Article
Multidisciplinary Sciences
Kosei Nagata, Hironori Hojo, Song Ho Chang, Hiroyuki Okada, Fumiko Yano, Ryota Chijimatsu, Yasunori Omata, Daisuke Mori, Yuma Makii, Manabu Kawata, Taizo Kaneko, Yasuhide Iwanaga, Hideki Nakamoto, Yuji Maenohara, Naohiro Tachibana, Hisatoshi Ishikura, Junya Higuchi, Yuki Taniguchi, Shinsuke Ohba, Ung-il Chung, Sakae Tanaka, Taku Saito
Summary: The transcription factors Runx2 and Runx3 play different roles in the development of osteoarthritis. Runx3 protects articular cartilage by regulating the expression of lubricin and aggrecan, while Runx2 exerts biphasic effects on osteoarthritis development under different conditions.
NATURE COMMUNICATIONS
(2022)
Article
Cell Biology
Ruth-Love Yeboah, Charmaine U. Pira, Matthew Shankel, Allen M. Cooper, Endika Haro, Van-Dai Ly, Kenrick Wysong, Michael Zhang, Nicole Sandoval, Kerby C. Oberg
Summary: The expression of Gdf5 during elbow joint development is regulated by multiple transcription factors, including Fox, Sox, and Lmx1b. Binding sites for Fox and Sox are required for enhancer activity, while binding sites for Lmx1b have a repressive effect. Osr2 does not affect GARR activity.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2023)
Article
Plant Sciences
Qingqing Xie, Qi Yu, Timothy O. Jobe, Allis Pham, Chennan Ge, Qianqian Guo, Jianxiu Liu, Honghong Liu, Huijie Zhang, Yunde Zhao, Shaowu Xue, Felix Hauser, Julian I. Schroeder
Summary: The study identified that CBF and ERF transcription factors play important roles in regulating plant sensitivity to arsenic and tolerance to cadmium. By using an amiRNA library and genetic screen technology, these transcription factors were found to have significant impacts on how plants respond to arsenic stress and cadmium stimulation.
PLANT CELL AND ENVIRONMENT
(2021)
Article
Cell Biology
Stacey L. Edwards, Purevsuren Erdenebat, Allison C. Morphis, Lalit Kumar, Lai Wang, Tomasz Chamera, Constantin Georgescu, Jonathan D. Wren, Jian Li
Summary: The study in Caenorhabditis elegans reveals the role and regulation of heat shock transcription factor HSF-1 in germline development, showing that heat stress only induces the canonical heat shock response in a subset of germ cells, while insulin/IGF-1 signaling activates HSF-1 in germ cells through signaling pathways in somatic cells. This non-cell-autonomous mechanism links nutrient-sensing insulin/IGF-1 signaling to HSF-1 activation to support homeostasis in rapid germline growth.
Article
Developmental Biology
Laura Currey, Stefan Thor, Michael Piper
Summary: The balance between stem cell potency and lineage specification relies on the integration of extrinsic and intrinsic cues to influence gene expression through transcription factors. The Hippo signalling pathway, particularly involving YAP, TAZ, and TEAD proteins, plays a key role in regulating organ size and progenitor self-renewal during development. Studies are revealing the intricate roles of TEAD proteins in maintaining the balance between stem cell self-renewal and differentiation in various developmental stages.
Article
Horticulture
Mudassar Ahmad, Ahmed Alabd, Yuhao Gao, Wenjie Yu, Wajeeha Jamil, Xuxu Wang, Jia Wei, Junbei Ni, Yuanwen Teng, Songling Bai
Summary: NAC proteins are important regulators in plant development and stress tolerance. In this study, the authors investigated the transcriptional regulation of PpNACs during abiotic stress signaling in pear. They identified three differentially expressed NAC genes, PpNAC88, PpNAC92, and PpNAC130, which belong to the stress-responsive NAC subgroup in pear. The authors also found that these PpNACs, named Pp-SNACs, have high expression levels under salt stress and ABA treatment. Further experiments revealed the transcriptional regulation of Pp-SNACs on stress-responsive genes and the formation of protein complexes by PpNAC88 and PpNAC130, suggesting their multidirectional roles in abiotic stress response in pear.
SCIENTIA HORTICULTURAE
(2022)
Review
Biochemistry & Molecular Biology
Hongyong Shi, Xiaopeng Li, Minghui Lv, Jia Li
Summary: The BES1/BZR1 family is a plant-specific group of transcription factors that regulate the expression of brassinosteroid response genes. Recent studies have shown that they also play a role in plant development through pathways independent of brassinosteroids. This review summarizes our current understanding of their mechanisms, DNA binding motifs, and target genes, as well as their biological functions via both brassinosteroid-dependent and independent pathways.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Gastroenterology & Hepatology
Richard Drexler, Rebecca Fahy, Mirco Kuechler, Kim C. Wagner, Tim Reese, Mareike Ehmke, Bernd Feyerabend, Moritz Kleine, Karl J. Oldhafer
Summary: The study highlights the importance of TEAD transcription factors in PDAC, as nuclear localization was found to be associated with metastatic disease and an unfavorable prognosis after surgical resection.
Article
Biochemistry & Molecular Biology
Peipei An, Xiang Li, Tianxiang Liu, Zhijie Shui, Mingxun Chen, Xin Gao, Zhonghua Wang
Summary: This study evaluated the salt tolerance of 17 local species of broomcorn millet and found that PmABI5 can directly regulate seed germination and seedling growth, improving the salt tolerance of plants by forming heterodimers with PmbZIP131.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Microbiology
Mengkai Zhou, Ze Li, Yanjie Liu, Ping Zhang, Xiaoran Hao, Xudong Zhu
Summary: This study identified two transcription factors, Pmr1 and Pmr2, in the filamentous fungus Pestalotiopsis microspora, and revealed their crucial roles in melanin synthesis, asexual development, and secondary metabolism. Pmr1 played a larger regulatory role in secondary metabolism, while both Pmr1 and Pmr2 were involved in the biosynthesis of conidia pigment.
Article
Cell Biology
Sangkyeong Eom, Jongjin Peak, Jongyeun Park, Seung Hyun Ahn, You Kyung Cho, Yeahji Jeong, Hye-Sook Lee, Jung Lee, Elizaveta Ignatova, Sung Eun Lee, Yunji Hong, Dowoon Gu, Geun-Woo D. Kim, Dong Chan Lee, Ja Young Hahm, Jaemin Jeong, Dongho Choi, Eun-Sook Jang, Sung Wook Chi
Summary: Oxidative stress contributes to tumourigenesis by altering gene expression. One modification, 8-oxoguanine, can change RNA-RNA interactions, but its regulatory roles are not well understood. Sequencing analysis revealed widespread position-specific 8-oxoguanine in tumour microRNAs, which are associated with lower-grade gliomas and liver hepatocellular carcinoma. Specific 8-oxoguanine modifications were found to suppress or promote the malignancy of cancer, suggesting its potential importance in cancer treatment.
NATURE CELL BIOLOGY
(2023)
Article
Multidisciplinary Sciences
Tao Wang, Jing Guo, Yaqi Peng, Xiangguang Lyu, Bin Liu, Shiyong Sun, Xuelu Wang
Summary: The symbiosis of nitrogen fixation in plants involves the interaction of aboveground light signals and underground symbiotic signals through specific signaling pathways, ensuring that the roots of host plants are informed of the status of the aboveground environment for providing necessary nutrients for symbiosis.
Article
Plant Sciences
Hyung-Woo Jeon, Mary E. Byrne
Summary: Plant leaves have various shapes due to different species, developmental stages, and environments. Mutations in the homeodomain transcription factors Saw1 and Saw2 can lead to earlier appearance of leaf margin serrations.
JOURNAL OF EXPERIMENTAL BOTANY
(2021)
Review
Cell Biology
Jessica L. Fletcher, Kalina Makowiecki, Carlie L. Cullen, Kaylene M. Young
Summary: Oligodendrocytes play a crucial role in adding myelin sheaths to neurons, supporting axon health, and modulating neuronal function throughout cortical development and adulthood. They also have a lifelong impact on learning and memory, highlighting the importance of myelination in sustaining neural circuits and functions.
SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY
(2021)
Article
Plant Sciences
Weiwei Tang, Fenghua Wang, Hao Chu, Mingtong You, Qiang Lv, Wenjun Ji, Xiangwen Deng, Bo Zhou, Dan Peng
Summary: WRKY transcription factors play crucial roles in plants' response to abiotic stress. Phosphate starvation is a major challenge for plants, and understanding the molecular mechanisms of phosphate absorption and transport from the soil is important for optimizing phosphate acquisition efficiency in plants. In this review, recent advances in the study of complex WRKY TF networks that regulate phosphate acquisition and maintain phosphate homeostasis in plants are summarized. The transcriptional regulation and functions of these WRKY TFs in plant growth and development processes, such as flowering, leaf senescence, and seed germination under phosphate limitation, are also analyzed. This review provides a basis for potential guidelines to develop plant cultivars with improved phosphate uptake and utilization for sustainable agricultural and forestry development.
ENVIRONMENTAL AND EXPERIMENTAL BOTANY
(2023)
Article
Developmental Biology
Laura Glorieux, Aleksandra Sapala, David Willnow, Manon Moulis, Anna Salowka, Jean-Francois Darrigrand, Shlomit Edri, Anat Schonblum, Lina Sakhneny, Laura Schaumann, Harold F. Gomez, Christine Lang, Lisa Conrad, Fabien Guillemot, Shulamit Levenberg, Limor Landsman, Dagmar Iber, Christophe E. Pierreux, Francesca M. Spagnoli
Summary: Researchers have used light-sheet fluorescence microscopy to image the mouse embryonic pancreas in three dimensions and map tissue interactions. They provide detailed cellular distribution and quantify the relative abundance of different cell types within the tissue. The findings show increasing contact between endocrine cells and endothelial cells, while interactions with mesenchymal cells decrease over time.
Article
Biotechnology & Applied Microbiology
Alexander Yermanos, Kai-Lin Hong, Andreas Agrafiotis, Jiami Han, Sarah Nadeau, Cecilia Valenzuela, Asli Azizoglu, Roy Ehling, Beichen Gao, Michael Spahr, Daniel Neumeier, Ching-Hsiang Chang, Andreas Dounas, Ezequiel Petrillo, Ina Nissen, Elodie Burcklen, Mirjam Feldkamp, Christian Beisel, Annette Oxenius, Miodrag Savic, Tanja Stadler, Fabian Rudolf, Sai T. Reddy
Summary: DeepSARS is a high-throughput platform that enables simultaneous diagnostic detection and genomic surveillance of SARS-CoV-2. It combines multiple techniques to achieve highly sensitive viral detection and capture genomic diversity and viral evolution.
Article
Multidisciplinary Sciences
Roman Vetter, Dagmar Iber
Summary: Morphogen gradients encode positional information during development. This study shows that the observed precision of progenitor domain boundaries can be achieved with a single gradient, and the patterning mechanism can generate even greater precision in progenitor cell numbers.
NATURE COMMUNICATIONS
(2022)
Review
Cell Biology
Dagmar Iber, Malte Mederacke
Summary: This article reviews the molecular regulatory interactions and discusses possible patterning mechanisms of the trachea, aiming to understand the molecular mechanism of trachea formation. This research is of great significance for biomedical interventions and tissue engineering.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2022)
Article
Physics, Multidisciplinary
Dagmar Iber, Roman Vetter
Summary: Pseudostratified epithelia have irregular cell shapes along the apical-basal axis, which are determined by fundamental geometric relationships that minimize lateral cell-cell contact energy. This understanding provides a new perspective on epithelial cell organization and can be utilized in the development of 3D simulation frameworks for studying epithelial dynamics.
FRONTIERS IN PHYSICS
(2022)
Article
Cell Biology
Dagmar Iber, Roman Vetter
Summary: Researchers have investigated the underlying mechanisms that ensure the precision and robustness of developmental outcomes. Recent studies have provided new insights into the basis of precise development by quantifying chemical gradients and epithelial cell shapes.
CURRENT OPINION IN GENETICS & DEVELOPMENT
(2022)
Article
Cell Biology
Elena Parmigiani, Robert Ivanek, Chiara Rolando, Katrin Hafen, Gleb Turchinovich, Frank Michael Lehmann, Alexandra Gerber, Sime Brkic, Stephan Frank, Sara C. Meyer, Hiroaki Wakimoto, Murat Gunel, Angeliki Louvi, Luigi Mariani, Daniela Finke, Georg Hollaender, Gregor Hutter, Roxane Tussiwand, Verdon Taylor, Claudio Giachino
Summary: Gliomas evade immune attack by reducing Notch signaling, leading to impaired MHC-I and cytokine expression, increased TAMs, and increased aggressiveness.
DEVELOPMENTAL CELL
(2022)
Article
Genetics & Heredity
Damir Baranasic, Matthias Hortenhuber, Piotr J. Balwierz, Tobias Zehnder, Abdul Kadir Mukarram, Chirag Nepal, Csilla Varnai, Yavor Hadzhiev, Ada Jimenez-Gonzalez, Nan Li, Joseph Wragg, Fabio M. D'Orazio, Dorde Relic, Mikhail Pachkov, Noelia Diaz, Benjamin Hernandez-Rodriguez, Zelin Chen, Marcus Stoiber, Michael Dong, Irene Stevens, Samuel E. Ross, Anne Eagle, Ryan Martin, Oluwapelumi Obasaju, Sepand Rastegar, Alison C. McGarvey, Wolfgang Kopp, Emily Chambers, Dennis Wang, Hyejeong R. Kim, Rafael D. Acemel, Silvia Naranjo, Maciej Lapinski, Vanessa Chong, Sinnakaruppan Mathavan, Bernard Peers, Tatjana Sauka-Spengler, Martin Vingron, Piero Carninci, Uwe Ohler, Scott Allen Lacadie, Shawn M. Burgess, Cecilia Winata, Freek van Eeden, Juan M. Vaquerizas, Jose Luis Gomez-Skarmeta, Daria Onichtchouk, Ben James Brown, Ozren Bogdanovic, Erik van Nimwegen, Monte Westerfield, Fiona C. Wardle, Carsten O. Daub, Boris Lenhard, Ferenc Muller
Summary: Zebrafish, an important model organism for studying embryonic development and human diseases, lacks a systematic functional annotation program. The international DANIO-CODE consortium addressed this issue by creating a central repository to store and process zebrafish developmental functional genomic data. They improved existing annotations and identified over 140,000 cis-regulatory elements throughout development. They also compared regulatory elements and epigenomic landscapes between zebrafish and mouse, predicting functional relationships between them. This study extends the utility of zebrafish developmental genomics to mammals.
Article
Multidisciplinary Sciences
Manon Moulis, Steve Vincent Maurice Runser, Laura Glorieux, Nicolas Dauguet, Christophe Vanderaa, Laurent Gatto, Donatienne Tyteca, Patrick Henriet, Francesca M. Spagnoli, Dagmar Iber, Christophe E. Pierreux
Summary: Development of the pancreas is influenced by both intrinsic factors and signals from other cell types in the epithelial environment. This study used single-cell RNA sequencing and a computational interactomic approach to identify the signals involved in the interactions between different cell types during pancreas development. BMP7 was found to limit the development of endothelial cells, highlighting its role in intercellular communication.
SCIENTIFIC REPORTS
(2022)
Article
Developmental Biology
Abhishek Sharma, Marco Meer, Arvydas Dapkunas, Anneliis Ihermann-Hella, Satu Kuure, Seppo J. Vainio, Dagmar Iber, Florence Naillat
Summary: FGF8 plays a crucial role in the condensation of nephron progenitor cells towards the epithelial ureteric buds in the kidney development, by exerting a strong chemokinetic effect.
Article
Biochemistry & Molecular Biology
Tanzila Mukhtar, Jeremie Breda, Manal A. Adam, Marcelo Boareto, Pascal Grobecker, Zahra Karimaddini, Alice Grison, Katja Eschbach, Ramakrishnan Chandrasekhar, Swen Vermeul, Michal Okoniewski, Mikhail Pachkov, Corey C. Harwell, Suzana Atanasoski, Christian Beisel, Dagmar Iber, Erik van Nimwegen, Verdon Taylor
Summary: The study reveals dynamic transcriptional changes and heterogeneity within murine embryonic NSCs, BPs, and NBNs. Signature hallmarks of NSC, BP, and NBN clusters were identified, along with predicted active transcriptional nodes and networks contributing to neural fate specification. Expression of receptors, ligands, and downstream pathway components showed highly dynamic changes over time and throughout the lineage, indicating differential responsiveness to signals.
Article
Multidisciplinary Sciences
Daan H. de Groot, Age J. Tjalma, Frank J. Bruggeman, Erik van Nimwegen
Summary: Microbes in the wild adapt to changing environments by using sensory regulatory systems and gene expression noise, and recent experimental results show that phenotype-switching rates may systematically decrease with growth rate. This growth rate dependent stability (GRDS) can overcome the trade-off that limits bet-hedging, allowing for effective adaptation even when environments are diverse and change rapidly.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2023)
Article
Cell & Tissue Engineering
Madeline G. Andrews, Clara Siebert, Li Wang, Matthew L. White, Jayden Ross, Raul Morales, Megan Donnay, Gradi Bamfonga, Tanzila Mukhtar, Arpanaarjun Mckinney, Kaila Gemenes, Shaohui Wang, Qiuli Bi, Elizabeth E. Crouch, Neelroop Parikshak, Georgia Panagiotakos, Eric Huang, Aparna Bhaduri, Arnold R. Kriegstein
Summary: The differentiation of outer radial glia (oRG) cells and the production of inhibitory interneurons (INs) in the cerebral cortex are regulated by leukemia-inhibitory factor (LIF) signaling.
Article
Biology
Ulrike Lischetti, Aizhan Tastanova, Franziska Singer, Linda Grob, Matteo Carrara, Phil F. F. Cheng, Julia M. Martinez M. Gomez, Federica Sella, Veronika Haunerdinger, Christian Beisel, Mitchell P. Levesque
Summary: CITE-seq technology bridges the gap between RNA and protein in single-cell analysis, but its application to solid biopsies is limited. Applying CITE-seq to clinically relevant solid biopsies is an essential step in single-cell translational studies.
COMMUNICATIONS BIOLOGY
(2023)
Article
Multidisciplinary Sciences
Veerle de Goederen, Roman Vetter, Katie McDole, Dagmar Iber
Summary: This study investigates the biomechanical mechanism of mammalian neural tube formation using a mechanical finite element model. The researchers achieved neural tube closure by simulating mesoderm expansion, nonneural ectoderm expansion, and neural plate adhesion to the notochord. They propose that the biomechanical force for dorsolateral hinge point formation comes from zippering.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
