soluble redox mediators. Results show that the electrochemically reduced Cu(I) solid redox mediator efficiently captures CO2, facilitating Li2C2O4 formation through a dimerization reaction involving a dimeric oxalate intermediate. The Li-CO2 battery employing the Cu(II) solid redox mediator boasts a higher discharge voltage of 2.8 V, a lower charge potential of 3.7 V, and superior cycling performance over 400 cycles. Simultaneously, the successful development of a Li-CO2 pouch battery propels metal-CO2 batteries closer to practical application.
Designing transparent piezoelectric metasurfaces for adaptive optics
Authors: Qiao Liao , Gao Xiangyu , Ren Kaile , Qiu Chaorui , Liu Jinfeng , Jin Haonan , Dong Shuxiang , Xu Zhuo , Li Fei
Published: January 2024

Simultaneously generating various motion modes with high strains in piezoelectric devices is highly desired for high-technology fields to achieve multi-functionalities. However, traditional approach for designing multi-degrees-of-freedom systems is to bond together several multilayer piezoelectric stacks, which generally leads to cumbersome and complicated structures. Here, we proposed a transparent piezo metasurface to achieve various types of strains in a wide frequency range. As an example, we designed a ten-unit piezo metasurface, which can produce high strains (ε3 = 0.76%), and generate linear motions along X-, Y- and Z-axis, rotary motions around X-, Y- and Z-axis as well as coupled modes. An adaptive lens based on the proposed piezo metasurface was demonstrated. It can realize a wide range of focal length (35.82 cm ~ ∞) and effective image stabilization with relatively large displacements (5.05 μm along Y-axis) and tilt angles (44.02′ around Y-axis). This research may benefit the miniaturization and integration of multi-degrees-of-freedom systems.
A dual-selective thermal emitter with enhanced subambient radiative cooling performance
Authors: Wu Xueke , Li Jinlei , Xie Fei , Wu Xun-En , Zhao Siming , Jiang Qinyuan , Zhang Shiliang , Wang Baoshun , Li Yunrui , Gao Di , Li Run , Wang Fei , Huang Ya , Zhao Yanlong , Zhang Yingying , Li Wei , Zhu Jia , Zhang Rufan
Published: January 2024

Radiative cooling is a zero-energy technology that enables subambient cooling by emitting heat into outer space (~3 K) through the atmospheric transparent windows. However, existing designs typically focus only on the main atmospheric transparent window (8–13 μm) and ignore another window (16–25 μm), under-exploiting their cooling potential. Here, we show a dual-selective radiative cooling design based on a scalable thermal emitter, which exhibits selective emission in both atmospheric transparent windows and reflection in the remaining mid-infrared and solar wavebands. As a result, the dual-selective thermal emitter exhibits an ultrahigh subambient cooling capacity (~9 °C) under strong sunlight, surpassing existing typical thermal emitters (≥3 °C cooler) and commercial counterparts (as building materials). Furthermore, the dual-selective sample also exhibits high weather resistance and color compatibility, indicating a high practicality. This work provides a scalable and practical radiative cooling design for sustainable thermal management.
Chemically-defined and scalable culture system for intestinal stem cells derived from human intestinal organoids
Authors: Kwon Ohman , Lee Hana , Jung Jaeeun , Son Ye Seul , Jeon Sojeong , Yoo Won Dong , Son Naeun , Jung Kwang Bo , Choi Eunho , Lee In-Chul , Kwon Hyung-Jun , Kim Chuna , Lee Mi-Ok , Cho Hyun-Soo , Kim Dae Soo , Son Mi-Young
Published: January 2024

Three-dimensional human intestinal organoids (hIO) are widely used as a platform for biological and biomedical research. However, reproducibility and challenges for large-scale expansion limit their applicability. Here, we establish a human intestinal stem cell (ISC) culture method expanded under feeder-free and fully defined conditions through selective enrichment of ISC populations (ISC3D-hIO) within hIO derived from human pluripotent stem cells. The intrinsic self-organisation property of ISC3D-hIO, combined with air-liquid interface culture in a minimally defined medium, forces ISC3D-hIO to differentiate into the intestinal epithelium with cellular diversity, villus-like structure, and barrier integrity. Notably, ISC3D-hIO is an ideal cell source for gene editing to study ISC biology and transplantation for intestinal diseases. We demonstrate the intestinal epithelium differentiated from ISC3D-hIO as a model system to study severe acute respiratory syndrome coronavirus 2 viral infection. ISC3D-hIO culture technology provides a biological tool for use in regenerative medicine and disease modelling.
An actor-model framework for visual sensory encoding
Authors: Leong Franklin , Rahmani Babak , Psaltis Demetri , Moser Christophe , Ghezzi Diego
Published: January 2024

A fundamental challenge in neuroengineering is determining a proper artificial input to a sensory system that yields the desired perception. In neuroprosthetics, this process is known as artificial sensory encoding, and it holds a crucial role in prosthetic devices restoring sensory perception in individuals with disabilities. For example, in visual prostheses, one key aspect of artificial image encoding is to downsample images captured by a camera to a size matching the number of inputs and resolution of the prosthesis. Here, we show that downsampling an image using the inherent computation of the retinal network yields better performance compared to learning-free downsampling methods. We have validated a learning-based approach (actor-model framework) that exploits the signal transformation from photoreceptors to retinal ganglion cells measured in explanted mouse retinas. The actor-model framework generates downsampled images eliciting a neuronal response in-silico and ex-vivo with higher neuronal reliability than the one produced by a learning-free approach. During the learning process, the actor network learns to optimize contrast and the kernel’s weights. This methodological approach might guide future artificial image encoding strategies for visual prostheses. Ultimately, this framework could be applicable for encoding strategies in other sensory prostheses such as cochlear or limb.
Last millennium hurricane activity linked to endogenous climate variability
Authors: Yang Wenchang , Wallace Elizabeth , Vecchi Gabriel A. , Donnelly Jeffrey P. , Emile-Geay Julien , Hakim Gregory J. , Horowitz Larry W. , Sullivan Richard M. , Tardif Robert , van Hengstum Peter J. , Winkler Tyler S.
Published: January 2024

Despite increased Atlantic hurricane risk, projected trends in hurricane frequency in the warming climate are still highly uncertain, mainly due to short instrumental record that limits our understanding of hurricane activity and its relationship to climate. Here we extend the record to the last millennium using two independent estimates: a reconstruction from sedimentary paleohurricane records and a statistical model of hurricane activity using sea surface temperatures (SSTs). We find statistically significant agreement between the two estimates and the late 20th century hurricane frequency is within the range seen over the past millennium. Numerical simulations using a hurricane-permitting climate model suggest that hurricane activity was likely driven by endogenous climate variability and linked to anomalous SSTs of warm Atlantic and cold Pacific. Volcanic eruptions can induce peaks in hurricane activity, but such peaks would likely be too weak to be detected in the proxy record due to large endogenous variability.
Sub-volt high-speed silicon MOSCAP microring modulator driven by high-mobility conductive oxide
Authors: Hsu Wei-Che , Nujhat Nabila , Kupp Benjamin , Conley John F. , Rong Haisheng , Kumar Ranjeet , Wang Alan X.
Published: January 2024

Silicon microring modulator plays a critical role in energy-efficient optical interconnect and optical computing owing to its ultra-compact footprint and capability for on-chip wavelength-division multiplexing. However, existing silicon microring modulators usually require more than 2 V of driving voltage (Vpp), which is limited by both material properties and device structures. Here, we present a metal-oxide-semiconductor capacitor microring modulator through heterogeneous integration between silicon photonics and titanium-doped indium oxide, which is a high-mobility transparent conductive oxide (TCO) with a strong plasma dispersion effect. The device is co-fabricated by Intel’s photonics fab and our in-house TCO patterning processes, which exhibits a high modulation efficiency of 117 pm/V and consequently can be driven by a very low Vppof 0.8 V. At a 11 GHz modulation bandwidth where the modulator is limited by the RC bandwidth, we obtained 25 Gb/s clear eye diagrams with energy efficiency of 53 fJ/bit.
Predatory protists reduce bacteria wilt disease incidence in tomato plants
Authors: Guo Sai , Jiao Zixuan , Yan Zhiguang , Yan Xinyue , Deng Xuhui , Xiong Wu , Tao Chengyuan , Liu Hongjun , Li Rong , Shen Qirong , Kowalchuk George A. , Geisen Stefan
Published: January 2024

Soil organisms are affected by the presence of predatory protists. However, it remains poorly understood how predatory protists can affect plant disease incidence and how fertilization regimes can affect these interactions. Here, we characterise the rhizosphere bacteria, fungi and protists over eleven growing seasons of tomato planting under three fertilization regimes, i.e conventional, organic and bioorganic, and with different bacterial wilt disease incidence levels. We find that predatory protists are negatively associated with disease incidence, especially two ciliophoran Colpoda OTUs, and that bioorganic fertilization enhances the abundance of predatory protists. In glasshouse experiments we find that the predatory protist Colpoda influences disease incidence by directly consuming pathogens and indirectly increasing the presence of pathogen-suppressive microorganisms in the soil. Together, we demonstrate that predatory protists reduce bacterial wilt disease incidence in tomato plants via direct and indirect reductions of pathogens. Our study provides insights on the role that predatory protists play in plant disease, which could be used to design more sustainable agricultural practices.
Horizontal gene transfer is predicted to overcome the diversity limit of competing microbial species
Authors: Zhu Shiben , Hong Juken , Wang Teng
Published: January 2024

Natural microbial ecosystems harbor substantial diversity of competing species. Explaining such diversity is challenging, because in classic theories it is extremely infeasible for a large community of competing species to stably coexist in homogeneous environments. One important aspect mostly overlooked in these theories, however, is that microbes commonly share genetic materials with their neighbors through horizontal gene transfer (HGT), which enables the dynamic change of species growth rates due to the fitness effects of the mobile genetic elements (MGEs). Here, we establish a framework of species competition by accounting for the dynamic gene flow among competing microbes. Combining theoretical derivation and numerical simulations, we show that in many conditions HGT can surprisingly overcome the biodiversity limit predicted by the classic model and allow the coexistence of many competitors, by enabling dynamic neutrality of competing species. In contrast with the static neutrality proposed by previous theories, the diversity maintained by HGT is highly stable against random perturbations of microbial fitness. Our work highlights the importance of considering gene flow when addressing fundamental ecological questions in the world of microbes and has broad implications for the design and engineering of complex microbial consortia.
Self-poled piezoelectric polymer composites via melt-state energy implantation
Authors: Huang Zhao-Xia , Li Lan-Wei , Huang Yun-Zhi , Rao Wen-Xu , Jiang Hao-Wei , Wang Jin , Zhang Huan-Huan , He He-Zhi , Qu Jin-Ping
Published: January 2024

Lightweight flexible piezoelectric polymers are demanded for various applications. However, the low instinctively piezoelectric coefficient (i.e. d33) and complex poling process greatly resist their applications. Herein, we show that introducing dynamic pressure during fabrication is capable for poling polyvinylidene difluoride/barium titanate (PVDF/BTO) composites with d33 of ~51.20 pC/N at low density of ~0.64 g/cm3. The melt-state dynamic pressure driven energy implantation induces structure evolutions of both PVDF and BTO are demonstrated as reasons for self-poling. Then, the porous material is employed as pressure sensor with a high output of ~20.0 V and sensitivity of ~132.87 mV/kPa. Besides, the energy harvesting experiment suggests power density of ~58.7 mW/m2 can be achieved for 10 N pressure with a long-term durability. In summary, we not only provide a high performance lightweight, flexible piezoelectric polymer composite towards sustainable self-powered sensing and energy harvesting, but also pave an avenue for electrical-free fabrication of piezoelectric polymers.
The cryo-EM structure of homotetrameric attachment glycoprotein from langya henipavirus
Authors: Guo Yingying , Wu Songyue , Li Wenting , Yang Haonan , Shi Tianhao , Ju Bin , Zhang Zheng , Yan Renhong
Published: January 2024

Langya Henipavirus (LayV) infection is an emerging zoonotic disease that has been causing respiratory symptoms in China since 2019. For virus entry, LayV’s genome encodes the fusion protein F and the attachment glycoprotein G. However, the structural and functional information regarding LayV-G remains unclear. In this study, we revealed that LayV-G cannot bind to the receptors found in other HNVs, such as ephrin B2/B3, and it shows different antigenicity from HeV-G and NiV-G. Furthermore, we determined the near full-length structure of LayV-G, which displays a distinct mushroom-shaped configuration, distinguishing it from other attachment glycoproteins of HNV. The stalk and transmembrane regions resemble the stem and root of mushroom and four downward-tilted head domains as mushroom cap potentially interact with the F protein and influence membrane fusion process. Our findings enhance the understanding of emerging HNVs that cause human diseases through zoonotic transmission and provide implication for LayV related vaccine development.
Matrix-bound nanovesicle-associated IL-33 supports functional recovery after skeletal muscle injury by initiating a pro-regenerative macrophage phenotypic transition
Authors: Bartolacci J. G. , Behun M. N. , Warunek J. P. , Li T. , Sahu A. , Dwyer G. K. , Lucas A. , Rong J. , Ambrosio F. , Turnquist H. R. , Badylak S. F.
Published: January 2024

Injuries to skeletal muscle are among the most common injuries in civilian and military populations, accounting for nearly 60% of extremity injuries. The standard of care for severe extremity injury has been focused upon limb salvage procedures and the utilization of tissue grafts or orthotics in conjunction with rehabilitation to avoid amputation. Nonetheless, many patients have persistent strength and functional deficits that permanently impact their quality of life. Preclinical and clinical studies have shown that partial restoration of functional skeletal muscle tissue following injury can be achieved by the implantation of a biologic scaffold composed of extracellular matrix (ECM). These favorable outcomes are mediated, at least in part, through local immunomodulation. The mechanisms underlying this immunomodulatory effect, however, are poorly understood. The present study investigates a potential mechanistic driver of the immunomodulatory effects; specifically, the effect of selected ECM components upon inflammation resolution and repair. Results show that the host response to skeletal muscle injury is profoundly altered and functional recovery decreased in il33−/− mice compared to age- and sex-matched wildtype counterparts by 14 days post-injury. Results also show that IL-33, contained within matrix-bound nanovesicles (MBV), supports skeletal muscle regeneration by regulating local macrophage activation toward a pro-remodeling phenotype via canonical and non-canonical pathways to improve functional recovery from injury compared to untreated il33−/− counterparts. Taken together, these data suggest that MBV and their associated IL-33 cargo represent a novel homeostatic signaling mechanism that contributes to skeletal muscle repair.
Socio-economic factors associated with post-traumatic stress symptoms among adolescents and young people during the first wave of the COVID-19 pandemic
Authors: Folayan Morenike Oluwatoyin , Zuñiga Roberto Ariel Abeldaño , Ellakany Passent , Yousaf Muhammad Abrar , Osamika Bamidele Emmanuel , Virtanen Jorma I. , Gaffar Balgis , Lawal Folake Barakat , Khalid Zumama , Aly Nourhan M. , Lusher Joanne , Nguyen Annie Lu
Published: January 2024

This study assessed the association between sociodemographic factors and post-traumatic stress symptoms (PTSS) among 18–24-year-olds during the first wave of the COVID-19 pandemic. This was a secondary analysis of data from 4508 individuals collected through an online survey conducted between June and January 2021. PTSS was measured as a dependent variable using the checklist for post-traumatic stress disorder in civilians. Age, birth sex, sexual, level of education, access to emotional and social support, and emotional distress were the independent variables. A multivariate logistic regression analysis was conducted to determine the associations between the dependent and independent variables while controlling for the country related confounding variables. Females (AOR:2.023), sexual minority individuals (AOR:1.868), those who did not disclose their sexual identify (AOR:1.476), those with poor access to emotional and social support (AOR:4.699) and individuals with no formal education (AOR:13.908), and only primary level education (AOR:4.521) had higher odds of PTSS. The study highlights the multifaceted nature of PTSS during the pandemic and suggests the importance of promoting access of young people, especially females, sexual minority individuals and those with low educational status, to emotional/social support to mitigate the probability of PTSS, especially among sexual minority individuals.
Improving neural machine translation for low resource languages through non-parallel corpora: a case study of Egyptian dialect to modern standard Arabic translation
Authors: Faheem Mohamed Atta , Wassif Khaled Tawfik , Bayomi Hanaa , Abdou Sherif Mahdy
Published: January 2024

Machine translation for low-resource languages poses significant challenges, primarily due to the limited availability of data. In recent years, unsupervised learning has emerged as a promising approach to overcome this issue by aiming to learn translations between languages without depending on parallel data. A wide range of methods have been proposed in the literature to address this complex problem. This paper presents an in-depth investigation of semi-supervised neural machine translation specifically focusing on translating Arabic dialects, particularly Egyptian, to Modern Standard Arabic. The study employs two distinct datasets: one parallel dataset containing aligned sentences in both dialects, and a monolingual dataset where the source dialect is not directly connected to the target language in the training data. Three different translation systems are explored in this study. The first is an attention-based sequence-to-sequence model that benefits from the shared vocabulary between the Egyptian dialect and Modern Arabic to learn word embeddings. The second is an unsupervised transformer model that depends solely on monolingual data, without any parallel data. The third system starts with the parallel dataset for an initial supervised learning phase and then incorporates the monolingual data during the training process.
Detection and specific chemical identification of submillimeter plastic fragments in complex matrices such as compost
Authors: Steiner Thomas , Leitner Lisa-Cathrin , Zhang Yuanhu , Möller Julia N. , Löder Martin G. J. , Greiner Andreas , Laforsch Christian , Freitag Ruth
Published: January 2024

Research on the plastic contamination of organic fertilizer (compost) has largely concentrated on particles and fragments > 1 mm. Small, submillimeter microplastic particles may be more hazardous to the environment. However, research on their presence in composts has been impeded by the difficulty to univocally identify small plastic particles in such complex matrices. Here a method is proposed for the analysis of particles between 0.01 and 1.0 mm according to number, size, and polymer type in compost. As a first demonstration of its potential, the method is used to determine large and small microplastic in composts from eight municipal compost producing plants: three simple biowaste composters, four plants processing greenery and cuttings and one two-stage biowaste digester-composter. While polyethylene, PE, tends to dominate among fragments > 1 mm, the microplastic fraction contained more polypropylene, PP. Whereas the contamination with PE/PP microplastic was similar over the investigated composts, only composts prepared from biowaste contained microplastic with a signature of biodegradable plastic, namely poly(butylene adipate co-terephthalate), PBAT. Moreover, in these composts PBAT microplastic tended to form the largest fraction. When the bulk of residual PBAT in the composts was analyzed by chloroform extraction, an inverse correlation between the number of particles > 0.01 mm and the total extracted amount was seen, arguing for breakdown into smaller particles, but not necessarily a mass reduction. PBAT oligomers and monomers as possible substrates for subsequent biodegradation were not found. Remaining microplastic will enter the environment with the composts, where its subsequent degradability depends on the local conditions and is to date largely uninvestigated.
Effect of synthesis conditions on the porous texture of activated carbons obtained from Tara Rubber by FeCl3 activation
Authors: Kwiatkowski Mirosław , Belver Carolina , Bedia Jorge
Published: January 2024

This paper presents the results of an unique analysis of the influence of the mass ratio of activator FeCl3 to precursor and the temperature of the activation process on the formation of the porous structure of activated carbons obtained from Tara Rubber by FeCl3 activation. The study used the new numerical clustering based adsorption analysis method and the quenched solid density functional theory, taking into account, among other things, the heterogeneity of the analysed surface which is a new approach rarely used in the analysis of the porous structure of adsorbents. On the basis of the calculation results, it was concluded that the activated carbon with the most developed porous texture was obtained at a mass ratio (FeCl3:Tara Rubber) of 2, at an activation process temperature of 800 °C. This activated carbon is also characterised by the lowest degree of surface heterogeneity and at the same time, however, the widest range of micropores compared to activated carbons obtained at other mass ratios. The analyses carried out further demonstrated the valuable and complementary information obtained from the structure analysis methods and their high utility in practical applications, especially in the development of new industrial technologies for the production of adsorbents and the selection of optimal conditions for their production.
A systematic approach to the modelling and comparison of the geometries of spherical electrodes in inertial electrostatic confinement fusion devices
Authors: Wulfkühler Jan-Philipp , Nguyen Hai-Dang , Peiffer Leo , Tajmar Martin
Published: January 2024

Inertial electrostatic confinement fusion (IECF) devices often use two concentric spherical electrodes to converge ions in a plasma electrostatically. Using a highly transparent inner cathode, the ions can move through the cathode and collide at the center to undergo fusion reactions. This is a simple method to build a neutron source. Past research has focused chiefly on cathode “grids” manufactured by joining metal wire loops or disc-shaped elements via spot welding. There are two common geometries: “Globe” grids with a distinct latitude-longitude structure and “symmetric” grids with even-sized triangular-shaped apertures. Recent advances in additive manufacturing have opened the way to manufacturing a third class of grids in which the apertures are evenly distributed over the grid surface and have either circular or polygonal shaped apertures - here called “regular” grids. These three types are analyzed and compared based on a set of metrics, including transparency, homogeneity of aperture size, and the regularity of aperture distribution. It is shown that every type of grid comes with different advantages and disadvantages. The analysis focuses on grid geometries with 6 to 120 apertures.
Cultivation and morphology of jujube (Ziziphus Jujuba Mill.) in the Qi River Basin of Northern China during the Neolithic Period
Authors: Li Yanpeng , Zhou Xinying , Zhao Keliang , Liu Junchi , Chen Guanhan , Zhang Yaping , Ma Jiacheng , Sun Nan , Li Xiaoqiang
Published: January 2024

This transition from gathering to cultivation is a significant aspect of studying early agricultural practices. Fruit trees are an essential component of food resources and have played a vital role in both ancient and modern agricultural production systems. The jujube (Ziziphus jujuba Mill.), with its long history of cultivation in northern China, holds great importance in uncovering the diet of prehistoric humans and understanding the origins of Chinese agricultural civilization. This paper focuses on the domestication of jujube by analyzing the morphology of jujube stones found in three Neolithic sites in northern China's Qi River basin, Zhujia, Wangzhuang, and Dalaidian. The measurements of these jujube kernels are compared with those found in other areas of northern China, as well as modern jujube kernels that were collected. The measurements revealed that the length-to-diameter (L/D) ratio of sour jujube kernels ranged from 1.36 to 1.78, whereas the L/D ratio of cultivated jujube stones varied between 1.96 and 4.23. Furthermore, jujube stones obtained from Zhujia and Wangzhuang sites exhibit pointed ends and possess an elongated oval or narrow oval shape overall, which is indicative of clearly artificial domestication traits. Therefore, this study suggests that jujube was selected and cultivated as an important food supplement in the Qi River basin no later than around 6200 BP.
Position parameters optimization of surface piercing propeller by artificial neural network
Authors: Zarezadeh Masoud , Nouri Nowrouz Mohammad , Madoliat Reza
Published: January 2024

Improving the performance of surface-piercing propellers is achieved by investigating the influential factors. In this study, Artificial Neural Network is used to identify nonlinear models for estimating various phenomena. Non-Dominated Sorting Genetic Algorithm II is considered as an optimization tool. In this study, in order to optimize the position parameters, including the immersion ratio, angle of attack, and yaw angle, data from experimental tests at the HYDROTECH center of IUST were collected as the initial data field for the generation of training data by the artificial neural network, then experimental tests were implemented in the position of the Non-Dominated Sorting Genetic Algorithm II proposed as the output, and the results were compared. The Artificial Neural Network results showed that the mean error of the trained verified and test data is 7.5e−5, 1e−4, and 1e−4, respectively. Comparing the experimental and optimization results, the thrust coefficient showed a relative error of 9.7%, while the torque coefficient showed a relative error of 7.5%, this algorithm can be used as a cost-effective, time-saving method for a similar problem.