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)
Review
Oncology
Stefan Koch
Summary: This article discusses the control of the Wnt pathway by FOX proteins, and the contribution of their interaction to cancer initiation and progression. Further research on FOX biology may lead to new targeted treatments for cancer.
Review
Oncology
Peyman Tabnak, Aysa Hasanzade Bashkandi, Mohammad Ebrahimnezhad, Mahdieh Soleimani
Summary: This review discusses the roles of transcription factors FOXOs and FOXM1 in gliomas, including their interactions with other proteins and microRNAs in regulatory networks, as well as their significance in glioma progression.
CANCER CELL INTERNATIONAL
(2023)
Article
Cell Biology
Marten Hornsveld, Femke M. Feringa, Lenno Krenning, Jeroen van den Berg, Lydia M. M. Smits, Nguyen B. T. Nguyen, Maria J. Rodriguez-Colman, Tobias B. Dansen, Rene H. Medema, Boudewijn M. T. Burgering
Summary: During DNA replication, the DNA replication stress checkpoint response activates to slow down cell cycle progression and protect genomic integrity. By regulating the levels of APC/C-CDH1 inhibitor EMI1/FBXO5, FOXOs maintain the reversibility of the replication stress checkpoint and play a crucial role in maintaining genomic stability.
Article
Biochemistry & Molecular Biology
Jin Zhang, Jiankai Wei, Haiyan Yu, Bo Dong
Summary: The study identified 553 transcription factors classified into 60 families from Styela clava based on whole genome data, particularly focusing on their expression during early embryonic development. Analysis of transcription factors among different tunicate species revealed significant differences in the zinc finger superfamily, suggesting its potential role in species differentiation and environmental adaptation. The discovery of eight Hox genes located on one chromosome and 23 forkhead box genes in Styela clava provided insights into their potential functions in neurodevelopment and sensory organ development.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
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
Multidisciplinary Sciences
Masaki Ishikawa, Ayaka Fujiwara, Ken Kosetsu, Yuta Horiuchi, Naoya Kamamoto, Naoyuki Umakawa, Yosuke Tamada, Liechi Zhang, Katsuyoshi Matsushita, Gergo Palfalvi, Tomoaki Nishiyama, Sota Kitasaki, Yuri Masuda, Yoshiki Shiroza, Munenori Kitagawa, Toru Nakamura, Hongchang Cui, Yuji Hiwatashi, Yukiko Kabeya, Shuji Shigenobu, Tsuyoshi Aoyama, Kagayaki Kato, Takashi Murata, Koichi Fujimoto, Philip N. Benfey, Mitsuyasu Hasebe, Rumiko Kofuji
Summary: Plant cells with a cell wall and no migration require regulation of cell division orientation for development. The evolutionary mechanisms that control cell division orientation have contributed to the organization of land plants.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2023)
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)
Article
Cardiac & Cardiovascular Systems
Xiaoli Chen, Jianfei Xu, Wenzhen Bao, Hongda Li, Wenrun Wu, Jiwen Liu, Jingjiang Pi, Brian Tomlinson, Paul Chan, Chengchao Ruan, Qi Zhang, Lin Zhang, Huimin Fan, Edward Morrisey, Zhongmin Liu, Yuzhen Zhang, Li Lin, Jie Liu, Tao Zhuang
Summary: This study investigates the role and mechanism of endothelial cell-specific Foxp1 in neointimal hyperplasia. The results show that Foxp1 deletion in endothelial cells promotes neointimal formation by increasing vascular smooth muscle cell proliferation and migration and reducing endothelial cell proliferation and reendothelialization. On the other hand, Foxp1 overexpression inhibits neointimal formation. It is also found that Foxp1 regulates matrix metalloproteinase-9/cyclin dependent kinase inhibitor 1B signaling pathway to control injury-induced neointimal formation. These findings suggest that targeting EC-Foxp1-matrix metalloproteinase-9/cyclin dependent kinase inhibitor 1B pathway could be a potential therapeutic intervention for restenosis.
JOURNAL OF THE AMERICAN HEART ASSOCIATION
(2022)
Article
Multidisciplinary Sciences
Riley Galton, Katalin Fejes-Toth, Marianne E. Bronner
Summary: Piwi proteins and the piRNA pathway play a critical role in protecting the germline genome in vertebrates. This study demonstrates the expression of Piwil1 in the neural crest and its involvement in neural crest specification and migration.
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
Gastroenterology & Hepatology
Peter A. C. Wing, Peter Jianrui Liu, James M. Harris, Andrea Magri, Thomas Michler, Xiaodong Zhuang, Helene Borrmann, Rosalba Minisini, Nicholas R. Frampton, Jochen M. Wettengel, Laurent Mailly, Valentina D'Arienzo, Tobias Riedl, Luis Nobre, Michael P. Weekes, Mario Pirisi, Mathias Heikenwalder, Thomas F. Baumert, Ester M. Hammond, David R. Mole, Ulrike Protzer, Peter Balfe, Jane A. McKeating
Summary: HIFs play a crucial role in regulating HBV replication, revealing an evolutionary mechanism by which HBV exploits the HIF signaling pathway to persist in the low oxygen environment of the liver.
JOURNAL OF HEPATOLOGY
(2021)
Review
Cell Biology
Xavier T. R. Moore, Lilia Gheghiani, Zheng Fu
Summary: Polo-like kinase 1 (PLK1) regulates various biological processes through phosphorylating more than 600 substrates. Among them, members of the FOX family of transcription factors (FOX TFs), including FOXM1, FOXO1, FOXO3, and FOXK1, are regulated by PLK1. This review discusses the effects of PLK1 on FOX TFs, their prognostic significance in cancer, and the approaches used to disrupt PLK1 and FOX TF-mediated signaling networks. Therapeutic targeting of PLK1-regulated FOX TFs in human cancers is also discussed.
Article
Cell Biology
Wuming Gong, Satyabrata Das, Javier E. Sierra-Pagan, Erik Skie, Nikita Dsouza, Thijs A. Larson, Mary G. Garry, Edgar Luzete-Monteiro, Kenneth S. Zaret, Daniel J. Garry
Summary: Gong et al. report that ETV2 functions as a pioneer factor in regulating endothelial genes and remodeling chromatin, which provides potential therapeutic applications for cardiovascular diseases and solid tumors.
NATURE CELL BIOLOGY
(2022)
Article
Genetics & Heredity
Perinthottathil Sreejith, Sumira Malik, Changsoo Kim, Benoit Biteau
Summary: Stem cells play a vital role in the development and long-term maintenance of tissues and organisms. RNA binding proteins have been found to regulate stem cell function and maintain their self-renewal and long-term homeostasis. This study discovers two RNA binding proteins, Imp and Lin28, in the intestinal stem cells of fruit flies and shows their cooperation in regulating stem cell proliferation through controlling the expression of InR mRNA.
Article
Developmental Biology
Shaad M. Ahmad, Pritha Bhattacharyya, Neal Jeffries, Stephen S. Gisselbrecht, Alan M. Michelson
Article
Developmental Biology
Shaad M. Ahmad, Brian W. Busser, Di Huang, Elizabeth J. Cozart, Sebastien Michaud, Xianmin Zhu, Neal Jeffries, Anton Aboukhalil, Martha L. Bulyk, Ivan Ovcharenko, Alan M. Michelson
Article
Biochemical Research Methods
Stephen S. Gisselbrecht, Luis A. Barrera, Martin Porsch, Anton Aboukhalil, Preston W. Estep, Anastasia Vedenko, Alexandre Palagi, Yongsok Kim, Xianmin Zhu, Brian W. Busser, Caitlin E. Gamble, Antonina Iagovitina, Aditi Singhania, Alan M. Michelson, Martha L. Bulyk
Article
Biochemistry & Molecular Biology
Maxwell A. Hume, Luis A. Barrera, Stephen S. Gisselbrecht, Martha L. Bulyk
NUCLEIC ACIDS RESEARCH
(2015)
Article
Multidisciplinary Sciences
Brian W. Busser, Stephen S. Gisselbrecht, Leila Shokri, Terese R. Tansey, Caitlin E. Gamble, Martha L. Bulyk, Alan M. Michelson
Article
Cell Biology
Leila Shokri, Sachi Inukai, Antonina Hafner, Kathryn Weinand, Korneel Hens, Anastasia Vedenko, Stephen S. Gisselbrecht, Riccardo Dainese, Johannes Bischof, Edy Furger, Jean-Daniel Feuz, Konrad Basler, Bart Deplancke, Martha L. Bulyk
Article
Biochemistry & Molecular Biology
Stephen S. Gisselbrecht, Alexandre Palagi, Jesse V. Kurland, Julia M. Rogers, Hakan Ozadam, Ye Zhan, Job Dekker, Martha L. Bulyk
Article
Biochemistry & Molecular Biology
Luca Mariani, Kathryn Weinand, Stephen S. Gisselbrecht, Martha L. Bulyk
Review
Genetics & Heredity
Julian A. Segert, Stephen S. Gisselbrecht, Martha L. Bulyk
Summary: Silencers are regulatory DNA elements that can reduce transcription from their target promoters and often act as enhancers in different cellular contexts. They are enriched for expression quantitative trait loci (eQTLs) and disease-associated variants. There is no common 'silencer chromatin signature' yet, suggesting that silencers may fall into various subclasses with distinct or overlapping mechanisms.
TRENDS IN GENETICS
(2021)
Article
Multidisciplinary Sciences
Andrew J. Kump, Manoj Panta, Kristopher R. Schwab, Mark H. Inlow, Shaad M. Ahmad
Summary: The Forkhead domain transcription factors mediate various cardiogenic processes, with the Drosophila Fox gene jumeau (jumu) controlling different categories of cardiac progenitor cell division, such as regulating Polo kinase activity and working together with Myb. Nebbish (neb), a gene activated by jumu, was found to be required for only two categories of jumu-regulated cardiac progenitor cell division, highlighting the central role of Fox TFs in cardiogenesis.
SCIENTIFIC REPORTS
(2021)
Article
Biochemistry & Molecular Biology
Lisa Marie Weber, Yulin Jia, Bastian Stielow, Stephen S. Gisselbrecht, Yinghua Cao, Yanpeng Ren, Iris Rohner, Jessica King, Elisabeth Rothman, Sabrina Fischer, Clara Simon, Ignasi Forne, Andrea Nist, Thorsten Stiewe, Martha L. Bulyk, Zhanxin Wang, Robert Liefke
Summary: This study reveals a previously unrecognized chromatin recruitment mechanism of KAT6A, in which a specific domain of KAT6A interacts with unmethylated CpG motifs and associates with unmethylated CpG islands (CGIs) genome-wide. Mutations in the essential amino acids for DNA binding of KAT6A abolish its enrichment at CGIs, while deletions in other domains only have minor effects. Additionally, a mutant form of KAT6A shows a dominant negative effect on H3K9 histone acetylation.
NUCLEIC ACIDS RESEARCH
(2023)
Article
Biotechnology & Applied Microbiology
Colin T. Waters, Stephen S. Gisselbrecht, Yuliya A. Sytnikova, Tiziana M. Cafarelli, David E. Hill, Martha L. Bulyk
Summary: Researchers developed Quantitative enhancer-FACS-Seq to quantify enhancer activities in Drosophila melanogaster embryos and investigated the contributions of DNA binding motifs of four transcription factors to the enhancer activities. They discovered a range of epistatic interactions among the motifs and emphasized the importance of studying regulatory consequences of TF binding motifs in combination across enhancer contexts.
Article
Multidisciplinary Sciences
Manoj Panta, Andrew J. Kump, John M. Dalloul, Kristopher R. Schwab, Shaad M. Ahmad
Review
Anatomy & Morphology
Shaad M. Ahmad
DEVELOPMENTAL DYNAMICS
(2017)