Article
Plant Sciences
Daniel Matsusaka, Javier F. Botto, Diego H. Sanchez
Summary: This study reveals the central regulatory role of specific noncoding tandem repeats in the intersection between epigenetic silencing and gene expression, and their importance in plant stress responses.
PHYSIOLOGIA PLANTARUM
(2022)
Article
Plant Sciences
Huiyun Yu, Leiyun Yang, Zhan Li, Feng Sun, Bo Li, Shengsong Guo, Yong-Fei Wang, Tong Zhou, Jian Hua
Summary: In situ deletion series generated by CRISPR/Cas9 genome editing identified cis-regulatory elements and potential transcription factors for the expression of the intracellular immune receptor NLR gene SNC1, and revealed the critical role of SNC1 in NLR gene co-expression.
PLANT CELL AND ENVIRONMENT
(2023)
Article
Plant Sciences
Huiyun Yu, Leiyun Yang, Zhan Li, Feng Sun, Bo Li, Shengsong Guo, Yong-Fei Wang, Tong Zhou, Jian Hua
Summary: The transcriptional and post-transcriptional regulation of intracellular immune receptor nucleotide-binding leucine-rich repeats (NLRs) is complex and involves multiple cis-acting elements. The NLR gene SNC1 is a critical regulator of gene expression in the same gene cluster, and its expression is under complex local regulation.
PLANT CELL AND ENVIRONMENT
(2022)
Article
Plant Sciences
Hongtao Song, Qi Wang, Zhonghua Zhang, Kui Lin, Erli Pang
Summary: This study presents a computational approach to predict putative cis-regulatory elements in the Cucurbitaceae genomes. The researchers identified a large number of cis-regulatory elements using whole-genome alignment and validated their predictions using various datasets. The results provide valuable resources for functionally annotating conserved non-coding sequences and studying their regulatory roles in Cucurbitaceae genomes.
HORTICULTURE RESEARCH
(2023)
Article
Plant Sciences
Yuan Lin, Hainan Zhao, Magdalena Kotlarz, Jiming Jiang
Summary: Gene expression is regulated by interactions between cis-regulatory DNA elements (CREs) and regulatory proteins. Enhancers play a crucial role in this process, especially in eukaryotes, but little is known about the molecular mechanisms involved in plants. Researchers identified a distal enhancer, CRE beta, which regulates gene expression in response to osmotic pressure, and established a forward genetic screen pipeline to identify trans-regulatory factors associated with CRE beta function and the regulation of the endogenous gene AtDGK7.
Article
Plant Sciences
Valerie Delorme-Hinoux, Assane Mbodj, Sophie Brando, Anne De Bures, Christel Llauro, Fabrice Covato, Joseph Garrigue, Claude Guisset, Jacques Borrut, Marie Mirouze, Jean-Philippe Reichheld, Julio Saez-Vasquez
Summary: The transcription of 45S rDNA is crucial for ribosome biogenesis, and the Arabidopsis thaliana genome contains multiple units of 45S rDNA. However, not all units are transcribed, and there are variations in rRNA genes and ribosomes within the 45S rDNA units. A study conducted on Arabidopsis thaliana samples from different altitudes in France revealed dynamic copy numbers of 45S rDNA and identified new genotypes for the External Transcribed Spacers (ETS) regions. Interestingly, there were altitude-specific differences in genotype diversity for 5' ETS and sea level-specific differences for 3' ETS. The structural analysis also showed the preservation of specific sequences/features required for rDNA expression and rRNA processing. This study highlights the importance of natural diversity in 45S rDNA and its potential for altering ribosome composition.
Article
Biotechnology & Applied Microbiology
Georg Back, Dirk Walther
Summary: This study identified a set of novel sequence motifs located in the first introns of genes in the plant Arabidopsis thaliana that may play a role in inducing high and correlated gene expression of the genes harboring them. The study confirmed the regulatory role of first introns on gene expression and characterized their conservation within the species, using deep sequencing and broad gene expression information on a genome-wide scale.
Article
Plant Sciences
Ting Lan, Wei Xiong, Xuemei Chen, Beixin Mo, Guiliang Tang
Summary: Standardized naming systems are crucial for integrating and unifying various research fields and linking data across different kingdoms. Despite not being widely adopted in the plant community, a comprehensive survey of CRPs in Arabidopsis thaliana and rice highlighted the evolution and characteristics of plant CRP genes. This study emphasizes the importance of a standardized framework for sharing knowledge and promoting research development in the plant community.
Article
Chemistry, Medicinal
Yusuke Ito, Kento Sasaki, Tsuyoshi Ogihara, Naoki Kitaoka, Kosaku Takahahi, Hideyuki Matsuura
Summary: In this study, an enzymatic method using flax seed acetone powder and allene oxide cyclase from Physcomitrella patens was developed for the synthesis of OPDA. Various OPDA analogs were successfully synthesized through this method, shedding light on the biosynthetic pathway of arabidopsides. The enzymatic synthesis of OPDA is significant for the efficient and convenient access to these compounds.
BIOORGANIC & MEDICINAL CHEMISTRY LETTERS
(2021)
Article
Plant Sciences
Simon Strobbe, Jana Verstraete, Christophe Stove, Dominique Van Der Straeten
Summary: In this study, metabolic engineering strategies were examined in Arabidopsis thaliana to increase thiamin levels in plants. The research revealed the necessity to balance the pyrimidine and thiazole branches of thiamin biosynthesis, and assessed its biosynthetic intermediates, providing guidelines for the development of novel metabolic engineering strategies for thiamin.
Article
Biochemistry & Molecular Biology
Barbara Michalec-Wawiorka, Jakub Czapinski, Kamil Filipek, Patrycja Rulak, Arkadiusz Czerwonka, Marek Tchorzewski, Adolfo Rivero-Muller
Summary: This study presents an optimized inducible expression system that enables rapid generation of doxycycline-responsive cells. The modifications of the Tet-On system provide high, stable, and homogenous expression of the Tet-On3G transactivator.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Plant Sciences
Phan Phuong Thao Doan, Jin Hee Kim, Jeongsik Kim
Summary: Leaf senescence is regulated by a complex network of genes. In this study, the researchers developed a cellular approach using transient expression in Arabidopsis protoplasts to examine the functional roles of senescence regulatory genes. They validated this system and found that it can effectively monitor the expression of senescence-responsive genes. The results provided molecular evidence for the distinct kinetic involvement of these genes in leaf senescence regulation.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Biochemistry & Molecular Biology
Haiyue Ai, Julia Bellstaedt, Kai Steffen Bartusch, Lennart Eschen-Lippold, Steve Babben, Gerd Ulrich Balcke, Alain Tissier, Bettina Hause, Tonni Grube Andersen, Carolin Delker, Marcel Quint
Summary: Roots are able to sense and respond to elevated temperature independently of shoot-derived signals. This response is mediated by an unknown root thermosensor that uses auxin as a messenger to relay temperature signals to the cell cycle. Growth promotion is primarily achieved by increasing cell division rates in the root apical meristem, dependent on de novo local auxin biosynthesis and temperature-sensitive organization of the polar auxin transport system.
Article
Multidisciplinary Sciences
Jaime Alvarez-Benayas, Nikolaos Trasanidis, Alexia Katsarou, Kanagaraju Ponnusamy, Aristeidis Chaidos, Philippa C. May, Xiaolin Xiao, Marco Bua, Maria Atta, Irene A. G. Roberts, Holger W. Auner, Evdoxia Hatjiharissi, Maria Papaioannou, Valentina S. Caputo, Ian M. Sudbery, Anastasios Karadimitris
Summary: Multiple myeloma is a genetically heterogeneous cancer driven by overexpression of specific oncogenes. By analyzing chromatin accessibility and transcriptome profiles, researchers have identified distinct genetic subgroups within multiple myeloma and uncovered unique gene regulatory networks that contribute to the disease. This study highlights the importance of understanding the transcriptional landscape in driving multiple myeloma progression and identifying potential therapeutic targets.
NATURE COMMUNICATIONS
(2021)
Article
Plant Sciences
Maria A. Lujan, Angel Soria-Garcia, Ana Claver, Patricia Lorente, Maria C. Rubio, Rafael Picorel, Miguel Alfonso
Summary: Trienoic fatty acids are crucial for biomembranes and plant defense responses. AtFAD7 and AtFAD8 are essential enzymes for synthesizing trienoic fatty acids in the plastid.
FRONTIERS IN PLANT SCIENCE
(2021)