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1. Transcriptional and post-translational regulation of plant autophagy

   https://doi.org/10.1093/jxb/erad211  

   Agbemafle, William; Wong, Min May; Bassham, Diane C (June 2023, Journal of Experimental Botany)

   Abstract In response to changing environmental conditions, plants activate cellular responses to enable them to adapt. One such response is autophagy, in which cellular components, for example proteins and organelles, are delivered to the vacuole for degradation. Autophagy is activated by a wide range of conditions, and the regulatory pathways controlling this activation are now being elucidated. However, key aspects of how these factors may function together to properly modulate autophagy in response to specific internal or external signals are yet to be discovered. In this review we discuss mechanisms for regulation of autophagy in response to environmental stress and disruptions in cell homeostasis. These pathways include post-translational modification of proteins required for autophagy activation and progression, control of protein stability of the autophagy machinery, and transcriptional regulation, resulting in changes in transcription of genes involved in autophagy. In particular, we highlight potential connections between the roles of key regulators and explore gaps in research, the filling of which can further our understanding of the autophagy regulatory network in plants. 

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2. Integrating Single-Cell and Spatial Multi-Omics to Decode Plant–Microbe Interactions at Cellular Resolution

   https://doi.org/10.3390/microorganisms14020380  

   Li, Yaohua; Vigil, Jared; Pradhan, Rajashree; Zhu, Jie; Libault, Marc (February 2026, Microorganisms)

   Understanding the intimate interactions between plants and their microbiota at the cellular level is essential for unlocking the full potential of plant holobionts in agricultural systems. Traditional bulk and microbial community-level sequencing approaches reveal broad community patterns but fail to resolve how distinct plant cell types interact with or regulate microbial colonization, as well as the diverse antagonistic and synergistic interactions and responses existing between various microbial populations. Recent advances in single-cell and spatial multi-omics have transformed our understanding of plant cell identities as well as gene regulatory programs and their dynamic regulation in response to environmental stresses and plant development. In this review, we highlight the single-cell discoveries that uncover the plant cell-type-specific microbial perception, immune activation, and symbiotic differentiation, particularly in roots, nodules, and leaves. We further discuss how integrating transcriptomic, epigenomic, and spatial data can reconstruct multilayered interaction networks that connect plant cell-type-specific regulatory states with microbial spatial niches and inter-kingdom signaling (e.g., ligand–receptor and metabolite exchange), providing a foundation for developing new strategies to engineer crop–microbiome interactions to support sustainable agriculture. We conclude by outlining key methodological challenges and future research priorities that point toward building a fully integrated cellular interactome of the plant holobiont. 

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3. Role of heterotrimeric G-proteins in improving abiotic stress tolerance of crop plants

   Parinita Majumdar, P; Torres Rodríguez, MD; Pandey, S (January 2022, Journal of plant growth regulation)

   Sopory, SK (Ed.)

   As sessile organisms, plants are constantly exposed to a variety of environmental stresses that have detrimental effects on their growth and development, leading to major crop yield losses worldwide. To cope with adverse conditions plants have developed several adaptive mechanisms. A thorough understanding these mechanisms is critical to generate plants for the future. The heterotrimeric G-protein complex, composed of Gα, Gβ, and Gγ subunits, participates in regulation of multiple cellular signaling pathways and have multifaceted roles in regulating stress responses of plants. The complex has two functional entities, the GTP-bound Gα subunit and the Gβγ dimer, both of which by interacting with additional proteins can activate various signaling networks. The involvement of G-proteins has been shown in plants’ response to drought, salinity, extreme temperatures, heavy metal, ozone, and UV-B radiation. Due to their versatility and the number of processes modulated by them, G-proteins have emerged as key targets for generating stress tolerant crops. In this review, we provide an overview of the current knowledge of the roles of G proteins in abiotic stress tolerance, with examples from model plant Arabidopsis thaliana, where these processes are most widely studied and from additional agriculturally relevant crops, where their potential is realized for human usage. 

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4. Heterotrimeric G-Protein Signaling in Plants: Conserved and Novel Mechanisms

   https://doi.org/10.1146/annurev-arplant-050718-100231  

   Pandey, Sona (April 2019, Annual Review of Plant Biology)

   Heterotrimeric GTP-binding proteins are key regulators of a multitude of signaling pathways in all eukaryotes. Although the core G-protein components and their basic biochemistries are broadly conserved throughout evolution, the regulatory mechanisms of G proteins seem to have been rewired in plants to meet specific needs. These proteins are currently the focus of intense research in plants due to their involvement in many agronomically important traits, such as seed yield, organ size regulation, biotic and abiotic stress responses, symbiosis, and nitrogen use efficiency. The availability of massive sequence information from a variety of plant species, extensive biochemical data generated over decades, and impressive genetic resources for plant G proteins have made it possible to examine their role, unique properties, and novel regulation. This review focuses on some recent advances in our understanding of the mechanistic details of this critical signaling pathway to enable the precise manipulation and generation of plants to meet future needs. 

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5. From growth to stress: RAF-like kinases as integrators of hormonal signals in plants

   https://doi.org/10.1093/jxb/eraf086  

   Park, Hye Lin; Yoon, Gyeong Mee (March 2025, Journal of Experimental Botany)

   McSteen, Paula (Ed.)

   Abstract RAF-like kinases, members of the mitogen-activated protein kinase kinase kinase (MAPKKK) family, are central integrators of external and internal signals in plant stress responses and growth regulation. These kinases mediate signaling through multiple hormone pathways, including abscisic acid-dependent and -independent pathways, ethylene signaling, and rapid auxin responses. Unlike typical MAPKKKs that function through kinase cascades, RAF-like kinases primarily employ direct phosphorylation of downstream targets and dynamic subcellular localization to mediate specific physiological responses. Here, we review the emerging roles of RAF-like kinases in Arabidopsis thaliana, highlighting their integrative functions in hormone signaling, stress responses, and growth control. The complex interplay between different RAF-like kinase subgroups and their diverse cellular targets underscores the intricate regulatory mechanisms plants have evolved to coordinate environmental responses with development. 

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