Transcriptomic Identification of Core Regulatory Genes for Higher Alcohol Production in <i>Saccharomyces cerevisiae</i> at Different Sugar Concentrations in Wine Fermentation by Lu Chen, Xiaona Ren, Yanan Wang, Dongshu Hao, Yanying Liang, Yi Qin

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Transcriptome and Coexpression Network Analyses Provide Insights into the Resistance of Chinese Cabbage During Different Stages of <i>Plasmodiophora brassicae</i> Infection by Huishan Liu, Lili Wang, Guozheng Wang, Haidong Wu, Xin Wang

“…The molecular mechanisms underlying the resistance of Chinese cabbage to clubroot remains unclear, making the identification and analysis of resistance genes crucial for developing resistant varieties. Comparative transcriptome analysis of roots from the resistant line “JJ S5-1” and the susceptible line “SYY10-1” revealed significant differences in gene expression profiles at various stages after inoculation. …”
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Integrative analysis of metabolome and transcriptome reveals new insights into major quality formation and regulation in two strawberry cultivars with different fruit flavor by Lingzhi Wei, Huabo Liu, Yang Ni, Rong Xiong, Shuangtao Li, Rui Sun, Yongqing Wei, Hongli Zhang, Jing Dong, Linlin Chang, Chuanfei Zhong, Yuntao Zhang, Jian Sun, Guixia Wang, Yongshun Gao

“…In this study, we integrated the metabolome and transcriptome in two cultivars with remarkably different fruit quality. …”
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Multiomic analysis of the synthetic pathways of secondary metabolites in tobacco leaves at different developmental stages by Zhijun Tong, Kun Yang, Xuejun Chen, Fei Xu, Xueyi Sui, Yujie Huang, Shenyun Zhu, Enhui Shen, Sanling Wu, Longjiang Fan, Bingguang Xiao

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Sex-specific differences in preclinical models of advanced chronic liver disease and portal hypertension by Peio Aristu-Zabalza, María Andrés-Rozas, Zoe Boyer-Díaz, David P. Al-Adra, Douglas Maya-Miles, Sergi Guixé-Muntet, Anabel Fernández-Iglesias, Jordi Gracia-Sancho

“…We assessed in vivo hepatic and systemic hemodynamic parameters, hepatic microvascular function, and hepatic transcriptomic analyses, including sex-specific differences in cellular composition using gene deconvolution (n = 5/group). …”
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Integrated Transcriptomic and Metabolomic Analysis Identified Key Transcriptional Factors Involved in Flavonoid and Alkaloid Biosynthesis Among Different Tissues of <i>Sophora flavescens</i> by Ake Liu, Jingjing Dong, Mingyang Wang, Jin Li, Junjie Lu, Lintao Liu, Haiying Lei, Zhen Zeng, Huifang Song

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RNA sequencing and genome-wide association analysis reveal key genes responsible for different feather colors in Youjiang goose by Mengli Zhao, Xiaoming Li, Jian Wang, Lei Zhang, Haiyue Cao, Meng Wu, Hongchang Zhao, Rongchao Ji, Gansheng Zhang, Guoshun Chen, Xiujun Duan

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Integrated Transcriptomics and Metabolomics Reveal Key Genes and Metabolic Pathway in Flower and Fruit Color Formation of <i>Cerasus humilis</i> (Bge.) Sok by Shuai Zhang, Tianyuan Li, Shan Liu, Xinliang Qi, Yu Yang, Jiancheng Zhang, Luting Jia, Pengfei Wang, Xiaopeng Mu

Subjects: “…flower and fruit color difference…”
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UV-B induced flavonoid accumulation and related gene expression in blue- grained wheat at different periods of time by Li Li, Guofei Jiang, Hanxue Li, Junna Liu, Ping Zhang, Qianchao Wang, Liubin Huang, Shan Zhang, Xuqin Wang, Lingyuan Zhang, Yutao Bai, Peng Qin

“…The content of some flavonoids of blue-grain wheat in period 2 was significantly higher under UV-B irradiation than its check and other periods of different treatments. There are 42344 differentially expressed genes identified from transcriptomic analysis, including 151 genes associated with the flavonoid pathway. …”
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Molecular mechanisms underlying cashmere quality differences between Jiangnan cashmere goats and Changthangi pashmina goats by Gao Gong, Shijie Bi, Xin Liang, Yu Ao, Feng Xu, Yiming Sulaiman

“…Bioinformatics analyses were conducted to identify key molecular differences underlying the variation in cashmere fiber quality. …”
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Mechanism of Core Browning in Different Maturity Stages of ‘Yali’ Pears During Slow-Cooling Storage and PbRAV-Mediated Regulation by Bing Deng, Qingxiu Li, Liya Liang, Hongyan Zhang, Xiaoyu Zhang

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Combined analyses of mRNA and miRNA transcriptome reveal the molecular mechanisms of theca cells physiological differences in geese follicular selection stage by Xinyue Hu, Hengli Xie, Xi Zhang, Yueyue Lin, Shenqiang Hu, Jiwei Hu, Hua He, Liang Li, Hehe Liu, Jiwen Wang

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Comprehensive Metabolomic and Transcriptomic Analysis Revealed the Molecular Basis of the Effects of Different Refrigeration Durations on the Metabolism of <i>Agaricus bisporus</i> Cultivation Spawn by Zhixin Cai, Zhiheng Zeng, Wenzhi Chen, Zhongjie Guo, Huiqing Zheng, Yuanping Lu, Hui Zeng, Meiyuan Chen

“…In this study, we examined <i>A. bisporus</i> spawn samples stored for different refrigeration periods (0, 20, 40, 60, 80, and 100 days), measured changes in the activities of four key extracellular enzymes and performed transcriptomic and metabolomic analyses. …”
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Transcriptome Analysis Reveals Distinct Differences in Organic Acid Metabolism Between the Pericarp and the Pulp of <i>Cerasus humilis</i> During Fruit Maturation by Bingcheng Guo, Li Zhang, Jinli Guo

“…This study specifically analyzed the reasons for the differences in acidity between the pericarp and the pulp, and performed a correlation analysis of various indicators. …”
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Evaluating the Effectiveness of Various Small RNA Alignment Techniques in Transcriptomic Analysis by Examining Different Sources of Variability Through a Multi-Alignment Approach by Xinwei Zhao, Eberhard Korsching

“…This framework can be used to compare results from different alignment programs and algorithms on the same dataset, allowing for a comprehensive analysis of subtle to significant differences. …”
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Differential transcriptome analysis of different resistant citrus varieties infected with wild-type and toxin synthesis-impaired strains causing Alternaria brown spot by MA Hui, MA Haijie, JIAO Chen, LI Hongye

“…Dancy), and analyzed the gene expressions at 24 h and 48 h after inoculation using transcriptome sequencing technology. By comparing the corresponding differences in transcription between the two citrus varieties against the toxin-producing and non-toxin-producing strains, we found that the genes involved in the pathogen-associated molecular patterns (PAMPs)-triggered immunity (PTI) and effector-triggered immunity (ETI) pathways, pathogenesis-related proteins, WRKY transcription factors, and the secondary metabolic pathway were induced by the toxin-producing strain in both the varieties. …”
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Identification of regulatory loci and candidate genes related to body weight traits in broilers based on different models by Na Luo, Keqi Cai, Limin Wei, Huanxian Cui, Jie Wen, Bingxing An, Guiping Zhao

“…These overlapping SNPs represent robust loci that may influence both traits across different statistical approaches. Transcriptome sequencing indicated differential expression of LDB2 and SEL1L3 between high and low BW groups. …”
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Bioinformatics Analysis of Candidate Genes Related to Fat Deposition in Yaks at Different Energy Levels by Boxuan Yang, Xiaolin Luo, Xiangfei Zhang, Tianwu An, Qin Bai, Quan Sha, Hongwen Zhao

“…Two of the most common fat deposition genes, <i>FASN</i> and <i>PDK4</i>, were selected for q-PCR validation, along with ten candidate genes obtained from the transcriptome screening. The results showed that the expression trends of 12 genes in the three different energy level groups were consistent with those from transcriptome sequencing. …”
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Effects of growth years on the quality of cultivated Bupleurum scorzonerifolium roots, with wild Bupleurum scorzonerifolium roots as a reference by Changsheng Yuan, Feng Zhou, Yihan Wang, Huaizhu Li, Yongliang Li, Shan Guan, Huaizhong Gao, Shikong Gao, Luqi Huang, Yanmeng Liu, Zhilai Zhan

Subjects: “…chemical composition differences…”
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Effects of Different Stocking Densities on Snail <i>Bellamya purificata</i> Foot Muscle Nutritional Quality and Metabolic Function by Yingyue Lou, Rui Jia, Bing Li, Linjun Zhou, Jian Zhu, Yiran Hou

“…To analyze the effect of various stocking densities on the muscle nutritional quality and metabolic functions of <i>B. purificata</i>. The transcriptome and metabolome were analyzed and set up three different density groups—low (LD, 234.38 g/m²), medium (MD, 468.75 g/m²), and high (HD, 937.5 g/m²). …”
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