Article
Biochemistry & Molecular Biology
Weiyang Fan, Rui Shi, Minyi Guan, Pan Chen, Hao Wu, Weiwei Su, Yonggang Wang, Peibo Li
Summary: This study unveiled the regulatory mechanism of naringenin in HepaRG cells through integrated analysis of mRNA-seq and miRNA-seq, identifying multiple miRNA-mRNA pairs involved in liver metabolism.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Medicine, Research & Experimental
Lianwei Ma, Hui Zhang, Yue Zhang, Hailong Li, Minghui An, Bin Zhao, Haibo Ding, Junjie Xu, Hong Shang, Xiaoxu Han
Summary: This study identified a significant number of differentially expressed lncRNAs, mRNAs, and miRNAs in HAART-naive EHI patients compared to healthy controls. The findings suggest that lncRNAs may play important roles in HIV-1 replication and immune activation during early infection, providing insights for antiviral therapy.
JOURNAL OF TRANSLATIONAL MEDICINE
(2021)
Article
Biochemical Research Methods
K. Patel, S. Chandrasegaran, I. M. Clark, C. J. Proctor, D. A. Young, D. P. Shanley
Summary: TimiRGeN is an R package that identifies miRNA-mRNA interactions influencing signaling pathways of interest using time point-based differential expression results. The interactions can be visualized in R or exported to PathVisio or Cytoscape, and the output can be used for hypothesis generation and guiding further experimental or computational work such as GRN construction.
Article
Biochemistry & Molecular Biology
Ming Zhu, Qianshi Dong, Jie Bing, Songbuerbatu, Lamei Zheng, Tashi Dorjee, Qi Liu, Yijun Zhou, Fei Gao
Summary: Long non-coding RNAs (lncRNAs) play critical roles in the cold stress response of Ammopiptanthus nanus. A combined analysis identified 4890 novel lncRNAs, of which 1322 showed differential expression under cold stress. These lncRNAs formed modules to regulate stress-related genes, including transcription factors and enzymes. Additionally, lncRNAs also participated in the cold stress response through miRNA-mediated regulation.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biotechnology & Applied Microbiology
Ling Zhao, Yangyang Pan, Meng Wang, Junqian Wang, Yaying Wang, Xiaohong Han, Jinglei Wang, Tongxiang Zhang, Tian Zhao, Honghong He, Yan Cui, Sijiu Yu
Summary: A comprehensive whole-transcriptome analysis was conducted to understand the proliferation and differentiation of granulosa cells (GCs) and cumulus cells (CCs) in yaks. The study identified differentially expressed long non-coding RNA (lncRNA), microRNA (miRNA), and messenger RNA (mRNA) that play important roles in cell adhesion, cell differentiation, oocyte development, and other biological processes. These RNAs are involved in various signaling pathways and molecular interactions. The findings contribute to the understanding of oocyte development and provide a theoretical basis for future research.
Article
Biochemistry & Molecular Biology
Xiuli Shao, Xiaolin Zhang, Lei Yang, Ruijia Zhang, Rongli Zhu, Rui Feng
Summary: Cardiac remodelling is a common characteristic of heart diseases, especially heart failure. MicroRNA and mRNA are potential diagnostic markers and therapeutic targets for heart failure. MicroRNA-mRNA interaction network analysis identified miR-542-3p-CILP as a potential new mechanism in ischaemic cardiomyopathy-induced heart failure.
Article
Genetics & Heredity
Yang Tai, Chong Zhao, Tian Lan, Linhao Zhang, Yang Xiao, Huan Tong, Rui Liu, Chengwei Tang, Jinhang Gao
Summary: Liver fibrosis results from the imbalance between ECM production and degradation, with many miRNAs being involved in its progression. This study identified specific miRNAs correlated with fibrosis reversal in a mouse model and provided potential candidate targets for liver fibrosis treatment. The integrated analysis of miRNA and mRNA expression profiles revealed significant differential expression and putative regulatory networks related to small molecule metabolism and ECM organization.
FRONTIERS IN GENETICS
(2021)
Article
Veterinary Sciences
Dan Hao, Xiao Wang, Yu Yang, Bo Thomsen, Lars-Erik Holm, Kaixing Qu, Bizhi Huang, Hong Chen
Summary: Resveratrol has been shown to benefit animal meat qualities, and can affect mRNA and miRNA expressions in bovine myoblasts. The DE genes after Resveratrol treatment were significantly enriched in gene functions and pathways.
FRONTIERS IN VETERINARY SCIENCE
(2021)
Article
Agriculture, Multidisciplinary
Bowen Chen, Yaojing Yue, Jianye Li, Chao Yuan, Tingting Guo, Dan Zhang, Jianbin Liu, Bohui Yang, Zengkui Lu
Summary: This study investigated the methylation patterns and differences in miRNA and mRNA expression in the F1 sheep longissimus dorsi muscle tissue using RNA sequencing, bisulfite sequencing, and small-RNA sequencing. The results identified differentially expressed genes, differentially methylated regions, and differentially expressed miRNAs that are significantly enriched in AMPK signaling, fatty acid degradation, metabolism, and other related pathways. Furthermore, a DNA methylation-mRNA and miRNA-mRNA coexpression network was constructed. The study provides valuable information and evidence for understanding the regulation of muscle growth and fat metabolism in hybrid sheep populations.
JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY
(2023)
Article
Genetics & Heredity
Han Zhao, Lu Zhang, Qiang Li, Zhongmeng Zhao, Yuanliang Duan, Zhipeng Huang, Hongyu Ke, Chao Liu, Huadong Li, Lu Liu, Jun Du, Zhen Wei, Chengyan Mou, Jian Zhou
Summary: In this study, the expression profiles of miRNA and mRNA were analyzed to explore their regulatory roles in the gonadal maturation stage of Leiocassis longirostris, a commercially important fish species. The study identified differentially expressed miRNAs and genes that are involved in gonad development and sex determination, providing valuable genomic information for selective breeding purposes.
FUNCTIONAL & INTEGRATIVE GENOMICS
(2022)
Article
Veterinary Sciences
Ling Chen, Xiaolin Liu, Zhixiong Li, Jian Wang, Rongfu Tian, Huilin Zhang
Summary: By analyzing miRNA and mRNA profiles, we found that bMECs have different responses to LPS induction. Some miRNAs and mRNAs related to inflammation were induced, while the effects of antimicrobial and inflammation were weak. Furthermore, downregulation of some miRNAs and mRNAs undermined the lactation potential of bMECs.
FRONTIERS IN VETERINARY SCIENCE
(2022)
Article
Genetics & Heredity
Ye Chu, David Bertioli, Chandler M. Levinson, H. Thomas Stalker, C. Corley Holbrook, Peggy Ozias-Akins
Summary: Genome instability in newly synthesized allotetraploids of peanut has breeding implications that have not been fully appreciated. Recombination between genomes increases genetic diversity, but it can also lead to unstable traits or loss of viability within lineages.
G3-GENES GENOMES GENETICS
(2021)
Article
Cell Biology
Rajakumar Anbazhagan, Raghuveer Kavarthapu, Ryan Dale, Kiersten Campbell, Fabio R. Faucz, Maria L. Dufau
Summary: GRTH/DDX25 is a testis-specific RNA helicase that plays a crucial role in spermatogenesis and male fertility. By analyzing mRNA-seq and miRNA-seq data, we identified several miRNAs, including miR146, miR122a, miR26a, miR27a, miR150, miR196a, and miR328, that are associated with spermatogenesis. These miRNAs target genes involved in various processes such as ubiquitination, chromatin remodeling, reversible protein phosphorylation, and acrosome stability. Our findings suggest that the post-transcriptional and translational regulation of germ-cell-specific mRNAs by miRNAs is important for spermatogenesis.
Article
Fisheries
Chenyang Yue, Qi Li, Hong Yu
Summary: This study focused on the miRNA and mRNA expression profiles in the gonads of Pacific oyster during different stages of gametogenesis, revealing sex-specific patterns and potential regulatory mechanisms in sexual development. The findings suggest that certain sex-biased miRNAs might participate in the regulation of gametogenesis, providing insights into the molecular mechanisms of bivalve sex differentiation.
Article
Oncology
Xingchen Fan, Xuan Zou, Cheng Liu, Shuang Peng, Shiyu Zhang, Xin Zhou, Tongshan Wang, Wei Zhu
Summary: This study identifies miRNA-mRNA regulation pairs related to bladder cancer pathogenesis through analyzing miRNA and mRNA datasets. One of the miRNA-mRNA regulation pairs was experimentally validated, and the diagnostic performance of these pairs in distinguishing bladder cancer was confirmed through ROC and DCA analysis. Additionally, the study found a correlation between these regulation pairs and tumor immunity.
WORLD JOURNAL OF SURGICAL ONCOLOGY
(2022)
