Integrated analysis of transcriptomics and metabolomics and high-throughput amplicon sequencing reveals the synergistic effects of secondary metabolites and rhizosphere microbiota... by Li Yingtao, Li Qiaofeng, Wang Lijuan, Qi Shuyun, Jiang Zhou, Zhang Wenping, Zhang Aili

“…Transcriptome revealed distinct patterns of gene expression between healthy root samples (HR) and diseased root samples (DR) of P. tunicoides. …”
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Mesquite seed flour as a nutrient-rich alternative to fishmeal for common carp fingerlings (Cyprinus carpio): Environmental, growth performance, transcriptomic and intestinal micro... by María Fernanda Barragán-Longoria, Karla Jareth Pérez-Viveros, Arturo Cadena-Ramírez, Javier Castro-Rosas, José Roberto Villagómez-Ibarra, Jesus Hernandez-Perez, Silvia Hinojosa-Alvarez, Carlos Alberto Gómez-Aldapa, Rocio Alejandra Chavez-Santoscoy

“…Additionally, MD-fed carp showed unique bacterial species, such as Shewanella putrefaciens and Myxococcus xanthus, while FM-fed fish showed Shewanella hanedai and Archangium disciforme. …”
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A pilot transcriptomic study of a novel multitargeted BRT regimen for anti–MDA5 antibody-positive dermatomyositis: improving survival over conventional therapy by Moe Tokunaga, Moe Tokunaga, Yu Nakai, Yoshiharu Sato, Mitori Hiratsuka, Yoshinori Matsumoto, Takeshi Nakatsue, Takako Saeki, Takatsune Umayahara, Jun Wada, Yoshinobu Koyama

“…Cytomegalovirus reactivation was observed in both groups (BRT: 5/7; TC: 6/7). Transcriptomic analysis revealed no treatment-specific clustering of differentially expressed genes (DEGs) before and after therapy. …”
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Green forage impacts on the DNA methylation in the ruminal wall of Italian mediterranean dairy buffaloes by Salvatore Fioriniello, Angela Salzano, Giovanna Bifulco, Riccardo Aiese Cigliano, Floriana Della Ragione, Giuseppe Campanile

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Genome-wide identification and functional analysis of PEL gene family in Brassica napus L by Man Xing, Yu Kang, Mengjie Lv, Bheem Raj Serani, Qi Shen, Wenfang Jiao, Wen Mu, Shan Chen, Zechuan Peng, Luyao Huang

“…Among them, PEL1 and PEL3 encode acidic proteins, while PEL2 and PEL4 encode weakly basic proteins. …”
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Exploring Differentially Expressed Genes and Immune Modulation in Diffuse Large B-Cell Lymphoma through RNA Sequencing Analysis by Nor Adzimah Johdi, Amanda Seng, Wei-Kang Lee, Hanif Zulkhairi Mohamad Said, Wan Fariza Wan Jamaluddin

“…Background: Diffuse large B-cell lymphoma (DLBCL) is globally recognized as the most prevalent and aggressive subtype of non-Hodgkin lymphoma. While conventional treatments are effective initially, the disease can become resistant or relapse over time. …”
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The potential of Trichoderma asperellum for degrading wheat straw and its key genes in lignocellulose degradation by Qijun Zhu, Weiwei Liu, Liye Song, Zhenzhen Guo, Zhiyao Bian, Yunsheng Han, Hongying Cai, Peilong Yang, Kun Meng

“…Cellulose degradation reached 33.51 and 28.00%, while hemicellulose degradation increased to 31.56 and 63.86%. …”
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Understanding the transition from embryogenesis to seed filling in Phaseolus vulgaris L. non-endospermic seeds by Cláudia Lopes, Pedro Fevereiro, Susana de Sousa Araújo, Susana de Sousa Araújo

“…Studying seed development in common bean is crucial for improving yield, nutrition, stress tolerance and disease resistance while promoting sustainable agriculture and food security, with its sequenced genome and available molecular tools making it an excellent research model. …”
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Screening and identification of a bacterial strain for the production of tetramethylpyrazine through solid-state fermentation and determination of its high-yield mechanism by Wanwan Zhuansun, Jun Xu, Zhiqiang Li, Hengzhao Liu, Yin Zhao, Lulu Chen, Shufang Shan, Xin Zeng, Binyue Xin, Huawei Zeng, Qinxiang Xu

“…This study provides a potential strain and approach for enhancing TTMP yield while also deepening the theoretical understanding of the underpinning mechanisms.…”
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Response mechanism of major secondary metabolites of Polygonatum kingianum to selenium nanoparticles by Xiaolin Wan, Xiaolin Wan, Jiehua Wang, Jiehua Wang, Jiaxin Zhang, Jiaxin Zhang, Hongshi Cui, Hongshi Cui, Lingjun Cui, Lingjun Cui, Qiang Xiao

“…Joint physiological, metabolomic, and transcriptomic analyses were performed to reveal the response mechanisms of major secondary metabolites of P. kingianum to SeNPs. …”
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The interplay between RNA m6A modification and radiation biology of cancerous and non-cancerous tissues: a narrative review by Yajia Cheng, Yue Shang, Shuqin Zhang, Saijun Fan

“…Radiation therapy (RT) induces oncological responses, from molecular to phenotypic alterations, while simultaneously exerting toxic effects on healthy tissue. …”
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The Molecular Mechanisms Underlying Zucchini-Induced Changes in the Host Adaptation of Cotton- and Cucumber-Type <i>Aphis gossypii</i> by Yibin Pan, Weili Xu, Li Wang, Kaixin Zhang, Jichao Ji, Dongyang Li, Xiangzhen Zhu, Xueke Gao, Junyu Luo, Jinjie Cui

“…The polyphagous aphid <i>Aphis gossypii</i> exhibits host-specific biotypes, notably the cotton (Hap1) and cucumber (Hap3) types. While both can adapt to new hosts via zucchini induction, the underlying molecular mechanisms remain unclear. …”
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Bordetella pertussis infection activates the type I interferon signaling pathway to exacerbate respiratory tract inflammatory response by Wenwen Jiang, Wenwen Jiang, Jiangli Liang, Lukui Cai, Jingyan Li, Qin Gu, Yan Ma, Mingbo Sun, Xin-an Jiao, Li Shi, Li Shi

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Gold Nanoparticles Functionalized With 5-Amino-2-Mercaptobenzimidazole: A Promising Antimicrobial Strategy Against Carbapenem-Resistant Gram-Negative Bacteria by Zhang J, Zhang X, Yao Z, Pan J, Ye J, Xia P, Zhou T, Cao J

“…Keywords: carbapenem-resistant gram-negative bacteria, benzimidazole, gold nanoparticles, biocompatibility, transcriptome analysis…”
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Insights into Lead Toxicity and Detoxification Mechanisms in the Silkworm, <i>Bombyx mori</i> by Dan-Dan Bian, Yan-Xia Shi, Kai-Wen Shi, Hui-Cong Du, Bo-Ping Tang, Qiu-Ning Liu

“…Molecular analysis showed activation of antioxidant defenses, with superoxide dismutase (SOD) and catalase (CAT) activities significantly elevated (<i>p</i> < 0.05), while peroxidase (POD) activity declined (<i>p</i> < 0.05). …”
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Spleen-based proteogenomics reveals that Escherichia coli infection induces activation of phagosome maturation pathway in chicken by Jiahui Shi, Songhao Jiang, Qiang Wang, Jilin Dong, Huiming Zhu, Peijia Wang, Shuhong Meng, Zhenpeng Zhang, Lei Chang, Guibin Wang, Xiaoqin Xu, Ping Xu, Yao Zhang

“…Various strategies were used for searching virulence factors, while little is known about the mechanism by which APEC survives in host or is eliminated by host. …”
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Integrative immunology identified interferome signatures in uveitis and systemic disease-associated uveitis by Danielle Dias Munhoz, Dennyson Leandro M. Fonseca, Igor Salerno Filgueiras, Haroldo Dutra Dias, Helder I. Nakaya, Igor Jurisica, Igor Jurisica, Igor Jurisica, Hans D. Ochs, Hans D. Ochs, Lena F. Schimke, Luiz Vicente Rizzo, Otavio Cabral-Marques, Otavio Cabral-Marques, Otavio Cabral-Marques, Otavio Cabral-Marques, Otavio Cabral-Marques, Otavio Cabral-Marques

“…Machine learning identified IFN-associated genes as robust predictors, while linear discriminant analysis pinpointed CCR2, CD180, GAPT, and PTGS2 as key risk factors in isolated uveitis and CA1, SIAH2, and PGS in systemic disease-associated uveitis.ConclusionThese findings highlight IFN-driven imune dysregulation and potential molecular targets for precision therapies in uveitis.…”
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Impact of stocking density on oxidative stress, digestive enzyme activity, ATPase function, and transcriptomic changes in juvenile Crimson snapper (Lutjanus erythropterus) during l... by Jiaqi Su, Yu Guo, Jiayang Li, Karsoon Tan, Chuanxin Qin

“…In conclusion, 60 g/L is the optimum stocking density for L. erythropterus juveniles during road transport, while 80 g/L being a feasible but stressful alternative. …”
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Integration of histopathology, transcriptomics and non-targeted metabolomics reveals toxic effects of thiamethoxam under acute stress in mirror carp (Cyprinus carpio var. Longke-11... by Dongchang Guo, Wenyang Song, Manhong Liu, Haixia Jiang, Xiaolong Wang, Zhiying Jia, Bin Xu

“…Genes related to immune response and antioxidant stress were mostly downregulated, while genes related to inflammation and apoptosis were predominantly upregulated. …”
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Transcriptome and Physio-Biochemical Profiling Reveals Differentially Expressed Genes in Seedlings from Aerial and Subterranean Seeds Subjected to Drought Stress in <i>Amphicarpaea... by Jiancheng Kou, Yue Su, Tianyu Lei, Siqi Hou, Jiali Tian, Minglong Li, Shuzhen Zhang, Xiaodong Ding, Qiang Li, Jialei Xiao

“…Moreover, compared to AS seedlings, SS seedlings accumulated more hydrogen peroxide (H₂O₂) while exhibiting significantly lower peroxidase (POD) and superoxide dismutase (SOD) activities after exposure to ten days of drought stress. …”
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