Genome-scale mRNA and miRNA transcriptomic insights into the regulatory mechanism of cucumber corolla opening by Xiao-fei SONG, Dan-feng GE, Yang XIE, Xiao-li LI, Cheng-zhen SUN, Hao-nan CUI, Xue-yun ZHU, Ren-yi LIU, Li-ying YAN

“…In this study, to better understand the molecular basis of corolla opening, mRNA and miRNA transcriptome analyses were performed during corolla development of the super and normal ovaries. …”
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Metabolomics and transcriptomics indicate the changes in medicinal components of Amygdalus mongolica kernels during different developmental stages by Zhenyu Lei, Hong Chang, Li Song, Hongbing Zhou, Hongbing Zhou, Wanfu Bai, Yingchun Bai, Shuyuan Jiang, Songli Shi, Songli Shi, Jia Wang

“…In comparison, 39 and 15 metabolites demonstrated down-regulation. Transcriptomic analysis identified 133 differentially expressed genes associated with 62 pathways in the E vs. …”
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Transcriptomic Analysis of Gibberellin-Mediated Flower Opening Process in Tree Peony (<i>Paeonia suffruticosa</i>) by Bole Li, Qianqian Wang, Zefeng Qiu, Zeyun Lu, Junli Zhang, Qionghua He, Jiajun Yang, Hangyan Zhang, Xiangtao Zhu, Xia Chen

“…Our findings suggested that an appropriate concentration of exogenous GA₃ treatment could accelerate the flower opening process in tree peony through multiple pathways, which would provide valuable insights into the molecular mechanisms underlying the gibberellin-mediated flower opening process in tree peony.…”
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Comparative transcriptome analysis reveal gene regulation of dormancy release in Cardiocrinum giganteum seeds induced by temperature by Yefang Li, Xuejiao Li, Fengrong Li, Lele Wang, Hongling Li, Yan Zhao, Wenling Guan

“…In this research, transcriptome profiles at different germination stages of seeds subjected to variable temperature stratification were systematically analyzed and compared, while the embryo length of corresponding seed samples was quantitatively measured. …”
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Integrated transcriptomic and microbiomic analyses reveal mechanisms of Decapod iridescent virus 1 resistance in Macrobrachium rosenbergii by Jingwen Hao, Jingwen Hao, Yukun Jie, Yukun Jie, Zhibin Lu, Zhibin Lu, Tiantian Ye, Jilun Meng, Cui Liu, Junjun Yan, Yutong Zheng, Zaijie Dong, Zhimin Gu

“…Hepatopancreas transcriptomic (RNA-Seq) and gut microbiome analyses were conducted on samples at 0, 24, and 48 hours post-infection (hpi) from both families. …”
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Integrated analysis of methylomic and transcriptomic profiles in fetal mouse hypothalamus in response to maternal gestational exposure to arsenic by Xuehua Li, Jinzhong Cui, Xinyu Zhang, Yue Wu, Jiajia Xu, Yonggan Zhao, Sajjad Hussain, Leishan Chen

“…Conclusion: This integrative analysis of methylomic and transcriptomic profiles in fetal mouse hypothalamus provides insights into the epigenetic and transcriptional responses to gestational arsenic exposure.…”
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Comparative skin transcriptome analysis as a potential tool to investigate intra- and inter-population differences in belugas by Ebru Unal, Ebru Unal, Vijender Singh, Robert Suydam, Robert Suydam, Caroline E. C. Goertz, Tracy A. Romano, Tracy A. Romano

“…There is currently a need for health indicators that can be easily collected and used to assess and monitor the response to stressors in whales. Comparative transcriptomics using skin tissue can be used to provide understanding of organismal responses to stressors at the cellular level.MethodsFor this study, intra- and inter-population comparisons were performed using the skin transcriptomes obtained from Bristol Bay (BB) belugas sampled in spring and late summer, and Eastern Chukchi Sea (ECS) belugas sampled in early summer in Alaska to investigate significantly differentially expressed genes over 2-fold change (padj&lt;0.05).ResultsBoth principal component and hierarchical clustering analysis showed separate clustering of ECS whales, with further clustering of BB whales based on season. …”
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Adaptive Resistance of <i>Staphylococcus aureus</i> to Cefquinome Sulfate in an In Vitro Pharmacokinetic Model with Transcriptomic Insights by Yue Hu, Hao Zhu, Xingbo Zhang, Yuhui Wu, Jingtao Li, Nan Li, Zhanbo Cai, Yuhui Yang

“…The sequence reflected the evolution of adaptive drug resistance. Transcriptome Gene Ontology (GO) analysis revealed that differentially expressed genes were involved in cellular respiration, energy derivation by oxidation of organic compounds, and oxidation–reduction processes. …”
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Analysis of transcriptomic data reveals the landscape of cholesterol metabolism in prostate cancer and impact of related signature on survival by Jian-Xuan Sun, Ye An, Meng-Yao Xu, Si-Yang Ma, Chen-Qian Liu, Jin-Zhou Xu, Qi-Dong Xia, Shao-Gang Wang

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Integrated metabolomic and transcriptomic analysis of Pogostemon cablin shed new light on the complete biosynthesis pathway of pogostone by Sen Wang, Zhaoqi Zeng, Zhaoqi Zeng, Qi Zhang, Wenhua Liu, Qinjian Liu, Chong Xie, Chong Xie, Jinlong Bei, Bingxian Chen, Aixia Zhang

“…Here, the present study aims to predict the terminal enzyme of pogostone biosynthesis and reconstruct its most possible complete biosynthesis, through the integrated transcriptomic and metabolomic analysis. The metabolomic and transcriptomic profiles of patchouli leaf were largely different to those of root and stem. …”
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Comparative transcriptomes reveal insights into different host responses associated with Fusarium head blight resistance in wheat by Hao Wang, Xiaoying Yang, Tingting Li, Zuchun Li, Jianing Zhao, Zi Wang, Zhenyu Wang, Tingdong Li, Chunhuan Chen, Jixin Zhao, Changyou Wang, Xinlun Liu, Pingchuan Deng, Wanquan Ji

“…This study comparatively analyzed transcriptome data from six wheat materials with differing levels of resistance following infection by Fusarium graminearum (F. graminearum). …”
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Integration of multi-omics transcriptome-wide analysis for the identification of novel therapeutic drug targets in diabetic retinopathy by Guoguo Yi, Zhengran Li, Yuxin Sun, Xinyu Ma, Zijin Wang, Jinken Chen, Dong Cai, Ziran Zhang, Zejun Chen, Fanye Wu, Mingzhe Cao, Min Fu

“…Summary Data-based Mendelian Randomization (SMR) provided secondary analysis of high confidence genes. …”
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Immuno-oncologic profiling by stage-dependent transcriptome and proteome analyses of spontaneously regressing canine cutaneous histiocytoma by Alina K. Loriani Fard, Alexander Haake, Vladimir Jovanovic, Sandro Andreotti, Michael Hummel, Benjamin-Florian Hempel, Achim D. Gruber

“…Our data suggest that major immuno-oncological pathways are not regulated during regression of CCH on the mRNA or protein levels as detectable by the methods used. Instead, our data provide further evidence supporting previous hypotheses towards a role of immune stimulatory B7 family ligands and CD28 family receptors in the regression of CCH.…”
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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

“…Methods: We performed an integrated analysis of transcriptomic, metabolomic, and Raman spectral data on five NPC cell lines (CNE1, CNE2, 5–8 F, 6-10B, and SUNE1) and the immortalized nasopharyngeal epithelial cell line NPEC1-BMI1. …”
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Identification of key genes related to growth of largemouth bass (Micropterus salmoides) based on comprehensive transcriptome analysis by Dayan Hu, Jieliang Jian, Jinpeng Zhang, Xiaojun Xu, Shu Wang, Cuiping Gong, Yuanqin Zhang, Pengcan Zhu, Zhimin Gu, Wenzhi Guan

“…RT-qPCR validates the reliability of transcriptome sequencing data.ResultSmaller fish had more new muscle fiber numbers and wider intermuscular spaces compared to big specimens. …”
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Transcriptomics characteristics and differentiation of subcutaneous adipose tissue among Huainan pigs and its hybrid genetic populations by Taotao Yan, Taotao Yan, Mingyang Jia, Jiaxi Li, Xianyong Lan, Liwei Yuan, Baosong Xing, Chuanying Pan, Qingxia Lu, Jing Wang

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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

“…The findings of this study provide new insights into volatile flavor formation in tomato fruit, which can be useful for tomato flavor improvement.…”
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Using WGCNA and transcriptome profiling to identify hub genes for salt stress tolerance in germinating soybean seeds by Lijun Pan, Yifan Chen, Zeyu Ren, Dalia Mohamedkheir Khojely, Dalia Mohamedkheir Khojely, Siyu Wang, Yueming Li, Seifeldin Elrayah Ibrahim, Seifeldin Elrayah Ibrahim, Sujie Fan, Yang Song, Zhuo Zhang, Jian Wei

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The effects and mechanisms of Xiaoyao San on nonalcoholic fatty liver disease rat based on transcriptomics and proteomics analysis by Yunxiao Liu, Shuanghu Wang, Ayesha Younas, Jiaojian Lv, Abdullah Al Mamun, Chuxiao Shao

“…The chemical constituents of XYS were analyzed using UPLC-MS/MS. Transcriptomics and proteomics analyses were performed to identify potential biological targets and signaling pathways involved in the therapeutic effects of XYS. …”
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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

“…Overall, our research provides a valuable database for identifying structural variant loci that contribute to hybrid sterility.…”
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