FLOWERING LOCUS T (FT) gene regulates short-day flowering in low latitude Xishuangbanna cucumber (Cucumis sativus var. xishuangbannanesis) by Shan-Shan Song, Qian Hao, Li-Hong Su, Shi-Wei Xia, Rui-Jing Zhang, Yan-Jun Liu, Yu Li, Yuan-Ying Zhu, Qiu-Yu Luo, Yun-Song Lai

“…Out-of-range photoperiod conditions and weak light conditions are unfavorable for blooming. Transcriptomic and gene expression analysis indicate circadian pathway genes as well as CONSTANS (CO) did not show a differential response to photoperiod treatment between XIS and cultivated cucumbers. …”
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Ophiopogonin D improves pancreatic islet cell dedifferentiation to treat diabetes by regulating the GRP78/ROS/PDX1 signaling pathway by Haoxiang Sun, Ruixiang Tan, Yongzhi Sun, Yimeng Li, Ying Xie, Cheng Zhang, Jianping Song, Wei Zhu, Jiuyao Zhou, Changsheng Deng, Manxue Mei

“…Additionally, we created an in vitro β-cell dedifferentiation model using INS-1 cells to evaluate Op D’s influence on insulin secretion and dedifferentiation. Transcriptomic analysis was conducted to explore potential mechanisms by which Op D ameliorates dedifferentiation, with further validation via Western blotting and immunofluorescence. …”
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Effects of different fiber levels of energy feeds on rumen fermentation and the microbial community structure of grazing sheep by Xiaoyun Zhang, Xulei Liu, Kaili Xie, Yueting Pan, Fuyao Liu, Fujiang Hou

“…However, further understand the mechanism of the effect of fiber level on the rumen of sheep, it is necessary to conduct in-depth analysis using research methods such as transcriptomics, proteomics and metabolomics.…”
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UV-B induced expression of wax synthesis gene LbCYP96A15 in leaves of goji plants (Lycium barbarum) to improve powdery mildew resistance by Xiao Zhang, Jie Li, Xia Wen, Xin-bing Wang, Deng-pan Shen, Li-wei Ding, Jing He

“…Concurrently, the incidence of powdery mildew rose from 7.85 to 21.7% and 72.92%, while the disease index increased from 14.21 to 27.23 and 78.40, respectively. …”
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Differential Mitochondrial Genome Expression of Four Skink Species Under High-Temperature Stress and Selection Pressure Analyses in Scincidae by Xuxiang Wu, Lemei Zhan, Kenneth B. Storey, Jiayong Zhang, Danna Yu

“…To validate these findings, transcriptomic profiling was conducted to assess mitochondrial protein-coding gene (PCG) expression patterns under thermal stress. …”
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Periplocin induces necroptosis in papillary thyroid carcinoma through DR4 mediated RIPK3 and MLKL signaling by Li Ding, Fengmei Wen, Liang Zeng, Ziwei Li, Gangyin Xie

“…RNA-seq was conducted to compare the transcriptomes of periplocin-treated and untreated TPC-1 cells. …”
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Nicotine-induced CHRNA5 activation modulates CES1 expression, impacting head and neck squamous cell carcinoma recurrence and metastasis via MEK/ERK pathway by Chen Feng, Wei Mao, Chenyang Yuan, Pin Dong, Yuying Liu

“…Cell proliferation following nicotine exposure is assessed using the CCK-8 assay, while migration and invasion are evaluated through wound healing and Transwell assays. …”
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Astrocytic BDNF Modulates Sensitivity to Stress-Induced Anxiety-Like Behaviors by Wei-Peng Li, Gui-Yu Liu, Shi-Yun Wang, Jiao Hu, Wen-Juan Ji, Jun-Ming Zhu, Qing-Yu Chang, Tian-Yi Li, Guo-Rong Wei, Jian-Qing Shang, Hong-Zhan Li, Fu-Hua Peng, Yun-Yan Zhao, Xiao-Hong Su, Wei Xie

“…Transcriptomic analysis suggests interferon-related signaling pathways as potential downstream effectors, amplifying anxiety sensitivity through altered astrocytic activation and neuroimmune dynamics. …”
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Intestinal flora and liver metabolism molecular mechanism on growth and health in Japanese eel black fry (Anguilla japonica) fed with fermented soybean meal replacing soybean meal... by Ningyu Li, Zhenying He, Jiaxuan Wang, Guobin Ni, Ying Hang, Kang Li, Xueming Hua, Liping Liu

“…A little of FSBM and SBM could positively influenced the community composition of intestinal flora and reduce the abundance of pathogenic bacteria. The combined analysis of liver metabonomic and transcriptomic showed that FSBM significantly changed transcription of the genes which involved citric acid cycle and glyoxylate and dicarboxylate metabolism, and thus altering the level of key metabolites and improving liver metabolic efficiency. …”
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Sesamin protects against Acetaminophen-induced nephrotoxicity by suppressing HMOX1-mediated apoptosis and ferroptosis by Siqi Zhu, Jingyi Ren, Yadong Zhang, Xiaoya Sun, Huanting Pei, Bowen Yin, Ziyi Wang, Zhenao Zhang, Shenghe Li, Ruonan Zhang, Ziqian Zeng, Yuxia Ma

“…Kidney damage was evaluated by morphological, inflammation, oxidative stress and protein analyzes.Results Ses significantly improved APAP-induced nephrotoxicity in vitro and in vivo models. Transcriptomic analysis revealed that the differentially expressed genes were enriched in ferroptosis and apoptosis signaling pathways, identifying heme oxygenase 1 (HMOX1) as a core protein. …”
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Peroxiredoxin 4 Ameliorates T-2 Toxin-Induced Growth Retardation in GH3 Cells by Inhibiting Oxidative Stress and Apoptosis by Qirong Lu, Yi Zhu, Luyao Wang, Meng Mei, Yinsheng Qiu, Yu Liu, Shulin Fu, Jianglin Xiong, Pu Guo, Zhongyuan Wu, Xu Wang

“…However, the specific targets and mechanisms that mitigate T-2 toxin-induced growth retardation remain unclear. In this study, transcriptomic analysis was employed to identify key differentially expressed genes associated with the alleviation of T-2 toxin-induced growth retardation. …”
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Regulatory effects of the bidirectional crosstalk between hepatic gene expressions and gut microbiota on the productive performances and egg quality of induced molting treated laye... by Fuguang Xue, Pengyun Ma, Yunlei Li, Xiaoke Zhang, Xinying Xu, Zhong Ma, Yanyan Sun, Jingwei Yuan, Hui Ma, Jinsong Pi, Huadong Wu, Ling Li, Yuanqi Qu, Jilan Chen

“…Productive performances and egg quality were meticulously recorded for each replicate, followed by the sampling of one bird from each replicate for the intestinal morphological analysis. The16S rRNA and transcriptomic sequencing methods were conducted for microbial communities and hepatic gene expressions investigation between CON and FM treatments to investigate the potential regulatory effects on productive performances and egg quality. …”
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Divergent therapeutic and prognostic impacts of immunogenic features in undifferentiated pleomorphic sarcoma and myxofibrosarcoma by Siddh van Oost, Debora M. Meijer, Zeynep B. Erdem, Marieke E. IJsselsteijn, Jessica Roelands, Suk Wai Lam, Melissa S. Boejharat, Brendy E. W. M. van den Akker, Ruud van der Breggen, Inge H. Briare-de Bruijn, Lukas J. A. C. Hawinkels, Anouk A. Kruiswijk, Manon van der Ploeg, Pauline M. Wijers-Koster, Rick L. Haas, Michiel A. J. van den Sande, Noel F. C. C. de Miranda, Judith V. M. G. Bovee

“…Characterization of T cell and macrophage infiltration in tumors was further assessed in 23 UPS and 22 MFS through multispectral immunofluorescence and immunohistochemical analysis. UPS and MFS demonstrated immunogenic features compared to other soft tissue sarcomas, with subsets of UPS and MFS demonstrating high T cell infiltration, while UPS demonstrated a higher infiltration by myeloid cells as compared to MFS. …”
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Artesunate Mitigates Sepsis-Induced Acute Kidney Injury via Lactate/AMPK/mTOR-Regulated Autophagy Based on Multi-Omics by Chen H, Du P, Guo R, Li X, Zhang L, Duan J, Chen M, Guo J, Li Y, Jiang T

“…Furthermore, ART alleviates LPS-induced cytotoxicity in HK-2 cells, reduce the levels of pro-inflammatory cytokines IL-1β, IL-6, and TNF-α, and increase the levels of antioxidant GSH. Integrative analysis of metabolomics and transcriptomics reveals that ART intervention markedly decreases lactate levels, inhibits excessive AMPK activation, relieves mTOR pathway suppression, and suppresses excessive autophagy, thereby attenuating inflammation and oxidative stress, and mitigating renal cell injury.Conclusion: The findings suggest that ART may mitigate inflammation and oxidative stress while improving renal function in S-AKI by modulating the lactate/AMPK/mTOR pathway and inhibiting excessive autophagy.Keywords: acute kidney injury, artesunate, multi-omics, lactate/AMPK/mTOR pathway, autophagy…”
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Improved VPS4B O-GlcNAc modification triggers lipid droplets transferring from adipocytes to nasopharyngeal carcinoma cells by Haimeng Yin, Ying Shan, Qin Zhu, Ling Yuan, Feng Ju, Yu Shi, Yumo Han, Rui Wu, Tian Xia, Kaiwen Zhang, Yiwen You, Bo You

“…NPC cells internalize LDs directly via macropinocytosis, while H-exo induces oxidative stress and membrane fluidity in adipocytes, leading to LD release. …”
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Salidroside can protect against ferroptosis in cardiomyocytes and may be related to the regulation of GGT1 by Tianhang Feng, Jing Shi, Jinghua Zhao, Qin Zhao, Tao Wang, Sha Wan, Chen Fan, Sijia Wang, Chunyou Lai, Yutong Yao

“…Salidroside (SAL), a natural bioactive compound derived from Rhodiola rosea, exhibits cardioprotective effects through multi-target mechanisms with minimal adverse effects, yet its precise role in ferroptosis regulation remains unclear.MethodsThis study systematically investigated SAL’s anti-ferroptotic effects using in vitro (RSL3-induced H9C2 cardiomyocytes) and in vivo (DOX-induced myocardial injury mouse model) approaches.ResultsSAL treatment significantly enhanced cardiomyocyte viability by attenuating ferroptotic hallmarks, including lipid ROS accumulation, iron overload, lipid peroxidation, and mitochondrial dysfunction. Transcriptomic analysis revealed SAL-mediated modulation of DNA replication/repair, cell cycle regulation, protein autophosphorylation, drug ADME processes, and glutathione metabolism—a critical pathway in ferroptosis. …”
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Transient pharmacological inhibition of SUMOylation during pregnancy induces craniofacial malformations in offspring mice by Jorge Mata-Garrido, Isabella Zafferri, Alice Nordlinger, Yann Loe-Mie, Anne Dejean, Jack-Christophe Cossec

“…Lower-concentration injections resulted in viable mice with craniofacial deformities often accompanied by hydrocephalus, syndactyly and an aplasia cutis-like phenotype. Transcriptomic analysis revealed the repression of genes involved in neural crest differentiation in the TAK981-treated embryos as well as the overexpression of the Fgfr gene family in the adult TAK981 progeny. …”
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Engineering and application of multiepitope recombinant proteins to enhance resistance to Botrytis cinerea in tomatoes: a new paradigm for creating plant immune activators by Xiaxia Man, Huang You, Zhiqiang Cheng, Junhao Li, Dunchao Yao, Haofeng Wang, Zhihong Diao, Xiaosong Yu, Wei Wu, Cheng Zhou, Yan Huang, Jinbo Shen, Xiaohong Zhuang, Yi Cai

“…SIRP5 significantly induced reactive oxygen species (ROS), MAPK activation, and callose deposition in tomato leaves during in vitro experiments. Transcriptomic analysis revealed that SlRP5 more effectively activated key immune-related pathways compared to traditional peptides, upregulating critical genes involved in calcium-binding proteins and phenylpropanoid biosynthesis. …”
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Alanine metabolism mediates energy allocation of the brown planthopper to adapt to resistant rice by Kai Lin, Lei Yue, Longyu Yuan, Kui Kang, Yibing Zhang, Rui Pang, Wenqing Zhang

“…Methods: The rice Oryza sativa and its monophagous pest, the brown planthopper (BPH), Nilaparvata lugens were used as a model system. An integrated analysis of metabolomes and transcriptomes from different BPH populations were conducted to identify the biomarkers. …”
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Effect of immune infiltration intensity on the efficacy of neoadjuvant immunotherapy for esophageal cancer by Yong Zhang, Xinyao Xu, Xinyao Xu, Xiaorong Mu, Xiaorong Mu, Juzheng Wang, Jipeng Zhang, Guangyu Xiang, Jiahe Li, Chunlong Zheng, Huaiyu Wang, Qiang Lu

“…TCGA data confirmed a correlation between high gene expression and increased tumor mutational burden as well as improved survival rates, particularly for CXCL10. qRT-PCR revealed significant upregulation of CXCL10, CXCL11, ME1, MT1X, FAT1, OAS2, and MT2A in tumor tissues compared to normal tissues. Western blot analysis showed increased protein levels of CXCL10, CXCL11, OAS2, MT1E, and MT1X, while FAT1 was downregulated.ConclusionOur study highlights the critical role of immune infiltration and associated molecular pathways in the efficacy of neoadjuvant immunotherapy for ESCC. …”
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