Review
Cell Biology
Maria Luiza S. Mello
Summary: Valproic acid/sodium valproate can affect chromatin remodeling by inducing histone acetylation and altering gene expression, ultimately modulating gene expression levels.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Review
Biochemistry & Molecular Biology
Celine Duc, Christophe Thiriet
Summary: The review focuses on the remodeling of chromatin during DNA replication in the S-phase, including the eviction of nucleosomes and the assembly of newly synthesized histones. The recycling of parental histones and the nuclear import of histones are also discussed in relation to epigenetic inheritance.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Cell Biology
Ying Zhang, Jun Wei, Jiani Cao, Kehua Zhang, Yaojin Peng, Hongkui Deng, Jiuhong Kang, Guangjin Pan, Yong Zhang, Boqiang Fu, Shijun Hu, Jie Na, Yan Liu, Lei Wang, Lingmin Liang, Huanxin Zhu, Yu Zhang, Zi-Bing Jin, Jie Hao, Aijin Ma, Tongbiao Zhao, Junying Yu
Summary: "Requirements for Human-Induced Pluripotent Stem Cells" is the first set of guidelines in China on human-induced pluripotent stem cells. It provides detailed technical requirements and aims to promote international standardization.
CELL PROLIFERATION
(2022)
Article
Biochemical Research Methods
Julia Vallverdu, Raquel A. Martinez Garcia de la Torre, Inge Mannaerts, Stefaan Verhulst, Ayla Smout, Mar Coll, Silvia Arino, Teresa Rubio-Tomas, Beatriz Aguilar-Bravo, Celia Martinez-Sanchez, Delia Blaya, Catherine M. Verfaillie, Leo A. van Grunsven, Pau Sancho-Bru
Summary: Human iPSCs are differentiated into HSCs with growth factors for in vitro modeling. The protocol yields iPSC-HSCs with phenotypic and functional characteristics of primary HSCs, suitable for high-throughput in vitro studies. Coculturing iPSC-HSCs with hepatocytes allows for the formation of 3D hepatic spheroids, enabling modeling and drug screening studies.
Article
Biochemistry & Molecular Biology
Runxia Lin, Ziwei Zhai, Junqi Kuang, Chuman Wu, Yuxiang Yao, Ruona Shi, Jiangping He, Shuyang Xu, Pengli Li, Yixin Fan, Wei Li, Zichao Wu, Xiaoxi Li, Jin Ming, Jing Guo, Bo Wang, Dongwei Li, Shangtao Cao, Xiaofei Zhang, Yi Li, Duanqing Pei, Jing Liu
Summary: This study investigates the key events in early mammalian embryonic development using a JUN-induced pluripotent-somatic transition (PST) model. The results reveal a rapid transfer of chromatin remodeling complexes from pluripotent loci to somatic loci during PST, facilitating chromatin opening and gene activation.
CELL AND BIOSCIENCE
(2022)
Review
Biochemistry & Molecular Biology
Tianyuan Shi, Martin Cheung
Summary: Using rodents for modeling neurological diseases has limitations due to differences in genetics, neural development, and physiology between humans and rodents. In the past decade, induced pluripotent stem cells and induced neural stem cells generated through reprogramming somatic cells have offered a powerful alternative for studying disease pathogenesis and testing regenerative medicines. Urine-derived stem cells are an ideal cell source for reprogramming due to their proliferation, multipotency, epithelial nature, and ease of reprogramming.
CELL AND BIOSCIENCE
(2021)
Article
Biochemistry & Molecular Biology
Yue Su, Ling Wang, Zhiqiang Fan, Ying Liu, Jiaqi Zhu, Deborah Kaback, Julia Oudiz, Tayler Patrick, Siu Pok Yee, Xiuchun (Cindy) Tian, Irina Polejaeva, Young Tang
Summary: This study successfully generated biPSCs with long-term self-renewal capacity and pluripotent characteristics from bovine mesenchymal stem cells. The cells exhibited morphological changes under different culture conditions, and transcriptome analysis showed high similarity to bovine ESCs and embryos. The naive-like biPSCs also demonstrated the ability to integrate into extra-embryonic tissues.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Engineering, Biomedical
Hong Cao, Qian Zhou, Chungeng Liu, Yecen Zhang, Minghui Xie, Weihua Qiao, Nianguo Dong
Summary: This study investigates the effect of substrate stiffness on the differentiation of human-induced pluripotent stem cells (h-iPSCs) into valve endothelial-like cells (h-iVECs). The results show that moderate substrate stiffness can enhance the differentiation efficiency of h-iVECs and is regulated by the WNT/Calcineurin signaling pathway. This study emphasizes the importance of using substrate stiffness to achieve a more specific and mature differentiation of h-iVECs.
ACTA BIOMATERIALIA
(2022)
Article
Biochemistry & Molecular Biology
Sunday Ndoma Bobori, Yuxiang Zhu, Alicia Saarinen, Alexis Josephine Liuzzo, Clifford D. L. Folmes
Summary: Growing evidence suggests that metabolites and energy metabolism have an active role in regulating cellular fate, particularly in cardiac development. A study on human pluripotent stem cells (PSCs) reveals significant metabolic remodeling during cardiac lineage specification, with most changes occurring during transitions from pluripotency to mesoderm and mesoderm to early cardiac stages. The findings highlight the opportunity to optimize metabolism during differentiation to support the specification and maturation of human PSC-derived cardiomyocytes.
Article
Neurosciences
Dwaipayan Adhya, Vivek Swarup, Roland Nagy, Lucia Dutan, Carole Shum, Eva P. Valencia-Alarcon, Kamila Maria Jozwik, Maria Andreina Mendez, Jamie Horder, Eva Loth, Paulina Nowosiad, Irene Lee, David Skuse, Frances A. Flinter, Declan Murphy, Grainne McAlonan, Daniel H. Geschwind, Jack Price, Jason Carroll, Deepak P. Srivastava, Simon Baron-Cohen
Summary: The study suggests that autism-iPSCs diverge from control-iPSCs at a cellular level during early neurodevelopment, indicating unique developmental differences associated with autism may be established at early prenatal stages.
BIOLOGICAL PSYCHIATRY
(2021)
Review
Cell Biology
Samantha E. Spellicy, David C. Hess
Summary: Inflammation is a key contributing factor to the pathogenesis of stroke, leading to increased oxidative stress and neuronal cell death. Recent research has shown that induced pluripotent stem cells have the potential to suppress neuroinflammation, mainly by modulating inflammatory signaling and endogenous inflammatory cell populations.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Review
Neurosciences
Ranran Duan, Yang Gao, Ruya He, Lijun Jing, Yanfei Li, Zhe Gong, Yaobing Yao, Tingting Luan, Chaopeng Zhang, Li Li, Yanjie Jia
Summary: Ischemic stroke is a severe central nervous system disease with high disability and mortality rates. Current therapies like rt-PA and mechanical thrombectomy have limitations, prompting the exploration of new treatments like stem cell transplantation, particularly iPSCs, which show promise in overcoming challenges and offering neuroprotection in stroke treatment.
FRONTIERS IN NEUROSCIENCE
(2021)
Review
Biochemistry & Molecular Biology
Yahong Wu, Weiwei Zhang
Summary: Pluripotent stem cells, including ESCs and iPSCs, are crucial for studying early development and treating diseases, with ubiquitination playing a key role in pluripotency regulation, particularly through the actions of E3 ligases.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Cell Biology
Taiki Satoh, Marcelo A. S. Toledo, Janik Boehnke, Kathrin Olschok, Niclas Flosdorf, Katrin Goetz, Caroline Kuestermann, Stephanie Sontag, Kristin Sere, Steffen Koschmieder, Tim H. Bruemmendorf, Nicolas Chatain, Yoh-ichi Tagawa, Martin Zenke
Summary: Dendritic cells (DC) are professional antigen-presenting cells that can be divided into different subsets, with the DC3 subset having proinflammatory properties. Human iPS cell-derived DC3 exhibit similar characteristics to blood DC3 in vitro. The JAK2 V617F mutation enhances DC3 production and biases towards erythrocytes and megakaryocytes.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Review
Cell Biology
Xue Jiang, Yihuan Chen, Xiaofeng Liu, Lingqun Ye, Miao Yu, Zhenya Shen, Wei Lei, Shijun Hu
Summary: Researchers have discovered the contribution of genetic defects to the pathogenesis of primary cardiomyopathy and tried to explain the pathogenesis of these diseases by establishing various disease models. The advent of human induced pluripotent stem cells (hiPSCs) provides an unprecedented opportunity to further investigate the pathogenic mechanisms of inherited cardiomyopathies in vitro using patient-specific hiPSC-derived cardiomyocytes. The development of defects in genetically modified animal models differs notably from human diseases at the molecular level.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Bertille Montibus, Jil Cercy, Tristan Bouschet, Amandine Charras, Stephanie Maupetit-Mehouas, David Nury, Celine Gonthier-Gueret, Sabine Chauveau, Nicolas Allegre, Caroline Chariau, Charles C. Hong, Isabelle Vaillant, C. Joana Marques, Franck Court, Philippe Arnaud
Summary: The induction of Kdm6b expression upon neural commitment of mouse embryonic stem cells is linked to rearrangement between two 3D configurations defined by the promoter contact with different regions in the Kdm6b locus. This rearrangement is associated with changes in 5-hydroxymethylcytosine (5hmC) levels and requires the functional ten-eleven-translocation (TET) 3 protein. This reveals an unexpected interplay between the 5-hmC and H3K27me3 pathways during neural lineage commitment in mammals.
CELLULAR AND MOLECULAR LIFE SCIENCES
(2021)
Article
Oncology
Elisa Le Boiteux, Franck Court, Pierre-Olivier Guichet, Catherine Vaurs-Barriere, Isabelle Vaillant, Emmanuel Chautard, Pierre Verrelle, Bruno M. Costa, Lucie Karayan-Tapon, Anne Fogli, Philippe Arnaud
Summary: HOX gene deregulation may contribute to the development of adult glioma by leading to widespread upregulation of HOX genes, possibly through escape from DNA hypermethylation at CpG island promoters. The study provides a comprehensive description of epigenetic changes at HOX clusters and their contribution to transcriptional changes observed in adult glioma, as well as identifying potential 'master' HOX proteins that may contribute to the tumorigenic potential of glioma stem cells.
MOLECULAR ONCOLOGY
(2021)
Article
Oncology
Jeremy Bigot, Ana Lalanne, Francesca Lucibello, Paul Gueguen, Alexandre Houy, Stephane Dayot, Olivier Ganier, Jules Gilet, Jimena Tosello, Fariba Nemati, Gaelle Pierron, Joshua J. Waterfall, Raymond Barnhill, Sophie Gardrat, Sophie Piperno-Neumann, Tatiana Popova, Vanessa Masson, Damarys Loew, Pascale Mariani, Nathalie Cassoux, Sebastian Amigorena, Manuel Rodrigues, Samar Alsafadi, Marc-Henri Stern, Olivier Lantz
Summary: Mutations in the splicing factor SF3B1 in uveal melanoma generate immunogenic neoantigens that can be recognized and killed by specific CD8(+) T cells, providing a potential new therapeutic target for tumors. These findings suggest that mutations in splicing factors may be a valuable source for developing novel therapeutic strategies for various types of cancers.
Review
Biochemistry & Molecular Biology
David Lleres, Yui Imaizumi, Robert Feil
Summary: Different classes of non-coding RNA have been found to impact chromatin organization, with long non-coding RNAs (lncRNAs) in imprinted gene domains showing parent-of-origin dependent expression patterns. These lncRNAs can repress nearby and distant protein-coding genes through various mechanisms, and may also influence gene expression on other chromosomes. The focal accumulation of these lncRNAs in cis facilitates the recruitment of repressive complexes and chromatin-modifying proteins, which in turn can affect the higher-order chromatin structure.
BIOCHEMICAL SOCIETY TRANSACTIONS
(2021)
Article
Multidisciplinary Sciences
Basilia Acurzio, Ankit Verma, Alessia Polito, Carlo Giaccari, Francesco Cecere, Salvatore Fioriniello, Floriana Della Ragione, Annalisa Fico, Flavia Cerrato, Claudia Angelini, Robert Feil, Andrea Riccio
Summary: ZFP57 is crucial for maintaining germline-marked differential methylation at ICRs in mouse ESCs, and its dependency on methylation is vital for imprinted gene expression during neural differentiation. Compensatory mechanisms may exist for imprinted genes acquiring biallelic expression.
SCIENTIFIC REPORTS
(2021)
Article
Cell Biology
Martine Chebrout, Maimouna Coura Kone, Habib U. Jan, Marie Cournut, Martine Letheule, Renaud Fleurot, Tiphaine Aguirre-Lavin, Nathalie Peynot, Alice Jouneau, Nathalie Beaujean, Amelie Bonnet-Garnier
Summary: During early development, the chromatin of the embryo undergoes reprogramming while the embryonic genome starts transcription. The spatial organization of the genome plays a crucial role in regulating gene transcription. In this study, we focused on ribosomal genes and demonstrated their specific spatial organization during early embryo development. We also revealed that this organization depends on active transcription of ribosomal genes and promotes transcription of other genes in later stages.
JOURNAL OF CELL SCIENCE
(2022)
Article
Biochemistry & Molecular Biology
Marie-Elisa Pinson, Franck Court, Aymeric Masson, Yoan Renaud, Allison Fantini, Ophelie Bacoeur-Ouzillou, Marie Barriere, Bruno Pereira, Pierre-Olivier Guichet, Emmanuel Chautard, Lucie Karayan-Tapon, Pierre Verrelle, Philippe Arnaud, Catherine Vaurs-Barriere
Summary: In addition to the consequences of retrotransposition, L1 retrotransposons affect the host genome through their antisense promoter. The study found widespread expression of LCT in normal brain and glioma samples, with the transcriptional activities of L1 antisense promoters and their host loci being coupled.
HUMAN MOLECULAR GENETICS
(2022)
Article
Biochemistry & Molecular Biology
Elisa Le Boiteux, Pierre-Olivier Guichet, Konstantin Masliantsev, Bertille Montibus, Catherine Vaurs-Barriere, Celine Gonthier-Gueret, Emmanuel Chautard, Pierre Verrelle, Lucie Karayan-Tapon, Anne Fogli, Franck Court, Philippe Arnaud
Summary: The overexpression of long non-coding RNA HOXA-AS2 in Glioma Stem Cells (GSCs) contributes to their aggressiveness by promoting proliferation and modulating the inflammation pathway through the regulation of key transcription factors.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Multidisciplinary Sciences
King Hang Tommy Mau, Donja Karimlou, David Barneda, Vincent Brochard, Christophe Royer, Bryony Leeke, Roshni A. de Souza, Melanie Pailles, Michelle Percharde, Shankar Srinivas, Alice Jouneau, Mark Christian, Veronique Azuara
Summary: The study reveals the significance of lipid droplets in the development process, particularly in the morphogenesis of blastocysts and pluripotent stem cells.
NATURE COMMUNICATIONS
(2022)
Article
Multidisciplinary Sciences
Melanie Pailles, Melanie Hirlemann, Vincent Brochard, Martine Chebrout, Jean-Francois Oudin, Hendrik Marks, Alice Jouneau, Amelie Bonnet-Garnier
Summary: Early mouse development involves structural and epigenetic changes, including DNA methylation and histone modifications such as H3K27me3. This study investigated the dynamics of H3K27me3 at pericentromeric heterochromatin (PCH) during early development and its role in defining embryonic cells. The results suggest that H3K27me3, along with H3K9me3, is a defining feature of embryonic cells in vivo and may play a role in preserving genomic integrity during relaxed chromatin state. The study also found differences in epigenetic regulation of constitutive heterochromatin between in vitro and in embryo conditions.
SCIENTIFIC REPORTS
(2022)
Article
Cell Biology
Michael Claxton, Michela Pulix, Michelle K. Y. Seah, Ralph Bernardo, Peng Zhou, Sultan Aljuraysi, Triantafillos Liloglou, Philippe Arnaud, Gavin Kelsey, Daniel M. Messerschmidt, Antonius Plagge
Summary: Genomic imprinting is an epigenetic process that leads to parent-of-origin specific gene expression. In this study, the researchers investigated the allelic expression biases in the brain and found variable states of allelic expression, especially for Trappc9 and Ago2 genes. They also discovered that Trappc9 and Ago2 are not imprinted in hippocampus-derived neural stem cells. The findings suggest the presence of variability and mosaicism in allelic expression between individual cells of the brain tissue.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Claire Dupont, Dhanvantri Chahar, Antonio Trullo, Thierry Gostan, Caroline Surcis, Charlotte Grimaud, Daniel Fisher, Robert Feil, David Lleres
Summary: Contrary to expectations, heterochromatin is not highly compacted at the nanoscale but resides in a dynamic low nanocompaction state. This state is influenced by H4K20me2/3, the balance between HP1 isoforms, and the cellular proliferation marker Ki-67.
Article
Multidisciplinary Sciences
Shady Younis, Alice Jouneau, Marten Larsson, Jean-Francois Oudin, Pierre Adenot, Jihad Omar, Vincent Brochard, Leif Andersson
Summary: Zc3h11a is crucial for embryonic viability and survival, as well as involved in metabolic regulation of embryonic cells. Inactivation of Zc3h11a expression in adult tissues does not lead to obvious phenotypic defects.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2023)
Review
Biochemistry & Molecular Biology
Flavio Di Michele, Isabel Chillon, Robert Feil
Summary: Imprinted genes have diverse roles in mammalian development, homeostasis, and disease. Most imprinted chromosomal domains express long non-coding RNAs (lncRNAs), which control the expression of protein-coding genes. The aberrant regulation of imprinted gene expression, including imprinted lncRNAs, can have long-lasting phenotypic consequences and is associated with human disease syndromes.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Review
Veterinary Sciences
Guillaume Bourdon, Veronique Cadoret, Gilles Charpigny, Anne Couturier-Tarrade, Rozenn Dalbies-Tran, Maria-Jose Flores, Pascal Froment, Mariam Raliou, Karine Reynaud, Marie Saint-Dizier, Alice Jouneau
Summary: In recent decades, significant progress has been made in isolating germ/stem/pluripotent cells and developing organoids for reproductive organs in mice, humans, and farm animals. These advancements offer new possibilities and challenges for further research in reproductive biology.
VETERINARY RESEARCH
(2021)