Transcriptomic and metabolomic analyses provide evidence on the biocontrol mechanism responsible for the inhibition of Botrytis cinerea and Alternaria alternata by Bacillus velezensis in kiwifruit by Shixian Zeng, Xiaojiao Li, Jinsong Leng, Michael Wisniewski, Mingrong Chen, Yong Wang, Jia Liu

“…The objectives of the present study were to determine the efficacy of B. velezensis against B. cinerea and A. alternata, both of which are pre‐ and postharvest pathogens of kiwifruit, and investigate the mechanisms responsible for its biocontrol activity using transcriptomic and metabolomic methodology. Dual cultures of B. velezensis and either B. cinerea or A. alternata versus single cultures were used to conduct a transcriptomic and metabolomic analyses to provide insight into the mechanism by which B. velezensis inhibits B. cinerea and A. alternata. …”
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Analysis of the human monocyte-derived macrophage transcriptome and response to lipopolysaccharide provides new insights into genetic aetiology of inflammatory bowel disease. by J Kenneth Baillie, Erik Arner, Carsten Daub, Michiel De Hoon, Masayoshi Itoh, Hideya Kawaji, Timo Lassmann, Piero Carninci, Alistair R R Forrest, Yoshihide Hayashizaki, FANTOM Consortium, Geoffrey J Faulkner, Christine A Wells, Michael Rehli, Paul Pavli, Kim M Summers, David A Hume

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Physiological and transcriptome analyses provide new insights into the mechanism mediating the enhanced tolerance of melatonin-treated rhododendron plants to heat stress by Yan-xia XU, Jing ZHANG, Zi-yun WAN, Shan-xia HUANG, Hao-chen DI, Ying HE, Song-heng JIN

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Integrated metabolome and transcriptome analyses provide comprehensive insight into dark- and light-responsive mechanisms in Althaea officinalis hairy root cultures by Yun Ji Park, Jae Kwang Kim, Nam Su Kim, Young Jin Park, Ramaraj Sathasivam, Sang Un Park

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Integrated analysis of transcriptome and proteome provides novel insights into the response mechanisms of maca (Lepidium meyenii Walp.) to UV-B radiation by Zaihang Yu, Xueting Zhong, Li Xiao, Yuxi Cai, Ke Shen, Yu Luo, Xinxin Li, Hong Xu, Zihan Chen, Xiaomei Wang, Yi Wu, Yajun Wang, Wei Fan, Zhanqi Wang

“…This further supports the conclusion that the “glutathione metabolism” pathway plays a crucial role in maca's response to UV-B radiation. The transcriptomic and proteomic data presented here provide valuable insights into the functional aspects and molecular response mechanisms of maca plants to UV-B radiation.…”
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Chromosome-level genome assembly provides insights into flavonoid biosynthesis in stems and leaves and fatty acid biosynthesis in kernels of Erythropalum scandens by Tianwei Yang, Shiyu Huang, Xiangjun Zhang, Shanshan Tian, Manrong Gao, Shangwen Zhang

“…Conclusion This investigation provides a genomic framework for E. scandens, elucidates the biosynthetic mechanisms of flavonoids in stems and leaves and fatty acids in kernels, and offers a theoretical foundation for advancing its medicinal and edible potential.…”
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Omics Multi-Layers Networks Provide Novel Mechanistic and Functional Insights Into Fat Storage and Lipid Metabolism in Poultry by Farzad Ghafouri, Abolfazl Bahrami, Abolfazl Bahrami, Mostafa Sadeghi, Seyed Reza Miraei-Ashtiani, Maryam Bakherad, Herman W. Barkema, Samantha Larose

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Corrigendum: Omics multi-layers networks provide novel mechanistic and functional insights into fat storage and lipid metabolism in poultry by Farzad Ghafouri, Abolfazl Bahrami, Abolfazl Bahrami, Mostafa Sadeghi, Seyed Reza Miraei-Ashtiani, Maryam Bakherad, Herman W. Barkema, Samantha Larose

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Comparative Transcriptome Analysis of Mature Leaves of <i>Dimocarpus longan</i> cv. ‘Sijimi’ Provides Insight into Its Continuous-Flowering Trait by Shilian Huang, Xinmin Lv, Junbin Wei, Dongmei Han, Jianguang Li, Dongliang Guo

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Transcriptomic Analysis Provides New Insights into the Tolerance Mechanisms of Green Macroalgae <i>Ulva prolifera</i> to High Temperature and Light Stress by Kifat Jahan, Mst Shamim Ara Supty, Jun-Seok Lee, Keun-Hyung Choi

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Integrative Metabolomic and Transcriptomic Analysis Provides Novel Insights into the Effects of SO₂ on the Postharvest Quality of ‘Munage’ Table Grapes by Zhenliang Mou, Yuyao Yuan, Wei Wei, Yating Zhao, Bin Wu, Jianye Chen

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Transcriptomic and Proteomic Analyses Provide Insight into Sugar Metabolism-Induced Dormancy Release of Flower Buds of <i>Pyrus pyrifolia</i> ‘Cuiguan’ by Huiquan Wang, Ling Ding, Qinghua Ye, Xueying Huang, Lei Xu, Shaohua Wu, Dongjin He

“…The results revealed that the dynamic balance between starch and soluble sugar is critical for promoting dormancy release and germination in <i>P. pyrifolia</i> ‘Cuiguan’ flower buds. Through transcriptomic and proteomic profiling, a total of 4035 differentially expressed genes (DEGs) and 1596 differentially expressed proteins (DEPs) were identified, which were predominantly associated with carbohydrate metabolism, particularly sugar metabolism pathways. …”
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Comprehensive analysis of transcriptomics and metabolomics provides insights into the mechanism by plant growth regulators affect the quality of jujube (Ziziphus jujuba Mill.) fruit. by Defen Liu, Na Jiang, Yuting Yuan, Hejiang Liu, Yanjun Ju, Wanjin Sun, Wenzhao Jia, Yi Fang, Duoyong Zhao, Jiefei Mao, Lu Kang

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Transcriptomics assisted by metabolomics analysis provides insights into regulation mechanisms during carcinogenic process in a hydrodynamically transfected liver cancer model by Qi Zhang, Yongfeng Li, Xiaojing Cheng, Zhouxiang Liao, Sha Wen, Xuejing Huang, Zhenyu Song, Min He, Lichao Yang

“…By combining metabolomics-assisted transcriptomics assay, this research seeks to provide new insights into HCC development. …”
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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

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Multi-omics analysis of Iris sanguinea with distinctive flower colors provides insights into petal coloration by Guiling Liu, Huijun Liu, Gongfa Shi, Nuo Xu, Zhaoqian Niu, Lei Wang, Ruiyang Zhao, Ling Wang, Lijuan Fan

“…In this study, integrative analyses of metabolomics and transcriptomics data were performed on five cultivars of I. sanguinea with varying petal colors to elucidate the molecular basis underlying petal pigmentation. …”
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Spatial visualization provides insight into immune modulation by an L-DBF vaccine formulation against Shigella by Ti Lu, Skyler T. Kramer, Mary A. York, Mst Nusrat Zahan, Debaki R. Howlader, Zackary K. Dietz, Sean K. Whittier, Nathan J. Bivens, Alexander Jurkevich, Lyndon M. Coghill, Lyndon M. Coghill, William D. Picking, Wendy L. Picking

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Exploitation of phylum-spanning omics resources reveals complexity in the nematode FLP signalling system and provides insights into flp-gene evolution by Ciaran J. McCoy, Christopher P. Wray, Laura Freeman, Bethany A. Crooks, Luca Golinelli, Nikki J. Marks, Liesbet Temmerman, Isabel Beets, Louise E. Atkinson, Angela Mousley

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Transcriptome analysis provides new insights into the berry size in ‘Summer Black’ grape under a two-crop-a-year cultivation system by Peiyi Ni, Shengdi Yang, Yunzhang Yuan, Chunyang Zhang, Hengliang Zhu, Jing Ma, Shuangjiang Li, Guoshun Yang, Miao Bai

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Full-Length Transcriptome Sequencing and hsp Gene Family Analysis Provide New Insights into the Stress Response Mechanisms of <i>Mystus guttatus</i> by Lang Qin, Xueling Zhang, Yusen Li, Jun Shi, Yu Li, Yaoquan Han, Hui Luo, Dapeng Wang, Yong Lin, Hua Ye

“…Our study sequenced the first full-length transcriptome of <i>M. guttatus</i> to enhance its genomic resources for its conservation and breeding and provide new insights into the future study of stress response mechanisms on <i>M. guttatus</i>.…”
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