Transcriptome analysis of ovarian cancer uncovers association between tumor-related inflammation/immunity and patient outcome by Jingfang Wang, Wenrui Zhu, Xia Li, Yuanyuan Wu, Wenhui Ma, Yangzhou Wang, Weihong Zhao, Fang Wei, Wenhao Wang

“…The immune infiltration microenvironment, clinicopathological features, and survival rates differed significantly between two inflammatory gene expression patterns identified using cluster and immune microenvironment analyses. …”
Get full text

Identification of hub genes regulating seed germination viability in soybean via comparative transcriptome analysis and WGCNA by Long Miao, Lirong Chen, Huihui Gao, Linlin Kong, Mengli Xv, Genhua He, Juan Li, Jinghao Xv, Haowei Zheng, Xv Yang, Pengyu Bai, Jiajia Li, Lijuan Qiu, Xiaobo Wang

“…To elucidate the expression profile differences of soybean accessions with contrasting seed germination viability, we generated the transcriptomes from storage-tolerant genotype Manokin (Ma) and storage-sensitive genotype Xiaoheidou (X) that were naturally aged for 18 and 30 months, as well as the high vigor genotype MN0201 (MN) and low vigor genotype Yiwohou (Y) that were artificially aged for 0, 3, 4, and 5 days. …”
Get full text

KYNU is a potential metabolic-related biomarker for nasopharyngeal carcinoma by Raman spectroscopy, metabolomics, and transcriptomics analysis by Ziman Wu, Haiyan Yang, Yafei Xu, Xiang Ji, Dayang Chen, Chuang Zhang, Mingjie Liang, Xinying Li, Xiuming Zhang, Dan Xiong

“…Results Significant differences in metabolic and gene expression profiles were observed between NPC cells and normal cells. …”
Get full text

Integration of transcriptome and metabolome reveals regulatory mechanisms of volatile flavor formation during tomato fruit ripening by Zhiqiang Liu, Jianxin Wu, Licai Wang, Xiaonan Lu, Golam Jalal Ahammed, Xiaolan Zhang, Xia Cui, Haijing Wang

“…Here, we integrated the metabolome and transcriptome of the volatile flavors in tomato fruit to explore the regulatory mechanism of volatile flavor formation, using wild and cultivated tomatoes with significant differences in flavors. …”
Get full text

Identification of candidate genes related to hybrid sterility by genomic structural variation and transcriptome analyses in cattle-yak by Rui-Dong Wan, Xue Gao, Guo-Wen Wang, Shi-Xin Wu, Qi-Lin Yang, Yi-Wen Zhang, Qi-En Yang

“…We detected differences in the cellular composition and gene expression of testes from yak and cattle-yak at 3 mo of age, 10 mo of age, and adulthood. …”
Get full text

Integrated endogenous hormones and transcriptome analysis contribute to fruit development related gene mining in Eriobotrya japonica by Shoukai Lin, Bisha Wu, Yifang Xiong, Liyan Huang, Dahe Lin, Jingli Lin, Shunquan Lin, Jincheng Wu

“…However, as loquat fruits ripen, the time course changes in endogenous hormones and the transcriptome are still unclear, and the mining of loquat fruit development-related genes is still limited. …”
Get full text

Single-cell transcriptomics link gene expression signatures to clinicopathological features of gonadotroph and lactotroph PitNET by T. Elise Potthoff, Carolin Walter, Daniela Jeising, Daniel Münter, Archana Verma, Eric Suero Molina, Walter Stummer, Martin Dugas, Wolfgang Hartmann, Matthias Dottermusch, Lea Altendorf, Ulrich Schüller, Sophia Scheuermann, Christian Seitz, Thomas K. Albert, Kornelius Kerl

“…Conclusions Our study expands the knowledge of the differences in cellular composition of gonadotroph and lactotroph PitNET subtypes. …”
Get full text

Transcriptomic analysis identifies enrichment of cAMP/PKA/CREB signaling in invasive lobular breast cancer by Susrutha Puthanmadhom Narayanan, Abdalla M. Wedn, Osama Shiraz Shah, Jian Chen, Daniel D. Brown, Priscilla F. McAuliffe, Steffi Oesterreich, Adrian V. Lee

Get full text

Comparative transcriptome analysis reveals molecular mechanisms of resistance in Chinese cabbage to Plasmodiophora brassicae pathotype 11 by Yue Qiu, Yue Qiu, Yue Qiu, Jinhao Zhang, Jinhao Zhang, Chunju Deng, Chunju Deng, Jiasheng Yuan, Jiasheng Yuan, Bowen Wang, Bowen Wang, Han Meng, Han Meng, Mohamed Mohany, Liting Zeng, Liting Zeng, Lanfang Wei, Lanfang Wei, Waqar Ahmed, Guanghai Ji, Guanghai Ji

“…Microscopic analysis at 21 dai revealed that the resistant cultivar (JP) root structure remained largely unaffected, while the roots of the susceptible cultivar (83-1) exhibited significant tissue distortion and gall formation, underscoring the effectiveness of the resistance mechanisms. Comparative transcriptome analysis revealed substantial differences in the number and types of differentially expressed genes (DEGs) between the two cultivars, highlighting the key pathways involved in the resistance response. …”
Get full text

Microplastic and Copper Exposure Effects on Intestinal Gene Expression in Eriocheir sinensis: A Transcriptomics-Based Investigation by Jian XU, Guangpeng FENG, Yunzhi YAN, Jinhui CHEN, Jianhui WU, Zuchang YANG

“…Notably, DEGs associated with antioxidant defense, immune response, and energy metabolism differed significantly among the comparison groups. …”
Get full text

<i>Lactiplantibacillus plantarum</i> Ameliorated Morphological Damage and Barrier Dysfunction and Reduced Apoptosis and Ferroptosis in the Jejunum of Oxidatively Stressed Piglets by Yu Liu, Junmeng Yuan, Wenshuo Xi, Zhisheng Wang, Huawei Liu, Kai Zhang, Jinshan Zhao, Yang Wang

“…In addition, the mitochondrial morphology and ferroptosis-related gene expressions indicated elevated jejunal ferroptosis in the DQ-treated piglets, and the DQ + P8 treatment attenuated the ferroptosis. Transcriptome identified various differentially expressed genes (DEGs) between different treatments. …”
Get full text

Characterization of the transcriptional cellular response in midgut tissue of temephos-resistant Aedes aegypti larvae by Elisama Helvecio, Antonio Mauro Rezende, Maria J. R. Bezerra, Osvaldo Pompílio de-Melo-Neto, Maria Alice Varjal de Melo Santos, Tatiany Patrícia Romão, Constância Flávia Junqueira Ayres

“…The results found in RT-qPCR confirm the findings of the transcriptome data. Conclusions In this study, we investigated transcriptome-level changes maintained in a temephos-resistant Ae. aegypti colony under continuous and prolonged selection pressure. …”
Get full text

Inhibitory Activity and Transcriptional Mechanism of PostbioYDFF against Pseudomonas aeruginosa by Yuqian LIU, Ming WANG, Wei YUAN, Jinhong ZANG, Jinshan ZHAO, Zhaojie LI, Ruiyan HU, Chuantao PENG

“…In the present study, the antibacterial activity of postbiotics PostbioYDFF against Pseudomonas aeruginosa (P. aeruginosa) and its mechanism of action were examined by analyzing its effects on biofilm formation and changes in the ultrastructure and transcriptome. Meanwhile, to validate transcriptome data, qPCR was conducted. …”
Get full text

RNA-seq analysis of small intestine transcriptional changes induced by starvation stress in piglets by Yijia Ma, Tong Guo, Jianqin Ding, Zhiling Dong, Yifei Ren, Chang Lu, Yan Zhao, Xiaohong Guo, Guoqing Cao, Bugao Li, Pengfei Gao

“…In this study, we analysed the ileum of Large White (LW) and Mashen (MS) piglets at different times of starvation using chemical staining and transcriptome analysis. …”
Get full text

Biosynthesis of Camphane Volatile Terpenes in <i>Amomum villosum</i> Lour: Involved Genes and Enzymes by Yuhua Guo, Yamei Li, Pengfei Zhang, Zuliang Luo, Junmei Yin, Xiaojun Ma, Chao Yuan

Get full text

The archaeal class Nitrososphaeria is a key component of the reproductive microbiome in sponges during gametogenesis by Marta Turon, Vasiliki Koutsouveli, María Conejero, Sergi Taboada, Aida Verdes, José María Lorente-Sorolla, Cristina Díez-Vives, Ana Riesgo

“…Supporting our hypothesis, we observed significant transcriptomic differences in G. macandrewii, mainly associated with the immune system, indicating potential changes in the sponge’s recognition system. …”
Get full text

Integrated Transcriptomic and Metabolomic Analysis Reveals Nitrogen-Mediated Delay of Premature Leaf Senescence in Red Raspberry Leaves by Qiang Huo, Feiyang Chang, Peng Jia, Ziqian Fu, Jiaqi Zhao, Yiwen Gao, Haoan Luan, Ying Wang, Qinglong Dong, Guohui Qi, Xuemei Zhang

“…This study systematically investigated the mechanism of premature senescence in red raspberry leaves under different nitrogen application levels by measuring physiological parameters and conducting a combined multi-omics analysis of transcriptomics and metabolomics. …”
Get full text

Comparative Transcriptomic Analysis Between High- and Low-Growth-Rate Meat-Type Rabbits Reveals Key Pathways Associated with Muscle Development by Chao Yang, Lingxi Zhu, Li Tang, Xiangyu Zhang, Min Lei, Xiaohong Xie, Cuixia Zhang, Dingsheng Yuan, Congyan Li, Ming Zhang

“…Integrated GO, KEGG and PPI analyses of co-expressive DEGs implicated the HIF-1 signaling pathway and Glycolysis/Gluconeogenesis in muscular development. Different expression of energy metabolism hub-genes might be the primary reason for interbreed muscle developmental disparities.…”
Get full text

Integrated Analysis of the Transcriptome and Metabolome Reveals the Network Regulating Fruit Taste in Sponge Gourd (<i>Luffa cylindrica</i>) by Yaqian Chai, Wenjing Qiu, Zhikun Li, Luyao Gao, Wenqi Dong, Peng Zhang, Shengjun Zhou, Xin Wang, Yuqiang Zhu, Yuyan Sun

“…Specifically, two sponge gourd materials, ZS203 (GT) and ZAAS-106 (BT), which differ in fruit taste, were selected for transcriptomic and metabolomic analyses. …”
Get full text

Effect of Ammonium:Nitrate Application Ratios on Growth and Nitrogen Metabolism of Tea Plants (Camellia sinensis L.) by Takuo Enomoto, Natsuki Tone, Takaya Ishii, Hisako Hirono, Ayako Oi, Yuhei Hirono, Takashi Ikka, Hiroto Yamashita

Get full text