Parental BPA exposure disrupts offspring transcriptomic profiles and impairs embryonic lineage specification during zygotic genome activation by Yuequn Chen, Kusheng Wu, Wenlong Huang

“…In this study, zebrafish embryos at 3.5 and 4.5 hours post-fertilization (hpf) were collected after 7-day parental exposure to 1.0 µM BPA for transcriptome sequencing. …”
Get full text

Transcriptomics uncover inhibition of repair and wound healing pathways in Atlantic halibut (Hippoglossus hippoglossus) after crude oil exposure by Elin Sørhus, Kai K. Lie, Sonnich Meier, Tomasz Furmanek, Birgitta Norberg, Prescilla Perrichon

“…This study examines the downstream transcriptomic responses of Atlantic halibut larvae exposed to crude oil during organogenesis. …”
Get full text

Metabolic and Transcriptomic-Based Characterization of <i>Streptococcus salivarius</i> ssp. <i>thermophilus</i> Snew Fermentation in Milk by Ye Wang, Haijie Zhao, Huilin Zhang, Baochao Hou, Weilian Hung, Jian He, Chao Liang, Baolei Li, Chaoxin Man, Yujun Jiang, Yu Zhang, Ling Guo

“…<i>thermophilus</i> Snew-fermented milk, as well as transcriptomic and metabolomic analyses of different fermentation stages. …”
Get full text

Unveiling the molecular mechanism of sepal curvature in Dendrobium Section Spatulata through full-length transcriptome and RNA-seq analysis by Xuefeng Qu, Na Li, Cong Xu, Zifeng Huang, Chunyan Li, Yang Jiang, Guizhao Zheng, Haiping Fu, Guangyan Zhang, Chuan Liu

Get full text

Temporal profiling of host transcriptome highlights time- and tissue-dependent Interferon pathway activation in NNV-infected European sea bass by Luca Peruzza, Giulia Dalla Rovere, Serena Ferraresso, Rafaella Franch, Daniela Bertotto, Francesco Pascoli, Gaia Bacchin, Anna Toffan, Luca Bargelloni

“…The time- and tissue-specific dynamics of gene expression is crucial for understanding host response to NNV. Here, we report on a time-course transcriptome analysis of brain and head kidney in NNV-infected bass that integrated the statistical evidence of differential expression with the information on temporal profiles (i.e. 6, 12, 24, 48, and 72 h post-infection (hpi)) compared to mock-infected controls. …”
Get full text

Adequate post-ischemic reperfusion of the mouse brain requires endothelial NFAT5 by Reiner Kunze, Paul Wacker, Paula Breuer, Emil Nasyrov, Ivan M. Kur, Andreas Weigert, Andreas H. Wagner, Hugo H. Marti, Thomas Korff

Get full text

Foci of Future Studies on Abiotic Stress Tolerance of Maize in the Era of Post-Genomics by You-zhi LI, Xian-wei FAN, Jiang-xiong LIAO

“…A great flaw to dissect the biological mechanisms by genome sequencing is that genome sequencing approach could not reflect real-time molecular actions of plants especially under the stresses because the living organisms rarely live in unchanging environments. Post-genomics such as transcriptomics, metabolomics, and proteomics can generate knowledge that is closer to the biological processes. …”
Get full text

Muscle transcriptome profiles in elite male ultra-endurance athletes acclimated to a high-carbohydrate versus low-carbohydrate diet by Catherine Saenz, Kaleen M Lavin, Elaine C Lee, Carl M Maresh, William J Kraemer, Marcas M Bamman, Timothy J Broderick, Jeff S Volek

“…Skeletal muscle gene expression was measured at baseline (BL), immediately-post (H0), and 2 h (H2) after 3 h submaximal treadmill running. …”
Get full text

Comparative transcriptome analysis of bovine blastocysts reveals specific effects of the oocyte source and the environments during maturation and early embryo development by Mohammad Bozlur Rahman, Eva Held-Hoelker, Mohammed Saeed-Zidane, Franca Rings, Dessie Salilew-Wondim, Dawit Tesfaye, Ahmed Gad, Samuel Gebremedhn, Ernst Tholen, Karl Schellander, Christine Große-Brinkhaus, Michael Hoelker

“…Abstract Background Although differences between in vivo and in vitro derived bovine blastocysts in terms of global gene expression profiles have been reported, comparative transcriptome analyses specifically addressing the sustained impact of the oocyte source or the in vitro culture environments during maturation and post-maturation period are remain limited. …”
Get full text

Single-cell transcriptomics reveals cellular dynamics and chemokine CXCL2-mediated smooth muscle cell proliferation in arterial repair by Xingxiao Huang, Xingxiao Huang, Yan Ping, Yan Ping, Qiuli Sun, Qiuli Sun, Mingjun Yu, Mingjun Yu, Chao Yang, Xiao Liu, Long Wang, Jinyu Huang, Jinyu Huang

Get full text

Copper Pyrithione Induces Hepatopancreatic Apoptosis and Metabolic Disruption in <i>Litopenaeus vannamei</i>: Integrated Transcriptomic, Metabolomic, and Histopathological Analysis by Jieyu Guo, Yang Yang, Siying Yu, Cairui Jiang, Xianbin Su, Yongfeng Zou, Hui Guo

“…This study investigated the toxicological response in the hepatopancreas of <i>L. vannamei</i> exposed to CuPT (128 μg/L) for 3 and 48 h. …”
Get full text

Single nuclear‐spatial transcriptomic sequencing reveals distinct puncture‐induced cell subpopulations in the intervertebral disc of a rat model by Guoyan Liang, Jing Tan, Chong Chen, Yuying Liu, Yongyu Ye, Xiaolin Pan, Qiujian Zheng, Yunbing Chang, Feng‐Juan Lyu

“…Tamoxifen‐administered PdgfraCreERT2;R26tdTomato mice were adopted to track platelet‐derived growth factor receptor alpha (Pdgfra) positive cells. Results Puncture response regions were revealed on day 1 post‐puncture, for which oxidative stress emerged as a prominent pathway in a Stress Zone consisting of lipocalin‐2 (Lcn2)+ annulus fibrosus (AF) cells (AFC), which propagated and migrated into nucleus pulposus (NP), playing a key role in delivering injury signals and triggering pathological processes, including ferroptosis, fibrosis, and immune reactions. …”
Get full text

Deep RNA sequencing of pectoralis muscle transcriptomes during late-term embryonic to neonatal development in indigenous Chinese duck breeds. by Chunhong Zhu, Weitao Song, Zhiyun Tao, Hongxiang Liu, Wenjuan Xu, Shuangjie Zhang, Huifang Li

Get full text

Macrophage Lyn Kinase Is a Sex‐Specific Regulator of Post–Subarachnoid Hemorrhage Neuroinflammation by Rezwanul Islam, Hadi Hasan Choudhary, Feng Zhang, Hritik Mehta, Jun Yoshida, Ajith Thomas, Khalid Hanafy

Get full text

Association of RDoC dimensions with post mortem brain transcriptional profiles in Alzheimer's disease by Weiqian Jiang, Jonathan Vogelgsang, Shu Dan, Peter Durning, Thomas H. McCoy, Sabina Berretta, Torsten Klengel

“…We hypothesized that specific patterns of gene expression associate with distinct National Institute of Mental Health Research Domain Criteria (RDoC) domains in AD. METHODS Post‐mortem bulk RNA sequencing of the insula and anterior cingulate cortex from 60 brain donors, representing the spectrum of canonical Alzheimer's disease neuropathology, was combined with natural language processing approaches based on the RDoC Clinical Domains to uncover transcriptomic patterns linked to disease progression. …”
Get full text

Characterization of the genome of a phylogenetically distinct tospovirus and its interactions with the local lesion-induced host Chenopodium quinoa by whole-transcriptome analyses. by Wan-Chen Chou, Shih-Shun Lin, Shyi-Dong Yeh, Siang-Ling Li, Ying-Che Peng, Ya-Hsu Fan, Tsung-Chi Chen

“…Groundnut chlorotic fan-spot tospovirus (GCFSV) has been shown to consistently induce local lesions on the leaves of C. quinoa 4 days post-inoculation (dpi). To reveal the whole genome of GCFSV and its interactions with C. quinoa, RNA-seq was performed to determine the transcriptome profiles of C. quinoa leaves. …”
Get full text

Comprehensive Transcriptome-Wide Profiling of 5-Methylcytosine Modifications in Long Non-Coding RNAs in a Rat Model of Traumatic Brain Injury by Zhijun Xiang, Yixing Luo, Jiangtao Yu, Haoli Ma, Yan Zhao

“…In the present study, we conducted a thorough transcriptome-wide examination of m⁵C methylation in lncRNAs in a rat TBI model utilizing MeRIP-Seq. …”
Get full text

Transcriptomic analysis of two Chinese wheat landraces with contrasting Fusarium head blight resistance reveals miRNA-mediated defense mechanisms by Lijuan Wu, Lijuan Wu, Junqiang Wang, Shian Shen, Zaijun Yang, Xinkun Hu

“…Differential expression of mRNAs, long non-coding RNAs (lncRNAs), circular RNAs (circRNAs), and microRNAs (miRNAs) was analyzed at 3 and 5 days post-Fg inoculation (dpi).ResultsThe results showed that WY exhibited a targeted miRNA response, primarily modulating defense-related pathways such as glutathione metabolism and phenylpropanoid biosynthesis, which are crucial for oxidative stress regulation and pathogen defense response. …”
Get full text

Immunological characteristics in elderly COVID-19 patients: a post-COVID era analysis by Yunhui Li, Yuan Chen, Jing Liang, Yajie Wang

“…BackgroundAdvanced age is a primary risk factor for adverse COVID-19 outcomes, potentially attributed to immunosenescence and dysregulated inflammatory responses. In the post-pandemic era, with containment measures lifted, the elderly remain particularly susceptible, highlighting the need for intensified focus on immune health management.MethodsA total of 281 elderly patients were enrolled in this study and categorized based on their clinical status at the time of admission into three groups: non-severe (n = 212), severe survivors (n = 49), and severe non-survivors (n = 20). …”
Get full text

Transcriptome-wide identification and analysis reveals m6A regulation of metabolic reprogramming in shrimp (Marsupenaeus japonicus) under virus infection by Xumei Sun, Yu-Lei Chen, Fan Xin, Siyuan Zhang

“…Abstract Background It has been reported that the most common post-transcriptional modification of eukaryotic RNA is N6-methyladenosine (m6A). …”
Get full text