Article
Biotechnology & Applied Microbiology
Mingkun Huang, Ling Zhang, Limeng Zhou, Mozhu Wang, Wai-Shing Yung, Zhili Wang, Shaowei Duan, Zhixia Xiao, Qianwen Wang, Xin Wang, Man-Wah Li, Hon-Ming Lam
Summary: In this study, the modified ChIPmentation protocol was successfully used in soybean protoplasts to identify binding sites of the C2H2-type zinc finger TF GmJAG1. Furthermore, a novel GmJAG1-binding motif, epigenetic characteristics, and enhancer-like function of GmJBSs were also discovered.
Article
Veterinary Sciences
Xiukai Cao, Jie Cheng, Yongzhen Huang, Xianyong Lan, Chuzhao Lei, Hong Chen
Summary: In this study, functional elements in the cattle muscle genome were annotated using ATAC-seq, revealing differentially accessible regions such as promoters and enhancers associated with cell cycle, muscle development, and lipid metabolism. Several enhancers were found to interact with gene promoters, impacting traits like body weight and muscle characteristics. This comparative enhancer map is expected to advance the field of beef cattle breeding.
FRONTIERS IN VETERINARY SCIENCE
(2021)
Article
Oncology
Tao Liu, Jiaojiao Zhou, Yanmin Chen, Jia Fang, Song Liu, Costa Frangou, Hai Wang, Jianmin Zhang
Summary: The protein TAZ plays a crucial role in the Hippo signaling pathway and its activation leads to binding to enhancer and non-coding regions, as well as chromatin structural alterations. This study provides important insights into the mechanism by which TAZ regulates gene expression and its potential role in breast cancer therapy.
Article
Cell Biology
Jared A. Tangeman, J. Raul Perez-Estrada, Emily Van Zeeland, Lin Liu, Alexandra Danciutiu, Erika Grajales-Esquivel, Byran Smucker, Chun Liang, Katia Del Rio-Tsonis
Summary: The retinal pigment epithelium (RPE) in chicken loses its neural regenerative competence by embryonic day 5, which is accompanied by cell cycle exit and changes in gene regulation. OTX2 is implicated as a key determinant in solidifying the RPE fate. These findings provide valuable insights into RPE lineage restriction and regeneration potential in vertebrates.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2022)
Article
Multidisciplinary Sciences
S. M. Kamel, C. J. M. van Opbergen, C. D. Koopman, A. O. Verkerk, B. J. D. Boukens, B. de Jonge, Y. L. Onderwater, E. van Alebeek, S. Chocron, C. Polidoro Pontalti, W. J. Weuring, M. A. Vos, T. P. de Boer, T. A. B. van Veen, J. Bakkers
Summary: Mutation in Phospholamban (PLN) can lead to arrhythmogenic cardiomyopathy in patients. Using a zebrafish model with the PLN p.Arg14del mutation, researchers found that istaroxime can rescue some phenotypes associated with the disease, including cardiac dysfunction and altered calcium dynamics.
NATURE COMMUNICATIONS
(2021)
Article
Cell Biology
Dimitrios Grivas, Alvaro Gonzalez-Rajal, Jose Luis de la Pompa
Summary: Unlike mammalian hearts, adult zebrafish hearts can regenerate after injury. Mdka plays a critical role in fibrosis regulation during zebrafish heart regeneration, with loss of mdka resulting in decreased endothelial cell proliferation and an arrest in heart regeneration characterized by a collagenous scar. Increased collagen transcription and intense TGF beta signaling activity were also observed in mdka knockout zebrafish strains.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Hong Ma, Ziqing Liu, Yuchen Yang, Dong Feng, Yanhan Dong, Tiffany A. Garbutt, Zhiyuan Hu, Li Wang, Changfei Luan, Cynthia D. Cooper, Yun Li, Joshua D. Welch, Li Qian, Jiandong Liu
Summary: Single-cell transcriptomic analysis reveals the diversity and subpopulation distribution of non-cardiomyocytes during cardiac regeneration, with macrophages playing a key role in activating fibroblast and endothelial cell subpopulations. The study also identifies dynamic transitions between macrophage functional states and factors associated with mRNA processing and transcriptional regulation. A blueprint for interrogating the molecular and cellular basis of cardiac regeneration is provided.
Article
Genetics & Heredity
Eva T. Kramer, Paula M. Godoy, Charles K. Kaufman
Summary: Transcriptional and epigenetic characterization of melanocytes and melanoma cells isolated from their in vivo context reveals key differences between these normal and cancer cell populations, providing insights for studying candidate regulators in genetically controlled in vivo environments.
G3-GENES GENOMES GENETICS
(2022)
Article
Anatomy & Morphology
Kwangdeok Shin, Ian J. Begeman, Jingli Cao, Junsu Kang
Summary: By studying the heterogeneity of noncardiomyocytes in regenerating zebrafish hearts, we identified cellular types and factors involved in cardiac regeneration, revealing regenerative features of the heart.
DEVELOPMENTAL DYNAMICS
(2022)
Article
Multidisciplinary Sciences
Eliza Duvall, Cecil M. Benitez, Krissie Tellez, Martin Enge, Philip T. Pauerstein, Lingyu Li, Songjoon Baek, Stephen R. Quake, Jason P. Smith, Nathan C. Sheffield, Seung K. Kim, H. Efsun Arda
Summary: This paper describes the molecular analysis of mouse pancreatic endocrine cell differentiation using single-cell transcriptomics, chromatin accessibility assays, and cytometry-based cell purification. The researchers uncover transcription factor networks that regulate pancreatic cell development and suggest the transcription factor Neurog3 may be important for specifying the pancreatic endocrine lineage. These findings have implications for improving diabetes therapy through replacement endocrine cells.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Genetics & Heredity
Ming-Kun Huang, Ling Zhang, Li-Meng Zhou, Wai-Shing Yung, Man-Wah Li, Hon-Ming Lam
Summary: Research identified 22,333 OCRs in wild soybean leaves, enriched at gene TSS and correlated with gene expression. These OCRs contained TF-binding motifs, forming a potential regulatory network. The activation histone mark H3K4me3 was closely associated with OCRs, while the repressive mark H3K27me3 was not, suggesting the importance of OCR duplication for plant genome architecture and gene regulation.
Article
Biotechnology & Applied Microbiology
Daniel Lindhorst, Marc S. Halfon
Summary: The overlap between activity-based and chromatin-based definitions of transcriptional enhancers is limited, suggesting the need for new approaches to define enhancers. The study reveals the poor agreement among existing methods and highlights the importance of reconciling the discrepancies in enhancer definition.
Article
Oncology
Masafumi Horie, Hidenori Tanaka, Masami Suzuki, Yoshihiko Sato, So Takata, Erina Takai, Naoya Miyashita, Akira Saito, Yoichiro Nakatani, Shinichi Yachida
Summary: This study explored the epigenomic landscape of GIS-NEC and SCLC and identified ELF3 as a super-enhancer-related transcription factor in NEC. ELF3 regulates multiple genes and its depletion leads to poor cell viability. Moreover, GIS-NEC patients can be divided into two subgroups based on the ELF3 signature, with tumor-promoting pathways being activated in the ELF3 signature-high group.
Review
Cell Biology
Virginia Panara, Rui Monteiro, Katarzyna Koltowska
Summary: Epigenetic regulation plays a crucial role in the spatiotemporal regulation of gene expression, particularly in the field of vascular biology in zebrafish. The latest technologies enable researchers to assess genome-wide epigenetic modifications and validate the activity of cis-regulatory elements in zebrafish models. This research has led to breakthroughs in identifying and characterizing key enhancers of important vascular genes.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2022)
Article
Multidisciplinary Sciences
Masahito Ogawa, Fan-Suo Geng, David T. Humphreys, Esther Kristianto, Delicia Z. Sheng, Subhra P. Hui, Yuxi Zhang, Kotaro Sugimoto, Maki Nakayama, Dawei Zheng, Daniel Hesselson, Mark P. Hodson, Ozren Bogdanovic, Kazu Kikuchi
Summary: Our research identified Klf1 as a key transcriptional regulator of cardiomyocyte renewal in adult zebrafish hearts, supporting myocardial expansion through epigenetic reprogramming and rewiring of mitochondrial metabolism.
Article
Automation & Control Systems
Tianjiao Lin, Huaqing Wang, Xudong Guo, Pengxin Wang, Liuyang Song
Summary: This paper proposes a feature-transferred prediction network (FTPN) to improve the RUL prediction of CNC machine tools and other rotating machinery. The method combines the neural network approach in the field of artificial intelligence and adapt to various working conditions. By pre-training a convolutional neural network (CNN) for fault recognition and transferring the fault feature information to the target network, the proposed method achieves high prediction accuracy. Experimental results using a public data set of accelerated life of bearings demonstrate the effectiveness and industrial applicability of the proposed method.
INTERNATIONAL JOURNAL OF ADVANCED MANUFACTURING TECHNOLOGY
(2023)
Article
Environmental Sciences
Hui-ru Li, Xi-hang Fu, Ling-ling Song, Man-qiu Cen, Jing Wu
Summary: This study found an association between pyrethroid exposure and the risk of depressive symptoms. The levels of urinary 3-PBA were non-linearly related to the risk of depressive symptoms, and trouble sleeping may mediate this association.
ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH
(2023)
Article
Chemistry, Organic
Liyan Song, Yiqin Zhou, Hanbin Liang, Hongzuo Li, Yunrong Lai, Hongliang Yao, Ran Lin, Rongbiao Tong
Summary: Semipinacol rearrangement is a valuable method for the synthesis of natural products and construction of highly congested quaternary carbons. Here, a safe and green protocol for halogenative semipinacol rearrangement is reported, which offers the advantages of easy operation and insensitivity to air and moisture.
JOURNAL OF ORGANIC CHEMISTRY
(2023)
Review
Dentistry, Oral Surgery & Medicine
Hanshu Yu, Luyao Song, Xiangyao Duan, Danji Zhu, Na Li, Runxin Pan, Rui Xu, Xinying Yu, Fengkai Ye, Xinrui Jiang, Han Ye, Zikang Pan, Sixing Wei, Zhiwei Jiang
Summary: The electrophysiological function of the tongue involves complex activities in taste perception of salty, sweet, bitter, and sour. Further fundamental research is needed for therapies and prevention of taste loss caused by dysfunction in electrophysiological activity. The application of optogenetics in taste research has revolutionized neuroscience and opened new opportunities for understanding sensory systems.
Article
Chemistry, Applied
Liying Song, Zhan Gao, Qiang Sun, Guiwen Chu, Hao Shi, Ningjing Xu, Zhenxing Li, Nini Hao, Xiaoying Zhang, Fubin Ma, Lifei Wang
Summary: Hollow mesoporous silica microspheres (HMSN) were used as carriers to store 2-aminino-5-mercato-1,3,4-thiadizole (ATM) in this experiment. The synthesised microspheres were uniformly dispersed with a diameter of approximately 500 nm, as confirmed by scanning electron microscopy. HMSN, as excellent nanocarriers, were employed to encapsulate ATM with a loading rate of 19 wt%. The addition of 18 wt% HMSN loaded with ATM to the coating improved the self-healing ability of the coating. Electrochemical impedance spectroscopy and scanning Kelvin probes were utilized to investigate the corrosion resistance of the coating.
PROGRESS IN ORGANIC COATINGS
(2023)
Article
Soil Science
Teng Yang, Luyao Song, Han-Yang Lin, Ke Dong, Xiao Fu, Gui-Feng Gao, Jonathan M. Adams, Haiyan Chu
Summary: The study found that plant phylogenetic relationships significantly influence fungal community structure in tree roots and surrounding soils. However, little research has been done on whether plant phylogenetic relationships within a single species can also affect fungal communities. The researchers surveyed ectomycorrhizal (EcM) and saprotrophic (SAP) fungal community structure in the fine roots and neighboring soils of Betula ermanii along the Changbai Mountain timberline. They found that within-species plant phylogeny was the main driver of EcM fungal community composition in roots, while geographic distance had the strongest influence on SAP fungal community composition in both soils and roots. Overall, the study shows that within-species plant phylogeny plays a crucial role in shaping EcM fungal communities in roots, and the assembly of fungal communities is dependent on both guild and habitat.
SOIL BIOLOGY & BIOCHEMISTRY
(2023)
Article
Biochemistry & Molecular Biology
Hui Shi, Jianhuan Li, Fei Liu, Sixue Bi, Weijuan Huang, Yuanyuan Luo, Man Zhang, Liyan Song, Rongmin Yu, Jianhua Zhu
Summary: A novel water-soluble alpha-d-glucan (ASPG-1) with immunoregulatory activity was purified and characterized from Arca subcrenata. ASPG-1 promoted lymphocyte viability, enhanced pinocytic capacity, and stimulated the secretion of NO and cytokines. It inhibited tumor growth in breast cancer mice and showed improved antitumor efficacy when combined with doxorubicin. Therefore, ASPG-1 has the potential to be developed as an adjuvant in tumor immunotherapy.
Article
Chemistry, Physical
Zhi-Qiang Wang, Xiao-Dong Liu, Hong-Ming Chen, Xiang-Yu Zhu, Li-Ying Song, Yun-Guo Yang, Jing Bai, M. J. Kim, Woon-Ming Lau, Federico Rosei, Dan Zhou
Summary: We report porous reduced graphene oxide boosted a-MnOx microspheres (PrGO-MnOx) as a cathode material for aqueous zinc ion batteries (AZIBs), which show a high capacity, high-rate capability, and ultra-long lifespan. The Zn-storage mechanism of PrGO-MnOx was elucidated via ex situ measurements, revealing the transformation of a-MnOx phase into amorphous Zn-buserite during initial cycles. The excellent performance of PrGO-MnOx was attributed to the amorphous structure of Zn-buserite, fast reaction kinetics, increased electron conductivity, improved Zn2+ diffusion rate, and high pseudocapacitance. A PrGO-MnOx||AQ full-battery also demonstrated impressive cycling stability and a high discharge plateau, suggesting its potential for practical applications.
JOURNAL OF MATERIALS CHEMISTRY A
(2023)
Article
Endocrinology & Metabolism
Wei Liu, Liying Song, Wei Sun, Weijin Fang, Chunjiang Wang
Summary: By retrospectively analyzing the distribution of pathogenic bacteria and antimicrobial susceptibility in 581 patients with diabetic foot infections (DFI), it was found that there were variations in the distribution of pathogens and drug susceptibility among patients with different Wagner grades, providing guidance for clinical empirical treatment and rational selection of antibacterial drugs.
FRONTIERS IN ENDOCRINOLOGY
(2023)
Article
Economics
Tolassa Temesgen Hordofa, Hieu Minh Vu, Apichit Maneengam, Nafeesa Mughal, Phan The Cong, Song Liying
Summary: This study examines the impact of eco-innovation and green investment on CO2 emissions using China's data from 1990 to 2019. The empirical findings confirm that eco-innovation and green investment have a negative effect on CO2 emissions, suggesting the importance of strengthening environmentally friendly policies and advancing green investment to mitigate CO2 emissions.
ECONOMIC RESEARCH-EKONOMSKA ISTRAZIVANJA
(2023)
Article
Environmental Sciences
Liyan Song, Shu Yang, Zhourui Gong, Jun Wang, Xianyang Shi, Yangqing Wang, Rui Zhang, Yongchun Wu, Yongli Z. Wager
Summary: This review provides an overview of the global status of antibiotics and antibiotic resistance, and offers recommendations for future research directions, including long-term antibiotic resistance environmental behavior, multidrug resistance gene distribution and dynamics, link between antibiotic resistance and the host, coevolution of ARGs and microplastics as emerging contaminants, antibiotic resistance risk assessment, and towards a one health framework in the landfill system.
CURRENT OPINION IN ENVIRONMENTAL SCIENCE & HEALTH
(2023)
Article
Plant Sciences
Huan-Yi Xu, Quan-Cen Li, Wen-Jie Zhou, Hai-Bo Zhang, Zhi-Xian Chen, Ning Peng, Shi-Yu Gong, Bin Liu, Feng Zeng
Summary: The antioxidative and antiaging abilities of probiotic fermented ginseng (PG) were evaluated in Caenorhabditis elegans (C. elegans). The results showed that PG significantly enhanced the lifespan of C. elegans and improved their resistance to heat stress and acute oxidative stress. The mechanism behind these activities was found to involve up-regulation of antioxidative enzymes and down-regulation of oxidative stress markers. Furthermore, PG was found to modulate gut microbiota composition, increase the abundance of beneficial bacteria, and regulate metabolic pathways related to antioxidant and antiaging activities in C. elegans.
PLANT FOODS FOR HUMAN NUTRITION
(2023)
Article
Materials Science, Multidisciplinary
Yinkai Shi, Hua Yu, Shizhong Wei, Weimin Long, Yunpeng Li, Liangliang Zhang, Xinna Cao, Lingling Huang, Luyang Song, Zhuoli Yu, Sujuan Zhong, Yongtao Jiu, Yunfeng Chang
Summary: The purpose of this article was to provide a theoretical basis for the manufacture and practical working application of metal composite plates by simulating the influence of post-weld heat treatment on the interfacial characteristics, microstructure, composition, and mechanical properties of copper/steel composite plates. The study investigated the microstructure and melting properties of BAg30T filler metal and evaluated the effect of heat treatment on the microstructure and mechanical properties of Cu-Fe dissimilar metal joints. The results showed significant changes in the microstructure and mechanical properties of the joints, and the PWHT process at 600 degrees C improved the tensile strength of the brazed joint.
MATERIALS TODAY COMMUNICATIONS
(2023)
Article
Genetics & Heredity
Tongyu Sun, Yueyuan Xu, Yu Xiang, Jianhong Ou, Erik J. Soderblom, Yarui Diao
Summary: Transposable elements (TEs) are parasitic DNA sequences that make up over half of the human genome. The regulation of TEs is crucial for genome integrity, development, immunity, and diseases. A study found that the RNA m(6)A reader, YTHDC2, interacts with m(6)A-modified HERV-H RNAs to bind to LTR7/HERV-H, a primate-specific TE. YTHDC2 recruits the DNA 5mC-demethylase, TET1, to remove 5mC from LTR7/HERV-H and prevent epigenetic silencing. This interplay between RNA m(6)A and DNA 5mC controls TE activity and cell fate in human embryonic stem cells.
Article
Medicine, Research & Experimental
Mu-En Wang, Jiaqi Chen, Yi Lu, Alyssa R. Bawcom, Jinjin Wu, Jianhong Ou, John M. Asara, Andrew J. Armstrong, Qianben Wang, Lei Li, Yuzhuo Wang, Jiaoti Huang, Ming Chen
Summary: Inactivation of the RB1 tumor suppressor gene is common in therapy-resistant cancers and predicts poor clinical outcomes. Loss of RB1 and activation of E2F sensitizes cancer cells to ferroptosis, and targeting this pathway with a GPX4 inhibitor inhibits tumor growth and improves survival in RB1-deficient cancers. These findings suggest a promising therapeutic approach for RB1-deficient malignancies.
JOURNAL OF CLINICAL INVESTIGATION
(2023)
