Single-cell transcriptome analysis in plants: advances and challenges

R Shaw, X Tian, J Xu - Molecular Plant, 2021 - cell.com
The rapid and enthusiastic adoption of single-cell RNA sequencing (scRNA-seq) has
demonstrated that this technology is far more than just another way to perform transcriptome …

Advances and opportunities in single-cell transcriptomics for plant research

C Seyfferth, J Renema, JR Wendrich… - Annual Review of …, 2021 - annualreviews.org
Single-cell approaches are quickly changing our view on biological systems by increasing
the spatiotemporal resolution of our analyses to the level of the individual cell. The field of …

A single-cell analysis of the Arabidopsis vegetative shoot apex

TQ Zhang, Y Chen, JW Wang - Developmental Cell, 2021 - cell.com
The shoot apical meristem allows for reiterative formation of new aerial structures throughout
the life cycle of a plant. We use single-cell RNA sequencing to define the cellular taxonomy …

Single-nucleus RNA and ATAC sequencing reveals the impact of chromatin accessibility on gene expression in Arabidopsis roots at the single-cell level

A Farmer, S Thibivilliers, KH Ryu, J Schiefelbein… - Molecular Plant, 2021 - cell.com
Similar to other complex organisms, plants consist of diverse and specialized cell types. The
gain of unique biological functions of these different cell types is the consequence of the …

Single-cell transcriptome atlas and chromatin accessibility landscape reveal differentiation trajectories in the rice root

TQ Zhang, Y Chen, Y Liu, WH Lin, JW Wang - Nature communications, 2021 - nature.com
Root development relies on the establishment of meristematic tissues that give rise to
distinct cell types that differentiate across defined temporal and spatial gradients. Dissection …

[HTML][HTML] Single-cell transcriptome atlas of the leaf and root of rice seedlings

Y Wang, Q Huan, K Li, W Qian - Journal of Genetics and Genomics, 2021 - Elsevier
As a multicellular organism, rice flourishes relying on gene expression diversity among cells
of various functions. However, cellular-resolution transcriptome features are yet to be fully …

How roots and shoots communicate through stressful times

H Li, C Testerink, Y Zhang - Trends in plant science, 2021 - cell.com
When plants face an environmental stress such as water deficit, soil salinity, high
temperature, or shade, good communication between above-and belowground organs is …

Gramene 2021: harnessing the power of comparative genomics and pathways for plant research

MK Tello-Ruiz, S Naithani, P Gupta… - Nucleic Acids …, 2021 - academic.oup.com
Abstract Gramene (http://www. gramene. org), a knowledgebase founded on comparative
functional analyses of genomic and pathway data for model plants and major crops …

Asymmetric gene expression and cell-type-specific regulatory networks in the root of bread wheat revealed by single-cell multiomics analysis

L Zhang, C He, Y Lai, Y Wang, L Kang, A Liu, C Lan… - Genome biology, 2023 - Springer
Background Homoeologs are defined as homologous genes resulting from allopolyploidy.
Bread wheat, Triticum aestivum, is an allohexaploid species with many homoeologs …

Cell-specific pathways recruited for symbiotic nodulation in the Medicago truncatula legume

SA Cervantes-Pérez, S Thibivilliers, C Laffont… - Molecular Plant, 2022 - cell.com
Medicago truncatula is a model legume species that has been studied for decades to
understand the symbiotic relationship between legumes and soil bacteria collectively named …