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
Agriculture, Dairy & Animal Science
Rui Zhang, Christiane Neuhoff, Qin Yang, Mehmet U. Cinar, Muhammad J. Uddin, Ernst Tholen, Karl Schellander, Dawit Tesfaye
Summary: This study found that sulforaphane (SFN) can enhance the proliferation of porcine satellite cells (PSCs), alter the gene expression levels of myogenic regulatory factors, inhibit histone deacetylase (HDAC) activity, and increase the expression of Smad family member 7 (SMAD7) in PSCs. Furthermore, SFN was found to increase the acetylation level of histone H4 in the SMAD7 promoter and decrease the expression of certain microRNAs that target SMAD7 in PSCs.
Article
Biochemistry & Molecular Biology
Xianhui Ruan, Minghui Cao, Wei Yan, Ying Z. Jones, Asa B. Gustafsson, Hemal H. Patel, Simon Schenk, Shizhen Emily Wang
Summary: Extracellular vesicles secreted by breast cancer cells impair skeletal muscle mitochondrial homeostasis and function through the transfer of miR-122-5p to myocytes, leading to decreased mitochondrial content and energy production and increased oxidative stress. Restoring Tp53 in muscle can abolish mitochondrial myopathology and partially rescue impaired running capacity in mice carrying breast tumors. These findings suggest that breast cancer cell-derived extracellular vesicles mediate skeletal muscle mitochondrial dysfunction, contributing to muscle weakness in cancer patients.
Article
Cell Biology
Baohua Tan, Sheng Wang, Shanshan Wang, Jiekang Zeng, Linjun Hong, Zicong Li, Jie Yang, Gengyuan Cai, Enqin Zheng, Zhenfang Wu, Ting Gu
Summary: This study provided a comprehensive genome-wide view of H3K27me3 during porcine embryonic muscle development, revealing its continuous increase and negative correlation with gene expression. It also showed that H3K27me3 could enrich in the promoter to negatively regulate gene expression and impact muscle cell differentiation in pigs.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Article
Biotechnology & Applied Microbiology
Jiale Yun, Xiaoyu Huang, Chang Liu, Mingyue Shi, Wenxia Li, Jin Niu, Chunbo Cai, Yang Yang, Pengfei Gao, Xiaohong Guo, Bugao Li, Chang Lu, Guoqing Cao
Summary: In this study, circRNA expression profiles in the skeletal muscle of Jinfen White pigs at different stages of development were constructed using RNA-seq. Among the identified circRNAs, 584 circRNAs showed differential expression. Enrichment analysis revealed that the host genes of these differentially expressed circRNAs were mainly involved in muscle contraction, muscle organ development, muscle system processes, as well as AMPK and cAMP-related signal pathways. A circRNA-miRNA-mRNA co-expression network was also constructed to identify key circRNAs involved in the regulation of porcine skeletal muscle development through the competitive endogenous RNA (ceRNA) mechanism. Notably, the circ_0018595/miR-1343/PGM1 axis may play a regulatory role in the development of porcine skeletal muscle.
Article
Physiology
Christopher G. Vann, Xin Zhang, Alastair Khodabukus, Melissa C. C. Orenduff, Yu-Hsiu Chen, David L. L. Corcoran, George A. A. Truskey, Nenad Bursac, Virginia B. B. Kraus
Summary: Exercise-mimetic contractile activity of human engineered muscle affects the expression of miRs and the number of secreted EVs, providing new insights into the role of exercise in organ-organ interactions.
FRONTIERS IN PHYSIOLOGY
(2022)
Article
Agriculture, Multidisciplinary
Li Cen-cen, Yu Shu-long, Ren Hai-feng, Wu Wei, Wang Ya-ling, Han Qiu, Xu Hai-xia, Xu Yong-jie, Zhang Peng-peng
Summary: The study collected data on long intergenic noncoding RNAs (lincRNAs) in porcine skeletal muscle development, identified differentially expressed lincRNAs during early pig embryonic development, predicted their potential target genes and functions, and laid the foundation for further research into lincRNAs functions.
JOURNAL OF INTEGRATIVE AGRICULTURE
(2021)
Article
Nutrition & Dietetics
Feng-Min Zhang, Xiao-Lei Chen, Qian Wu, Wen-Xi Dong, Qian-Tong Dong, Xian Shen, Han-Ping Shi, Zhen Yu, Cheng-Le Zhuang
Summary: This study developed and validated nomograms for predicting low muscle mass and muscle radiodensity based on preoperative data in gastric cancer patients. The nomograms showed good discrimination and calibration in diagnosing sarcopenia and malnutrition, with high agreement ratios between the nomograms and actual observations. These diagnostic tools can facilitate early identification and interventions for at-risk populations.
AMERICAN JOURNAL OF CLINICAL NUTRITION
(2021)
Article
Multidisciplinary Sciences
Yunxiao Li, Miaosen Yang, Angang Lou, Jinyan Yun, Chunyu Ren, Xiangchun Li, Guangjun Xia, Kichang Nam, Duhak Yoon, Haiguo Jin, Kangseok Seo, Xin Jin
Summary: This study integrated miRNA and mRNA expression profiling to identify differentially expressed miRNAs and mRNAs associated with meat quality traits in bulls and steers. A negative interaction network was constructed to explore the molecular genetic controls and interactions among genes. Several critical genes were validated and a predicted miRNA target was confirmed.
SCIENTIFIC REPORTS
(2022)
Article
Biochemistry & Molecular Biology
Ya Tan, Mailin Gan, Linyuan Shen, Liang Li, Yuan Fan, Ying Chen, Lei Chen, Lili Niu, Ye Zhao, Anan Jiang, Dongmei Jiang, Shunhua Zhang, Li Zhu
Summary: This study investigated gene expression in Qingyu pigs at different growth stages and identified differentially expressed genes and lncRNAs. Functional enrichment analysis revealed stage-specific enrichment of genes involved in immune system development and energy metabolism. The findings provide insights into the regulatory mechanisms and molecular genetics of muscle development in pigs.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Multidisciplinary Sciences
Linda Adzigbli, Eugene P. Sokolov, Klaus Wimmers, Inna M. Sokolova, Siriluck Ponsuksili
Summary: This study investigates the metabolic response of muscle and brain cells in domestic pigs to hypoxia-reoxygenation stress, revealing that muscle cells have higher tolerance to hypoxia and exhibit different transcriptional responses compared to brain cells, providing insights into the biological processes associated with hypoxia stress.
SCIENTIFIC REPORTS
(2022)
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
Endocrinology & Metabolism
Wataru Aoi, Yuko Tanimura
Summary: This passage highlights the importance of muscle-derived exosomes in regulating target protein expression and activity associated with metabolism and immune function. It also discusses the altered levels of circulating exosomes and their contents in muscle disorders and metabolic-related states, suggesting their potential as biomarkers.
FRONTIERS IN ENDOCRINOLOGY
(2021)
Article
Genetics & Heredity
Renqiang Yuan, Jiaman Zhang, Yujie Wang, Xingxing Zhu, Silu Hu, Jianhua Zeng, Feng Liang, Qianzi Tang, Yaosheng Chen, Luxi Chen, Wei Zhu, Mingzhou Li, Delin Mo
Summary: The study found that during the transition from E35 to E80, 11.43% of the genome switched compartment status, 14.53% of topologically associating domains experienced changes in intradomain interactions, and 2,730 genes showed differential promoter-enhancer interactions and (or) enhancer activity. The alterations in genome architecture were associated with the expression of genes involved in neuromuscular junction, embryonic morphogenesis, skeletal muscle development, or metabolism. Key genes like NEFL, MuSK, SLN, Mef2D, and GCK were identified as playing significant roles in these processes. Notably, Sox6 and MATN2 were highlighted for their important roles in the transition from primary to secondary myofibres formation. The study provided insight into genomic reorganization and constructed high-resolution interaction maps for studying gene expression control during this developmental period.
Article
Genetics & Heredity
Xuanze Ling, Qifan Wang, Pengfei Wu, Kaizhi Zhou, Jin Zhang, Genxi Zhang
Summary: This study investigated the potential target genes of miR-24-3p in chicken skeletal muscle. By using RNA-seq, the researchers identified differentially expressed genes and important biological processes and pathways associated with miR-24-3p. Furthermore, they validated the sequencing results through qPCR experiments. These findings have implications for understanding the regulatory role of miR-24-3p in chicken skeletal muscle and provide new directions for broiler breeding research.