Molecular signatures diversity unveiled through a comparative transcriptome analysis of longissimus dorsi and psoas major muscles in Hanwoo cattle by Sunirmal Sheet, Sun Sik Jang, Jin-A. Lim, Woncheoul Park, Dahye Kim

“…This study investigates the transcriptome-level alterations that influence production traits and early fattening stage myogenesis in Hanwoo cattle, specifically focusing on the highly prized Longissimus dorsi (LD) and Psoas major (PM) skeletal muscles, which hold significant commercial value. …”
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Mitochondrial transplantation normalizes transcriptomic and proteomic shift associated with ischemia reperfusion injury in neonatal hearts donated after circulatory death by Ilias P. Doulamis, Aspasia Tzani, Victor S. Alemany, Rio S. Nomoto, Aybuke Celik, Dominic P. Recco, Mossab Y. Saeed, Alvise Guariento, Jorge Plutzky, Sitaram M. Emani, Pedro J. del Nido, James D. McCully

“…Pathway analysis showed that ATP binding, voltage-gated K channel activity involved in cardiac cell muscle contraction and ribosomal RNA biogenesis were upregulated in the mitochondrial transplantation group, while mitochondria were the predicted source. Promotion of ribosome biogenesis and downregulation of apoptosis were the overlapping mechanisms between transcriptomic and proteomic alterations. …”
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Phylogenetic and transcriptomic analysis of chemosensory receptors in a pair of divergent ant species reveals sex-specific signatures of odor coding. by Xiaofan Zhou, Jesse D Slone, Antonis Rokas, Shelley L Berger, Jürgen Liebig, Anandasankar Ray, Danny Reinberg, Laurence J Zwiebel

“…Our phylogenetic analyses further demonstrate remarkably rapid gains and losses of ant Ors, while Grs and Irs have also experienced birth-and-death evolution to different degrees. …”
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Transcriptome analysis reveals nutrient deprivation reduces nitrate content in lettuce (Lactuca sativa var. ramosa Hort.) and enhances nitrogen metabolism by Yingying Zhang, Xuena Liu, Shikai La, Mingjiao Wang, Xu Hu, Ainong Shi, Jinghua Guo, Lingdi Dong

“…Nitrate transporter genes NRT2.4 and NRT2.5 were upregulated in roots, while NRT1 was induced in leaves, suggesting enhanced nitrate redistribution. …”
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RNA-Seq Transcriptomics and iTRAQ Proteomics Analysis Reveal the Dwarfing Mechanism of Blue Fescue (<i>Festuca glauca</i>) by Yong Zhang, Peng Han, Ruijie Zhao, Shuhan Yu, Hang Liu, Hong Wu, Jinyang Weng, Hengfeng Zhang

“…In this study, we investigated the dwarfing mechanism of <i>dw-1</i>, a blue fescue dwarfing mutant, using physiological, transcriptomic, and proteomic methods. The peroxidase (POD) enzyme activity and chlorophyll content of <i>dw-1</i> significantly increased, while the lignin, gibberellin (GA), and indoleacetic acid (IAA) content significantly decreased. …”
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Effect of Dead-Cell <i>Limosilactobacillus ingluviei</i> on Hematological Parameters and Jejunal Transcriptome Profile in Calves During the Weaning Period by Chao Ban, Supreena Srisaikham, Xingzhou Tian, Pipat Lounglawan

“…The control group (CON) received a basic diet, while the postbiotic group (DCLI) was supplemented with 1 g/d of postbiotic LIC37 for 90 days. …”
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Non-invasive liquid biopsy based on transcriptomic profiling for early diagnosis of occult peritoneal metastases in locally advanced gastric cancer by Ping’an Ding, Haotian Wu, Jiaxiang Wu, Tongkun Li, Renjun Gu, Lilong Zhang, Xiaoman Niu, Jinchen He, Jiaxuan Yang, Peigang Yang, Honghai Guo, Yuan Tian, Ning Meng, Xiaolong Li, Zhenjiang Guo, Lingjiao Meng, Qun Zhao

“…Abstract This study proposes a novel non-invasive diagnostic approach utilizing transcriptomic profiling of liquid biopsy samples for the early detection of occult peritoneal metastases in locally advanced gastric cancer (LAGC). …”
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Comparative transcriptome analysis and candidate gene mining for fire blight of Pear resistance in Korla fragrant Pear (Pyrus sinkiangensis Yü) by Yue Li, Yuanrong Ye, Wei Huan, Juan Ji, Jieyun Ma, Qiang Sheng, Jianfeng Lei

“…To this end, a comparative transcriptome analysis of common Korla fragrant pear (KFP, susceptible) and a bud mutation line (1910, resistant) at three inoculation periods was conducted. …”
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Histological observation, transcriptome and methylome analyses reveal the dynamic changes during gonadal differentiation of spotted sea bass, Lateolabrax maculatus by Lingyu Wang, Haishen Wen, Xin Qi, Kaiqiang Zhang, Donglei Sun, Xueqi Li, Shaosen Yang, Yun Li

“…Histological analysis revealed that testicular differentiation commenced before 120 days post-hatching (dph), while ovarian differentiation appeared before 180 dph. …”
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Effect of GR24 on the growth and development of licorice under low phosphorus stress by Yuting Jing, Man Li, Yong Wu, Chengming Zhang, Chengshu Qiu, Hengming Zhao, Li Zhuang, Hongling Liu

“…Results The optimal GR24 concentration for P3 and P2 conditions was identified as G3 (10 µM), which enhanced growth metrics, chlorophyll a and b levels, while also boosting antioxidant enzyme activities in licorice. …”
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Genome Sequencing and Comparative Transcriptomic Analysis of Rice Brown Spot Pathogen <i>Bipolaris oryzae</i> Adaptation to Osmotic Stress by Chun Wang, Kexin Yang, Sauban Musa Jibril, Ruoping Wang, Chengyun Li, Yi Wang

“…Under 1.2 M sorbitol-induced osmotic stress, we observed significant differences in growth responses between RBD1 and the rice blast fungus <i>Magnaporthe oryzae</i> H7. Transcriptomic analysis using Illumina sequencing revealed that RBD1 responds to osmotic stress by enhancing carbohydrate metabolism, fatty acid degradation, and amino acid synthesis, while H7 primarily relies on protein synthesis to enhance growth tolerance. …”
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Comparative transcriptomic and hormonal analyses reveal potential regulation networks of adventitious root formation in Metasequoia glyptostroboides Hu et Cheng by Yuping Xiong, Xiaohong Chen, Junyu Liu, Yuan Li, Zhan Bian, Xinhua Zhang, Songjun Zeng, Jaime A. Teixeira da Silva, Guohua Ma

“…Results The use of 2/5-strength Woody Plant Medium (WPM) significantly promoted AR formation of M. glyptostroboides shoots while the content of endogenous auxin, cytokinins and gibberellins (GAs) varied at different stages of AR formation. …”
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Comparative Physiological and Transcriptome Analyses Reveal the Responses to Ocean Acidification Challenge of <i>Mactra veneriformis</i> with Different Shell Colors by Limei Chen, Gengyin Huang, Shuang Liang, Jian Liang, Hefeng Wang, Huiru Liu, Xiaoyu Wang, Li Li, Yongjun Guo, Wenguang Liu

“…The findings indicated a significant rise in oxygen consumption rates and ammonia excretion rates following acidification in both the two shell colors, while the clams with purple color showed comparatively lower basal metabolic levels. …”
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Transcriptome and Metabolome Analyses Reveal the Mechanism of Color Differences in Pomegranate (<i>Punica granatum</i> L.) Red and White Petals by Yong Zhang, Peng Han, Ruijie Zhao, Shuhan Yu, Hang Liu, Shuren Ji, Wei Chen

“…The results showed that compared to White petals, the contents of anthocyanin, carotenoid, and sucrose in Tunisia petals were significantly increased, while the flavonoid content was significantly decreased. …”
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Lipidomics and Transcriptomics Revealed Dietary Complex Plant Extracts Improve Lipid Composition of <i>Longissimus dorsi Muscle</i> in Sheep by Hui Guo, Ruixue Nie, Wenwen Wang, Tao Guo, Chang Gao, Jinju Mao, Yuchao Hu, Na Liu, Xiaoping An, Yang Jia, Jingwei Qi, Yuan Wang

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Association of alterations in transcriptomics and intestinal immune responses with Bifidobacterium longum BAA2573 in improving dextran sulfate sodium-induced colitis by Wujuan Hao, Lan Gu, Renmin Zhou, Cuilan Huang, Xuyang Wang, Yanshan Liu, Qiong Lin

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Transcriptomic profiling reveals RetS-mediated regulation of type VI secretion system and host cell responses in Pseudomonas aeruginosa infections by Yinglin Wu, Yinglin Wu, Yinglin Wu, Shan Huang, Shan Huang, Shan Huang, Kai Zhang, Yangcheng Shen, Yangcheng Shen, Yangcheng Shen, Shebin Zhang, Shebin Zhang, Shebin Zhang, Haining Xia, Haining Xia, Haining Xia, Jieying Pu, Jieying Pu, Jieying Pu, Cong Shen, Cong Shen, Cong Shen, Cha Chen, Cha Chen, Cha Chen, Jianming Zeng, Jianming Zeng, Jianming Zeng

“…Deletion of the retS gene activates P. aeruginosa PAO1 T6SS while repressing T3SS in vitro. Bacterial and cellular transcriptome sequencing analyses showed that T6SS genes were upregulated, while T3SS genes were downregulated in the ΔretS mutant. …”
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Integrative Analysis of Whole-Genome and Transcriptomic Data Reveals Novel Variants in Differentially Expressed Long Noncoding RNAs Associated with Asthenozoospermia by Maria-Anna Kyrgiafini, Maria Katsigianni, Themistoklis Giannoulis, Theologia Sarafidou, Alexia Chatziparasidou, Zissis Mamuris

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Physiology, transcriptomics, and metabolomics reveal the regulation of calcium distribution in tomato under reduced vapor pressure deficit and increased calcium fertilizer by Xuemei Yu, Luqi Niu, Yuxin Liu, Yuhui Zhang, Jianming Li, Shuhui Zhang

“…Lower Ca distribution in leaves increased their absorption of other nutrients, such as potassium, magnesium, copper, and zinc, which increased the stomatal size and density, thereby improving plant carbon absorption and assimilation efficiency. However, transcriptomic and metabolomic data indicated that carbohydrates, as important regulatory factors under drought stress, increased significantly under high VPD, thereby reducing the fruit water potential while improving fruit water and Ca absorption. …”
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Integrated m6A RNA methylation and transcriptomic analysis of Apostichopus japonicus under combined high-temperature and hypoxia stress by Qiang Wang, Shuqing Zhang, Xiaohua He, Siyi Li, Xiaohui Xu, Yanwei Feng, Jianmin Yang, Guohua Sun

“…Results This study integrates m6A methylation sequencing (MeRIP-seq) and transcriptomic analysis (RNA-seq) to investigate molecular responses in A. japonicus under combined high-temperature (32 °C) and hypoxia (DO = 2 mg/L). …”
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