Leaf cell-specific and single-cell transcriptional profiling reveals a role for the palisade layer in UV light protection DOI Creative Commons
Carl Procko, Travis Lee, Aleca M. Borsuk

et al.

The Plant Cell, Journal Year: 2022, Volume and Issue: 34(9), P. 3261 - 3279

Published: June 6, 2022

Like other complex multicellular organisms, plants are composed of different cell types with specialized shapes and functions. For example, most laminar leaves consist multiple photosynthetic types. These include the palisade mesophyll, which typically forms one or more layers on adaxial side leaf. Despite their importance for photosynthesis, we know little about how cells differ at molecular level from To this end, have used a combination cell-specific profiling using fluorescence-activated sorting single-cell RNA-sequencing methods to generate transcriptional blueprint mesophyll in Arabidopsis thaliana leaves. We find that despite unique morphology, otherwise transcriptionally similar Nevertheless, show some genes phenylpropanoid biosynthesis pathway both palisade-enriched expression light-regulated. Phenylpropanoid gene activity was required production ultraviolet (UV)-B protectant sinapoylmalate, may protect and/or leaf against damaging UV light. findings improve our understanding can function uniquely optimize performance, similarities.

Language: Английский

Single-cell resolution of lineage trajectories in the Arabidopsis stomatal lineage and developing leaf DOI Creative Commons
Camila Lopez‐Anido, Anne Vatén, Nicole K. Smoot

et al.

Developmental Cell, Journal Year: 2021, Volume and Issue: 56(7), P. 1043 - 1055.e4

Published: April 1, 2021

Language: Английский

Citations

181
The single-cell stereo-seq reveals region-specific cell subtypes and transcriptome profiling in Arabidopsis leaves DOI Creative Commons
Keke Xia, Hai‐Xi Sun, Jie Li

et al.

Developmental Cell, Journal Year: 2022, Volume and Issue: 57(10), P. 1299 - 1310.e4

Published: May 1, 2022

Understanding the complex functions of plant leaves requires a thorough characterization discrete cell features. Although single-cell gene expression profiling technologies have been developed, their application in characterizing subtypes has not achieved yet. Here, we present scStereo-seq (single-cell spatial enhanced resolution omics sequencing) that enabled us to show bona fide transcriptome profiles Arabidopsis leaves. Subtle but significant transcriptomic differences between upper and lower epidermal cells successfully distinguished. Furthermore, discovered cell-type-specific gradients from main vein leaf edge, which led finding distinct developmental trajectories vascular guard cells. Our study showcases importance physical locations individual for exerting biological plants demonstrates is powerful tool integrate location information biology study.

Language: Английский

Citations

164
Phloem Loading and Unloading of Sucrose: What a Long, Strange Trip from Source to Sink DOI
David Braun

Annual Review of Plant Biology, Journal Year: 2022, Volume and Issue: 73(1), P. 553 - 584

Published: Feb. 16, 2022

Sucrose is transported from sources (mature leaves) to sinks (importing tissues such as roots, stems, fruits, and seeds) through the phloem in veins. In many herbaceous crop species, sucrose must first be effluxed cell wall by a sugar transporter of SWEET family prior being taken up into companion cells or sieve elements different transporter, called SUT SUC. The import these termed apoplasmic loading. sinks, can similarly exit apoplasmically or, alternatively, symplasmically plasmodesmata connecting parenchyma storage cells. Recent advances describing regulation manipulation expression activities provide stimulating new insights loading unloading processes sink tissues. Additionally, breakthroughs have revealed distinct subpopulations leaves with functions pertaining These other discoveries transport are discussed.

Language: Английский

Citations

104
Single-cell multi-omics in the medicinal plant Catharanthus roseus DOI Creative Commons
Chenxin Li, Joshua C. Wood, Hai Anh Vu

et al.

Nature Chemical Biology, Journal Year: 2023, Volume and Issue: 19(8), P. 1031 - 1041

Published: May 15, 2023

Advances in omics technologies now permit the generation of highly contiguous genome assemblies, detection transcripts and metabolites at level single cells high-resolution determination gene regulatory features. Here, using a complementary, multi-omics approach, we interrogated monoterpene indole alkaloid (MIA) biosynthetic pathway Catharanthus roseus, source leading anticancer drugs. We identified clusters genes involved MIA biosynthesis on eight C. roseus chromosomes extensive duplication genes. Clustering was not limited to linear genome, through chromatin interaction data, were present within same topologically associated domain, permitting identification secologanin transporter. Single-cell RNA-sequencing revealed sequential cell-type-specific partitioning leaf that, when coupled with single-cell metabolomics permitted reductase that yields bis-indole anhydrovinblastine. also expression root pathway.

Language: Английский

Citations

94
Single-cell technologies: From research to application DOI
Lu Wen, Guoqiang Li, Tao Huang

et al.

The Innovation, Journal Year: 2022, Volume and Issue: 3(6), P. 100342 - 100342

Published: Oct. 18, 2022

Language: Английский

Citations

84
Advances in “Omics” Approaches for Improving Toxic Metals/Metalloids Tolerance in Plants DOI Creative Commons
Ali Raza, Javaria Tabassum,

Zainab Zahid

et al.

Frontiers in Plant Science, Journal Year: 2022, Volume and Issue: 12

Published: Jan. 4, 2022

Food safety has emerged as a high-urgency matter for sustainable agricultural production. Toxic metal contamination of soil and water significantly affects productivity, which is further aggravated by extreme anthropogenic activities modern practices, leaving food human health at risk. In addition to reducing crop production, increased metals/metalloids toxicity also disturbs plants' demand supply equilibrium. Counterbalancing toxic demands better understanding the complex mechanisms physiological, biochemical, molecular, cellular, plant level that may result in productivity. Consequently, plants have established different internal defense cope with adverse effects metals/metalloids. Nevertheless, these are not adequate overwhelm toxicity. Plants produce several secondary messengers trigger cell signaling, activating numerous transcriptional responses correlated defense. Therefore, recent advances omics approaches such genomics, transcriptomics, proteomics, metabolomics, ionomics, miRNAomics, phenomics enabled characterization molecular regulators associated tolerance, can be deployed developing tolerant plants. This review highlights various response strategies adopted tolerate toxicity, including responses. A seven-(omics)-based design summarized scientific clues reveal stress-responsive genes, proteins, metabolites, miRNAs, trace elements, stress-inducible phenotypes, metabolic pathways could potentially help up face fluctuating environmental conditions. Finally, some bottlenecks future directions been highlighted, enable

Language: Английский

Citations

83
Photoperiodic flowering in Arabidopsis: Multilayered regulatory mechanisms of CONSTANS and the florigen FLOWERING LOCUS T DOI Creative Commons
Hiroshi Takagi, Andrew K. Hempton, Takato Imaizumi

et al.

Plant Communications, Journal Year: 2023, Volume and Issue: 4(3), P. 100552 - 100552

Published: Jan. 20, 2023

The timing of flowering impacts the success sexual reproduction. This developmental event also determines crop yield, biomass, and longevity. Therefore, this mechanism has been targeted for improvement along with domestication. underlying mechanisms are highly conserved in angiosperms. core is how environmental endogenous conditions control transcriptional regulation FLOWERING LOCUS T (FT) gene, which initiates floral development under long-day Arabidopsis. Since discovery FT as florigen, efforts have made to understand regulatory expression. Although many regulators were identified directly influence FT, question they coordinately spatiotemporal expression patterns still requires further investigation. Among regulators, CONSTANS (CO) primary one whose protein stability tightly controlled by phosphorylation ubiquitination/proteasome-mediated mechanisms. In addition, various CO interacting partners, some them previously modulate activity positively or negatively. promoter possesses several "blocks," regions among Brassicaceae plants. Different transcription factors bind specific blocks affect expression, often causing topological changes chromatin structure, such formation DNA loops. We discuss current understanding mainly Arabidopsis, propose future directions related topic.

Language: Английский

Citations

78
Single‐cell RNA‐seq reveals fate determination control of an individual fibre cell initiation in cotton (Gossypium hirsutum) DOI
Yuan Qin, Mengling Sun, Weiwen Li

et al.

Plant Biotechnology Journal, Journal Year: 2022, Volume and Issue: 20(12), P. 2372 - 2388

Published: Aug. 29, 2022

Summary Cotton fibre is a unicellular seed trichome, and lint initials per as factor determines yield. However, the mechanisms controlling initiation from ovule epidermis are not understood well enough. Here, with single‐cell RNA sequencing (scRNA‐seq), total of 14 535 cells were identified cotton outer integument Xu142_LF line at four developmental stages (1.5, 1, 0.5 days before anthesis day anthesis). Three major cell types, fibre, non‐fibre pigment layer then verified by in situ hybridization. A comparative analysis on scRNA‐seq data between Xu142 its fibreless mutant fl further confirmed cluster definition. The trajectory was reconstructed, differentiated 1 anthesis. Gene regulatory networks revealed spatiotemporal pattern core transcription factors, MYB25‐like HOX3 demonstrated played key roles commanders differentiation tip‐biased diffuse growth respectively. model for early development single proposed here, which sheds light deciphering mechanism plant trichome improvement

Language: Английский

Citations

77
Single-cell RNA sequencing provides a high-resolution roadmap for understanding the multicellular compartmentation of specialized metabolism DOI
Sijie Sun, Xiaofeng Shen, Yi Li

et al.

Nature Plants, Journal Year: 2022, Volume and Issue: 9(1), P. 179 - 190

Published: Dec. 15, 2022

Language: Английский

Citations

77
Single-cell profiling of Arabidopsis leaves to Pseudomonas syringae infection DOI Creative Commons
Jie Zhu, Signe Lolle,

Andrea Tang

et al.

Cell Reports, Journal Year: 2023, Volume and Issue: 42(7), P. 112676 - 112676

Published: June 20, 2023

Plant response to pathogen infection varies within a leaf, yet this heterogeneity is not well resolved. We expose Arabidopsis Pseudomonas syringae or mock treatment and profile >11,000 individual cells using single-cell RNA sequencing. Integrative analysis of cell populations from both treatments identifies distinct pathogen-responsive clusters exhibiting transcriptional responses ranging immunity susceptibility. Pseudotime analyses through reveals continuum disease progression an immune susceptible state. Confocal imaging promoter-reporter lines for transcripts enriched in shows expression surrounding substomatal cavities colonized close proximity bacterial colonies, suggesting that represent sites early invasion. Susceptibility exhibit more general localization are highly induced at later stages infection. Overall, our work cellular infected leaf provides insight into plant differential level.

Language: Английский

Citations

53