Exploring the potential of endophyte-plant interactions for improving crop sustainable yields in a changing climate

Frontiers in Plant Science, Год журнала: 2024, Номер 15

Опубликована: Март 20, 2024

Climate change poses a major threat to global food security, significantly reducing crop yields as cause of abiotic stresses, and for boosting the spread new old pathogens pests. Sustainable management route mitigation challenge recruiting an array solutions tools aims. Among these, deployment positive interactions between micro-biotic components agroecosystems plants can play highly significant role, part agro-ecological revolution. Endophytic microorganisms have emerged promising solution tackle this challenge. Arbuscular Mycorrhizal Fungi (AMF) endophytic bacteria fungi demonstrated their potential alleviate stresses such drought heat stress, well impacts biotic stresses. They enhance in sustainable way also by other mechanisms, improving nutrient uptake, or direct effects on plant physiology. In review we summarize update main types endophytes, highlight several studies that demonstrate efficacy explore possible avenues implementing crop-microbiota interactions. The mechanisms underlying these are complex require comprehensive understanding. For reason, omic technologies genomics, transcriptomics, proteomics, metabolomics been employed unravel, higher level information, network microorganisms. Therefore, discuss various approaches techniques used so far study plant-endophyte

Язык: Английский

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Advances in the Application of Single-Cell Transcriptomics in Plant Systems and Synthetic Biology

BioDesign Research, Год журнала: 2024, Номер 6, С. 0029 - 0029

Опубликована: Янв. 1, 2024

Plants are complex systems hierarchically organized and composed of various cell types. To understand the molecular underpinnings plant systems, single-cell RNA sequencing (scRNA-seq) has emerged as a powerful tool for revealing high resolution gene expression patterns at cellular level investigating cell-type heterogeneity. Furthermore, scRNA-seq analysis biosystems great potential generating new knowledge to inform design synthetic biology, which aims modify plants genetically/epigenetically through genome editing, engineering, or re-writing based on rational increasing crop yield quality, promoting bioeconomy enhancing environmental sustainability. In particular, data from studies can be utilized facilitate development high-precision Build-Design-Test-Learn capabilities maximizing targeted performance engineered while minimizing unintended side effects. date, been demonstrated in limited number species, including model (e.g., Arabidopsis thaliana), agricultural crops Oryza sativa), bioenergy Populus spp.). It is expected that future technical advancements will reduce cost consequently accelerate application this emerging technology plants. review, we summarize current scRNA-seq, sample preparation, sequencing, analysis, provide guidance how choose appropriate methods different types samples. We then highlight applications both biology research. Finally, discuss challenges opportunities

Язык: Английский

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A single-cell transcriptome atlas reveals the trajectory of early cell fate transition during callus induction in Arabidopsis

Plant Communications, Год журнала: 2024, Номер 5(8), С. 100941 - 100941

Опубликована: Май 7, 2024

Язык: Английский

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Single-cell and spatial RNA sequencing reveal the spatiotemporal trajectories of fruit senescence

Nature Communications, Год журнала: 2024, Номер 15(1)

Опубликована: Апрель 10, 2024

The senescence of fruit is a complex physiological process, with various cell types within the pericarp, making it highly challenging to elucidate their individual roles in senescence. In this study, single-cell expression atlas pericarp pitaya (Hylocereus undatus) constructed, revealing exocarp and mesocarp cells undergoing most significant changes during process. Pseudotime analysis establishes cellular differentiation gene trajectories Early-stage oxidative stress imbalance followed by activation resistance cells, subsequently senescence-associated proteins accumulate at late-stage central role early response factor HuCMB1 unveiled regulatory network. This study provides spatiotemporal perspective for deeper understanding dynamic process plants.

Язык: Английский

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Unraveling the specialized metabolic pathways in medicinal plant genomes: a review

Frontiers in Plant Science, Год журнала: 2024, Номер 15

Опубликована: Дек. 24, 2024

Medicinal plants are important sources of bioactive specialized metabolites with significant therapeutic potential. Advances in multi-omics have accelerated the understanding metabolite biosynthesis and regulation. Genomics, transcriptomics, proteomics, metabolomics each contributed new insights into biosynthetic gene clusters (BGCs), metabolic pathways, stress responses. However, single-omics approaches often fail to fully address these complex processes. Integrated provides a holistic perspective on key regulatory networks. High-throughput sequencing emerging technologies like single-cell spatial omics deepened our cell-specific spatially resolved dynamics. Despite advancements, challenges remain managing large datasets, standardizing protocols, accounting for dynamic nature metabolism, effectively applying synthetic biology sustainable production. This review highlights recent progress omics-based research medicinal plants, discusses available bioinformatics tools, explores future trends aimed at leveraging integrated improve quality utilization plant resources.

Язык: Английский

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The centrality of redox regulation and sensing of reactive oxygen species in abiotic and biotic stress acclimatization

Journal of Experimental Botany, Год журнала: 2024, Номер 75(15), С. 4494 - 4511

Опубликована: Фев. 6, 2024

During land plant evolution, the number of genes encoding for components thiol redox regulatory network and generator systems reactive oxygen species (ROS) expanded, tentatively indicating that they have a role in tailored environmental acclimatization. This hypothesis has been validated both experimentally theoretically during last few decades. Recent developments dynamic redox-sensitive GFP (roGFP)-based vivo sensors H2O2 potential glutathione pool paved way dissecting kinetics changes occur these crucial parameters response to stressors. The versatile cellular sensory system monitors alterations metabolism controls activity target proteins, thereby affects most, if not all, processes ranging from transcription translation metabolism. review uses examples describe redox- ROS-dependent realising appropriate responses diverse stresses. selected case studies concern different challenges, namely excess excitation energy, heavy metal cadmium metalloid arsenic, nitrogen or phosphate shortages as nutrient deficiency, wounding, nematode infestation. Each challenge redox-regulatory ROS network, but our present state knowledge also points toward pressing questions remain open relation regulation

Язык: Английский

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Advances in mass spectrometry imaging for plant metabolomics—Expanding the analytical toolbox

The Plant Journal, Год журнала: 2024, Номер 119(5), С. 2168 - 2180

Опубликована: Июль 11, 2024

SUMMARY Mass spectrometry imaging (MSI) has become increasingly popular in plant science due to its ability characterize complex chemical, spatial, and temporal aspects of metabolism. Over the past decade, as emerging unique features various MSI techniques have continued support new discoveries studies metabolism closely associated with function physiology, spatial metabolomics based on positioned it at forefront metabolic studies, providing opportunity for far higher resolution than was previously available. Despite these efforts, profound challenges levels resolution, sensitivity, quantitative ability, chemical confidence, isomer discrimination, multi‐omics integration, undoubtedly remain. In this Perspective, we provide a contemporary overview emergent widely used sciences, particular emphasis recent advances methodological breakthroughs. Having established detailed context MSI, outline both golden opportunities key currently facing metabolomics, presenting our vision how enormous potential technologies will contribute progress coming years.

Язык: Английский

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Accelerating crop improvement via integration of transcriptome-based network biology and genome editing

Planta, Год журнала: 2025, Номер 261(4)

Опубликована: Март 17, 2025

Язык: Английский

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Unraveling plant–microbe symbioses using single-cell and spatial transcriptomics

Trends in Plant Science, Год журнала: 2024, Номер 29(12), С. 1356 - 1367

Опубликована: Июль 10, 2024

HighlightsBeneficial plant–microbe interactions are critical to plant productivity in both natural and agricultural ecosystems due benefits such as improved nutrition abiotic stress tolerance.The legume–rhizobia symbiosis plant–arbuscular mycorrhizal fungi involve continuous signaling coordination between two organisms.Within symbioses, the development of novel microbial structures is driven by symbiosis-specific gene expression a few specific cell populations.Genetic engineering take better advantage these relies on identification symbiosis-responsive genes that can serve targets for modification.Applying single-cell spatial RNA-seq study endosymbiosis facilitate improve our general understanding complex biology symbiotic interactions.AbstractPlant–microbe symbioses require intense interaction genetic successfully establish types host symbiont. Traditional methodologies lack cellular resolution fully capture complexities, but transcriptomics (ST) now allowing scientists probe at an unprecedented level detail. Here, we discuss advantages transcriptomic technologies provide studying endosymbioses highlight key recent studies. Finally, consider remaining limitations applying approaches research, which mainly related simultaneous transcripts within same cells.

Язык: Английский

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Can a plant biologist fix a thermostat?

New Phytologist, Год журнала: 2025, Номер unknown

Опубликована: Янв. 2, 2025

Summary The shift to reductionist biology at the dawn of genome era yielded a ‘parts list’ plant genes and nascent understanding complex biological processes. Today, with genomics in full swing, advances high‐definition enabled precise temporal spatial analyses systems down single‐cell level. These insights, coupled artificial intelligence‐driven silico design, are propelling development first synthetic plants. By integrating approaches, researchers not only reimagining plants as sources food, fiber, fuel but also ‘environmental thermostats’ capable mitigating impacts changing climate.

Язык: Английский

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