Biology subjects

Ying, J.

Publications and source records attributed to Ying, J..

At least 19 recordsLinked to original sources

bioRxiv2026

Port of Protein-Protein Interactomes: An experiment-based protein-protein interactome database for rice

Protein-protein interactions (PPIs) play a crucial role in enabling proteins to carry out their functions within various biological processes (Hui et al., 2003). Since the introduction of the yeast two-hybrid (Y2H) method for PPI detection in 1989 (Fields and Song, 1989), the identification of PPIs has become a significant focus in modern biological research. PPI goes beyond examining individual proteins, allowing researchers to establish a comprehensive network that regulates biological processes. Rice, as a key model organism in plant biological studies, has been at the forefront of PPI research. In 2008, prominent rice scientists in China called for concerted efforts to define a comprehensive protein-protein interaction network experimentally, which aimed to facilitate the prediction of the functional mechanisms operating throughout a plants lifecycle (Zhang et al., 2008). With efforts for 2 decades, the experimentally identified rice PPIs have reached over ten thousand. Several public databases have been established to systematically collate and store PPIs, including STRING (Szklarczyk et al., 2019), BioGRID (Oughtred et al., 2020), IntAct (del Toro et al., 2022), PRIN (Gu et al., 2011), RicePPINet (Liu et al., 2017) and RiceNet v2 (Lee et al., 2015). However, most PPI datasets in rice stem from computational predictions, while experiment-based rice PPI datasets are fragmented due to the lack of systematic profiling at the rice PPIome level, which largely hinders information sharing in the rice research community. To bridge this gap, we constructed the Port of Protein-Protein Interactomes (POPPIN; https://riceome.hzau.edu.cn/poppin/), an integrated database dedicated to sharing experimentally verified PPIs and functional clues in rice. Empowered by high-throughput PPIome profiling technologies and text mining assisted by a large language model (Huang et al., 2025; Liu et al., 2025), POPPIN currently has deposited over 150,451 pieces of rice PPI-related information. Additionally, POPPIN provides detailed protein information, including GO annotations, subcellular localizations, domains, trait ontology (TO) information, and hyperlinks to external biological databases. Through offering a user-friendly web interface for search and dynamic network visualization, POPPIN serves as the first large-scale, experiment-based database for searchable PPIs in rice, and has the potential to be extended to other species under this structural framework.

systems biology↗

bioRxiv2026

Promoter architecture decodes response regulator phosphorylation into distinct transcriptional logics in Pseudomonas aeruginosa

Two-component systems convert environmental signals into transcriptional responses, but how one response-regulator phosphorylation state produces different outputs at different promoters remains unclear. Here we show that promoter architecture determines how the ParR response regulator in Pseudomonas aeruginosa interprets phosphorylation. Phenotypic, transcriptomic, biochemical and promoter-engineering analyses showed that phosphorylation of the conserved ParR receiver residue Asp57 lowered DNA-occupancy thresholds across target promoters. Individual promoters, however, converted this shared increase in binding into activation, repression or phosphorylation-dependent sign switching. Chromosomally D57 ParR variants reproduced these behaviours at endogenous loci and altered antibiotic susceptibility, biofilm formation and virulence-associated phenotypes. Mapping and engineering of representative promoters identified a two-tier cis-regulatory code: half-site sequence compatibility determines productive ParR engagement, whereas spacer length determines regulatory sign and magnitude. Spacer swaps were sufficient to reprogram promoter logic between regulatory modes. These findings separate regulator state from promoter decoding and show how bacterial promoter architecture can diversify the outputs of a shared phosphorylation signal. ImportancePseudomonas aeruginosa is an opportunistic pathogen that survives antimicrobial treatment and adapts to diverse host environments by rapidly changing gene expression. How a single sensory pathway generates different, and sometimes opposing, responses across many genes has remained unclear. We show that the regulatory protein ParR does not impose one fixed transcriptional program. Instead, the DNA architecture of each target promoter determines whether the same phosphorylation signal activates, represses, or reverses gene expression. The sequence and spacing of ParR recognition sites form a compact regulatory code, and changing spacer length alone can reprogram promoter behavior. Different ParR states were also associated with changes in antibiotic susceptibility, biofilm formation, and virulence-associated phenotypes. Our findings explain how one bacterial signaling pathway can generate diverse physiological outcomes without additional regulators and provide a framework for understanding regulatory flexibility in Pseudomonas aeruginosa and for engineering genetic circuits with multiple outputs. Graphical abstract O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=142 SRC="FIGDIR/small/740031v1_ufig1.gif" ALT="Figure 1"> View larger version (55K): org.highwire.dtl.DTLVardef@1b6ec28org.highwire.dtl.DTLVardef@4a3f2eorg.highwire.dtl.DTLVardef@79e528org.highwire.dtl.DTLVardef@b3aa77_HPS_FORMAT_FIGEXP M_FIG C_FIG

microbiology↗

bioRxiv2026

Promoter architecture diversifies ParR-dependent transcription in Pseudomonas aeruginosa

Two-component systems convert environmental signals into transcriptional responses, but how one response-regulator phosphorylation state produces different outputs at different promoters remains unclear. Here we show that promoter architecture determines how the ParR response regulator in Pseudomonas aeruginosa interprets phosphorylation. Phenotypic, transcriptomic, biochemical and promoter-engineering analyses showed that phosphorylation of the conserved ParR receiver residue Asp57 lowered DNA-occupancy thresholds across target promoters. Individual promoters, however, converted this shared increase in binding into activation, repression or phosphorylation-dependent sign switching. Chromosomally D57 ParR variants reproduced these behaviours at endogenous loci and altered antibiotic susceptibility, biofilm formation and virulence-associated phenotypes. Mapping and engineering of representative promoters identified a two-tier cis-regulatory code: half-site sequence compatibility determines productive ParR engagement, whereas spacer length determines regulatory sign and magnitude. Spacer swaps were sufficient to reprogram promoter logic between regulatory modes. These findings separate regulator state from promoter decoding and show how bacterial promoter architecture can diversify the outputs of a shared phosphorylation signal. Graphical abstract O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=142 SRC="FIGDIR/small/738673v1_ufig1.gif" ALT="Figure 1"> View larger version (54K): org.highwire.dtl.DTLVardef@1a0a26forg.highwire.dtl.DTLVardef@10836a8org.highwire.dtl.DTLVardef@3c6cd8org.highwire.dtl.DTLVardef@10dfefb_HPS_FORMAT_FIGEXP M_FIG C_FIG HighlightsParR coordinates antibiotic resistance, biofilm formation and virulence-linked phenotypes in P. aeruginosa. Promoters convert ParR phosphorylation into activation, repression or sign switching. Half-site compatibility and spacer length form a cis-regulatory code for ParR output.

biochemistry↗

bioRxiv2026

SciCore-Omics: a tri-modal foundation model unifying histology, spatial transcriptomics and language for spatial biology

Histomorphology and spatial transcriptomics capture complementary aspects of tissue biology, but their relationships remain difficult to extract, align, and interpret at scale. Existing foundation models typically connect histology, omics, or language only pairwise, which limits their capacity to jointly infer molecular states, decode spatial tissue organization, and generate biologically grounded explanations. Here, we show SciCore-Omics, the first tri-modal foundation model linking histology images, spatial transcriptomics, and biological language. We constructed a spatially paired image-gene-text dataset comprising 151,182 spots across multiple tissues and performed a three-stage progressive training of SciCore-Omics on this dataset. Across gene expression prediction and spatial domain recognition, SciCore-Omics achieved 23.6-80.9% relative gains in task-specific metrics over the strongest external baselines. It further showed robust zero-shot generalization in histopathology classification, outperforming GPT-5 by 6.16 percentage points in mean accuracy across four benchmarks. Expert evaluation in 10 breast cancer cases confirmed its H&E-only case-level molecular reasoning capability. Together, our method demonstrates that a tri-modal framework can effectively bridge histomorphology and molecular state, providing a more general and interpretable foundation model for computational pathology and omics analysis.

bioinformatics↗

bioRxiv2025

Sloppiness and Action Confinement in Cell State Transitions: Are Single Cells Sloppy?

Single-cell dynamics during cell state transitions (CST) are highly constrained, enabling precise control. However, there are challenges in achieving a system-level understanding or extracting general principles for CST dynamics due to the complexity of gene-gene interactions. Here, we introduce a new perspective to deal with these challenges using Fisher information. We found that, during CST, single cells exhibit pronounced sloppiness: cell states are sensitive only to a few "stiff" parameters while remaining robust to changes in numerous "sloppy" parameters. Critical transitions coincided with changes in stiff parameters. Moreover, stiff parameters typically exhibited minimal fluctuations and low velocities, whereas sloppy parameters allowed greater flexibility. Together, these findings can be summarized by stating that transition paths approximately adhere to a principle of least action. By characterizing the low dimensionality and constraints of CST through sloppiness and action, our work thus introduces a new conceptual and computational framework for analyzing single-cell dynamics. TeaserExcept when transitions occur, single-cell dynamics exhibit sloppiness, adhering approximately to a least action principle.

biophysics↗

bioRxiv2025

A balanced circadian glycolytic rhythm drives cardiomyocyte cell cycle progression during fish heart regeneration.

The ability of heart tissue to repair itself after injury has fascinated scientists for decades1,2. Researchers have long studied the internal body clock, or circadian rhythm, for its role in coordinating daily cycles of metabolism and cell activity3,4, but its relevance to heart repair has remained unknown. This study explores, for the first time, whether natural daily rhythms influence heart regeneration--a process driven by cardiomyocyte proliferation. We discovered that DNA replication, mitosis, oxidative phosphorylation, and glycolysis follow a precise daily order in regenerating zebrafish hearts. Disrupting core clock gene expression abolishes the rhythms of glycolysis and mitosis, preventing cardiomyocyte cell cycle progression and regeneration. Insulin-resistant Astyanax mexicanus cavefish, which have adapted to dark caves, similarly show a loss of mitosis rhythm and cardiomyocyte cell cycle progression, which we find is caused by reduced glycolysis. Despite this reduction, glycolysis rhythm displays a larger amplitude in cavefish--a pattern recapitulated in insulin-resistant zebrafish. Insulin resistance resets metabolic rhythms to the morning, which is equally detrimental to regeneration. Here, we show that successful cardiac regeneration depends on synchronised clock and glucose rhythms, which together orchestrate the cell cycle events essential for cardiomyocyte proliferation and tissue repair.

physiology↗

bioRxiv2025

Juvenile hormone degradation enzymes have shared and unique requirements in Drosophila development

Precise control of hormones is essential for animal development. Hormone bioavailability is regulated by their synthesis, transport, sequestration, natural turnover, and programmed degradation. Here, we use Drosophila melanogaster to investigate developmentally programmed degradation of the retinoid-like juvenile hormones (JHs). JHs promote juvenile growth and timely development by functionally opposing the steroid hormone, ecdysone. Despite well-characterized biochemistry, the developmental requirements for programmed JH degradation are poorly understood due to paralogue expansion. To close this knowledge gap, we generated double and triple knockout animals lacking one of two classes of JH degradation enzymes: JH esterases (JHEs) and JH epoxide hydrolases (JHEHs). We found that while both JHEs and JHEHs restrain JH signaling during Drosophila juvenile development, each has separate requirements in the regulation of developmental timing and growth. Strikingly, loss of all three JHEHs doubled the length of juvenile development, and the resulting pupae were smaller. Through targeted and genome-wide transcriptome analysis, measurements of hormone-producing glands, and rescue experiments, we uncovered both shared and unique dysregulated gene networks, some of which have established roles in the regulation of both body size and developmental timing. Our comparative analysis of both JH degradation pathways demonstrated that loss of JHEH, but not JHE, activates multiple levels of compensatory feedback to maintain homeostasis within JH and ecdysone axes. These data not only suggest that JHEH-mediated degradation is the dominant programmed JH degradation pathway in D. melanogaster development, but they also revealed new JH homeostatic mechanisms more generally. Together, this study provides new genetic tools and insights into programmed hormone degradation. Article summaryHormones control the timing of developmental transitions and growth. As such, multiple mechanisms ensure precise amounts of a hormone are available at the right time and place. Here, we investigated the poorly understood process of developmentally programmed hormone degradation using juvenile hormones (JHs) in Drosophila melanogaster as a model. We generated double and triple knockout strains to disrupt JH degradation and found an unexpected separation of requirements in regulating developmental growth and timing. Through phenotypic and transcriptomic analysis, this study provides insights into the mechanisms and complexities of programmed hormone degradation in animal development.

genetics↗

bioRxiv2025

Absence of a prolonged macrophage and B cell response inhibits heart regeneration in the Mexican cavefish

A balanced immune response after cardiac injury is crucial to successful heart regeneration, but knowledge of what distinguishes a regenerative from a scarring response is still limited. The Mexican cavefish provides a unique comparative model to study heart regeneration and scarring within a single species. Surface-dwelling fish are capable of heart regeneration whereas their cave-dwelling Pachon counterparts lack this ability, similar to the human heart. Using single-cell transcriptomics and immune perturbations, we find significant differences in the immune response between the two populations. Unlike the transient response in the scarring Pachon, the regenerative surface fish heart generates an unexpected functionally active prolonged innate and adaptive immune response at the late stages of regeneration. Inhibiting the overall prolonged immune response impairs regeneration and cardiomyocyte proliferation. Further characterisation of specific cell types shows that late-present macrophages are phagocytic, and their depletion disrupts regeneration but not cardiomyocyte proliferation while inhibiting B cells impairs regeneration by reducing cardiomyocyte proliferation. This B cell response is conserved in zebrafish. Our findings reveal critical immune mechanisms distinguishing regenerative and non-regenerative responses, offering insights for potential therapeutic strategies to enhance heart repair.

developmental biology↗

bioRxiv2024

Injured endocardium obtains characteristics of haemogenic endothelium during adult zebrafish heart regeneration

Reactivation of embryonic developmental pathways during regeneration aims to restore tissue architecture and functionality. We previously reported that following cryoinjury, a heterogeneous population of Runx1-expressing endocardial cells differentially upregulates genes associate with scarring and myofibroblast identity. Further analysis of our published RNAseq data alongside 5 publicly available datasets now identifies additional heterogeneity in the Runx1-positive injured endocardium. Here, we show that the endocardium also reactivates a dormant endocardial-to-haematopoietic transition (EHT) mechanism. Runx1-expressing endocardial cells upregulate genes associated with haemogenesis and morphologically display features of EHT. Live imaging shows cells budding off the endocardium and lineage analysis identifies overlap with leukocyte markers. Ablation of runx1 function further shifts differentiation of the endocardium towards the EHT fate. The identification of transient runx1-expressing cells transitioning towards myofibroblast or haemogenic endocardium identities demonstrates the complexity of the zebrafish endocardial injury response and highlights the role of Runx1 in regulating cell fate decisions in the endocardium.

developmental biology↗

bioRxiv2024

Muller glia cell cycle re-activation by simultaneous cyclin D1 overexpression and p27kip1 knockdown promotes retinal regeneration in mice

Harnessing the regenerative potential of endogenous stem cells to restore lost neurons is a promising strategy for treating neurodegenerative disorders. Muller glia (MG), the primary glial cell type in the retina, exhibit extraordinary regenerative abilities in zebrafish, proliferating and differentiating into neurons post-injury. However, the regenerative potential of mouse MG is limited by their inherent inability to re-enter the cell cycle, constrained by high levels of the cell cycle inhibitor p27Kip1 and low levels of cyclin D1. Here, we report a method to drive robust MG proliferation by adeno-associated virus (AAV)-mediated cyclin D1 overexpression and p27Kip1 knockdown. MG proliferation induced by this dual targeting vector was self-limiting, as MG did not undergo uncontrolled proliferation. As shown by single-cell RNA-sequencing, cell cycle reactivation led to suppression of interferon signaling, activation of reactive gliosis, and downregulation of glial genes in MG. Over time, the majority of the MG daughter cells retained the glial fate, resulting in an expanded MG pool. Interestingly, about 1% MG daughter cells expressed markers for retinal interneurons, suggesting latent neurogenic potential in a small MG subset. By establishing a safe, controlled method to promote MG proliferation in vivo while preserving retinal integrity, this work provides a valuable tool for combinatorial therapies integrating neurogenic stimuli to promote neuron regeneration.

neuroscience↗

bioRxiv2024

Differential prevalence and risk factors for infection with coronaviruses in bats collected during 2020 in Yunnan Province, China

Coronaviruses (CoVs) pose a threat to human health globally, as highlighted by severe acute respiratory syndrome (SARS), Middle East respiratory syndrome (MERS) and the COVID-19 pandemic. Bats from the Greater Mekong Subregion (GMS) are an important natural reservoir for CoVs. Here we report the differential prevalence of CoVs in bats across biological and ecological factors within Yunnan Province. We also show the coexistence of CoVs in individual bats and identify an additional putative host for SARS-related CoV, with higher dispersal capacity than other known hosts. Notably, 11 SARS-related coronaviruses (SARSr-CoVs) were discovered in horseshoe bats and a Chinese water myotis bat by pan-CoV detection and Illumina sequencing. Our findings facilitate an understanding of the fundamental features of the distribution and circulation of CoVs in nature as well as zoonotic spillover risk in the One health framework.

microbiology↗

bioRxiv2024

UK BioCoin: Swift Trait-Specific Summary Statistics Regression for UK Biobank

Summary statistics derived from large-scale biobanks facilitate the sharing of genetic discoveries while minimizing the risk of compromising individual-level data privacy. However, these summary statistics, such as those from the UK Biobank (UKB) provided by Neales lab, are often adjusted by a fixed set of covariates to all traits (12 covariates including 10 PCs, sex and age), preventing the exploration of trait-specific summary statistics. In this study, we present a novel computational device UK BioCoin (UKC), which is designed to provide an efficient framework for trait-specific adjustment for covariates. Without requiring access to individual-level data from UKB, UKC leverages summary statistics regression technique and resources from UKB (289 GB of 199 phenotypes and 10 million SNPs), to enable the generation of GWAS summary statistics adjusted by user-specified covariates. Through a comprehensive analysis of height under trait-specific adjustments, we demonstrate that the GWAS summary statistics generated by UKC closely mirror those generated from individual-level UKB GWAS ({rho} [≥] 0.99 for effect sizes and{rho} [≥] 0.99 for p-values). Furthermore, we demonstrate the results for GWAS, SNP-heritability estimation, polygenic score, and Mendelian randomization, after various trait-specific covariate adjustments as allowed by UKC, indicating UKC a platform that harnesses in-depth exploration for researchers lacking access to UKB. The whole framework of UKC is portable for other biobank, as demonstrated in Westlake Biobank, which can equivalently be converted to a UKC-like" platform and promote data sharing. UKC has its computational engine fully optimized, and the computational efficiency of UKC is about 70 times faster than that of UKB. We package UKC as a Docker image of 20 GB (https://github.com/Ttttt47/UKBioCoin), which can be easily deployed on an average computer (e.g. laptop). One sentence summaryWe develop UK BioCoin (UKC), which allows fine-tuning of covariates for each UK Biobank trait but does not relay on UK Biobank individual-level data. It will change the current landscape of GWAS and reshape its downstream analyses.

genetics↗

bioRxiv2024

Multi-layered Network Analysis of Osteoking in the Treatment of Osteoporosis: Unraveling Mechanisms from Gene Expression to Molecular Docking

This study aimed to elucidate the therapeutic mechanisms of Osteoking in the treatment of osteoporosis through a comprehensive analysis of potential targets, active ingredients, and associated pathways. MethodThe study employed an integrated approach to understand the molecular mechanisms underlying Osteokings treatment of osteoporosis. The construction of the protein-protein interaction network involved analyzing data from GENEMANIA and STRING databases. KEGG enrichment analysis was performed to identify enriched pathways, focusing on the cAMP signaling and PI3K-AKT signaling pathways. Active ingredients, disease targets, and osteoporosis-related pathways were integrated into a comprehensive network diagram using Cytoscape. ResultThe Gene Expression Omnibus (GEO) database was employed to identify osteoporosis-related gene targets, revealing 3,578 downregulated and 1,204 upregulated genes. Simultaneously, Osteokings active ingredients and potential targets were investigated using the Traditional Chinese Medicine Integrated Database (ETCM). A protein-protein interaction network and KEGG pathway enrichment analysis were constructed, highlighting potential targets for Osteokings therapeutic effects on osteoporosis. The study also conducted molecular docking analysis, revealing the strong binding capacities of Kaempferol with key disease targets. The results suggest that Osteoking, particularly its active component Kaempferol, holds promise as a potential intervention for osteoporosis, providing insights for further exploration and development of osteoporosis treatments ConclusionsIn conclusion, despite some limitations, this study provides valuable information for the treatment of osteoporosis. Future research should make further progress by continually expanding data sources, conducting in-depth experimental validations, and broadening the scope of targets to better understand and address this common skeletal disorder. FundingThis work was supported by the Scientific Foundation of Fuzhou Municipal Health Commission (2021-S-wp3).

bioinformatics↗

bioRxiv2023

Quantification of cell phenotype transition manifolds with information geometry

Cell phenotype transition (CPT) is crucial in development and other biological processes. Advances in single-cell sequencing reveal that CPT dynamics are confined to low-dimensional manifolds, yet current methods cannot directly quantify these manifolds. We present SCIM (single cell information manifolds), a geometry-guided approach using information geometry. SCIM embeds single-cell gene expression profiles as Gaussian distributions, defining the Fisher metric naturally in this space. We compute each cells coarse Ricci curvature, finding that low-curvature cells mark critical transitions. By further calculating each cells information velocity from RNA velocity, we find that regions with high information velocity coincide with low curvature, suggesting that geometry guides cellular dynamics on CPT manifolds. SCIM uncovers invariant features of CPT manifolds and provides a general framework for quantifying dynamics on these manifolds.

biophysics↗

bioRxiv2023

Optogenetic Silencing of Medial Septal GABAergic Neurons Disrupts Grid Cell Spatial and Temporal Coding in the Medial Entorhinal Cortex

The hippocampus and medial entorhinal cortex (MEC) form a cognitive map that facilitates spatial navigation. As part of this map, MEC grid cells fire in a repeating hexagonal pattern across an environment. This grid pattern relies on inputs from the medial septum (MS). The MS, and specifically its GABAergic neurons, are essential for theta rhythm oscillations in the entorhinal-hippocampal network, however, it is unknown if this subpopulation is also essential for grid cell function. To investigate this, we used optogenetics to inhibit MS-GABAergic neurons during grid cell recordings. We found that MS-GABAergic inhibition disrupted grid cell spatial periodicity both during optogenetic inhibition and during short 30-second recovery periods. Longer recovery periods of 60 seconds between the optogenetic inhibition periods allowed for the recovery of grid cell spatial firing. Grid cell temporal coding was also disrupted, as observed by a significant attenuation of theta phase precession. Together, these results demonstrate that MS-GABAergic neurons are critical for grid cell spatial and temporal coding in the MEC.

neuroscience↗

bioRxiv2022

Grid cell disruption in a mouse model of early Alzheimer's disease reflects reduced integration of self-motion cues and increased influence of environmental geometry

Grid cell impairments and path integration deficits are sensitive markers of early Alzheimers disease (AD). Converging evidence from human and rodent studies suggest that disrupted grid coding underlies path integration deficits in preclinical individuals. However, it still remains unclear if disrupted early AD grid coding reflects increased noise across the network or a specific deficit in path integration, perhaps via an impairment in the integration of self-motion cues. Here, we report in the J20 transgenic amyloid beta mouse model of early AD that grid cells were spatially unstable towards the center of the square arena but not near the borders, had qualitatively different spatial components that aligned parallel to the borders of the environment, and exhibited impaired integration of distance travelled via reduced theta phase precession. Our results suggest that disrupted early AD grid coding reflects reduced integration of self-motion cues but not environmental landmarks, providing further evidence that grid cell impairments underlie specific path integration deficits in early AD.

neuroscience↗

bioRxiv2021

Disruption of the grid cell network in a mouse model of early Alzheimer's disease

Early-onset familial Alzheimers disease (AD) is marked by an aggressive buildup of amyloid beta (A{beta}) proteins, yet the neural circuit operations impacted during the initial stages of A{beta} pathogenesis remain elusive. Here, we report a coding impairment of the medial entorhinal cortex (MEC) grid cell network in a transgenic mouse model of familial AD that over-expresses A{beta} throughout the hippocampus and entorhinal cortex. Grid cells showed reduced spatial periodicity, spatial stability, and synchrony with interneurons and head-direction cells. In contrast, the spatial coding of non-grid cells within the MEC, and place cells within the hippocampus, remained intact. Grid cell deficits emerged at the earliest incidence of A{beta} fibril deposition and coincided with impaired spatial memory performance in a path integration task. These results demonstrate that widespread A{beta}-mediated damage to the entorhinal-hippocampal circuit results in an early impairment of the entorhinal grid cell network.

neuroscience↗

bioRxiv2021

Downregulation of NCL attenuates tumor formation and growth in cervical cancer by targeting the PI3K/AKT pathway

Nucleolin (NCL, C23) is a multifunctional phosphoprotein that plays a vital role in modulating the survival, proliferation and apoptosis of cancer cells. However, the effects of NCL on cervical cancer and the underlying mechanisms behind this are poorly understood. In the study presented here, Hela cells were transfected with shRNAs targeting the endogenous NCL gene (sh-NCL-Hela). NCL knockdown inhibited cell proliferation and promoted apoptosis both in vivo and in vitro. Mechanistic studies revealed that NCL knockdown inhibited the PI3K/AKT pathway by upregulating FGF, ITGA, TNXB, VEGF, Caspase 3, and Bax, as well as by downregulating AKT, GNB4, CDK6, IL6R, LAMA, PDGFD, PPP2RSA and BCL-2. In addition, the expression levels of apoptosis-related genes after using a PI3K inhibitor LY294002 were consistent with shRNA studies, while treatment with a 740Y-P agonist showed the opposite effect. Altogether, this study uncovered that downregulation of NCL may be a novel treatment strategy for cervical cancer.

cancer biology↗