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Biochemistry & Molecular Biology
Fabian Kern, Ernesto Aparicio-Puerta, Yongping Li, Tobias Fehlmann, Tim Kehl, Viktoria Wagner, Kamalika Ray, Nicole Ludwig, Hans-Peter Lenhof, Eckart Meese, Andreas Keller
Summary: Researching which genes, gene sets or pathways are regulated by specific miRNAs can be time consuming and labor intensive, especially for researchers without computational experience. MiRTargetLink 2.0 offers a comprehensive solution for analyzing and visualizing miRNA networks in human, mouse and rat.
NUCLEIC ACIDS RESEARCH
(2021)
Article
Agriculture, Dairy & Animal Science
Xibi Fang, Lihong Qin, Haibin Yu, Ping Jiang, Lixin Xia, Zhen Gao, Runjun Yang, Yumin Zhao, Xianzhong Yu, Zhihui Zhao
Summary: This study conducted a genome-wide analysis of microRNAs and mRNAs in immature and mature testes of Chinese Red Steppes, identifying novel candidate microRNAs and functional genes associated with bull reproduction traits. The intricate regulating networks between microRNAs and genes were explored, providing valuable insights into the molecular mechanisms of male fertility and spermatogenesis in cattle. Real-time PCR was used to verify the expression levels of differentially expressed genes and microRNAs, contributing to future genetic and epigenetic studies of sperm development and maturity.
Article
Biochemistry & Molecular Biology
Ines Simeone, Carmela Rubolino, Teresa Maria Rosaria Noviello, Diego Farinello, Luigi Cerulo, Matteo Jacopo Marzi, Francesco Nicassio
Summary: TDMDfinder is a computational pipeline that identifies TDMD interactions in the Human and Mouse transcriptomes. The study found that TDMD is widespread, with potentially every miRNA controlled by endogenous targets. Experimental validation and computational analysis suggested TDMD's involvement in human cancer and highlighted it as a potential oncogenic mechanism.
NUCLEIC ACIDS RESEARCH
(2022)
Review
Cell Biology
Pierre-Marc Frederick, Martin J. Simard
Summary: miRNAs play a key role in gene expression regulation by forming the miRNA induced silencing complex (miRISC) with Argonaute protein to target specific mRNAs. The regulation of miRISC functions in animals involves post-translational modifications, 3' UTR environment, and interactions with other proteins. Subcellular localization and vesicular trafficking also play important roles in modulating miRISC function.
WILEY INTERDISCIPLINARY REVIEWS-RNA
(2022)
Review
Biochemistry & Molecular Biology
Mst Shamima Khatun, Md Ashad Alam, Watshara Shoombuatong, Md Nurul Haque Mollah, Hiroyuki Kurata, Md Mehedi Hasan
Summary: This article reviews the development of bioinformatics tools for miRNA target prediction, discusses the progress and limitations of existing miRNA databases, and explores the challenges and future directions of next-generation algorithms in predicting miRNA targets.
CURRENT MEDICINAL CHEMISTRY
(2022)
Article
Biology
Yi Lei, Liandong Yang, Haifeng Jiang, Juan Chen, Ning Sun, Wenqi Lv, Shunping He
Summary: The study revealed that genome duplications in representative Cyprinidae fish facilitated phenotypic diversity in the Hb gene family, resulting in repeated evolutionary transitions and species-specific changes in gene content.
SCIENCE CHINA-LIFE SCIENCES
(2021)
Article
Forestry
Huimin Liu, Jingjing Hu, Hongyan Du, Lu Wang, Jun Qing
Summary: MicroRNAs (miRNAs) play important roles in regulating rubber biosynthesis in Eucommia ulmoides through miRNA-target gene pairs and lncRNA-miRNA-mRNA networks.
Review
Medical Laboratory Technology
Abdul Waheed Khan
Summary: Only a fraction of the transcriptome is translated into proteins, with the rest classified as non coding RNA, which plays crucial roles in gene regulation. MicroRNAs, as a type of post-transcriptional regulator, have diverse functions in both the nucleus and cytoplasm.
TRANSLATIONAL RESEARCH
(2021)
Article
Cell Biology
Yu-He Li, Chia-Cheng Sun, Po-Ming Chen, Hsin-Hung Chen
Summary: This study uses an SGK1 inhibitor, GSK650394, to suppress SGK1 expression in PC12 cells and identifies candidate genes and signaling pathways regulated by SGK1 in rat nervous cells through RNA-seq, DEG analysis, and GEPIA2 correlation analysis.
Article
Biochemistry & Molecular Biology
Spyros Tastsoglou, Giorgos Skoufos, Marios Miliotis, Dimitra Karagkouni, Ioannis Koutsoukos, Anna Karavangeli, Filippos S. Kardaras, Artemis G. Hatzigeorgiou
Summary: DIANA-miRPath is an online miRNA analysis platform that allows exploration of combined miRNA effects through predicted or experimentally supported miRNA interactions. Its latest version introduces a customizable target-based miRNA functional analysis engine, enriched with interaction, annotation, and parameterization options. The platform integrates various datasets and enables enrichment analysis on GO terms, pathways, and expression data for a wide range of states. Additionally, it provides a module for utilizing CRISPR knock-out screen datasets to identify miRNAs with potentially crucial roles.
NUCLEIC ACIDS RESEARCH
(2023)
Review
Biochemistry & Molecular Biology
Caroline Diener, Andreas Keller, Eckart Meese
Summary: This review summarizes key features of mammalian miRNA-target interactions (MTIs), including dynamic composition of miRNA binding sites, cooperativity between miRNA binding sites, adaptivity of MTIs through sequence modifications, impact of intra-cellular miRNA localization changes, and the role of cell type and cell status specific miRNA interaction partners. The article also discusses experimental strategies for evaluating miRNA functionality.
NUCLEIC ACIDS RESEARCH
(2023)
Editorial Material
Biochemistry & Molecular Biology
Cecilia Maria Arraiano
Summary: Science is entering a new RNA world that is reshaping our knowledge and opening up new horizons in molecular biology. Noncoding RNAs play crucial regulatory roles in various diseases and cellular functions, with vast potential applications ahead.
Article
Genetics & Heredity
Xiaoyan He, Zhen Han, Huayan Yin, Fan Chen, Yihuan Dong, Lufei Zhang, Xiaoqing Lu, Jianbin Zeng, Wujun Ma, Ping Mu
Summary: This study identified salt-tolerance-related miRNAs and their target mRNAs in a salt-tolerant wheat variety, QM6, under salt stress conditions. It was found that QM6 enhances salt tolerance by increasing the expression of genes related to stress resistance, antioxidation, nutrient absorption, and lipid metabolism balance, which are regulated by the identified miRNAs. This data provides a theoretical basis for future research on miRNAs and novel genes related to salt tolerance in wheat for the development of genetically improved salt-tolerant wheat varieties.
FRONTIERS IN GENETICS
(2021)
Article
Biochemistry & Molecular Biology
Li Meng, Lichan Yuan, Jieli Ni, Mengru Fang, Shuyu Guo, Huayang Cai, Jinwei Qin, Qi Cai, Mengnan Zhang, Fang Hu, Junqing Ma, Yang Zhang
Summary: This study investigated the regulatory mechanism of Mir24-2-5p on Gnai3 expression regulation in osteoblast precursor cells, providing a new idea for improving prevention and treatment strategies for congenital mandibular defects and mandibular protrusion.
INTERNATIONAL JOURNAL OF BIOLOGICAL SCIENCES
(2021)
Article
Agriculture, Dairy & Animal Science
Qiongxian Yan, Lina Tian, Wenxun Chen, Jinhe Kang, Shaoxun Tang, Zhiliang Tan
Summary: The colon plays a crucial role in the fermentation and utilization of cell wall carbohydrates in ruminants. MicroRNAs have been found to regulate gastrointestinal development and maintain intestinal homeostasis in mammals. This study investigated the expression profiles of microRNAs in the colon of kid goats and identified different roles for DEmiRNAs, HEmiRNAs, and dynamic microRNAs in colon development. The targeted genes regulated by these microRNAs were associated with microbial invasion prevention, barrier maintenance, and cell damage surveillance. The study also revealed the impact of age on microRNA expression in the colon. Overall, this research provides new insights into the regulatory mechanism of colon development in goats.