Unravelling the transcriptomic symphony of muscle ageing: key pathways and hub genes altered by ageing and caloric restriction in rat muscle revealed by RNA sequencing by Gulam Altab, Brian J. Merry, Charles W. Beckett, Priyanka Raina, Inês Lopes, Katarzyna Goljanek-Whysall, João Pedro de Magalhães

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SIGLEC1 has the potential to be an immune-related prognostic indicator in colon adenocarcinoma: a study based on transcriptomic data and Mendelian randomization analysis by Jue Gu, Yaxuan Wang, Hui Zhang, Haijuan Gu, Haixia Zhu

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Characterization of the innate immune response to Streptococcus pneumoniae infection in zebrafish. by Anni K Saralahti, Sanna-Kaisa E Harjula, Tommi Rantapero, Meri I E Uusi-Mäkelä, Mikko Kaasinen, Maiju Junno, Hannaleena Piippo, Matti Nykter, Olli Lohi, Samuli Rounioja, Mataleena Parikka, Mika Rämet

“…In the present study, we characterized the zebrafish innate immune response to pneumococcus in detail through a whole-genome level transcriptome analysis and revealed a well-conserved response to this human pathogen in challenged larvae. …”
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Identification of miRNA-mRNA Crosstalk in Respiratory Syncytial Virus- (RSV-) Associated Pediatric Pneumonia through Integrated miRNAome and Transcriptome Analysis by Xu Zhang, Feng Huang, Diyuan Yang, Tao Peng, Gen Lu

“…These target genes were further analyzed with Gene Ontology enrichment analysis. We found that most of the target genes were involved in inflammatory and immune responses, including the NF-κB signaling pathway, the MAPK signaling pathway, and T cell receptor signaling. …”
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De novo assembly of a transcriptome for the cricket Gryllus bimaculatus prothoracic ganglion: An invertebrate model for investigating adult central nervous system compensatory plas... by Harrison P Fisher, Micah G Pascual, Sylvia I Jimenez, David A Michaelson, Colby T Joncas, Eleanor D Quenzer, Andrew E Christie, Hadley W Horch

“…We have mined this transcriptome for orthologues of guidance molecules from four well-conserved signaling families: Slit, Netrin, Ephrin, and Semaphorin. …”
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Identification through a transcriptomic approach of candidate genes involved in the adaptation of the cyst nematode Globodera pallida to the potato resistance factor GpaV vrn by Océane Lechevalier, Kévin Gazengel, Magali Esquibet, Sylvain Fournet, Eric Grenier, Stéphanie Daval, Josselin Montarry

“…Abstract Background Since the banning of chemical products used to control plant-parasitic nematode populations, the use of resistant plants has become the most effective management approach against the potato cyst nematode Globodera pallida. …”
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Application of Transcriptome Analysis for the Exploration of the Mechanism of Methionine Promoting the Synthesis of Cephalosporin C in <i>Acremonium chrysogenum</i> by Employing a... by Yifan Li, Zhen Chen, Wei Hong, Tao Feng, Xiwei Tian, Ju Chu

“…Methionine was identified as the most significant amino acid influencing CPC production during medium optimization. …”
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Integrated Transcriptomic and Functional Analyses Reveal the Role of the Plant–Pathogen Interaction Pathway in <i>Fusarium solani</i> Infection of <i>Zingiber officinale</i> by Lingling Zhang, Qie Jia, Lei Liu, Yiqing Liu

“…KEGG analysis revealed that most DEGs were enriched in the plant–pathogen interaction pathway, with both PTI and ETI being activated. …”
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Time-resolved dual transcriptome profiling of interactions between tea plants (Camellia sinensis (L.) O. Kuntze) and its anthracnose pathogen Colletotrichum gloeosporioides by Jing-Jing Ye, Han-Qing Gao, Yun-Long Shi, Xin-Yi Lin, Yue-Rong Liang, Jian-Liang Lu, Jian-Hui Ye, Xin-Qiang Zheng

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Transcriptome Profiling Unveils the Mechanisms of Inflammation, Apoptosis, and Fibrosis in the Liver of Juvenile Largemouth Bass <i>Micropterus salmoides</i> Fed High-Starch Diets by Xifeng Liu, Hongkang Liu, Kangwei Wang, Chuanjie Qin, Yuanfa He, Li Luo, Shimei Lin, Yongjun Chen

“…Histological evaluation of the livers showed that vacuolization was the most prevalent characteristic in the MS fish, while ballooning degeneration, apoptosis, fibrosis, and inflammation were observed in the HS fish. …”
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Comprehensive transcriptome analysis provides molecular insights into the heterosis-associated drought tolerance and reveals ZmbHLH137 that promotes drought tolerance in maize seed... by Liru Cao, Dongling Zhang, Abbas Muhammad Fahim, Huafeng Liu, Zhe Zhang, Desheng Hu, Feiyu Ye, Chenchen Ma, Salah Fatouh Abou-Elwaf, Nora M. Al Aboud, Yinghui Song, Shulei Guo, Qianjin Zhang, Xin Zhang, Xiaomin Lu

“…Heterosis breeding is one of the most important breeding strategies for reducing drought-induced yield losses. …”
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The Effects of FR and UVA Irradiation Timing on Multi-Omics of Purple Lettuce in Plant Factories by Yubin Zhang, Zhaoxin Li, Ning Zhang, Xiujuan Chai

“…Metabolomic analysis corroborated the transcriptomic findings, with particular emphasis on antioxidant activity, photoprotection, and defense mechanisms. …”
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Bystander neuronal progenitors in forebrain organoids promote protective antiviral responses by Seble G. Negatu, Christine Vazquez, Carl Bannerman, Kevin R. Amses, Guo-Li Ming, Kellie A. Jurado

“…We showed antiviral crosstalk between infected neurons and bystander neural progenitors is mediated by type I interferon signaling. Using spatial transcriptomics, we then uncovered regions containing bystander neural progenitors that expressed distinct antiviral genes, revealing critical underpinnings of protective antiviral responses among neuronal subtypes. …”
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Metabolome integrated with transcriptome, and genome analysis revealed higher accumulations of phytoalexins enhance resistance against Magnaporthe oryzae in new Zhefang rice variet... by Owais Iqbal, Xingrun Yang, Ruoping Wang, Chun Wang, Dandan Li, Jiancheng Wen, Jiasheng Ding, Sauban Musa Jibril, Chengyun Li, Yi Wang

“…Results This study employed an integrated metabolomic, transcriptomic, and genomic approach to compare the response of Diantun susceptible (D502) and resistant (D506) rice lines to M. oryzae infection at 48 h post-inoculation. …”
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Two-Sample Mendelian Randomization Study Identifies Tissue-Dependent Risk Genes in Autoimmune Diseases by Ryan Chiu, Li Ma

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T cell-related diagnostic model and the underlying mechanism related to PRF1-mediated glycolysis in sepsis: evidences from single-cell, bulk transcriptomics, and experiment validat... by Fu Tian, Hui Chen, Zhicheng Huang, Kai Qiu

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Single-cell landscape of immunological responses in patients with juvenile idiopathic arthritis by Yun Liu, Xiwen Luo, Liuqing Yang, Qiang Luo, Xiya Luo, Li Xu, Yating Wang, Yunfei An, Yupeng Cun, Xuemei Tang

“…Results showed disrupted interferon and acute inflammatory responses in most cell types of JIA patients, with particularly intense responses in systemic JIA (sJIA) patients versus non-sJIA patients. …”
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Transcriptome Profiling Reveals That the African Swine Fever Virus C315R Exploits the IL-6 STAT3 Signaling Axis to Facilitate Virus Replication by Shuxian Geng, Zhonghui Zhang, Jie Fan, Hualin Sun, Jifei Yang, Jianxun Luo, Guiquan Guan, Hong Yin, Qiaoying Zeng, Qingli Niu

“…However, its involvement in ASFV infection, particularly in host response, remains only partially understood. In this study, the role of C315R in enhancing ASFV replication was investigated through RNA-Seq transcriptomic analysis, which was based on 3D4/21 cells transfected the plasmid expressing HA-tagged C315R or the empty vector. …”
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Unveiling Stage-Specific Flavonoid Dynamics Underlying Drought Tolerance in Sweet Potato (<i>Ipomoea batatas</i> L.) via Integrative Transcriptomic and Metabolomic Analyses by Tao Yin, Chaoyu Song, Huan Li, Shaoxia Wang, Wenliang Wei, Jie Meng, Qing Liu

“…Therefore, we integrated transcriptomics and extensive targeted metabolomics analysis to investigate the drought responses of the sweet potato cultivar ‘Luoyu 11’ during the branching and tuber formation stage (DS1) and the storage root expansion stage (DS2) under controlled drought conditions (45 ± 5% field capacity). …”
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Transcriptomic analysis of Myxococcus xanthus csgA, fruA, and mrpC mutants reveals extensive and diverse roles of key regulators in the multicellular developmental process by Mark A. Farrugia, Ramya Rajagopalan, Lee Kroos

“…The genes most strongly regulated were coregulated in two or three of the mutants. …”
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