Article
Dermatology
Moamen Masalha, Iddo Z. Ben-Dov, Oren Ram, Tal Meningher, Jasmine Jacob-Hirsch, Riad Kassem, Yechezkel Sidi, Dror Avni
Summary: This study compared the H3K27Ac modification pattern between psoriatic lesions, uninvolved psoriatic skin, and healthy skin using ChIP-seq, aiming to identify new genes involved in the pathogenesis of psoriasis. The research found differential H3K27Ac patterns in psoriatic skin compared to uninvolved or healthy skin, and revealed an enrichment of H3K27Ac in overexpressed genes in psoriasis, potentially implicating the GRHL transcription factor.
JOURNAL OF DERMATOLOGICAL SCIENCE
(2021)
Article
Multidisciplinary Sciences
Shuai Zhao, Kelly N. Chuh, Baichao Zhang, Barbara E. Dul, Robert E. Thompson, Lorna A. Farrelly, Xiaohui Liu, Ning Xu, Yi Xue, Robert G. Roeder, Ian Maze, Tom W. Muir, Haitao Li
Summary: The study found that the readers of H3K4me3 retain binding to H3K4me3Q5ser, while the erasers are significantly inhibited. The results suggest that H3Q5ser may potentially fine-tune critical gene expression programs by stabilizing H3K4me3 from dynamic turnover or enhancing its physical readout by downstream effectors.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Multidisciplinary Sciences
Xukun Lu, Yu Zhang, Lijuan Wang, Leyun Wang, Huili Wang, Qianhua Xu, Yunlong Xiang, Chaolei Chen, Feng Kong, Weikun Xia, Zili Lin, Sinan Ma, Ling Liu, Xiangguo Wang, Hemin Ni, Wei Li, Yong Guo, Wei Xie
Summary: The study revealed species-specific innovations in the conservation of parental-to-embryonic epigenetic transition across mammals, with no single animal model fully recapitulating the human epigenetic transition. Different mammalian species focus on a delicate balance of methylating imprints while protecting other regulatory regions during the parental-to-embryonic transition.
Article
Biochemistry & Molecular Biology
Hiroto S. Fukushima, Hiroyuki Takeda, Ryohei Nakamura
Summary: Epigenetic modifications undergo erasure and reestablishment after fertilization, with some histone modifications escaping reprogramming. In nonmammalian vertebrates, most histone modifications are thought to be intensively erased and reestablished. However, the histone modifications that escape reprogramming in nonmammalian vertebrates and their potential functional roles remain unknown.
Article
Plant Sciences
Konstantin O. Kutashev, Michal Franek, Klev Diamanti, Jan Komorowski, Marie Olsinova, Martina Dvorackova
Summary: Arabidopsis thaliana's 45S ribosomal genes are located on the termini of chromosomes 2 and 4, encoding rRNA. Not all intranucleolar rDNA is active, with some forming condensed foci marked with repressive histone marks. The condensed foci relate to rDNA folding and contain typical modifications of inactive rDNA.
Review
Genetics & Heredity
Pierre Caron, Enrico Pobega, Sophie E. Polo
Summary: Recent studies have revealed the essential role of heterochromatin marks and associated factors in DNA double-strand break (DSB) repair pathways, influencing repair pathway choice within the nucleus. Heterochromatin features can affect DSB repair pathway choice and support repair processes within the cell nucleus.
FRONTIERS IN GENETICS
(2021)
Article
Biochemistry & Molecular Biology
Alex Pablo-Kaiser, McKenzie G. Tucker, Grace A. Turner, Elijah G. Dilday, Avery G. Olmstead, Caroline L. Tackett, Andrea A. Duina
Summary: Recent studies have found an association between the L61R substitution in human histone H3.3 protein and neurodevelopmental disorders. This substitution, encoded by one allele of the H3F3A gene, may act in a dominant fashion. Previous studies have shown that other amino acid substitutions at H3-L61 result in the accumulation of Spt16 at the 3' end of transcribed genes. This study demonstrates that the H3-L61R mutant also impairs Spt16 dissociation.
Article
Multidisciplinary Sciences
Cong Zhang, Huaisong Lin, Yanqi Zhang, Qi Xing, Jingyuan Zhang, Di Zhang, Yancai Liu, Qianyu Chen, Tiancheng Zhou, Junwei Wang, Yongli Shan, Guangjin Pan
Summary: In this study, researchers found that the protein BRPF1 plays an important role in maintaining pluripotency in human embryonic stem cells (hESCs). BRPF1, along with H3K4me3 and H3K23ac, co-occupy the open chromatin and stemness genes in hESCs. Deletion of BRPF1 leads to decreased H3K23ac, closed chromatin accessibility on stemness genes, and hESC differentiation. The different modules of BRPF1 have varying impacts on its functions in hESCs.
Article
Biology
Shaofei Zhang, Yuri Postnikov, Alexei Lobanov, Takashi Furusawa, Tao Deng, Michael Bustin
Summary: The nucleosome-binding proteins HMGN1 and HMGN2 prefer acetylated nucleosomes at H3K27ac, binding directly to the acetylated nucleosome which facilitates localization at cell-type specific chromatin regulatory regions. Loss of HMGNs alters the interaction of transcription factors with chromatin, indicating that the H3K27ac epigenetic mark enhances this interaction and modulates cell-type specific gene expression.
COMMUNICATIONS BIOLOGY
(2022)
Article
Biology
Sona Legartova, Gabriela Lochmanova, Eva Bartova
Summary: The study revealed differences in the levels and distribution of phosphorylated histone H1 and H3K9me3 during mitotic phases, and identified ESC-specific phosphorylation sites in a linker histone.
Article
Plant Sciences
Antonio J. Moreno-Perez, Jose M. Santos-Pereira, Raquel Martins-Noguerol, Cristina DeAndres-Gil, M. Adrian Troncoso-Ponce, Monica Venegas-Caleron, Rosario Sanchez, Rafael Garces, Joaquin J. Salas, Juan J. Tena, Enrique Martinez-Force
Summary: Histone modifications play a crucial role in plant development. This study investigated the relationship between epigenetic modifications H3K4me3 and the expression of fatty acid-related genes and transcription factors in developing sunflower seeds, revealing the cooperation of transcription factors VIV1 and FUS3 in regulating WRINKLED 1, a key transcriptional factor in glycolysis and fatty acid synthesis in oilseeds.
Article
Plant Sciences
Shahid Ali, Naeem Khan, Yulin Tang
Summary: Abiotic stressors significantly impact agricultural output. Plants have adaptive systems to respond to these stressors through epigenetic modifications, which play a functional role in gene expression. This study summarizes the epigenetic mechanisms, such as DNA methylation, histone modifications, and metabolites, involved in plant responses to environmental stress. Understanding these mechanisms is crucial for crop improvement, and genome editing offers sustainable genetic tools for agricultural engineering.
JOURNAL OF PLANT PHYSIOLOGY
(2022)
Review
Cell Biology
Reuben Franklin, Jernej Murn, Sihem Cheloufi
Summary: The increasing diversity of histone variants and chaperone partners highlights the versatility of nucleosome assembly in different cellular processes, impacting cell identity maintenance and fate decisions. Mutations and expression changes in histones and chaperones are linked to developmental defects and cancer. Modern technologies aid in dissecting the spatiotemporal control of histone variant deposition, providing insights into cell identity maintenance and lineage commitment in health and disease.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Article
Multidisciplinary Sciences
Taiko Kim To, Chikae Yamasaki, Shoko Oda, Sayaka Tominaga, Akie Kobayashi, Yoshiaki Tarutani, Tetsuji Kakutani
Summary: In plant genomes, both mCG and H3K9me2/mCH play important roles in silencing TEs. The establishment of mCH is dependent on the presence of mCG, and the efficiency of mCH targeting depends on the relative levels of mCG in the genome. The study also proposes a model where local positive feedback and global negative feedback regulate DNA methylation patterning.
NATURE COMMUNICATIONS
(2022)
Article
Plant Sciences
Weizhi Ouyang, Xiwen Zhang, Yong Peng, Qing Zhang, Zhilin Cao, Guoliang Li, Xingwang Li
Summary: In this study, researchers developed a nucleus CUT&Tag (nCUT&Tag) protocol based on the live-cell CUT&Tag technology, which allows for histone modifications profiling in both monocot rice and dicot rapeseed using minimal starting materials and completing all steps in just 1 day. nCUT&Tag can identify active and repressive histone marks such as H3K4me3 and H3K9me2 efficiently, making it a promising alternative strategy for plant epigenomic studies.
FRONTIERS IN PLANT SCIENCE
(2021)
Article
Biochemistry & Molecular Biology
Dariusz Zakrzewicz, Miroslava Didiasova, Marcus Krueger, Benedetto Daniele Giaimo, Tilman Borggrefe, Maren Mieth, Andreas C. Hocke, Anna Zakrzewicz, Liliana Schaefer, Klaus T. Preissner, Malgorzata Wygrecka
BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR BASIS OF DISEASE
(2018)
Article
Cell Biology
Zhenyu Yuan, Bradley D. VanderWielen, Benedetto Daniele Giaimo, Leiling Pan, Courtney E. Collins, Aleksandra Turkiewicz, Kerstin Hein, Franz Oswald, Tilman Borggrefe, Rhett A. Kovall
Review
Genetics & Heredity
Benedetto Daniele Giaimo, Francesca Ferrante, Andreas Herchenroether, Sandra B. Hake, Tilman Borggrefe
EPIGENETICS & CHROMATIN
(2019)
Article
Multidisciplinary Sciences
Rodrigo Dieguez-Hurtado, Katsuhiro Kato, Benedetto Daniele Giaimo, Melina Nieminen-Kelhae, Hendrik Arf, Francesca Ferrante, Marek Bartkuhn, Tobias Zimmermann, M. Gabriele Bixel, Hanna M. Eilken, Susanne Adams, Tilman Borggrefe, Peter Vajkoczy, Ralf H. Adams
NATURE COMMUNICATIONS
(2019)
Letter
Oncology
Mridul Agrawal, Peggy Schwarz, Benedetto Daniele Giaimo, Ivan Bedzhov, Andrea Corbacioglu, Daniela Weber, Verena I. Gaidzik, Nikolaus Jahn, Frank G. Ruecker, Thomas Schroeder, Thomas Kindler, Mohammed Wattad, Katharina Goetze, Michael Luebbert, Hans Salwender, Mark Ringhoffer, Elisabeth Lange, Elisabeth Koller, Felicitas Thol, Michael Heuser, Arnold Ganser, Lars Bullinger, Peter Paschka, Hartmut Doehner, Hartmut Geiger, Tilman Borggrefe, Konstanze Doehner, Franz Oswald
Article
Biochemistry & Molecular Biology
Francesca Ferrante, Benedetto Daniele Giaimo, Marek Bartkuhn, Tobias Zimmermann, Viola Close, Daniel Mertens, Andrea Nist, Thorsten Stiewe, Johanna Meier-Soelch, Michael Kracht, Steffen Just, Patricia Kloeble, Franz Oswald, Tilman Borggrefe
NUCLEIC ACIDS RESEARCH
(2020)
Review
Oncology
Benedetto Daniele Giaimo, Teresa Robert-Finestra, Franz Oswald, Joost Gribnau, Tilman Borggrefe
Summary: XCI, a chromatin-based mechanism, is involved in establishing facultative heterochromatin on one X chromosome in females to regulate gene expression dosage. The upregulation of Xist, binding to SHARP/SPEN, and recruitment/activation of histone deacetylases are key steps in this process. Polycomb complexes then establish repressive chromatin marks, ultimately leading to the stable silencing of the X chromosome by DNA methyltransferases. Understanding the molecular mechanisms of XCI can provide insights for cancer biology and disease research.
Article
Genetics & Heredity
Malgorzata Sotomska, Robert Liefke, Francesca Ferrante, Heiko Schwederski, Franz Oswald, Tilman Borggrefe
Summary: The study identified that L3MBTL2 and other members of the non-canonical polycomb repressive complex PRC1.6 interact with DNA-bound RBPJ and found that absence of L3MBTL2 reduces RBPJ occupancy at enhancers of Notch target genes. RBPJ binds to SUMO2/3 and this interaction depends on a defined SUMO-interaction motif, with pharmacological inhibition of SUMOylation leading to reduced occupancy of RBPJ at Notch target genes.
EPIGENETICS & CHROMATIN
(2021)
Article
Multidisciplinary Sciences
Teresa Robert-Finestra, Beatrice F. Tan, Hegias Mira-Bontenbal, Erika Timmers, Cristina Gontan, Sarra Merzouk, Benedetto Daniele Giaimo, Francois Dossin, Wilfred F. J. van IJcken, John W. M. Martens, Tilman Borggrefe, Edith Heard, Joost Gribnau
Summary: The study demonstrates that SPEN plays a crucial role in the initiation of X chromosome inactivation by mediating the silencing of Tsix by Xist.
NATURE COMMUNICATIONS
(2021)
Article
Biochemistry & Molecular Biology
Tobias Friedrich, Francesca Ferrante, Leo Pioger, Andrea Nist, Thorsten Stiewe, Jean-Christophe Andrau, Marek Bartkuhn, Benedetto Daniele Giaimo, Tilman Borggrefe
Summary: The study investigates the role of transcription factor RBPJ in the Notch signaling pathway. It is found that RBPJ not only participates in the Notch co-activator complex, but also functions as a repressor, playing a crucial role in regulating Notch target genes.
NUCLEIC ACIDS RESEARCH
(2022)
Article
Cell Biology
Francesca Ferrante, Benedetto Daniele Giaimo, Tobias Friedrich, Toshiya Sugino, Daniel Mertens, Sabrina Kugler, Bernd Martin Gahr, Steffen Just, Leiling Pan, Marek Bartkuhn, Michael Potente, Franz Oswald, Tilman Borggrefe
Summary: Notch signaling is crucial in tumorigenesis and its response is regulated by the hydroxylation and deubiquitination of NICD, which is disrupted under hypoxic conditions.
CELL DEATH & DISEASE
(2022)