Publications by authors named "Xinhong Chen"

Auxin (IAA), a key natural signaling molecule, plays a pivotal role in regulating plant growth, development, and stress responses. Understanding its signal transduction mechanisms is crucial for improving crop yields. In this study, we conducted a comparative transcriptome analysis of wheat leaf and root tissues treated with different concentrations of IAA (0, 1, and 50 μM).

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Valine-glutamine (VQ) proteins are plant-specific transcriptional cofactors that play crucial roles in plant growth, development, and stress responses. Heat stress (HS), one of the most detrimental abiotic stresses, severely impairs wheat growth, development, quality, and yield. Despite their importance in other plants, the role of VQ proteins in wheat's response to HS remains unexplored.

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Deep reinforcement learning (DRL) methods, which train a policy to obtain the sequence of actions required to complete a task, have achieved remarkable success across diverse applications. It is a long-standing open issue in the DRL community to make the trained policy gradually approach the theoretically globally optimal policy, and existing research has also explored several challenges, such as exploration-exploitation, to improve the quality of the obtained policy. However, most DRL methods rely solely on the current state for decision-making, leading to short-sightedness and suboptimal learning.

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DNA nanostructures are extensively utilized in synthetic biology, biosensing, bioimaging, and therapeutic delivery because of their programmability and biocompatibility. Although DNA nanostructure-based drug delivery systems have shown significant potential, the clinical application of nucleic acid drugs has been hindered by their biological instability and low delivery efficiency. This study proposes utilizing a cationic targeting peptide by combining a cell-penetrating peptide (TAT) with a cancer cell-targeting peptide (RGD) instead of conventional magnesium ions to facilitate the self-assembly of defined DNA nanostructures.

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Deep reinforcement learning (DRL) has been widely applied to various applications, but improving the exploration and the accuracy of Q-value estimation remain key challenges. Recently, the double-actor architecture has emerged as a promising DRL framework that can enhance both exploration and Q-value estimation. Existing double-actor DRL methods sample from the replay buffer to update the two actors; however, the samples used to update each actor are generated by its previous versions and the other actor, resulting in a different data distribution compared with the current actor being updated, which can negatively impact the actor's update and lead to suboptimal policies.

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AP2/ERF transcription factors (TFs) are one of the largest TF families involved in plant growth, development, and stress responses. Drought, a major abiotic stress, severely impacts wheat yield and quality. In this study, we identified a wheat AP2/ERF gene, TaRAP2-13L, which was significantly upregulated in response to drought stress.

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Cell-type-specific regulatory elements such as enhancers can direct expression of recombinant adeno-associated viruses (AAVs) to specific cell types, but this approach is limited by the relatively small packaging capacity of AAVs. In this study, we used spatial genomics to show that transcriptional crosstalk between individual AAV genomes provides a general method for cell-type-specific expression of large cargo by separating distally acting regulatory elements into a second AAV genome. We identified and profiled transcriptional crosstalk in AAV genomes carrying 11 different enhancers active in mouse brain.

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A slight elevation in lysosomal pH can lead to indigestion or nonspecific hydrolysis, thereby increasing the risk of various neurodegenerative diseases and cancer. Therefore, accurate monitoring of lysosomal pH changes in living cells is essential for the diagnosis and treatment of such diseases, despite the significant challenges involved. In this study, we synthesized a pH-dependent fluorescent probe, B26, which comprises 1,8-naphthalimide as the fluorescent chromophore, an N-(2-hydroxyethyl) piperazine group for lysosome targeting, and a hydroxyethyl group to increase solubility and regulate pKa.

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Deep reinforcement learning (DRL) has been widely adopted in various applications, yet it faces practical limitations due to high storage and computational demands. Dynamic sparse training (DST) has recently emerged as a prominent approach to reduce these demands during training and inference phases, but existing DST methods achieve high sparsity levels by sacrificing policy performance as they rely on the absolute magnitude of connections for pruning and randomly generating connections. Addressing this, our study presents a generic method that can be seamlessly integrated into existing DST methods in DRL to enhance their policy performance while preserving their sparsity levels.

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Article Synopsis
  • Adeno-associated viruses (AAVs) are important tools used for delivering genes in research and clinical settings, but understanding how these viruses interact with cells can be challenging, especially for those that have been modified through directed evolution.
  • This study uses a human cell microarray platform to uncover how both natural and engineered AAVs connect with human cell receptors, discovering that AAV9 specifically interacts with interleukin 3 (IL3) and that engineered AAVs can interact with the low-density lipoprotein receptor-related protein 6 (LRP6), which might enhance their ability to cross the blood-brain barrier.
  • The findings also highlight potential side effects from engineered AAVs due to off-target tissue binding, paving the
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Electrocatalytic nitrate reduction to ammonia holds great promise for developing green technologies for electrochemical ammonia energy conversion and storage. Considering that real nitrate resources often exhibit low concentrations, it is challenging to achieve high activity in low-concentration nitrate solutions due to the competing reaction of the hydrogen evolution reaction, let alone considering the catalyst lifetime. Herein, we present a high nitrate reduction performance electrocatalyst based on a Co nanosheet structure with a gradient dispersion of Ru, which yields a high NH Faraday efficiency of over 93% at an industrially relevant NH current density of 1.

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Background: Developing novel germplasm by using wheat wild related species is an effective way to rebuild the wheat resource bank. The Psathyrostachys huashanica Keng (P. huashanica, 2n = 2x = 14, NsNs) is regarded as a superior species to improve wheat breeding because of its multi-resistance, early maturation and numerous tiller traits.

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Lifelong deep reinforcement learning (DRL) approaches are commonly employed to adapt continuously to new tasks without forgetting previously acquired knowledge. While current lifelong DRL methods have shown promising advancements in retaining acquired knowledge, they suffer from significant adaptation efforts (i.e.

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Interactions between microorganisms and plants can stimulate plant growth and promote nitrogen cycling. Nitrogen fertilizers are routinely used in agriculture to improve crop growth and yield; however, poor use efficiency impairs the optimal utilization of such fertilizers. Differences in the microbial diversity and plant growth of rice soil under different nitrogen application conditions and the expression of nitrogen-use efficiency-related genes have not been previously investigated.

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Article Synopsis
  • Deep-learning methods for protein structure prediction are highly accurate, but there's a gap in predicting which proteins can effectively bind to targets, limiting their practical applications in protein engineering.
  • To address this gap, a new tool called APPRAISE has been developed, which scores the target-binding ability of engineered proteins after their structures are predicted using tools like AlphaFold or ESMFold, doing so in less than a second per model.
  • APPRAISE has been successfully tested for various engineered proteins, including those targeting the SARS-CoV-2 spike and certain viral vectors, and is available online through Google Colaboratory, enhancing protein structure prediction and aiding biomedical research.
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Wheat sheath blight caused by the necrotic fungal pathogen is responsible for severe damage to bread wheat. Reactive oxygen species (ROS) are vital for stress resistance by plants and their homeostasis plays an important role in wheat resistance to sheath blight. Valine-glutamine (VQ) proteins play important roles in plant growth and development, and responses to biotic and abiotic stresses.

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Rice is the main food crops with the higher capacity for cadmium (Cd) uptake, necessitating the urgent need for remediation measures to address Cd in paddy soil. Reasonable agronomic methods are convenient and favorable for fixing the issue. In this study, a pot experiment was employed to evaluate the effects of two foliar (NaHPO, SDP; KHPO, PDP) and two solid phosphate fertilizers (double-superphosphate, DSP; calcium-magnesium phosphate, CMP) on uptake and remobilization of Cd in rice plants under the low-P and rich-Cd soil.

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Article Synopsis
  • The study explores how biofortifying rice with zinc (Zn) and silicon (Si) can reduce harmful cadmium (Cd) accumulation in rice grains.
  • It highlights that applying Zn/Si together significantly lowers Cd levels in roots and promotes the production of protective compounds like phytochelatins and glutathione during Cd stress.
  • The findings suggest that Zn/Si not only helps compartmentalize Cd but also improves the nutritional quality of rice by enhancing amino acid metabolism, which reduces Cd in important protein fractions by nearly 51%.
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  • Integrating cell type-specific enhancers with recombinant adeno-associated viruses (AAVs) allows targeted genetic access to specific cell types, but AAVs have a limited capacity for the size of genetic material they can deliver.
  • The concept of transcriptional crosstalk involves separating large regulatory elements into a second AAV genome, offering a new way to achieve specific gene expression within a certain cell type.
  • The study identifies transcriptional crosstalk in AAVs with 11 mouse brain enhancers, using advanced spatial genomics to examine AAV behavior, and successfully demonstrates cell type-specific gene editing in tissues with minimal invasiveness.
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Article Synopsis
  • * Researchers identified 131 wheat thaumatin-like protein (TaTLP) genes, including 38 newly discovered ones, and explored their genetic structure, properties, and response to R. cerealis infection.
  • * Gene silencing of TaTLP44 revealed it negatively regulates wheat's resistance by influencing defense-related genes, suggesting potential pathways for enhancing plant resilience to diseases.
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Objective: To evaluate the association between traditional laboratory findings and death, and to find risk factors for death in infants with early onset sepsis (EOS).

Study Design: This was a single-center, case-control, retrospective trial conducted between January 2020 and August 2021. Infants with EOS were enrolled and divided into two groups based on outcome before hospital discharge: non-survivors (Mortality group) and survivors (Survival group).

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Crossing the blood-brain barrier in primates is a major obstacle for gene delivery to the brain. Adeno-associated viruses (AAVs) promise robust, non-invasive gene delivery from the bloodstream to the brain. However, unlike in rodents, few neurotropic AAVs efficiently cross the blood-brain barrier in non-human primates.

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Article Synopsis
  • Modern neuroscience tools, like optogenetics and calcium imaging, help researchers study specific brain circuits in rodents to understand neurological diseases.
  • Using viral vectors, scientists can deliver genetic material to target specific cells in engineered rodents, but applying these methods to nonhuman primates poses challenges due to limited viral vectors.
  • Recent advancements in adeno-associated viral vectors for nonhuman primates could enhance research capabilities, leading to better insights and potential treatments for neurological and neurodegenerative conditions.
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Delivering genes to and across the brain vasculature efficiently and specifically across species remains a critical challenge for addressing neurological diseases. We have evolved adeno-associated virus (AAV9) capsids into vectors that transduce brain endothelial cells specifically and efficiently following systemic administration in wild-type mice with diverse genetic backgrounds, and in rats. These AAVs also exhibit superior transduction of the CNS across non-human primates (marmosets and rhesus macaques), and in ex vivo human brain slices, although the endothelial tropism is not conserved across species.

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