A single-cell analysis of the Arabidopsis vegetative shoot apex

Zhang, Tianqi; Yu, Chen; Wang, Jia-Wei

doi:10.1016/j.devcel.2021.02.021

Cited by 199 publications

(219 citation statements)

References 108 publications

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“…Parenchyma cells exist in higher plants composed of thin‐walled cells that remain capable of cell division even when mature, and LIPID TRANSFER PROTEIN 7 ( LTP7 ) transcripts were characterized to abundantly gather in parenchyma. Stomata cell distributes on the epidermal surface to modulate the gas exchange; this population was identified by specific expression of BASICPENTACYSTEINE 1 ( BPC1 ) (Liu et al ., 2020b; Wang et al ., 2021; Zhang et al ., 2021; Zhang et al ., 2019).…”

Section: Resultsmentioning

confidence: 99%

“…Initially, mesophyll authentication was manifested with specific marker genes, RBCS and LHCB . Their expression levels were highly accumulated in spongy and palisade tissues as the leaves contained a large amount of chlorophyll to capture light (Zhang et al ., 2021). Identification of epidermis mainly depends upon GSTF that correlates with cuticle biosynthesis and influences numerous redox‐dependent processes including hormonal and stress responses (Horváth et al ., 2019).…”

Section: Discussionmentioning

confidence: 99%

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Single‐cell RNA‐seq describes the transcriptome landscape and identifies critical transcription factors in the leaf blade of the allotetraploid peanut (Arachis hypogaea L.)

Líu

et al. 2021

Plant Biotechnology Journal

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Summary Single‐cell RNA‐seq (scRNA‐seq) has been highlighted as a powerful tool for the description of human cell transcriptome, but the technology has not been broadly applied in plant cells. Herein, we describe the successful development of a robust protoplast cell isolation system in the peanut leaf. A total of 6,815 single cells were divided into eight cell clusters based on reported marker genes by applying scRNA‐seq. Further, a pseudo‐time analysis was used to describe the developmental trajectory and interaction network of transcription factors (TFs) of distinct cell types during leaf growth. The trajectory enabled re‐investigation of the primordium‐driven development processes of the mesophyll and epidermis. These results suggest that palisade cells likely differentiate into spongy cells, while the epidermal cells originated earlier than the primordium. Subsequently, the developed method integrated multiple technologies to efficiently validate the scRNA‐seq result in a homogenous cell population. The expression levels of several TFs were strongly correlated with epidermal ontogeny in accordance with obtained scRNA‐seq values. Additionally, peanut AHL23 (AT‐HOOK MOTIF NUCLEAR LOCALIZED PROTEIN 23), which is localized in nucleus, promoted leaf growth when ectopically expressed in Arabidopsis by modulating the phytohormone pathway. Together, our study displays that application of scRNA‐seq can provide new hypotheses regarding cell differentiation in the leaf blade of Arachis hypogaea. We believe that this approach will enable significant advances in the functional study of leaf blade cells in the allotetraploid peanut and other plant species.

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Section: Resultsmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Single‐cell RNA‐seq describes the transcriptome landscape and identifies critical transcription factors in the leaf blade of the allotetraploid peanut (Arachis hypogaea L.)

Líu

et al. 2021

Plant Biotechnology Journal

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“…For example, the spore-forming ability of Firmicutes and Actinobacteria enables them to enter a stable and quiescent state during periods of environmental stress; this strategy likely enabled them to persist under drought conditions, whereas less fit bacterial lineages decreased in abundance ( Vanessa et al, 2013 ; Naylor et al, 2017 ). These bacterial communities likely carry a competitive advantage that allows them to respond more rapidly to environmental conditions ( Wang et al, 2020b ; Zhang et al, 2021 ). These may have the potential to confer benefits to a wide range of hosts as drought events become more prevalent globally ( Lobell et al, 2011 ).…”

Section: Discussionmentioning

confidence: 99%

Drought Stress Triggers Shifts in the Root Microbial Community and Alters Functional Categories in the Microbial Gene Pool

et al. 2021

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Drought is a major threat to crop productivity and causes decreased plant growth, poor yields, and crop failure. Nevertheless, the frequency of droughts is expected to increase in the coming decades. The microbial communities associated with crop plants can influence how plants respond to various stresses; hence, microbiome manipulation is fast becoming an effective strategy for improving the stress tolerance of plants. The effect of drought stress on the root microbiome of perennial woody plants is currently poorly understood. Using Populus trees as a model ecosystem, we found that the diversity of the root microbial community decreased during drought treatment and that compositional shifts in microbes during drought stress were driven by the relative abundances of a large number of dominant phyla, including Actinobacteria, Firmicutes, and Proteobacteria. A subset of microbes, including Streptomyces rochei, Bacillus arbutinivorans, B. endophyticus, B. megaterium, Aspergillus terreus, Penicillium raperi, Trichoderma ghanense, Gongronella butleri, and Rhizopus stolonifer, was isolated from the drought-treated poplar rhizosphere soils, which have potentially beneficial to plant fitness. Further controlled inoculation experiments showed that the isolated bacterial and fungal isolates positively impacted plant growth and drought tolerance. Collectively, our results demonstrate the impact of drought on root microbiome structure and provide a novel example of manipulating root microbiomes to improve plant tolerance.

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“…Enzymatic digestion procedures can affect gene expression and therefore may not reveal the true level of gene expression ( Denyer et al, 2019 ). Single-cell ATAC-seq can measure the dynamic accessibility of chromatin to gene expression ( Farmer et al, 2021 ; Zhang T. Q. et al, 2021 ); thus, it can be used to avoid obtaining protoplasts and for single-cell sequencing of glandular trichomes.…”

Section: Future Perspectivesmentioning

confidence: 99%

Phytohormone-Based Regulation of Trichome Development

Wang

Jiang

et al. 2021

Front. Plant Sci.

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Phytohormones affect plant growth and development. Many phytohormones are involved in the initiation of trichome development, which can help prevent damage from UV radiation and insect bites and produce fragrance, flavors, and compounds used as pharmaceuticals. Phytohormones promote the participation of transcription factors in the initiation of trichome development; for example, the transcription factors HDZIP, bHLH and MYB interact and form transcriptional complexes to regulate trichome development. Jasmonic acid (JA) mediates the progression of the endoreduplication cycle to increase the number of multicellular trichomes or trichome size. Moreover, there is crosstalk between phytohormones, and some phytohormones interact with each other to affect trichome development. Several new techniques, such as the CRISPR-Cas9 system and single-cell transcriptomics, are available for investigating gene function, determining the trajectory of individual trichome cells and elucidating the regulatory network underlying trichome cell lineages. This review discusses recent advances in the modulation of trichome development by phytohormones, emphasizes the differences and similarities between phytohormones initially present in trichomes and provides suggestions for future research.

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A single-cell analysis of the Arabidopsis vegetative shoot apex

Cited by 199 publications

References 108 publications

Single‐cell RNA‐seq describes the transcriptome landscape and identifies critical transcription factors in the leaf blade of the allotetraploid peanut (Arachis hypogaea L.)

Single‐cell RNA‐seq describes the transcriptome landscape and identifies critical transcription factors in the leaf blade of the allotetraploid peanut (Arachis hypogaea L.)

Drought Stress Triggers Shifts in the Root Microbial Community and Alters Functional Categories in the Microbial Gene Pool

Phytohormone-Based Regulation of Trichome Development

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