Comparatively profiling the transcriptome of human, Porcine and mouse oocytes undergoing meiotic maturation by Naru Zhou, Xin Wang, Yi Xia, Zongliang Liu, Lei Luo, Rentao Jin, Xianhong Tong, Zhenhu Shi, Zhichao Wang, Heming Sui, Yangyang Ma, Yunsheng Li, Zubing Cao, Yunhai Zhang

“…Results Transcriptome analysis identified 4,625, 3,824, 4,972 differentially expressed genes (DEGs) between the germinal vesicle (GV) and metaphase II (MII) stage in human, porcine and mouse oocytes respectively. …”
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Comparative transcriptomic and metabolomics analysis of ovary in Nilaparvata lugens after trehalase inhibition by Yongkang Liu, Fan Yang, Sijing Wan, Xianzhong Wang, Liwen Guan, Yan Li, Caidi Xu, Binghua Xie, Shigui Wang, Xiao-Ling Tan, Bin Tang

“…To investigate the mechanism by which trehalose affects the reproduction of N. lugens, we conducted a comparative transcriptomic and metabolomic analysis of the ovaries of N. lugens following injection with dsTREs and validamycin (a TRE inhibitor). …”
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Integrative Transcriptomic and Metabolomic Insights Into Saline-Alkali Stress Tolerance in Foxtail Millet by Mengxia Han, Qing Tan, Yulu Yang, Hui Zhang, Xingchun Wang, Xukai Li

“…This study examined the transcriptomic and metabolomic responses of two contrasting foxtail millet varieties, B103 (tolerant) and B323 (sensitive), under saline-alkali stress. …”
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Transcriptome Analysis Reveals the Requirement of the TGFβ Pathway in Ascidian Tail Regression by Wenjie Shi, Penghui Liu, Dongyu Yang, Yuan Zhuang, Boyan Lin, Bo Dong

“…We further investigated the downstream gene network of the TGFβ signaling pathway through comparative transcriptome data analysis on the TGFβ pathway inhibition samples. …”
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Comparative Transcriptome Analysis in Eggplant Reveals Selection Trends during Eggplant Domestication by Qingzhen Wei, Liming Du, Wuhong Wang, Tianhua Hu, Haijiao Hu, Jinglei Wang, Karine David, Chonglai Bao

“…Taken together, our results shed light on the effects of artificial and natural selection on the transcriptomes of eggplant and its wild relatives. Identification of the selected genes will facilitate the understanding of genetic architecture of domesticated-related traits and provide resources for resistant breeding in eggplant.…”
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Understanding the metabolism of Mycoplasma mycoides subsp. capri in vitro by a transcriptomic analysis by Xiao-hui WANG, Yan-fang WANG, Hai-bi HUANG, Fan BAI, Xiao-na SHI, Chang-jiao MA, Yuan GAO, Jian-hua ZHANG, Wen-guang ZHANG, Yong-qing HAO

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Whole-Transcriptome Analysis Reveals the Regulatory Network of Immune Response in Dapulian Pig by Tao Wang, Zhe Tian, Mubin Yu, Shuer Zhang, Min Zhang, Xiangwei Zhai, Wei Shen, Junjie Wang

“…Generally, the immune response is an important part of anti-disease capability; however, the related mechanism in pigs is largely puzzling. Here, the public transcriptome data of peripheral blood mononuclear cells (PBMCs) from Dapulian (Chinese local breed) and Landrace (Commercial breed) pigs after stimulation with polyinosinic-polycytidylic acid (poly I:C, a conventional reagent used for simulation of the viral infection) were reanalyzed, and the immune response mechanism in different pig breeds was investigated from a transcriptomic perspective. …”
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Transcriptome Differential Expression Regulation Analysis of the Narrow-Leaf Mutant of Sorghum Bicolor by Jinhong Li, Yiwei Wang, Yuche Zhao, Shirui Zhang, Chunyu Wang, Ling Cong, Yanpeng Zhang, Shuang Gang, Xiaochun Lu

“…These genes are differentially expressed in nal6, directly affecting the signaling of auxin and zeatin and the biosynthesis of zeatin. Our findings provide a theoretical foundation for understanding the molecular regulation of narrow leaves and breeding ideal plant types in <i>Sorghum bicolor</i>.…”
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De novo transcriptome assembly and annotation of the semi-wild Gayal (Bos frontalis) by Zhendong Gao, Bo Wang, Ying Lu, Yuqing Chong, Mengfei Li, Jieyun Hong, Jiao Wu, Dongmei Xi, Weidong Deng

“…Additionally, long non-coding RNAs (lncRNAs) were identified across all sampled tissues, and comprehensive gene expression profiles and differential expression gene analyses were performed. These findings provide a rich repository of genetic information, laying the foundation for comprehensive functional genomics studies and paving the way for deeper insights into the molecular mechanisms of the Gayal, thereby advancing our understanding of its transcriptome architecture and offering crucial data for conservation efforts and practical applications.…”
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Transposon insertion in pmel17 rewired skin and muscle transcriptomes in Mozambique tilapia by Fei Sun, Le Wang, Gen Hua Yue

“…In this study, to investigate the mechanisms underlying these phenotypic changes, we sequenced transcriptomes of the skin and muscle samples collected from wildtype and mutant tilapias. …”
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The full-length transcriptome analysis of blueberry under different pH conditions by Cheng Liu, Xin Wei, Yuchun Yang, Youchun Liu, Xingfu Yuan, Chengguang Tao

“…To understand the adaptive response of blueberry varieties to high pH, the full-length transcriptome analysis was performed with Spartan (high pH-soil-sensitive variety) and Reka (high pH-soil-tolerant variety) treated with low and high pH by hydroponics. …”
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Evaluation and transcriptomic and metabolomic analysis of the ability of Auricularia heimuer to utilize crop straw by Di Zhang, Yuchen Liu, Ying Li, Guosheng Jiang, Mingzhu Meng, Jihua Wang

“…It was found that different metabolites were significantly enriched in starch and sucrose metabolism, glutathione metabolism, carbon metabolism and other pathways, which provided theoretical basis for efficient comprehensive utilization of corn stalk in auricularia growth.…”
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Transcriptome sequencing and SSR prediction of Clematis calyx based on SMRT sequencing platform by Song Liu, Wei Song, Wei Pan, Gangshan Wu

“…Among these, the KEGG database identified 137 metabolic pathways, including biosynthesis of secondary metabolites, carbon metabolism, and amino acid biosynthesis. 104 and 7 transcripts are involved in the flavonoid and anthocyanin metabolism pathways, respectively. The above results provide initial insights into the transcriptome information and functional characteristics of Clematis calyx. …”
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Transcriptome and metabolite conjoint analysis reveals the seed dormancy release process of perilla by He Wen, Sen Yang, Zhiwei Shang, Shimei Yang, Xingyue Li, Shunbo Yu, Heng Zhang, Ping Guo

“…The energy required for breaking seed dormancy and germination of perilla seeds is mainly provided through sucrose metabolism. Citric acid cycle (TCA cycle) is the main energy supply transformation pathway for seed germination.…”
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Transcriptomic and metabolomic study of the biosynthetic pathways of bioactive components in Amomum tsaoko fruits by Dengli Luo, Yingmin Zhang, Ling Jin, Xien Wu, Congwei Yang, Ticao Zhang, Guodong Li

“…This study employed transcriptome sequencing and metabolomic analysis of A. tsaoko at five different developmental stages (May fruit – September fruit) to assess the accumulation patterns of terpenoid and curcuminoid compounds and to explore the key genes and transcription factors (TFs) involved in their synthesis pathways. …”
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Physiological changes and full-length transcriptome of Artemisia sphaerocephala in response to drought stress by Shasha Xiao, Yuhua Ma, Jingwen Hao, Guisheng Ye, Dan Zhang, Jiawei Dong, Mingming Zhao, Nanxiang Yang, Xiaowei Wang

“…Conclusions This is the first reported large-scale sequencing of the full-length transcriptome of A. sphaerocephala under drought stress, and these results will provide a better understanding of A. sphaerocephala responses to drought stress and lay the groundwork for analysing the expression profile of genes related to drought tolerance in plants.…”
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Transcriptomic and Proteomic Profiling of Rabbit Kidney Cells Infected with Equine Herpesvirus 8 by Yanfei Ji, Dandan Xu, Wenxuan Si, Yu Zhang, Muhammad Zahoor Khan, Xia Zhao, Wenqiang Liu

“…Validation of the transcriptomic and proteomic data was performed using RT-PCR and parallel reaction monitoring (PRM), respectively, and confirmed consistent trends for TNFR1, NF-κB p65, and MAP3K8, as reported in the transcriptomic and proteomic screening. …”
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Multi-transcriptomics reveals niche-specific expression programs and endothelial cells in glioblastoma by Jiukun Hu, Xiaohan Sa, Yue Yang, Yuwen Han, Jie Wu, Minxuan Sun, Shaheryar Shafi, Nafees Ahmad, Sami Siraj, Jiao Yang, Yuanshuai Zhou

“…Methods Here, using bulk RNA sequencing, spatial transcriptomic and single cell RNA sequencing (scRNA-seq) data of GBM patients, we identified niche-specific transcriptional programs and characterized the differences in molecular expression and cellular organization between PAN and MVP. …”
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Transcriptomic evidence for atopic dermatitis as a systemic disease in NC/Nga mice by Young-Won Kim, Eun-A Ko, Jehee Jang, Seohyun Jeong, Donghyeon Kim, Jung Soo Suh, Se-Yeon Lee, Inja Lim, Sung-Cherl Jung, Jung-Ha Kim, Tong Zhou, Hyoweon Bang, Jae-Hong Ko

“…Given the importance of evidence-based medicine and the development of precision medicine, our findings provide insights into the mechanisms of AD onset and progression.…”
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Transcriptome Insights into Carbohydrate Metabolism and Frying Quality Traits in Waxy and Mealy Potatoes by Jeong-Jin Choi, Do-Hee Kwon, Jang-Gyu Choi, Gyu-Bin Lee, Jae-Youn Yi, Hui-Tae Lee, Hong-Sik Won, Young-Eun Park, Yong-Ik Jin, Dong-Chil Chang, Kwang-Soo Cho

“…These transcription factors are responsive to abscisic acid, a key hormonal regulator involved in tuber development. This study provides transcriptomic insights for processing quality improvement and identifies key candidate genes for marker-assisted breeding. …”
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