Review
Plant Sciences
Xiaoman Zou, Hongmei Sun
Summary: Plant biological processes are regulated by gene transcriptional regulation, in which transcription factors play a crucial role. DOF (DNA binding with One Finger) is a plant-specific transcription factor family characterized by its single zinc finger structure, and recent studies have shown their vital roles in various biological processes. This article reviews the origin, evolution, protein structure, and functions of DOF members reported in studies to provide directions for future research.
FRONTIERS IN PLANT SCIENCE
(2023)
Review
Plant Sciences
Helena Augusto Gioppato, Marcelo Carnier Dornelas
Summary: Plants have evolved various strategies to adapt to their environment, with control of body structure and phase change timing being important processes. Phase changes in plants are responses to environmental and endogenous signals, involving alterations in plant morphology, physiology, and gene regulatory networks. Six main pathways interacting with environmental and endogenous cues regulate plant phase transitions, with sugar also playing a role in phase change and branching control. Recent advances in understanding genetic and molecular mechanisms in plant biology have shed light on how plants regulate phase transitions in response to their environment.
PLANT PHYSIOLOGY AND BIOCHEMISTRY
(2021)
Review
Plant Sciences
Yasmina Radani, Rongxue Li, Harriet Mateko Korboe, Hongyu Ma, Liming Yang
Summary: Extensive research has been done to study plant transcription factors involved in abiotic stress responses, and efforts have been made to improve stress tolerance by manipulating these genes. The bHLH transcription factor family, which contains a highly conserved bHLH motif, is important in regulating plant physiology and response to abiotic stresses such as drought and excessive salinity. The regulation of bHLH transcription factors occurs at both the transcriptional and post-translational levels through various modifications. This review article focuses on the structural characteristics, classification, function, and regulatory mechanism of bHLH transcription factors in response to abiotic stresses.
Review
Plant Sciences
William Agbemafle, Min May Wong, Diane C. Bassham
Summary: This review summarizes key regulatory mechanisms for modulating autophagy through post-translational modification or transcriptional regulation. Plants activate cellular responses to adapt to changing environmental conditions, one of which is autophagy, where cellular components are delivered to the vacuole for degradation. Autophagy is activated by various conditions, and the pathways controlling its activation are being elucidated. However, there is still much to discover regarding how these factors work together to properly modulate autophagy in response to specific signals.
JOURNAL OF EXPERIMENTAL BOTANY
(2023)
Article
Plant Sciences
Swati Verma, Neelam Prabha Negi, Shalini Pareek, Gaurav Mudgal, Deepak Kumar
Summary: Salinity and drought stresses have significant effects on plant growth and crop production. Auxin, a chemical messenger, plays a crucial role in regulating plants' adaptative response to these stresses through the DNA-binding AUXIN RESPONSE FACTORS (ARFs). Different ARFs are involved in regulating soluble sugar content, promoting root development, and maintaining chlorophyll content to help plants adapt to drought and saline stress conditions. Yet, the functional characterization of ARFs in response to these stresses is still limited. Additionally, the post-transcriptional regulation of ARF expression by small RNAs has been shown to influence plant responses to these stresses. This review summarizes recent research on ARFs, including gene expression patterns, functional characterization, and post-transcriptional regulation, in the context of drought and salinity stresses.
PHYSIOLOGIA PLANTARUM
(2022)
Review
Plant Sciences
Thomas Depuydt, Bert De Rybel, Klaas Vandepoele
Summary: Despite the availability of high-quality plant genome sequences, our understanding of the functions of genes is still limited. New multi-omics approaches and advanced annotation strategies, such as machine learning and network biology, are being used to uncover the functions of all plant genes. Additionally, emerging single-cell methods and algorithms have the potential to provide more detailed insights into plant biology.
TRENDS IN PLANT SCIENCE
(2023)
Review
Plant Sciences
Paulina Koscielniak, Paulina Glazinska, Jacek Kesy, Marcin Zadworny
Summary: Despite being long-lived, trees are exposed to external stimuli and adverse environmental conditions, with certain trees like oaks evolving taproots to increase water acquisition. Little is known about the regulation of taproot growth through internal factors, such as genes and phytohormones, or the impact of external factors like drought. Further research is needed to understand the complex signaling pathways involved in taproot growth regulation.
FRONTIERS IN PLANT SCIENCE
(2021)
Article
Multidisciplinary Sciences
Jan Inge Ovrebo, Mary-Rose Bradley-Gill, Norman Zielke, Minhee Kim, Marco Marchetti, Jonathan Bohlen, Megan Lewis, Monique van Straaten, Nam-Sung Moon, Bruce A. Edgar
Summary: This study investigates the cis-regulatory elements in E2f1 mRNA and how they enable translation in response to signals, promoting cell proliferation. It was found that small uORFs in the 5' UTR of E2f1 mRNA limit its translation, but TOR signaling can bypass this restriction. EGFR signaling also enhances translation, but with less reliance on uORFs.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Review
Biochemistry & Molecular Biology
Alma Armenta-Medina, C. Stewart Gillmor, Peng Gao, Javier Mora-Macias, Leon Kochian, Daoquan Xiang, Raju Datla
Summary: Embryonic development in plants is a crucial phase of reproduction, where cell division and differentiation establish major cell lineages and tissues of the adult plant. Differences in embryo maturation programs between eudicots and monocots reflect the effects of domestication on seed quality traits and adaptation to various environmental conditions. This review highlights the importance of genomics in studying plant embryo development and the diversity in developmental processes among plant species.
PLANT COMMUNICATIONS
(2021)
Article
Multidisciplinary Sciences
Rafael Fogaca de Almeida, Matheus Fernandes, Lyris Martins Franco de Godoy
Summary: Histone post-translational modifications (hPTMs) are abundant and varied in Trypanosoma cruzi, indicating potential conserved epigenetic functions. The comprehensive map of hPTMs provided by this study can serve as a basis for further research on epigenetic mechanisms and the development of epigenetic drugs against trypanosomatids.
Article
Multidisciplinary Sciences
Preeyam S. Patel, Sandra Perez-Baos, Beth Walters, Margo Orlen, Angelina Volkova, Kelly Ruggles, Christopher Y. Park, Robert J. Schneider
Summary: This article explores the translational regulation of T cells and discovers a previously unknown mechanism of selective mRNA translation in T follicular helper cells (TFH cells). The study demonstrates that this translation mechanism is essential for TFH cell fate-specification and their role in autoimmune pathogenesis.
Review
Biotechnology & Applied Microbiology
Boxun Li, Gary C. Hon
Summary: As we approach a comprehensive catalog of mammalian cell types, the ability to engineer specific cell types on demand would revolutionize biomedical research and regenerative medicine. Direct reprogramming of cells through specific transcription factor cocktails offers a promising strategy for cell fate engineering. Recent advancements in single-cell technologies have overcome challenges in bulk reprogramming methods, accelerating progress in the field of cellular engineering.
FRONTIERS IN BIOENGINEERING AND BIOTECHNOLOGY
(2021)
Review
Plant Sciences
Norbert Andrasi, Aladar Pettko-Szandtner, Laszlo Szabados
Summary: Plant heat shock factors (HSFs) are encoded by large gene families and are involved in responses to high temperatures and various abiotic stresses. They are regulated primarily at the transcript level, with alternative splicing and post-translational modifications providing additional variability. Plant HSFs participate in a complex network of protein-protein interactions and play crucial roles in transcriptional control.
JOURNAL OF EXPERIMENTAL BOTANY
(2021)
Article
Multidisciplinary Sciences
Ying Huang, Jing An, Sanchari Sircar, Clara Bergis, Chloe Dias Lopes, Xiaoning He, Barbara Da Costa, Feng-Quan Tan, Jeremie Bazin, Javier Antunez-Sanchez, Maria Florencia Mammarella, Ravi-sureshbhai Devani, Rim Brik-Chaouche, Abdelhafid Bendahmane, Florian Frugier, Chongjing Xia, Christophe Rothan, Aline V. Probst, Zouine Mohamed, Catherine Bergounioux, Marianne Delarue, Yijing Zhang, Shaojian Zheng, Martin Crespi, Sotirios Fragkostefanakis, Magdy M. Mahfouz, Federico Ariel, Jose Gutierrez-Marcos, Cecile Raynaud, David Latrasse, Moussa Benhamed
Summary: This study examines the changes in chromatin and gene expression in response to heat stress in tomato. They found that heat stress rapidly alters chromatin structure and leads to the formation of temporary contacts between promoters and enhancers, which drive the expression of genes responsive to heat stress. The researchers also discovered that this spatial reorganization of chromatin requires the transcription factor HSFA1a.
NATURE COMMUNICATIONS
(2023)
Review
Plant Sciences
Lucia Strader, Dolf Weijers, Doris Wagner
Summary: This article reviews new findings on the function of plant transcription factors and their role in shaping transcription in the context of chromatin.
CURRENT OPINION IN PLANT BIOLOGY
(2022)