Article
Agriculture, Dairy & Animal Science
Du Zhang, Shumei Wu, Xinxin Zhang, Shuqiang Ren, Zhonglin Tang, Fei Gao
Summary: This study reveals the coordinated regulatory mechanism of 5mC and m(6)A in porcine prenatal myogenesis and postnatal skeletal muscle growth, and identifies a group of myogenesis-related genes collaboratively regulated by these two modifications.
JOURNAL OF ANIMAL SCIENCE AND BIOTECHNOLOGY
(2022)
Review
Genetics & Heredity
Dongdong Lu, Jixian Zhai, Mengli Xi
Summary: The endosperm is a crucial storage tissue in plant seeds, providing nutrients for embryos or seedlings during seed development and germination. Although genetic information in the endosperm cannot be directly passed on, its inherited epigenetic marks have an impact on gene expression and subsequently influence embryo and seed growth. Understanding the effects of endosperm DNA methylation on crop yield and traits is highly significant.
FRONTIERS IN GENETICS
(2022)
Review
Plant Sciences
Qiuxin Kan, Qing Li
Summary: Transposons are mobile DNA sequences that can influence gene expression. Recent studies have shown that transposon insertions can affect RNA processing, RNA stability, protein translation, and protein stability. This article will describe the diverse mechanisms by which transposons can impact gene expression at the post-transcriptional and translational levels.
CURRENT OPINION IN PLANT BIOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Georgina Pearson, Chenchen Song, Sonja Hohmann, Tatyana Prokhorova, Tanja Maria Sheldrick-Michel, Thomas Knopfel
Summary: DNA methylation analysis has shown promise in identifying biomarkers for neuropsychiatric disorders, and our study found differential methylation patterns in the GAD1 gene of individuals with autism spectrum disorder.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Immunology
Juliette Roels, Jolien Van Hulle, Marieke Lavaert, Anna Kuchmiy, Steven Strubbe, Tom Putteman, Bart Vandekerckhove, Georges Leclercq, Filip Van Nieuwerburgh, Lena Boehme, Tom Taghon
Summary: This study investigates the regulatory dynamics of E and ID protein encoding genes during pediatric human T cell development and uncovers novel insights through cross-species and cross-developmental comparisons.
FRONTIERS IN IMMUNOLOGY
(2022)
Article
Biotechnology & Applied Microbiology
Yang Anqi, Yan Saina, Chen Chujie, Yin Yanfei, Tang Xiangwei, Ma Jiajia, Xiang Jiaojiao, Ran Maoliang, Chen Bin
Summary: This study generated a DNA methylome and transcriptome atlas of precocious porcine testicular tissues, providing insights into the dynamic regulatory mechanisms of DNA methylation during testicular development. The results showed a direct relationship between dynamic methylation patterns and the expression of the DNMT3A gene. Promoter methylation was found to negatively regulate 3' UTR methylation. Additionally, decreased promoter methylation affected the upregulation of meiosis-related genes, while demethylation in the 3' UTR led to the downregulation of the INHBA gene. These findings contribute to a better understanding of the regulatory mechanisms of DNA methylation in testicular development.
Review
Biochemistry & Molecular Biology
Ashby J. Morrison
Summary: Cellular adaptation to nutrient environment is crucial for survival, failure to adapt can result in cell death and diseases. Metabolism alterations, particularly in cancer cells, play a significant role in the pathogenesis of diseases. Recent studies have shown the interplay between metabolic pathways, epigenetic modifications, and transcriptional regulation in cancer cells.
Article
Cell Biology
Rui Gao, Shiyang Zeng, Dongxu Yang, Xiaocui Li, Wenqiang Liu, Yawei Gao, Dandan Bai, Linfeng Zhang, Chuan Chen, Yunzhe Kang, Beiying Wang, Wei Hong, Mingzhu Wang, Jiqing Yin, Hong Wang, Qiaolin Deng, Shaorong Gao, Yong Zhang, Jiayu Chen
Summary: Histone modifications play critical roles in regulating gene expression during early embryo development. This study provides the first genome-wide profiles of three key histone modifications in human primordial germ cells, revealing the positive correlation between H3K4me3 and gene expression, as well as the important roles of H3K27me3 in regulating specific promoters and X chromosome reactivation. The repressive marks of H3K9me3 and H3K27me3 jointly regulate demethylation-resistant regions in hPGCs.
Article
Biotechnology & Applied Microbiology
Yixuan Fan, Caifang Ren, Kaiping Deng, Zhen Zhang, Juan Li, Mingtian Deng, Yanli Zhang, Feng Wang
Summary: DNA methylation plays a crucial role in regulating lncRNA expression during skeletal muscle development, as observed in the differential expression and methylation patterns of the lncRNA GTL2. The methylation levels of GTL2 DMRs increase with age, and 5AZA treatment enhances GTL2 expression. Moreover, dCas9-DNMT3A effectively increases the methylation level in the DMR region of GTL2 but reduces its expression level.
Review
Immunology
Xueyang Bao, Yingyu Qin, Linrong Lu, Mingzhu Zheng
Summary: This review summarizes the transcriptional regulators involved in the early stages of T cell development and explores the cascade networks during the entire developmental process. Using advanced techniques, this study provides possible directions for future research.
FRONTIERS IN IMMUNOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Jun Sugimoto, Danny J. Schust, Makiko Sugimoto, Yoshihiro Jinno, Yoshiki Kudo
Summary: This study investigates the regulatory mechanisms of suppressyn expression in the placenta. The placenta-specific expression of suppressyn is controlled by DNA methylation and oxygen concentration. The findings provide important insights into normal and abnormal placental development, as well as pregnancy disorders associated with altered oxygenation.
Review
Plant Sciences
Elizabeth A. Hemenway, Mary Gehring
Summary: The establishment, maintenance, and removal of epigenetic modifications in plants provide an additional layer of regulation beyond genetic factors, allowing for control of developmental processes and adaptation to the environment. Epigenetic inheritance, which can refer to information not encoded in the DNA sequence inherited between generations or epigenetic modifications reset between generations, is of great interest in understanding the functions and mechanisms in plants. This article discusses examples of epigenetic dynamics and maintenance during growth and development stages and their functional consequences, as well as the dynamic nature of epigenetic states in response to stress and their impact on transposable element regulation. The emerging area of research focuses on understanding how epigenetic resetting occurs during normal development and in response to stress.
ANNUAL REVIEW OF PLANT BIOLOGY
(2023)
Article
Plant Sciences
Hang Yu, Na Cui, Kun Guo, Wen Xu, Haifeng Wang
Summary: Honeysuckle flowers undergo color changes during development, which are regulated by DNA methylation.
HORTICULTURAL PLANT JOURNAL
(2023)
Review
Cell Biology
Trisha A. Macrae, Julie Fothergill-Robinson, Miguel Ramalho-Santos
Summary: Cells differentiate and progress through development guided by a dynamic chromatin landscape that mediates gene expression programmes. The bivalent chromatin state, characterized by both gene activation and repression histone modifications, is crucial for cell lineage specification. Recent research has provided new insights into the molecular basis of bivalent chromatin and its roles in development and cancer.
NATURE REVIEWS MOLECULAR CELL BIOLOGY
(2023)
Review
Biochemistry & Molecular Biology
Ruijie Cai, Runyu Lv, Xin'e Shi, Gongshe Yang, Jianjun Jin
Summary: CRISPR/Cas9-mediated gene editing has been widely used due to its programmability and specificity, but can also affect genome stability. Recently, fusion proteins with transcriptional activator/inhibitor effects have been developed by linking proteins to dCas9 to regulate gene transcription. These tools have important applications in gene regulation, functional studies, target gene screening, and disease treatment.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Gastroenterology & Hepatology
Ingrid W. Zhang, Anna Curto, Cristina Lopez-Vicario, Mireia Casulleras, Marta Duran-Guell, Roger Flores-Costa, Benoit Colsch, Ferran Aguilar, Ana M. Aransay, Juan Jose Lozano, Maria Hernandez-Tejero, David Toapanta, Javier Fernandez, Vicente Arroyo, Joan Claria
Summary: The study revealed severe mitochondrial dysfunction in leukocytes of patients with acute decompensated cirrhosis and ACLF, suggesting that mitochondrial abnormalities in body tissues may be a consequence of inadequate cell energy output.
JOURNAL OF HEPATOLOGY
(2022)
Editorial Material
Genetics & Heredity
Ramon Maria Rodriguez, Maria Laura Saiz, Beatriz Suarez-Alvarez, Carlos Lopez-Larrea
Summary: The aging process is linked to epigenetic changes in immune cells, but the source of these alterations is not clear. Understanding this epigenetic drift in the immune system can offer crucial insights into the aging process and each individual's immune history.
TRENDS IN GENETICS
(2022)
Article
Biochemistry & Molecular Biology
Beatriz Lozano-Ruiz, Amalia Tzoumpa, Claudia Martinez-Cardona, David Moreno, Ana M. Aransay, Ana R. Cortazar, Joanna Pico, Gloria Peiro, Juanjo Lozano, Pedro Zapater, Ruben Frances, Jose M. Gonzalez-Navajas
Summary: This study demonstrates that AIM2 is not only important in innate immune cells but also plays a crucial role in CD4(+) T cells, specifically in the differentiation and function of regulatory T cells (Tregs).
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biotechnology & Applied Microbiology
Sergio Lario, Maria J. Ramirez-Lazaro, Anna Brunet-Vega, Maria Vila-Casadesus, Ana M. Aransay, Juan J. Lozano, Xavier Calvet
Summary: This study identified co-expression modules and differential gene expression in dyspeptic patients at different stages of the Correa pathway using weighted gene co-expression network analysis (WGCNA). The results provide valuable information for understanding the pathogenesis and progression of precancerous lesions of gastric cancer (PLGC).
Article
Immunology
Maria Jesus Garcia-Leon, Marta Mosquera, Carmela Cela, Juan Alcain, Saulius Zuklys, Georg Hollander, Maria L. Toribio
Summary: Notch signaling plays a crucial role in fate determination and development of thymus-seeding progenitors along the T-cell lineage. It is not only activated in fetal thymic epithelial cells (TECs), but also induced in postnatal cortical and medullary TECs with age. Disruption of Notch signaling leads to reduced medullary region and accelerated degeneration of medullary TECs.
FRONTIERS IN IMMUNOLOGY
(2022)
Article
Obstetrics & Gynecology
Jone Ibanez-Perez, Maria Diaz-Nunez, Marc Clos-Garcia, Lucia Lainz, Maria Iglesias, Miren Diez-Zapirain, Aintzane Rabanal, Laura Barcena, Monika Gonzalez, Juan J. Lozano, Urko M. Marigorta, Esperanza Gonzalez, Felix Royo, Ana M. Aransay, Nerea Subiran, Roberto Matorras, Juan Manuel Falcon-Perez
Summary: Free and extracellular vesicle-associated miRNAs from human endometrial fluid can be used as non-invasive biomarkers for detecting implantative endometrium. By analyzing miRNAs from the fluid, this technique could potentially improve implantation rates in assisted reproductive technology.
HUMAN REPRODUCTION
(2022)
Review
Biochemistry & Molecular Biology
Maria Luisa Toribio, Sara Gonzalez-Garcia
Summary: T-cell acute lymphoblastic leukemia (T-ALL) is an aggressive hematological disease that arises from the oncogenic transformation of developing T cells during T-lymphopoiesis. Efforts have been made to understand the mechanisms underlying NOTCH1 activation and develop targeted therapies for T-ALL.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biochemistry & Molecular Biology
Ainara Cano, Mercedes Vazquez-Chantada, Javier Conde-Vancells, Aintzane Gonzalez-Lahera, David Mosen-Ansorena, Francisco J. J. Blanco, Karine Clement, Judith Aron-Wisnewsky, Albert Tran, Philippe Gual, Carmelo Garcia-Monzon, Joan Caballeria, Azucena Castro, Maria Luz Martinez-Chantar, Jose M. Mato, Huiping Zhu, Richard H. H. Finnell, Ana M. M. Aransay
Summary: Low serum folate levels are associated with metabolic associated fatty liver disease (MAFLD). The role of the folate transporter gene (SLC19A1) in lipid accumulation during the onset of MAFLD was assessed through genomic, transcriptomic, and metabolomic techniques. SNPs rs1051266 and rs3788200 were significantly associated with fatty liver development, and the lack of functional SLC19A1 affected gene regulation and lipid metabolism, leading to lipid droplet accumulation in hepatocytes.
Article
Medicine, Research & Experimental
Ana Garcia-del Rio, Endika Prieto-Fernandez, Leire Egia-Mendikute, Asier Antonana-Vildosola, Borja Jimenez-Lasheras, So Young Lee, Adrian Barreira-Manrique, Samanta Romina Zanetti, Ander de Blas, Paloma Velasco-Beltran, Alexandre Bosch, Ana M. Aransay, Asis Palazon
Summary: Factor-inhibiting HIF (FIH) is an asparagine hydroxylase expressed in tumors, and its deletion may lead to increased metabolism, decreased proliferation, and increased immune infiltration in cancer cells.
Meeting Abstract
Gastroenterology & Hepatology
Maider Apodaka-Biguri, Francisco Gonzalez-Romero, Andre L. Simao, Daniela Mestre Congregado, Igor Aurrekoetxea, Beatriz Gomez Santos, Igotz Delgado, Xabier Buque, Ane Nieva-Zuluaga, Mikel Ruiz de Gauna, Idoia Fernandez-Puertas, Ainhoa Iglesias, Ana Maria Aransay, Juanjo Lozano, Cesar Augusto Martin, Irantzu Bernales, Pedro Miguel Rodrigues, Jesus Maria Banales, Ana Zubiaga, Rui E. Castro, Patricia Aspichueta
JOURNAL OF HEPATOLOGY
(2023)
Meeting Abstract
Immunology
F. Bayon-Calderon, P. Fuentes, C. Cela, J. Alcain, M. L. Toribio, S. Gonzalez-Garcia
EUROPEAN JOURNAL OF IMMUNOLOGY
(2022)
Meeting Abstract
Immunology
Rodriguez C. Cela, Garcia S. Gonzalez, J. Alcain, L. Boni, Senovilla A. Pastor, Granados L. Gonzalez, M. L. Toribio
EUROPEAN JOURNAL OF IMMUNOLOGY
(2022)
Meeting Abstract
Obstetrics & Gynecology
J. Ibanez Perez, M. Diaz-Nunez, M. Clos-Garcia, L. Lainz, M. Iglesias, M. Diez-Zapirain, A. Rabanal, J. J. Lozano, U. M. Marigorta, E. Gonzalez, F. Royo, A. M. Aransay, N. Subiran, R. Matorras, J. M. Falcon-Perez
HUMAN REPRODUCTION
(2022)
Meeting Abstract
Gastroenterology & Hepatology
Maider Apodaka-Biguri, Francisco Gonzalez-Romero, Daniela Mestre Congregado, Igor Aurrekoetxea, Beatriz Gomez Santos, Igotz Delgado, Xabier Buque, Ane Nieva-Zuluaga, Mikel Ruiz de Gauna, Idoia Fernamdez-Puertas, Ainhoa Iglesias, Ana Maria Aransay, Juanjo Lozano, Cesar Augusto Martin, Irantzu Bernales, Ana Zubiaga, Patricia Aspichueta
JOURNAL OF HEPATOLOGY
(2022)
Article
Multidisciplinary Sciences
Ainize Pena-Cearra, Miguel Angel Pascual-Itoiz, Jose Luis Lavin, Miguel Fuertes, Itziar Martin-Ruiz, Janire Castelo, Ainhoa Palacios, Diego Barriales, Asier Fullaondo, Ana M. Aransay, Hector Rodriguez, Juan Anguita, Leticia Abecia
Summary: Inflammatory bowel disease (IBD) is a complex and chronic disease. This study found that MCJ deficiency leads to increased TACE activity in chronic inflammation, affecting the metabolic adaptation of colon tissue and potentially associated with reduced microbial members associated with inflammation.
SCIENTIFIC REPORTS
(2022)