Molecular and epigenetic responses to crowding stress in rainbow trout (Oncorhynchus mykiss) skeletal muscle by Daniela Aravena-Canales, Daniela Aravena-Canales, Valentina Valenzuela-Muñoz, Valentina Valenzuela-Muñoz, Cristian Gallardo-Escarate, Cristian Gallardo-Escarate, Alfredo Molina, Alfredo Molina, Alfredo Molina, Juan Antonio Valdés, Juan Antonio Valdés, Juan Antonio Valdés

“…Understanding the mechanisms underlying crowding stress and their long-term effects, including epigenetic changes, is essential for optimizing farming conditions, and enhancing fish welfare.ObjectiveThis study aims to characterize the physiological, transcriptomic, and epigenomic responses in juvenile rainbow trout (Oncorhynchus mykiss) exposed for 30 days to high stocking densities.ResultsCrowding stress led to decreased weight in the high-density (HD) group. …”
Get full text

Transcriptome analyses reveal differences in the response to temperature in Florida and Northern largemouth bass (Micropterus spp.) during early life stages. by Moisés A Bernal, Gavin L Aguilar, Josh Sakmar, Sebastian N Politis, Savannah L Oglesby, Allen Nicholls, Anita M Kelly, Luke A Roy, Ian A E Butts

Get full text

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

“…This study aimed to demonstrate the definitive positive impact of dark and light irradiation on both primary and secondary metabolite production in A. officinalis hairy roots and to elucidate the light-responsive mechanism through integrated metabolome and transcriptome analysis. …”
Get full text

Transcriptomic Analysis of the Liver Redox Response During Food-Anticipatory Activity Under a Time-Restricted Feeding Protocol in Rats by Adrián Báez-Ruiz, Andy Hernández-Abrego, Mauricio Díaz-Muñoz, Isabel Méndez

Get full text

Integrated analysis of single-cell and bulk transcriptomics reveals cellular subtypes and molecular features associated with osteosarcoma prognosis by Feng Liu, Tingting Zhang, Yongqiang Yang, Kailun Wang, Jinlan Wei, Ji-Hua Shi, Dong Zhang, Xia Sheng, Yi Zhang, Jing Zhou, Faming Zhao

“…Abstract Background Osteosarcoma (OS) is the most common primary bone malignancy with variable molecular biology and prognosis. …”
Get full text

Transcriptional response to hepatitis C virus infection and interferon‐alpha treatment in the human liver by Tujana Boldanova, Aleksei Suslov, Markus H Heim, Anamaria Necsulea

“…We find that most IFN‐stimulated genes are induced by both recombinant IFN therapy and the endogenous IFN system, but with lower induction levels in the latter, indicating that the innate immune response in chronic hepatitis C is too weak to clear the virus. …”
Get full text

Transcriptome analysis of hsp18.3 functions and regulatory systems using RNA-sequencing in the red flour beetle, Tribolium castaneum by Wen-feng XIONG, Jia XIE, Lu-ting WEI, Si-si ZHANG, Xiao-wen SONG, Shan-shan GAO, Bin LI

“…The DEGs encoding viperin, dorsal, Hdd11, PGRP2, defensin1 and defensin2 were simultaneously related to immunity and stress responses, which suggests that cross-talk might exist between the immunity and stress responses of T. castaneum. …”
Get full text

Utilizing Multi-Omics Analysis to Elucidate the Molecular Mechanisms of Oat Responses to Drought Stress by Xiaojing Chen, Jinghui Liu, Baoping Zhao, Junzhen Mi, Zhongshan Xu

“…However, the molecular mechanisms underlying the responses of oat to drought stress remain unclear, warranting further research. …”
Get full text

Identification and analysis of drought-responsive F-box genes in upland rice and involvement of OsFBX148 in ABA response and ROS accumulation by Yifan Wang, Fang Chen, Yuyang Chen, Kaiwen Ren, Dan Zhao, Kun Li, Haipeng Li, Xiaobin Wan, Mu Peng, Zhixin Xiang, Qiaoyu Tang, Zhi Hou, Qing Fang, Yifeng Zhou, Yanke Lu

Get full text

Transcriptome Analysis of Immune Response Against <i>Edwardsiella tarda</i> Infection in Spotted Sea Bass (<i>Lateolabrax maculatus</i>) by Zhaosheng Sun, Xia Li, Qingling Zhang, Wei Wang, Huan Wang, Tingshuang Pan, Qian Gao

“…<i>Edwardsiella tarda</i> is a gram-negative bacterium reported to be one of the most harmful pathogens in aquaculture. In this study, we conducted transcriptome profiling of the head kidney, liver, and spleen in spotted sea bass (<i>Lateolabrax maculatus</i>) infected with <i>E. tarda</i>. …”
Get full text

<i>Agave schidigera</i> Transcriptome Reveals Stress-Responsive <i>Phenylalanine ammonia-lyase</i> Genes in <i>Agave</i> by Xuxia Wang, Xiaoli Hu, Chen Lin, Qingqing Liu, Yubo Li, Dengxiang Du, Dietram Mkapa, Weiyi Zhang, Xing Huang, Kexian Yi

Get full text

Identification and Preliminary Functional Analysis of Responsive Genes to Short-term Heat Stress in Lettuce by Shuping He, Guotao Huo, Guojun Ge, Li Du, Du Long, Lijun Luo, Ping Long, Shiwei Wei

“…Transcriptome analysis showed that the NAC domain transcription factor LsNAC28, which is associated with heat response, is up-regulated during heat stress and LsNAC28 inhibited yeast growth under heat stress (37 °C). …”
Get full text

Navarixin alleviates cardiac remodeling after myocardial infarction by decreasing neutrophil infiltration and the inflammatory response by Peikun Hu, Wei Liu, Jungang Huang, Yangfan Su, Huiqi Jiang, Qinyu Wu, Jun Tao, Shi Liang, Jun Lin, Junmeng Zheng

“…We observed that Nav improved cardiac function, reduced myocardial damage, reduced neutrophil infiltration, reduced inflammatory factor expression and improved cardiac fibrosis in mice. Through transcriptomic analysis, we found that Nav affects signaling pathways such as the innate immune response and the chemokine signaling pathway, thereby decreasing the inflammatory response by reducing neutrophil chemotaxis. …”
Get full text

Hypoxia alters the response of ovarian cancer cells to the mitomycin C drug by Aleksandra Gawrylak, Aleksandra Gawrylak, Klaudia Brodaczewska, Roksana Iwanicka-Nowicka, Roksana Iwanicka-Nowicka, Marta Koblowska, Marta Koblowska, Agnieszka Synowiec, Lubomir Bodnar, Lubomir Bodnar, Cezary Szczylik, Bogdan Lesyng, Rafał Stec, Claudine Kieda, Claudine Kieda

“…The most significantly upregulated gene in response to hypoxia–MMC treatment was MMP1, regulated by both MMC and hypoxia. …”
Get full text

Identification of genes in response to cucurbit aphid-borne yellows virus infection in melon by YANG Siyu, GONG Zihui, HU Zhongyuan, ZHANG Mingfang, YANG Jinghua

“…A total of 1 654 differentially expressed genes (DEGs) in response to CABYV infection were identified by transcriptome sequencing analysis, including 677 up-regulated genes and 977 down-regulated genes. …”
Get full text

Decoding the transcriptome from bulk RNA of infection-naïve versus imprinted patients with SARS-CoV-2 Omicron B.1.1.529 by Sissy Therese Sonnleitner, Samira Walder, Eva Hinterbichler, Ludwig Knabl, Roswitha Poernbacher, Gernot Walder

“…The clear differences in gene expression between these groups highlight how prior exposure influences immune activation during acute infection.IMPORTANCEUnderstanding how prior immune imprinting through infection or vaccination influences the transcriptomic response to severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is crucial for optimizing vaccine strategies and predicting immune outcomes in future pandemics. …”
Get full text

Comparative de novo transcriptomics and untargeted metabolomic analyses elucidate complicated mechanisms regulating celery (Apium graveolens L.) responses to selenium stimuli. by Chenghao Zhang, Baoyu Xu, Cheng-Ri Zhao, Junwei Sun, Qixian Lai, Chenliang Yu

Get full text

Exploring Alternative Splicing in Response to Salinity: A Tissue-Level Comparative Analysis Using <i>Arabidopsis thaliana</i> Public Transcriptomic Data by Jesús Hernández-Urrieta, José Miguel Álvarez, José Antonio O’Brien

“…In this study, we used 52 publicly available RNA-seq datasets of salinity treatment to identify differential alternative splicing (DAS) events and genes participating in the response to this stimulus. Our findings reveal that either independently or coordinately, AS can regulate up to 20% of the transcriptome detected in <i>Arabidopsis</i>, with treatment intensity being the most determining factor. …”
Get full text

Single-cell transcriptomic analysis reveals the commonality of immune response upon H1N1 influenza virus infection in mice and humans by Yu Chen, Huaiyuan Cai, Qian Zhang, Gang Cao, Jiahao Zhang, Bing Yang, Jinxia Dai

“…Understanding the immune response to H1N1 is crucial for developing effective treatments and vaccines. …”
Get full text

Evaluating two live-attenuated vaccines against Salmonella enterica serovar Reading in turkeys: reduced tissue colonization and cecal tonsil transcriptome responses by Melissa S. Monson, Manoj Gurung, Manoj Gurung, Bradley L. Bearson, Samuel J. Whelan, Samuel J. Whelan, Julian M. Trachsel, Torey Looft, Matthew J. Sylte, Shawn M.D. Bearson

“…Gene expression of intestinal transporters (such as SCNN1B and SLC10A2) and tight junction proteins was significantly decreased in the turkey cecal tonsil transcriptome at 2 DPI with S. Reading. Vaccination with either vaccine mitigated most cecal tonsil gene expression responses to S. …”
Get full text