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Abstract Radiotherapy has been demonstrated to be one of the most significant treatments for cervical cancer, during which accurate and efficient delineation of target volumes is critical. To alleviate the data demand of deep learning and promote the establishment and promotion of auto-segmentation models in small and medium-sized oncology departments and single centres, we proposed an auto-segmentation algorithm to determine the cervical cancer target volume in small samples based on multi-decoder and semi-supervised learning (MDSSL), and we evaluated the accuracy via an independent test cohort. In this study, we retrospectively collected computed tomography (CT) datasets from 71 pelvic cervical cancer patients, and a 3:4 ratio was used for the training and testing sets. The clinical target volumes (CTVs) of the primary tumour area (CTV1) and pelvic lymph drainage area (CTV2) were delineated. For definitive radiotherapy (dRT), the primary gross target volume (GTVp) was simultaneously delineated. According to the data characteristics for small samples, the MDSSL network structure based on 3D U-Net was established to train the model by combining clinical anatomical information, which was compared with other segmentation methods, including supervised learning (SL) and transfer learning (TL). The dice similarity coefficient (DSC), 95% Hausdorff distance (HD95) and average surface distance (ASD) were used to evaluate the segmentation performance. The ability of the segmentation algorithm to improve the efficiency of online adaptive radiation therapy (ART) was assessed via geometric indicators and a subjective evaluation of radiation oncologists (ROs) in prospective clinical applications. Compared with the SL model and TL model, the proposed MDSSL model displayed the best DSC, HD95 and ASD overall, especially for the GTVp of dRT. We calculated the above geometric indicators in the range of the ground truth (head-foot direction). In the test set, the DSC, HD95 and ASD of the MDSSL model were 0.80/5.85 mm/0.95 mm for CTV1 of post-operative radiotherapy (pRT), 0.84/ 4.88 mm/0.73 mm for CTV2 of pRT, 0.84/6.58 mm/0.89 mm for GTVp of dRT, 0.85/5.36 mm/1.35 mm for CTV1 of dRT, and 0.84/4.09 mm/0.73 mm for CTV2 of dRT, respectively. In a prospective clinical study of online ART, the target volume modification time (MTime) was 3–5 min for dRT and 2–4 min for pRT, and the main duration of CTV1 modification was approximately 2 min. The introduction of the MDSSL method successfully improved the accuracy of auto-segmentation for the cervical cancer target volume in small samples, showed good consistency with RO delineation and satisfied clinical requirements. In this prospective online ART study, the application of the segmentation model was demonstrated to be useful for reducing the target volume delineation time and improving the efficiency of the online ART workflow, which can contribute to the development and promotion of cervical cancer online ART.

Abstract Purpose The characteristic of RENT3B in cancer remains ambiguous. We aimed to study the relationship between RENT3B and immune infiltration in liver hepatocellular carcinoma (LIHC) and lung squamous cell carcinoma (LUSC). Patients and methods We investigated the expression levels of RENT3B using ONCOMINE and TIMER databases, and assessed the interrelationship between RENT3B expression and survival using PrognoScan, GEPIA, and Kaplan–Meier plotter. Additionally, we examined the association between RENT3B and immune cells in the tumor microenvironment (TME), as well as markers of immune cells, using TIMER. Subsequently, we performed prognostic analysis based on the expression level of RENT3B within specific immune cell subgroups. Furthermore, we evaluated the promoter methylation profile of RENT3B between tumor and normal tissues in LIHC and LUSC using the DNMIVD database. Results RENT3B exhibited increased levels in both in LIHC and LUSC. High RENT3B expression was associated with unfavorable prognosis in LIHC, whereas it indicated a beneficial prognosis in LUSC. In LIHC, the expression of RENT3B positively correlated with immune infiltration levels of B cells, CD4 + T cells, CD8 + T cells, neutrophils, macrophages, and dendritic cells. However, in LUSC, the expression of RENT3B showed a negative correlation with immune infiltration levels of B cells, CD8 + T cells, neutrophils, macrophages, and dendritic cells. RENT3B exhibited positive correlations with 42 immune markers in LIHC, while it displayed negative associations with 10 immune markers in LUSC. Despite variations in immune cell enrichment and reduction subgroups, high RENT3B expression consistently indicated poor prognosis in LIHC, whereas it remained favorable in LUSC. Additionally, there were no significant differences observed in RENT3B promoter methylation between tumor and normal tissues in both LIHC and LUSC. Conclusion RENT3B can affect the overall tumor prognosis and is associated with immune infiltration, especially in LIHC and LUSC. Consequently, RENT3B can become a prognostic biomarker for LIHC and LUSC.

Abstract Objective To investigate the risk factors and prognostic factors that affect the long-term clinical outcomes of acute retinal necrosis (ARN). Methods A retrospective study of patients with ARN who underwent treatment and completed follow-up in our ophthalmology department from 2011 to 2021 was conducted. The incidence and risk factors of retinal detachment (RD) and prognostic factors affecting long-term clinical outcomes, such as late-onset RD and final vision loss (

Abstract This study aims to develop and validate a nomogram for predicting overall survival (OS) in Asian patients with Esophageal Cancer (EC). Data from Asian EC patients were collected from the Surveillance, Epidemiology, and End Results (SEER) database. The patients were randomly divided into training and validation cohorts in a 7:3 ratio. The Least Absolute Shrinkage and Selection Operator (LASSO) regression was used for initial variable selection, followed by multivariate Cox regression analysis to identify independent prognostic factors. A nomogram was subsequently constructed based on these factors. The predictive performance of the nomogram was evaluated using receiver operating characteristic (ROC) curves and calibration curves, while the clinical utility of the nomogram was assessed through decision curve analysis (DCA). The LASSO regression and multivariate Cox regression analysis identified age, sex, marital status, tumor size, M stage, surgery, and chemotherapy as independent prognostic factors. The ROC curve results demonstrated that the area under the curve (AUC) values for predicting 1-year, 3-year, and 5-year OS in the training cohort were 0.770, 0.756, and 0.783, respectively. In the validation cohort, the AUC values were 0.814, 0.763, and 0.771, respectively. Calibration curves indicated a high concordance between predicted and actual OS. The DCA demonstrated that the nomogram has significant clinical applicability. This nomogram provides reliable predictions and valuable guidance for personalized survival estimates and high-risk patient identification.

ABSTRACT: Objectives: Ceftolozane-tazobactam (C/T) is a combination of a cephalosporin and a β-lactamase inhibitor with activity against Gram-negative bacilli (GNB). The study aims were to evaluate the activity of C/T in vitro vs. comparators against clinical GNB isolated from Chinese paediatric patients. Methods: From 2017–2021, 660 GNB isolates were collected from 20 hospitals across China. The minimum inhibitory concentrations were tested using a Trek Diagnostic System (Thermo Fisher Scientific). Susceptibility was determined by CLSI broth microdilution and the results were interpreted according to CLSI M100 (2021) breakpoints. Results: GNB isolates were obtained from paediatric patients < 18 years old, mainly from the bloodstream (n = 146), intraperitoneal cavity (n = 138), lower respiratory (n = 278) and urinary tract (n = 96). Overall, C/T was active against 76.6% of 436 Enterobacterales, with a descending susceptibility rate of 100.0% to S. marcescens, 92.2% to E. coli, 83.3% to K. oxytoca, 66.7% to K. aerogenes, 66.7% to P. mirabilis, 58.6% to K. pneumoniae and 57.1% to E. cloacae. The susceptibility of P. aeruginosa to C/T was 89.4%, which was the highest among the β-lactam antibiotics and was second only to amikacin (92.9%). Isolates of respiratory tract infection (RTI) derived P. aeruginosa were highly susceptible (93.8%) to C/T, while

Abstract The adsorption behavior of gold thiosulfate ions on the surface of kaolinite was studied using a combination of experimental research and quantum chemical calculations. Under the condition of a stirring time of 30 min, a stirring speed of 500 r·min−1, and a mass ratio of 30% kaolinite in the slurry, when the initial gold concentration of 56.50 mg·L−1,the adsorption rate of gold-thiosulfate ions from a kaolinite-containing solution was 7.44%. The results of Fourier transform infrared spectroscopy (FTIR) and energy dispersive spectroscopy (EDS) showed that the physical and chemical adsorption of kaolinite and gold thiosulfate occurred in solution. Quantum chemical calculations were performed using the CASTEP module in Materials Studio. The adsorption energy of gold thiosulfate on the surface of kaolinite (001) was calculated as − 438.01 kJ·mol−1.The calculated H76–O289 distance was 1.615 Å. Mulliken Charge population analysis and bond population analysis showed that gold thiosulfate ions form relatively stable bonds on the kaolinite surface (001). In the process of thiosulfate immersion, part of gold is adsorbed by kaolinite, which affects the extraction of gold. These results indicate that during the leaching process of gold thiosulfate, kaolinite has the ability to "catch" gold, which affects the leaching efficiency.

The macroscopic hysteresis of ferromagnetic materials is influenced by their microscopic magnetic domains, establishing a correspondence between the two that enables a fundamental understanding of the magnetization process of ferromagnetic materials. Based on this, this study employs the phase field method to investigate the macroscopic hysteresis and microscopic magnetic domain evolution of soft, hard, and rectangular ferromagnetic materials. The hysteresis loops of the three materials present narrow, wide and rectangular characteristics respectively, which are quantitatively consistent with the experimental data. Subsequently, the influence of the magnetic field on the macroscopic hysteresis is analyzed. The results show that the hysteresis loop area increases when the magnetic field amplitude increases. Furthermore, the proportion of each type of energy under different magnetic fields is discussed, the dominant energy terms are generally consistent for the same category of ferromagnetic materials. Additionally, the corresponding magnetic domain evolution under different magnetic field is displayed, with soft magnetic materials exhibiting no vortex structures, hard ferromagnetic materials presenting a 45° vortex structure, and rectangular magnetic material showcasing a 90° vortex structure. Finally, the asymmetric characteristics of the major hysteresis loop and minor hysteresis loops are discussed. The change of the magnetic field path leads to the corresponding change of the major and minor hysteresis loops. At the same magnetic field, distinctions in magnetic domain configurations between the major and minor hysteresis loops are evident.

IntroductionIn August 2023, hybrid sturgeons (Acipenser baerii♀×Acipenser schrenckii♂) cultured in Sichuan, China, showed infectious disease symptoms, including ulcers, liver and spleen nodules, and high mortality rates.MethodsPathogenic bacteria were isolated from the liver of diseased sturgeons and analyzed for their phenotypic and molecular traits. Furthermore, iridovirus-specific TaqMan real-time PCR (RT-PCR) analyses were conducted. The histopathological characteristics were analyzed using paraffin sectioning and transmission electron microscopy (TEM). Transcriptome sequencing was performed to elucidate the impact of pathogen exposure and immune response profiles in infected sturgeon.ResultsPathogenic bacteria isolation and phylogenetic analyses of the 16S rRNA gene confirmed that the isolated bacteria clustered within the Nocardia seriolae group. The TaqMan RT-PCR assay was performed to detect the presence of white sturgeon iridovirus (WSIV), indicating a weakly positive signal. Histopathological examination revealed severe damage to various tissues, and a notable presence of bacteria was observed through acid-fast staining. Transmission electron microscopy analysis showed the presence of abundant bacteria and virus particles, indicating cellular invasion and subsequent damage. In summary, the disease in hybrid sturgeons was diagnosed as infection of N. seriolae and WSIV. To investigate the immune response of hybrid sturgeons to this infection, spleen transcriptomes were analyzed. Numerous immune-related genes and pathways, including the “Toll-like receptor”, “B-cell receptor”, and “T-cell receptor” signaling pathways, were altered in response to pathogenic threats. Significantly downregulated of key components of TCR and BCR signaling pathways, such as ZAP70, BTK, and CD79A, suggested a temporary inhibition of these pathways critical for cellular immunity post-infection. Gene set enrichment analysis revealed significant suppression of the apoptosis signaling pathway and activation of autophagy and mitophagy signaling pathways following infection. Specifically, in the death receptor-mediated apoptosis signaling pathway, downregulation of TNFα, TRAIL, CASP6, and CASP8 was observed, while several genes in the autophagy and mitophagy pathways showed upregulated expression post-infection.DiscussionWe report the initial occurrence of N. seriolae infection in cultured sturgeons. These findings could provide a theoretical basis for diagnosing and preventing this disease, as well as enhance the understanding of host-pathogen interactions in fish.

In this article, an adaptive iterative learning control (AILC) scheme has been proposed to enhance the accuracy of the dynamic path tracking of 6-degrees of freedom industrial robots. Based on the memorized data and current feedback from a three-dimensional visual measurement instrument, an adaptive algorithm is developed to update the time-varying control parameters of the AILC scheme iteratively. A new compensation signal is calculated to adjust the control inputs produced by the dynamic path tracking control module at each time interval. Through the adaptation algorithm, the identical initial conditions can be relaxed to some extent with the AILC scheme. Moreover, the stability analysis of the proposed AILC scheme is presented. Experimental results on FANUC M20iA, using C-Track 780 as a photogrammetry sensor, demonstrate the superior performance of the developed AILC scheme in terms of pose accuracy, disturbance rejection ability, and control performance.

IntroductionPotassium deficiency significantly hinders cotton growth and development, adversely affecting yield and fiber quality. Applying potassium fertilizer is a common practice to address potassium deficiency in the soil. However, the effectiveness of potassium fertilizer application depends on the appropriate soil potassium levels in cotton fields.MethodsThis study used a randomized block design with six different soil potassium levels and conducted experiments across 18 micro-zones in the field. This study aimed to investigate the response of cotton yield and quality to different soil potassium levels, to try to clarify the suitable soil potassium levels for cotton growth, so as to provide practical and effective help for determining the amount of potash fertilizer in the cotton field. ResultsThe results showed that the seedcotton yield was increasing, with the soil potassium level increased under no tillage. There was no significant difference among K4, K5, and K6 on seedcotton yield, which were significantly higher than K1 and K2. As soil potassium levels increased, the proportion of autumn boll and the proportion of outer boll also increased, indicating that higher soil potassium levels support the better growth and development of cotton in the middle and late stages, leading to increased boll sets and higher yields. Additionally, the available potassium content in the 0–40-cm soil layer was significantly correlated with yield and yield parameters but not with fiber quality indices.DiscussionIt is concluded that K4 treatment could provide sufficient potassium to meet the growth and development needs of cotton. Potassium fertilizer application is recommended when the available potassium content in the 0–40-cm soil layer falls below 122.88 mg kg-1 in the cotton field.

The mass transfer from a stagnant CO2 gas pocket to the flowing water in a horizontal pipe was investigated experimentally, considering the application of pH adjustment by injecting gaseous CO2 for raw water in water treatment industries. In the experiments, the variation of the CO2 gas pocket volume and the corresponding pH values of the pipe flow with time under different conditions were recorded. The mass transfer coefficient of the CO2 gas pocket in the pipe flow was then calculated. The results showed that the injection of gaseous CO2 into the pipe flow could effectively adjust the pH. The volume of the CO2 gas pocket decreased exponentially. Different from most studies on bubble mass transfer, it was found that the ambient CO2 concentration could not be neglected in this study due to the large volume of the gas pocket and the restricted space in the pipe. The mass transfer coefficient increased with the increasing ratio of the CO2 injection rate to the water flow rate and exhibited a sharp reduction as the volume of the CO2 gas pocket decreased by about 80%. The outcomes of this paper can contribute to a better understanding of gas bubble mass transfer in pipe flows. HIGHLIGHTS The mass transfer of a large CO2 gas pocket in the horizontal pipe flow was investigated, which has been hardly reported before.; During mass transfer processes, the pH variation of the pipe flow could be divided into three regimes, and the volume of the gas pocket was reduced exponentially.; The CO2 concentration in the pipe flow is important to mass transfer due to the large volume of the gas pocket and the restricted space in the pipe.;

In a study of DNA methylation changes in melatonin-deficient rice mutants, mutant plants showed premature leaf senescence during grain-filling and reduced grain yield. Melatonin deficiency led to transcriptional reprogramming, especially of genes involved in chlorophyll and carbon metabolism, redox regulation, and transcriptional regulation, during dark-induced leaf senescence. Hypomethylation of mCG and mCHG in the melatonin-deficient rice mutants was associated with the expression change of both protein-coding genes and transposable element-related genes. Changes in gene expression and DNA methylation in the melatonin-deficient mutants were compensated by exogenous application of melatonin. A decreased S-adenosyl-L-methionine level may have contributed to the DNA methylation variations in rice mutants of melatonin deficiency under dark conditions.

Voice conversion is a research topic in the fields of speech and artificial intelligence.The goal of voice conversion is to change the timbre of speech while preserving the content of the source speech, making it sounds like spoken by the target speaker.It is essential to ensure both the quality and naturalness of the converted speech.Voice conversion based on nonparallel data gains much attention currently, where models are trained using non-parallel multilingual speaker datasets, enabling many-to-many and any-to-any voice conversions.This paper provides a comprehensive summary and analysis of recent developments in non-parallel voice conversion.Firstly, we outline the early voice conversion techniques based on parallel corpus and their limitations.Then, we introduce and compare various approaches to voice conversion based on nonparallel data, providing a thorough analysis.Finally, a summary and outlook on voice conversion technology is provided.

Abstract Background The study aims were to evaluate the species distribution and antimicrobial resistance profile of Gram-negative pathogens isolated from specimens of intra-abdominal infections (IAI), urinary tract infections (UTI), respiratory tract infections (RTI), and blood stream infections (BSI) in emergency departments (EDs) in China. Methods From 2016 to 2019, 656 isolates were collected from 18 hospitals across China. Minimum inhibitory concentrations were determined by CLSI broth microdilution and interpreted according to CLSI M100 (2021) guidelines. In addition, organ-specific weighted incidence antibiograms (OSWIAs) were constructed. Results Escherichia coli (E. coli) and Klebsiella pneumoniae (K. pneumoniae) were the most common pathogens isolated from BSI, IAI and UTI, accounting for 80% of the Gram-negative clinical isolates, while Pseudomonas aeruginosa (P. aeruginosa) was mainly isolated from RTI. E. coli showed

Abstract Background Cat-scratch disease (CSD) is caused by Bartonella henselae infection. In atypical cases of CSD, pathogen determination is challenging. We report a case of Bartonella neuroretinitis with neither a clear history of scratches nor typical general symptoms. The diagnosis was made using metagenomic next-generation sequencing (mNGS), a high-throughput sequencing technology. Case presentation A female patient presented to the ophthalmologist with complaint of blurred vision in her right eye. Although with history of raising a cat, she reported no clear history of scratches or typical general symptoms, except a fever of unknown origin which resolved spontaneously. The best corrected visual acuity (BCVA) of the right eye was count fingers. Fundus examination showed optic disc oedema, macular exudates and inferior exudative retinal detachment. Laboratory examination results showed increased value of serum C-reactive protein and erythrocyte sedimentation rate. Ocular involvement of toxoplasmosis, syphilis and tuberculosis were excluded. To identify the possible causative pathogen of the disease, mNGS of aqueous humour sample was performed and 521 reads of B. henselae were identified. Serological test results further showed a positive immunoglobulin G (IgG) titre of 1:64. Taking the contact history, clinical manifestations, mNGS and serological results into consideration, the diagnosis of Bartonella neuroretinitis (ocular CSD) was made. After appropriate treatment, the BCVA of the right eye improved to 20/25 in the last follow-up. Fundus examination showed a normal optic disc and macula, and the exudates had reduced. Conclusion mNGS, a fast and unbiased method, can be used to detect B. henselae (if present) in intraocular fluid samples.; however, the results should be interpreted together with the clinical symptoms and other auxiliary test results.

Abstract Increasing evidence has revealed the large-scale nonstationary synchronizations as traveling waves in spontaneous neural activity. However, the interplay of various cell types in fine-tuning these spatiotemporal patters remains unclear. Here, we performed comprehensive exploration of spatiotemporal synchronizing structures across different cell types, states (awake, anesthesia, motion) and developmental axis in male mice. We found traveling waves in glutamatergic neurons exhibited greater variety than those in GABAergic neurons. Moreover, the synchronizing structures of GABAergic neurons converged toward those of glutamatergic neurons during development, but the evolution of waves exhibited varying timelines for different sub-type interneurons. Functional connectivity arises from both standing and traveling waves, and negative connections can be elucidated by the spatial propagation of waves. In addition, some traveling waves were correlated with the spatial distribution of gene expression. Our findings offer further insights into the neural underpinnings of traveling waves, functional connectivity, and resting-state networks, with cell-type specificity and developmental perspectives.

Depressive states in both healthy individuals and those with major depressive disorder exhibit differences primarily in symptom severity rather than symptom type, suggesting that there is a spectrum of depressive symptoms. The increasing prevalence of mild depression carries lifelong implications, emphasizing its clinical and social significance, which parallels that of moderate depression. Early intervention and psychotherapy have shown effective outcomes in subthreshold depression. Electroencephalography serves as a non-invasive, powerful tool in depression research, with many studies employing it to discover biomarkers and explore underlying mechanisms for the identification and diagnosis of depression. However, the efficacy of these biomarkers in distinguishing various depressive states in healthy individuals and in understanding the associated mechanisms remains uncertain. In our study, we examined the power spectrum density and the region-based phase-locking value in healthy individuals with various depressive states during their resting state. We found significant differences in neural activity, even among healthy individuals. Participants were categorized into high, middle, and low depressive state groups based on their response to a questionnaire, and eyes-open resting-state electroencephalography was conducted. We observed significant differences among the different depressive state groups in theta- and beta-band power, as well as correlations in the theta–beta ratio in the frontal lobe and phase-locking connections in the frontal, parietal, and temporal lobes. Standardized low-resolution electromagnetic tomography analysis for source localization comparing the differences in resting-state networks among the three depressive state groups showed significant differences in the frontal and temporal lobes. We anticipate that our study will contribute to the development of effective biomarkers for the early detection and prevention of depression.

Nitrogen (N), phosphorus (P), and potassium (K) are essential macronutrients that are crucial not only for maize growth and development, but also for crop yield and quality. The genetic basis of macronutrient dynamics and accumulation during grain filling in maize remains largely unknown. In this study, we evaluated grain N, P, and K concentrations in 206 recombinant inbred lines generated from a cross of DH1M and T877 at six time points after pollination. We then calculated conditional phenotypic values at different time intervals to explore the dynamic characteristics of the N, P, and K concentrations. Abundant phenotypic variations were observed in the concentrations and net changes of these nutrients. Unconditional quantitative trait locus (QTL) mapping revealed 41 non-redundant QTLs, including 17, 16, and 14 for the N, P, and K concentrations, respectively. Conditional QTL mapping uncovered 39 non-redundant QTLs related to net changes in the N, P, and K concentrations. By combining QTL, gene expression, co-expression analysis, and comparative genomic data, we identified 44, 36, and 44 candidate genes for the N, P, and K concentrations, respectively, including GRMZM2G371058 encoding a Dof-type zinc finger DNA-binding family protein, which was associated with the N concentration, and GRMZM2G113967 encoding a CBL-interacting protein kinase, which was related to the K concentration. The results deepen our understanding of the genetic factors controlling N, P, and K accumulation during maize grain development and provide valuable genes for the genetic improvement of nutrient concentrations in maize.

Background: High chitosanase-producing microorganisms from natural sources have extensive applications in food and agriculture. This study aimed to optimal conditions for high-activity chitosanase production. A named CGMCC21422 chitosanase-producing strain -2T-2 was isolated from soil and identified named as Aspergillus fumigatus chitosanase (A. fumigatus chitosanase). This enzymatic activity was validated in various culture conditions. It is stored in the China General Microbiological Culture Collection Center. The efficacy of A. fumigatus chitosanase in the degradation of chitosan was validated. Results: In this study, we determined that the optimal fermentation conditions of stain-2T-2 were 1.0% powered chitosan, 0.8% ammonium nitrate, 37°C culture temperature, initial pH 5.0, culture time 6 d, bottle volume 50 mL, and 2% inoculation dosage. Under these culture conditions, the highest enzyme activity of fermentation broth in the shaker flask reached 827.53 U/mL. The optimal reactive conditions of A. fumigatus-produced chitosanase are 55–60°C and pH 4.5. When the reactive temperature was over 60°C, the A. fumigatus chitosanase was easily inactivated. The chitosanase catalyzed substrate chitosan to produced ≈20% chito-oligosaccharide and ≥80% glucosamine salt samples in a variety of acidic solutions. These reactive products are not cytotoxic or mild to MH7A cells. Conclusions: A. fumigatus chitosanase strain -2T-2 is a strain with high chitosanase and can catalyze chitosan into chito-oligosaccharide in acidic solutions.How to cite: Yang, H., Wang, L., Xu, C, et al. Screening for Aspergillus fumigatus strain-2T-2 with high chitosanase production activity and its application in chitosan degradation. Electron J Biotechnol 2024; 68. https://doi.org/10.1016/j.ejbt.2024.01.003.

Abstract The use of enzymes to catalyze Henry reaction has advantages of mild reaction conditions and low contamination, but low enzyme activity of promiscuous catalysis limits its application. Here, rational design was first performed to identify the key amino acid residues in Henry reaction catalyzed by Lactococcal multidrug resistance Regulator (LmrR). Further, non-canonical amino acids were introduced into LmrR, successfully obtaining variants that enhanced the catalytic activity of LmrR. The best variant, V15CNF, showed a 184% increase in enzyme activity compared to the wild type, and was 1.92 times more effective than the optimal natural amino acid variant, V15F. Additionally, this variant had a broad substrate spectrum, capable of catalyzing reactions between various aromatic aldehydes and nitromethane, with product yielded ranging from 55 to 99%. This study improved enzymatic catalytic activity by enhancing affinity between the enzyme and substrates, while breaking limited types of natural amino acid residues by introducing non-canonical amino acids into the enzyme, providing strategies for molecular modifications. Graphical Abstract

Abstract Shear failure often occurs in engineering rock mass (such as inclined pillar) in gently inclined strata. Prediction and characterization the orientation of shear failure plane is the foundation of rock mass engineering reinforcement. In this paper, sandstone samples are used to perform uniaxial and shear tests to obtain the basic mechanical parameters. Then, by employing the numerical method, the combined compression–shear loading tests were carried out for inclined specimens varied from 0° to 25° at an interval of 5°, to obtain the dip effect on the orientation of rock failure plane. The results show that the failure plane of rock changes with the change of dip angle of rock sample. Based on the Mohr–Coulomb criterion, the ultimate stress state of rock was characterized under combined compression–shear loading. The ultimate strength of rock is equal to the ratio of the stress circle radius of rock under combined compression–shear condition to the stress circle radius of rock under uniaxial compression condition, multiplied by the uniaxial compressive strength. The fracture angle of rock was defined under combined compression–shear loading. A theoretical model was developed for predicting the fracture angle. The developed model could be characterized by internal friction angle, dip angle of rock sample and Poisson's ratio. Finally, the numerical results of the fracture angle were analyzed, which are consistent with the predicted results of the model. The investigation shows that the rock fracture angle has a dip effect, which decreases with the increase of the inclination angle of the sample. The research results provide a new means to identify the potential failure plane of engineering rock mass, and lay a theoretical foundation for calculating the orientation of rock fracture plane.

Satellite-derived bathymetry (SDB) combining the Ice, Cloud, and Land Elevation Satellite-2 (ICESat-2) measurements and multispectral images is expected to fill the gap of depth data in global coastal areas. Image radiometric resolution is an important index of surface reflectance recorded by satellite, which affects the seabed details by bathymetric methods. With the improvement of radiometric resolution, the effect of the radiometric resolution remains to be clarified. This study quantifies the performance of Landsat ETM+, OLI, and OLI-2 images through a mature workflow and provides a reference for selecting data with a suitable radiometric resolution for bathymetry. The results in Culebra, Puerto Rico, show that the performance of Landsat 8 OLI is the best, with an RMSE of 2.53 m. The radiometric resolution affects the sensor’s perception of watercolor changing with depth and environmental radiation changing. With the improvement of radiometric resolution, the negative impact of environmental factors will reduce the performance of images.

In the present paper, we defined the circular evolutes and involutes for a given spacelike framed curve with respect to Bishop directions in Minkowski 3-space. Then, we studied the essential duality relations among parallel curves, normal surfaces, and circular evolutes and involutes. Furthermore, we also studied the duality relations of their singularities. Based on these studies, we found that it is crucially important to consider the duality relations among different geometric objects for the research of submanifolds with singularities.

To achieve low-latency and energy-efficient in a 10 Gbps Ethernet Passive Optical Network (10G-EPON) having heterogeneous Optical Network Unit (ONU) propagation delays, this article proposes a resource allocation scheme based on bandwidth requirements prediction and ONU polling sequence scheduling. By a) predicting the upstream (US) and downstream (DS) bandwidth requirements of each ONU using Long Short-Term Memory (LSTM) networks and b) arranging the ONU polling sequence and the US and DS transmission start times of each ONU based on the predicted bandwidth requirements and the ONU propagation delays, the proposed scheme minimizes bandwidth waste of the network as well as the overall operating time of each ONU. Therefore, low-latency performance is achieved, and the energy consumption of ONUs is reduced as ONU sleeping time is extended. Simulation results indicate that the proposed scheme reduces network latency and improves energy efficiency effectively. Compared to the conventional Interleaved Polling with Adaptive Cycle Time scheme that adopts the shortest propagation delay first rule and ONU doze mode, the proposed scheme can reduce the average one-way packet delay by at least 28.9%, and can reduce the per bit energy consumption by 73.7% when concerning data transmitted under the 1 ms latency constraint.

Photocatalytic hydrogen production from water is a promising way to fulfill energy demands and attain carbon emission reduction goals effectively. In this study, a loop photoreactor with a total volume of around 500 mL is presented for the photocatalytic hydrogen evolution using a Pt-loaded polymeric carbon nitride photocatalyst under 365 nm irradiation in the presence of sacrificial reducing agents. The fluid flow pattern of the developed photoreactor was characterized experimentally and the photon flux incident to the loop photoreactor was measured by chemical actinometry. The system displayed exceptional stability, with operation sustained over 70 hours. A design of experiment (DOE) analysis was used to systematically investigate the influence of key parameters – photon flux, photocatalyst loading, stirring speed, and inert gas flow rate – on the hydrogen generation rate. Linear relationships were found between hydrogen evolution rate and photon flux as well as inert gas flow rate. Photocatalyst loading and stirring speed also showed linear correlations, but could not be correctly described by DOE analysis. Instead, linear single parameter correlations could be applied. Notably, the loop photoreactor demonstrated an external photon efficiency up to 17 times higher than reported in literature studies, while scaling the reactor size by a factor of 10.

Objective Local infiltration analgesia (LIA), adductor canal block (ACB), and infiltration between the popliteal artery and the capsule of the posterior knee (IPACK) are popular multimodal analgesia techniques used during total knee arthroplasty (TKA). This study aimed to explore the efficacy of adding the IPACK technique to ACB and LIA in patients undergoing TKA. Methods In this retrospective cohort study, patients who underwent primary unilateral TKA were divided into two groups based on their date of admission. Sixty-three patients underwent IPACK, ACB and LIA (IPACK group) during surgery, while 60 patients underwent ACB and LIA (control group). The primary outcome was the postoperative administration of morphine hydrochloride as a rescue analgesic. Secondary outcomes included time to first rescue analgesia, postoperative pain assessed using the visual analog scale (VAS), functional recovery assessed by knee range of motion and ambulation distance, time until hospital discharge, and complication rates. Results The two groups were similar in average postoperative 0-to-24-h morphine consumption (11.8 mg for the control group vs 12.7 mg for the IPACK group, p = .428) and average total morphine consumption (18.2 mg vs 18.0 mg, p = .983) during hospitalization. There were also no significant differences in the secondary outcomes. Conclusions The addition of IPACK to ACB and LIA did not provide any clinical analgesic benefits. Orthopedic surgeons and anesthesiologists are justified in using ACB and LIA without IPACK for TKA.

BackgroundOrf, also known as contagious ecthyma (CE), is an acute, contagious zoonotic disease caused by the orf virus (ORFV). The F1L protein is a major immunodominant protein on the surface of ORFV and can induce the production of neutralizing antibodies.MethodsThe prokaryotic expression system was used to produce the recombinant F1L protein of ORFV, which was subsequently purified and used to immunize mice. Positive hybridoma clones were screened using an indirect enzyme-linked immunosorbent assay (ELISA). The reactivity and specificity of the monoclonal antibody (mAb) were verified through Western blot and indirect immunofluorescence (IFA). The linear antigenic epitope specific to the mAb was identified through Western blot, using truncated F1L proteins expressed in eukaryotic cells. A multiple sequence alignment of the ORFV reference strains was performed to evaluate the degree of conservation of the identified epitope.ResultsAfter three rounds of subcloning, a mAb named Ba-F1L was produced. Ba-F1L was found to react with both the exogenously expressed F1L protein and the native F1L protein from ORFV-infected cells, as confirmed by Western blot and IFA. The mAb recognized the core epitope 103CKSTCPKEM111, which is highly conserved among various ORFV strains, as shown by homologous sequence alignment.ConclusionThe mAb produced in the present study can be used as a diagnostic reagent for detecting ORFV and as a basic tool for exploring the mechanisms of orf pathogenesis. In addition, the identified linear epitope may be valuable for the development of epitope-based vaccines.

Orf is a zoonosis caused by the Orf virus (ORFV), which is endemic in goats, sheep, and wild ruminants worldwide. Orf infection is prevalent in China, with outbreaks reported in several provinces. Currently, there is limited information available regarding the characterization of ORFV strains in Jiangxi province. This study investigated an acute outbreak of Orf that occurred in 2021 in a goat herd in the Jiangxi province of China. Clinical signs in this case included lesions on the lips, nose, and inside the mouth. The presence of ORFV was confirmed from tissue samples by polymerase chain reaction (PCR). The nucleotide sequences of the B2L and F1L genes were fully sequenced and used to construct phylogenetic trees. The results of this investigation identified the ORFV JXxy2021 as the cause of the outbreak. The phylogenetic analysis revealed that the ORFV strain JXxy2021 had the highest similarity to the ORFV strains GO and FJ-SL from the neighboring province of Fujian. This suggests that JXxy2021 was likely transmitted from Fujian province. The results have provided valuable information on the genetic characteristics of JXxy2021 and the endemic situations of Orf in China.

Abstract Background The lack of access to physical therapists in developing countries and rural areas poses a significant challenge in supervising postsurgical rehabilitation, potentially impeding desirable outcomes following surgical interventions. For this reason, this study aims to evaluate the feasibility, safety, and effectiveness of utilizing a digital rehabilitation program based on computer vision and augmented reality in comparison with traditional care for patients who will undergo isolated meniscus repair, since to date, there is no literature on this topic. Methods This study intends to enroll two groups of participants, each to be provided with informed consent before undergoing randomization into either the experimental or control group. The experimental group will undergo a digital rehabilitation program utilizing computer vision and augmented reality (AR) technology following their surgical procedure, while the control group will receive conventional care, involving in-clinic physical therapy sessions weekly. Both groups will adhere to a standardized rehabilitation protocol over a six-month duration. Follow-up assessments will be conducted at various intervals, including preoperatively, and at 2 weeks, 6 weeks, 12 weeks, and 24 weeks postoperatively. Imaging assessments and return-to-play evaluations will be conducted during the final follow-up. Clinical functionality will be assessed based on improvements in International Knee Documentation Committee (IKDC) and Visual Analog Scale (VAS) scores. Registration number ChiCTR2300070582.

High-data-throughput and multimodal-acquisition experiments will prevail in next-generation synchrotron beamlines. Orchestrating dataflow pipelines connecting the data acquisition, processing, visualization and storage ends are becoming increasingly complex and essential for enhancing beamline performance. Mamba Data Worker (MDW) has been developed to address the data challenges for the forthcoming High Energy Photon Source (HEPS). It is an important component of the Mamba experimental control and data acquisition software ecosystem, which enables fast data acquisition and transmission, dynamic configuration of data processing pipelines, data multiplex in streaming, and customized data and metadata assembly. This paper presents the architecture and development plan of MDW, outlines the essential technologies involved, and illustrates its current application at the Beijing Synchrotron Radiation Facility (BSRF).

Abstract Intestinal symbiotic microorganisms have a strong capacity to regulate the physiological functions of their host, and Drosophila serves as a useful model. Enterococcus faecium (E. faecium) is a member of the normal intestinal flora of animals. Lactic acid bacteria (LAB) such as E. faecium can promote the growth and development of Drosophila, but the mechanism of regulation of Drosophila is poorly understood. In this study, we found that E. faecium used a carbon source to produce probiotic acids. E. faecium is a symbiotic bacterium for Drosophila, and adult flies passed on parental flora to offspring. E. faecium promoted the growth and development of Drosophila, especially under poor nutritional conditions. E. faecium shortened the developmental process for Drosophila and accelerated the transformation from larva to pupa. Finally, E. faecium promoted the growth and development of Drosophila through TOR and insulin signalling pathways.

Abstract Subthreshold depressive (sD) states and major depression are considered to occur on a continuum, and there are only quantitative and not qualitative differences between depressive states in healthy individuals and patients with depression. sD is showing a progressively increasing prevalence and has a lifelong impact, and the social and clinical impacts of sD are no less than those of major depressive disorder (MDD). Because depression leads to biased cognition, patients with depression and healthy individuals show different visual processing properties. However, it remains unclear whether there are significant differences in visual information recognition among healthy individuals with various depressive states. In this study, we investigated the event-related potentials (ERPs) and event-related spectrum perturbation (ERSP) of healthy individuals with various depressive states during the perception of emotional visual stimulation. We show that different neural activities can be detected even among healthy individuals. We divided healthy participants into high, middle, and low depressive state groups and found that participants in a high depressive state had a lower P300 amplitude and significant differences in fast and slow neural responses in the frontal and parietal lobes. We anticipate our study to provide useful parameters for assessing the evaluation of depressive states in healthy individuals.

Microbial exopolysaccharide (EPS) is an important biological resource, and EPS production from endophytes has attracted much attention in recent years. To explore more EPS-producing strain resources as well as soybean endophytic resources, in this study, the strain with the highest EPS yield was screened from soybean seeds, and its morphological and molecular identification, biological characteristics (temperature, pH, rotation speed, sucrose tolerance, NaCl tolerance) and physiological and biochemical studies were carried out. The results showed that the maximum EPS yield of strain SE01 was 0.63 g/L after 48 h fermentation. Colony of strain SE01 was round, with smooth edge, milky white, and glossy and sticky surface. Under microscope, the bacterium after Gram staining was short, pink and rod-shaped, which identified to Gram-negative bacterium. The results of physiological and biochemical experiments and 16S rDNA identification showed that strain SE01 was Enterobacter cloacae, and named Enterobacter cloacae SE01. The optimum growth conditions of Enterobacter cloacae SE01 were temperature 30 ℃, pH5, and rotational speed 120 r/min. The strain SE01 had high tolerance to sucrose, but low tolerance to NaCl. Increasing the concentration of NaCl could inhibit its growth. This study provides data support for the development and application of soybean endophytic EPS.

The traditional computer with von Neumann architecture has the characteristics of separate storage and computing units, which leads to sizeable time and energy consumption in the process of data transmission, which is also the famous “von Neumann storage wall” problem. Inspired by neural synapses, neuromorphic computing has emerged as a promising solution to address the von Neumann problem due to its excellent adaptive learning and parallel capabilities. Notably, in 2016, researchers integrated light into neuromorphic computing, which inspired the extensive exploration of optoelectronic and all-optical synaptic devices. These optical synaptic devices offer obvious advantages over traditional all-electric synaptic devices, including a wider bandwidth and lower latency. This review provides an overview of the research background on optoelectronic and all-optical devices, discusses their implementation principles in different scenarios, presents their application scenarios, and concludes with prospects for future developments.

Root system architecture is pivotal for the acquisition of water and nutrients in maize, serving as an essential foundation for achieving high and stable yields. Identification of the genetic components and natural variations determining root traits may facilitate molecular breeding of maize varieties with better root traits. Melatonin plays an important role in plant physiology and development. In this study, nine melatonin biosynthesis genes were re-sequenced in 348 inbred lines, 68 landraces, and 32 teosintes to investigate variations related to maize root traits. The analysis of nucleotide diversity suggested that these genes may have undergone selection, particularly within their promoter regions. Marker–trait association analysis identified 26 variants significantly associated with six root traits. Five variations within the ZmTDC4 promoter were significantly correlated with both total root length (TRL) and lateral root length (LRL). Among these, SNP-1784 explained the most phenotypic variation of root traits, including TRL and LRL, that has undergone selection throughout maize domestication and improvement. Furthermore, knockout of ZmTDC4 in maize resulted in a pronounced reduction in root length, underscoring its critical role in root development. Collectively, these findings elucidate the role of melatonin synthesis genes in root development and identified favorable alleles, thus providing key loci for breeding maize varieties with superior root systems.

An attached cantilever scaffold, which mainly consists of a cantilever horizontal steel beam and a diagonal bar, is a new type of cantilever scaffold. The upper end of the diagonal bar is attached to an upper floor slab by a hinge, while the lower end is connected to a cantilever beam. Therefore, the position of the lower suspension point has a significant impact on the overall mechanical performance. However, current research on this topic is limited. Thus, in this study, we aim to optimize the mechanical behavior by changing the lower suspension point position. An optimization methodology based on the genetic algorithm is proposed. This methodology has been demonstrated to be efficient and accurate enough to determine the optimal lower suspension point position of a diagonal bar. The effects of different beam cross-sections, diagonal bar diameters, and upper suspension point positions are further investigated. The bearing capacity is shown to improve by more than 100% and 30% for hinged and rigidly connected cantilever beams when the proposed optimization methodology is adopted. The analysis in this study can serve as a reference for the optimal design of an attached cantilever scaffold and can provide a theoretical basis for developing related design software.

Strong impacts and vibrations exist in various structures of rice combine harvesters in harvesting, so the bolt connection structure on the harvesters is prone to loosening and failure, which would further affect the service life and working efficiency of the working device and structure. In this paper, based on the vibration signal acquisition experiment on the bolt and connection structure of the vibrating screen on the harvester, failure feature identification is studied. According to the sensitivity analysis results and the primary extraction of the time-frequency feature, most features have limitations on the identification of failure features of vibrating screen bolts. Therefore, based on the establishment of a high-dimensional feature matrix and multivariate fusion feature matrix, the validity of the feature set was verified based on the whale optimization algorithm. And then, based on the SVM method and high-dimensional mapping of the kernel functions, the high-dimensional feature matrix is trained by the LIBSVM classification decision model. The identify success rates of time domain feature matrix A, frequency domain feature matrix B, WOA-VMD energy entropy matrix C, and normalized multivariate fusion feature matrix G are 64.44%, 74.44%, 81.11%, and more than 90%, respectively, which can reflect the applicability of the failure state identification of the normalized multivariate fusion feature matrix. This paper provided a theoretical basis for the identification of a harvester bolt failure feature.

This study proposes an improved mixed-variable quantum particle swarm optimization (QPSO) algorithm capable of optimizing both continuous and discrete variables. The algorithm is applied to the wind resistance optimization of a cable-stiffened, single-layer spherical reticulated shell (SLSRS), optimizing discrete variables like member dimensions and cable dimensions alongside continuous variables such as cable prestress. Through a computational case study on an SLSRS, the optimization results of the proposed QPSO method are compared with other optimization techniques, validating its accuracy and reliability. Furthermore, this study establishes a mathematical model for the wind resistance optimization of cable-stiffened SLSRSs and outlines the wind resistance optimization process based on the mixed-variable QPSO algorithm. The optimization of these structures reveals the strong stability and global search capabilities of the proposed algorithm. Additionally, the comparison of section optimization and shape optimization highlights the significant impact of the shell shape on steel usage and costs, underscoring the importance of shape optimization in the design process.

Cable-stiffened steel columns (CSSC) have a high load-carrying capacity and strong stability compared to ordinary steel columns. In practical engineering, the connection between the crossarm and main column of a CSSC is usually welded. However, the welding-residual stress adversely affects the steel column. In this study, pre-cast CSSCs, with a pinned connection between the crossarm and main column, are presented. The new type of pre-cast CSSCs avoid the welding-residual and are easy to disassemble. A model test and numerical analysis of its global stability behavior under eccentric compression is conducted. Based on the analysis, the buckling modes of these columns are defined and a method for determining the governing imperfection in a nonlinear buckling analysis is proposed. The effects of slenderness ratio, cross-arm length, cable diameter, and other parameters on the load-carrying capacities of the columns are investigated using the proposed method. The results of this study can be used as a reference for the engineering designs and specifications of pre-cast CSSCs.

Efficient delivery of therapeutic agents to the lesion site or specific cells is an important way to achieve “toxicity reduction and efficacy enhancement”. Macrocycles have always provided many novel ideas for drug or gene loading and delivery processes. Specifically, macrocycles represented by crown ethers, cyclodextrins, cucurbit[n]urils, calix[n]arenes, and pillar[n]arenes have unique properties, which are different cavity structures, good biocompatibility, and good stability. Benefited from these diverse properties, a variety of supramolecular drug delivery systems can be designed and constructed to effectively improve the physical and chemical properties of guest molecules as needed. This review provides an outlook on the current application status and main limitations of macrocycles in supramolecular drug delivery systems.

Preserving the privacy of the ever-increasing multimedia data on the cloud while providing accurate and fast retrieval services has become a hot topic in information security. However, existing relevant schemes still have significant room for improvement in accuracy and speed. Therefore, this paper proposes a privacy-preserving image–text retrieval scheme called PITR. To enhance model performance with minimal parameter training, we freeze all parameters of a multimodal pre-trained model and incorporate trainable modules along with either a general adapter or a specialized adapter, which are used to enhance the model’s ability to perform zero-shot image classification and cross-modal retrieval in general or specialized datasets, respectively. To preserve the privacy of outsourced data on the cloud and the privacy of the user’s retrieval process, we employ asymmetric scalar-product-preserving encryption technology suitable for inner product calculation, and we employ distributed index storage technology and construct a two-level security model. We construct a hierarchical index structure to speed up query matching among massive high-dimensional index vectors. Experimental results demonstrate that our scheme can provide users with secure, accurate, fast cross-modal retrieval service while preserving data privacy.

The bolts and connections of each working part of a rice combine harvester can suffer from severe instantaneous impacts and alternating loads, and these strong impacts and loads cause instantaneous fracture and fatigue failure of the bolt face and even the loosening, detachment, and fracture of the bolt. The main vibration directions and the most complex vibration parts of the bolts and connections in the main working parts of a combine harvester under time-variable multiload excitation were obtained through the analysis of response signals in terms of time-domain and frequency–domain characteristics via a vibration response experiment. This study revealed that the random peak value of the vibrating screen is 12.5622, which is the severe impact and collision standard. For the vibrating screen, the local peak in the 4-Y direction was the main load of the destroying bolt connection (the impact reached 60.57 m/s2, 96.91 m/s2) and the vibration energy intensity in the 4-Z direction was mainly concentrated at 12.42 m/s2, which is the maximum vibration energy value in the three directions (the peak vibration value reached 109~115.68 m/s2), so the bolted connections of the vibrating screen are the most vulnerable to destruction. Therefore, a kinetic model and a microscopic response model of a vibrating screen were established via the centralized mass method to explore the kinetic response characteristics of bolted structures subjected to multiple excitation loads, thus providing a mathematical model for identifying the features of bolted connections based on static characteristics.

Nitrogen (N) availability determines higher plant productivity and yield. However, the molecular mechanisms governing N acquisition and utilization remain largely unknown in maize. In this study, ATAC-seq, RNA-seq, and Ribo-seq analyses were conducted in maize roots under different N supply conditions. A set of differentially expressed genes enriched in N and phenylpropanoid metabolisms at both the transcription and translation levels were highlighted. Interestingly, less than half of low-N responsive genes were shared between transcription and translation. The alteration of translational efficiency (TE) is also an important mechanism by which maize responds to LN. In addition, we identified low-N-induced open chromatin regions (OCRs) and observed an enrichment of transcription factor (TF) binding motifs. Furthermore, we constructed a transcriptional regulatory network for maize roots subjected to low-N. These findings extend our understanding of N availability response and provide new insights for improving N use efficiency (NUE).

Climate change has led to significant fluctuations in marine ecosystems. As a component of the food web, the trophic diversity and spatiotemporal changes of fish communities are crucial for understanding ecosystems. In recent years, stable isotope analysis has been increasingly used as a comprehensive tool for quantitative assessment of trophic diversity to explore spatiotemporal variations in fish community diversity. This study is based on carbon (δ13C) and nitrogen (δ15N) stable isotope analysis using different biomass-weighted isotope diversity indices, including isotopic divergence index (IDiv), isotopic dispersion index (IDis), isotopic evenness index (IEve), and isotopic uniqueness index (IUni). The overall results indicate that IDis, IEve, and IUni values of fish communities were relatively low, while IDiv was relatively high in the Haizhou Bay ecosystem. IDiv, IDis, IEve, and IUni were lower in autumn than in spring; IDiv and IDis were relatively higher in offshore waters, while IEve and IUni were relatively higher in inshore waters. The changes in species composition and intensive pelagic–benthic coupling in Haizhou Bay may lead to significant spatiotemporal variations in the trophic diversity of fish communities in the area. These findings highlight the importance of incorporating trophic relationships into ecosystem models, which will help to enhance our understanding of the complexity of the trophic structure of fish communities.

Abstract The role of de novo evolved genes from non-coding sequences in regulating morphological differentiation between species/subspecies remains largely unknown. Here, we show that a rice de novo gene GSE9 contributes to grain shape difference between indica/xian and japonica/geng varieties. GSE9 evolves from a previous non-coding region of wild rice Oryza rufipogon through the acquisition of start codon. This gene is inherited by most japonica varieties, while the original sequence (absence of start codon, gse9) is present in majority of indica varieties. Knockout of GSE9 in japonica varieties leads to slender grains, whereas introgression to indica background results in round grains. Population evolutionary analyses reveal that gse9 and GSE9 are derived from wild rice Or-I and Or-III groups, respectively. Our findings uncover that the de novo GSE9 gene contributes to the genetic and morphological divergence between indica and japonica subspecies, and provide a target for precise manipulation of rice grain shape.

Abstract Soil salinity poses a significant challenge to crop growth and productivity, particularly affecting the root system, which is vital for water and nutrient uptake. To identify genetic factors that influence root elongation in stressful environments, we conducted a genome-wide association study (GWAS) to investigate the natural variation associated with total root length (TRL) under salt stress and normal conditions in maize seedlings. Our study identified 69 genetic variants associated with 38 candidate genes, among which a specific single nucleotide polymorphism (SNP) in ZmNAC087 was significantly associated with TRL under salt stress. Transient expression and transactivation assays revealed that ZmNAC087 encodes a nuclear-localized protein with transactivation activity. Further candidate gene association analysis showed that non-coding variations in ZmNAC087 promoter contribute to differential ZmNAC087 expression among maize inbred lines, potentially influencing the variation in salt-regulated TRL. In addition, through nucleotide diversity analysis, neutrality tests, and coalescent simulation, we demonstrated that ZmNAC087 underwent selection during maize domestication and improvement. These findings highlight the significance of natural variation in ZmNAC087, particularly the favorable allele, in maize salt tolerance, providing theoretical basis and valuable genetic resources for the development of salt-tolerant maize germplasm.