Article
Plant Sciences
Cheng Zhang, Chenchen Tong, Lei Cao, Pengpeng Zheng, Xiaofeng Tang, Lihuan Wang, Min Miao, Yongsheng Liu, Shuqing Cao
Summary: This research uncovered a novel regulatory cascade that significantly influences Cd tolerance in Arabidopsis. The WRKY33-ATL31-IRT1 module plays a crucial role in blocking Cd absorption and preventing metal toxicity. WRKY33 activates the transcription of ATL31, which in turn targets IRT1 for degradation in response to Cd stress.
PLANT CELL AND ENVIRONMENT
(2023)
Review
Plant Sciences
Gustavo Ravelo-Ortega, Javier Raya-Gonzalez, Jose Lopez-Bucio
Summary: The rhizosphere is a soil-plant interface where bacterial and fungal species colonize and provide growth-promoting and adaptive benefits. Plant-bacteria relationships rely on the perception of volatile organic compounds (VOCs), phytohormones, and bacterial quorum sensing signals. Beneficial Trichoderma fungi emit active VOCs that contribute to plant morphogenesis and affect their colonization on roots. Recent findings have shed light on how compounds from beneficial bacteria and fungi impact root architecture and the signaling events mediating microbial recognition.
CURRENT OPINION IN PLANT BIOLOGY
(2023)
Article
Plant Sciences
R. Glen Uhrig, Sira Echevarria-Zomeno, Pascal Schlapfer, Jonas Grossmann, Bernd Roschitzki, Niklas Koerber, Fabio Fiorani, Wilhelm Gruissem
Summary: The study reports the changes in the Arabidopsis leaf rosette proteome and phosphoproteome during the diurnal cycle, indicating proteins involved in nitrogen and hormone metabolism undergo simultaneous changes in protein abundance and phosphorylation status. The phosphoproteome at light-dark transitions reveals dynamic changes at phosphorylation sites.
PLANT CELL AND ENVIRONMENT
(2021)
Article
Biochemistry & Molecular Biology
Madita Knieper, Lara Vogelsang, Tim Guntelmann, Jens Spross, Harald Groeger, Andrea Viehhauser, Karl-Josef Dietz
Summary: cis-(+)-12-oxophytodienoic acid (OPDA) is a reactive oxylipin that functions as a signaling molecule and regulator by tuning enzyme activities and altering gene expression. This study investigates the reaction of OPDA with specific chloroplast and cytosolic thioredoxins (TRX) and glutaredoxins (GRX) in Arabidopsis thaliana.
Article
Multidisciplinary Sciences
Shao-Wei Qin, Liang-Hong Bao, Zhi-Gui He, Cai-Lin Li, Hong-gui La, Li-Feng Zhao
Summary: The SPL family plays a significant role in the morphogenesis of heteromorphic leaves in Populus euphratica. They are involved in regulating growth, stress response, photoperiod, and photosynthesis. Non-coding RNAs can promote the expression of SPL genes by co-decoying miR156 in leaf morphogenesis.
SCIENTIFIC REPORTS
(2022)
Article
Plant Sciences
Xiaoying Niu, Lu Chen, Atsushi Kato, Hidetaka Ito
Summary: The DDR complex plays an essential role in regulating the activity of the retrotransposon ONSEN in Arabidopsis. Loss of any component of the DDR complex increases ONSEN transcript levels and leads to transgenerational transposition under heat stress. The components of the DDR complex, DRD1, DMS3, and RDM1, independently suppress ONSEN transcription and transposition. The duration of heat stress also affects ONSEN activity.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Developmental Biology
Yingzhang Huang, Limeng Zhou, Chunhui Hou, Dianjing Guo
Summary: This study reveals the proteome landscape of Arabidopsis early embryogenesis through nanoproteomic analysis, and identifies gene enrichment related to ribosome biogenesis and auxin signaling. The positive correlation between mRNA and protein is confirmed by integrating RNA-sequencing data. This work provides valuable insights for further investigation into plant embryo development.
Article
Environmental Sciences
Youngjae Pyo, Heewon Moon, Adji Baskoro Dwi Nugroho, Seong Wook Yang, Il Lae Jung, Dong-Hwan Kim
Summary: Strontium, particularly its radioactive isotope Sr-90, poses a global threat to the environment and human health. The molecular mechanisms underlying plant response to Sr toxicity remain largely unknown. This study used RNA-seq analysis to compare gene expression profiles between control and Sr-treated plants, revealing that the JA biosynthesis and/or signaling pathway may play important roles in plant response to Sr stress, maintaining proper growth and development.
ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY
(2022)
Article
Plant Sciences
Dario Paolo, Lisa Rotasperti, Arp Schnittger, Simona Masiero, Lucia Colombo, Chiara Mizzotti
Summary: Seed size is controlled by complex molecular networks in Arabidopsis, with the MADS-domain transcription factor SEEDSTICK playing a key role in regulating it. STK acts as a maternal activator of growth in the earlier phases of seed development by positively regulating cell cycle progression via activating the expression of E2Fa.
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)
Article
Biochemistry & Molecular Biology
Hanmei Du, Peter R. Ryan, Chan Liu, Hongjie Li, Wanpeng Hu, Weina Yan, Ying Huang, Wenzhu He, Bowen Luo, Xiao Zhang, Shibin Gao, Shufeng Zhou, Suzhi Zhang
Summary: This study investigated the function of ZmMATE6 in maize plants and demonstrated its resistance to aluminum toxicity and crucial role in citrate transport. The research confirmed that ZmMATE6 expression is induced by aluminum treatment and functions as a citrate transporter.
Article
Biochemistry & Molecular Biology
Nilesh Kumar, Bharat K. Mishra, Jinbao Liu, Binoop Mohan, Doni Thingujam, Karolina M. Pajerowska-Mukhtar, M. Shahid Mukhtar
Summary: Drought is a serious stressor in the environment that reduces plant growth and agricultural productivity. To understand its effects on plants, a systems biology approach was used to study the transcriptome of Arabidopsis during drought. Co-expression network analysis identified 117 transcription factors (TFs) with important properties. Mathematical modeling and simulations revealed major transcriptional events and the involvement of TFs. Experimental evidence validated the predictions, showcasing the potential of these TFs in crop engineering programs.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biochemistry & Molecular Biology
Ruqiang Xu, Yanhui Guo, Song Peng, Jinrui Liu, Panyu Li, Wenjing Jia, Junheng Zhao
Summary: cAMP signaling in plants has significant effects on seed germination, phytohormone contents, leaf senescence, ethylene response, salt stress tolerance, and pathogen resistance. The identified cAMP-responsive genes are implicated in transcriptional regulation, plant hormone signaling pathways, and diterpenoid biosynthesis, among others. Results provide a framework for further exploration of cAMP signaling in plant plasticity.
Article
Plant Sciences
Bing Bai, Bastian Schiffthaler, Sjors van der Horst, Leo Willems, Alexander Vergara, Jacob Karstrom, Niklas Mahler, Nicolas Delhomme, Leonie Bentsink, Johannes Hanson
Summary: We describe the dynamic changes in translation that occur during seed maturation, germination, and seedling establishment. Through network analysis, we identified putative regulatory relationships and confirmed some of them in vivo. The construction of SeedTransNet, a regulatory network based on polysome occupancy data, allowed us to predict translational regulatory pathways involving hundreds of genes and specific transcript sequence features suggesting separate regulatory circuits. Our study demonstrated the usefulness of SeedTransNet in identifying regulatory pathways during seed phase transitions.
JOURNAL OF EXPERIMENTAL BOTANY
(2023)
Article
Agronomy
Kirill Sukhoverkov, Joshua S. Mylne
Summary: Our study demonstrates that screening herbicide mixtures against Arabidopsis thaliana is an efficient method for identifying rare herbicide synergies. We found five synergies, including three new combinations, suggesting that synergy may be a class-specific phenomenon.
PEST MANAGEMENT SCIENCE
(2021)
Article
Plant Sciences
Jose Diaz, Elena R. Alvarez-Buylla
Summary: The study investigates the mechanism of generating positional information for organ determination during early stages of flower development, integrating a previous model for the emergence of WUS pattern in the floral meristem. It predicts that LFY diffusion along the L1 layer of cells is not a necessary condition for patterning of the floral meristem.
FRONTIERS IN PLANT SCIENCE
(2021)
Review
Plant Sciences
Diego Ornelas-Ayala, Adriana Garay-Arroyo, Berenice Garcia-Ponce, Elena R. Alvarez-Buylla, Maria de la Paz Sanchez
Summary: ULT1 is a versatile plant-specific protein that can regulate transcription activation independently of ATX1. It interacts with transcription factors and PcG proteins, indicating diverse roles. ULT1 acts as an epigenetic molecular switch regulating repression and activation processes via TrxG and PcG complexes.
FRONTIERS IN PLANT SCIENCE
(2021)
Review
Plant Sciences
Monica L. Garcia-Gomez, Adriana Garay-Arroyo, Berenice Garcia-Ponce, Maria de la Paz Sanchez, Elena R. alvarez-Buylla
Summary: The root stem cell niche in Arabidopsis thaliana is composed of quiescent center cells and surrounding initial stem cells, with hormone signaling and transcriptional regulatory networks interacting to control root growth and development. This complex genetic-hormonal regulatory network can reshape root tissues based on the plant's needs, acting as integrators of environmental cues to impact on stem cell niche activity.
FRONTIERS IN PLANT SCIENCE
(2021)
Review
Plant Sciences
Estephania Zluhan-Martinez, Brenda Anabel Lopez-Ruiz, Monica L. Garcia-Gomez, Berenice Garcia-Ponce, Maria de la Paz Sanchez, Elena R. Alvarez-Buylla, Adriana Garay-Arroyo
Summary: The growth of multicellular organisms relies on the balance between cell proliferation and differentiation, which is tightly regulated by internal and external stimuli. Plant hormones play crucial roles in Arabidopsis primary root development, sometimes exhibiting synergistic effects and sometimes resulting in unexpected outcomes. Further research on the molecular mechanisms governing hormone crosstalk in specific zones and domains will provide insights into their coordination during primary root development.
FRONTIERS IN PLANT SCIENCE
(2021)
Review
Plant Sciences
M. Teresa Alejo-Vinogradova, Diego Ornelas-Ayala, Rosario Vega-Leon, Adriana Garay-Arroyo, Berenice Garcia-Ponce, Elena R. Alvarez-Buylla, Maria de la Paz Sanchez
Summary: Current understanding suggests that regulation of asymmetric cell divisions in plants involves not only key transcription factor networks, but also crucial epigenetic mechanisms. Proper epigenetic regulation and chromatin dynamics are essential for integrating signals and specifying cell lineages during asymmetric cell divisions.
JOURNAL OF EXPERIMENTAL BOTANY
(2022)
Article
Plant Sciences
Paul Hernandez-Herrera, Yamel Ugartechea-Chirino, Hector H. Torres-Martinez, Alejandro Arzola, Jose Eduardo Chairez-Veloz, Berenice Garcia-Ponce, Maria de la Paz Sanchez, Adriana Garay-Arroyo, Elena R. Alvarez-Buylla, Joseph G. Dubrovsky, Gabriel Corkidi
Summary: The LiPlaCeT plugin coupled with ImageJ allows for 4D cell tracking and lineage analysis, providing a tool for studying cell proliferation dynamics and complex interactions within cell populations at both the root and tissue level.
Article
Genetics & Heredity
Antonio Bensussen, Antonio Valcarcel, Elena R. Alvarez-Buylla, Jose Diaz
FRONTIERS IN GENETICS
(2022)
Article
Genetics & Heredity
Aylin del Moral-Morales, Marisol Salgado-Albarran, Elizabeth Ortiz-Gutierrez, Gerardo Perez-Hernandez, Ernesto Soto-Reyes
Summary: KDM4 proteins are involved in cancer development and their deregulation is associated with poor prognosis. Natural compounds have shown potential as inhibitors of KDM4 enzymes and could be used as novel therapies in cancer treatment.
FRONTIERS IN GENETICS
(2022)
Article
Biochemistry & Molecular Biology
Eduardo Lujan-Soto, Paola Aguirre de la Cruz, Vasti T. Juarez-Gonzalez, Jose L. Reyes, Maria de la Paz Sanchez, Tzvetanka D. Dinkova
Summary: In recent years, miR528 has been found to play important roles in plant development and stress response. This study examined the transcription regulation and molecular mechanisms of MIR528 expression in maize, revealing conserved transcription factor binding sites and demonstrating the up-regulation of miR528 expression by exogenous nitrate and auxin treatments.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Agriculture, Multidisciplinary
Carolina Ureta, Edgar J. Gonzalez, Alma Pineyro-Nelson, Stephane Couturier, Emmanuel Gonzalez-Ortega, Elena R. Alvarez-Buylla
Summary: Mexico is one of the origins of maize, and transgene presence poses a threat to maize conservation. Despite previous studies confirming the presence of transgenes in Mexican landraces, there is currently no nationwide transgene monitoring protocol, nor systematic analyses on factors related to transgene presence and dispersal. This study proposes a geographically representative sampling protocol and presents empirical data from three states in Mexico. Real-Time PCR is used to assess transgene presence in collected maize samples, and the results show widespread distribution of transgenes across the sampled localities. The data mining approach identifies state-specific spatial associations related to transgene presence. The study emphasizes the importance of implementing a national biomonitoring protocol to increase understanding of the sources that enable transgene presence and dispersal.
AGROECOLOGY AND SUSTAINABLE FOOD SYSTEMS
(2023)
Review
Plant Sciences
Diego Ornelas-Ayala, Carlos Cortes-Quinones, Jose Olvera-Herrera, Berenice Garcia-Ponce, Adriana Garay-Arroyo, Elena R. Alvarez-Buylla, Maria de la Paz Sanchez
Summary: The Trithorax Group (TrxG) is a conserved complex that regulates transcriptional activation in plants. Recent research has identified new TrxG components and interactions, highlighting their importance in specific tissues.
Article
Biochemistry & Molecular Biology
Monica Rodriguez-Bolanos, Tania Martinez, Saray Juarez, Stella Quiroz, Andrea Dominguez, Adriana Garay-Arroyo, Maria de la Paz Sanchez, Elena R. Alvarez-Buylla, Berenice Garcia-Ponce
Summary: Light and photoperiod regulate the floral transition in plants. CONSTANS is a transcription factor that is posttranslational regulated by phytochrome B in the morning and stabilized by PHYA and cryptochromes 1/2 in the evening. CO induces FT expression, which travels to the apical meristem and binds to FD to regulate flowering genes. Our research shows that light and PHYB positively regulate XAANTAL1 and other flowering genes in the shoot apices. Furthermore, XAL1 functions independently of FD or PIF4 to induce flowering at higher temperatures, even under long days. This leads us to propose that light and temperature influence the floral network at the meristem level partially independent of leaf-generated signals.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Genetics & Heredity
Jose Luis Caldu-Primo, Jorge Armando Verduzco-Martinez, Elena R. Alvarez-Buylla, Jose Davila-Velderrain
Summary: Gene essentiality estimation is a popular empirical method that links genotypes to phenotypes, showing that it can recover functional constraints of genes, but estimates based on organismal or cellular contexts may result in different functional constraint properties. Information obtained from LoF mutations effectively captures organismal-level functional constraints, with some genes showing a preference for nervous system expression despite being intolerant in vivo and tolerant in vitro.
NAR GENOMICS AND BIOINFORMATICS
(2021)