Precisely controlled plant transcriptional networks can specify cell identity, associate positional information, and regulate maturation. Defining how these networks coordinate organ development and function requires detailed knowledge of the spatiotemporal gene expression patterns for each cell type and developmental state. Based on plant single-cell sequencing, Lifeasible provides plant gene regulatory network analysis solutions to identify core transcription factors that play critical roles in plant developmental differentiation by building on constructed gene networks. In addition to identifying novel transcriptional regulators, scRNA-seq allows us to ask how known regulators control tissue and organ development, revealing the differentiation pathways of cell identity mutants.

Fig.1. Atlas informs cell type abundance and identity changes in shr-2 and scr-4 mutants. (Shahan R, et al., 2022)

What We Offer

Lifeasible provides professional single-cell solutions for plant essential transcription factors function to perform mutant studies on transcription factors of known function, helping clients to resolve the impact of the loss of function of that transcription factor on plant tissue composition as well as cell identity and differentiation. Our solution aims to explore how essential transcription factors are involved in the development of plant tissues or organs.

In roots, the transcription factors shortroot-2 (shr-2) and scarecrow-4 (scr-4) function in a transcriptional regulatory complex critical for stem cell ecological niche maintenance and tissue patterning. We can construct a large-scale Arabidopsis root gene expression profile at single-cell resolution. Using a common data pre-processing pipeline and an iterative, integrated annotation strategy, our experts help you identify gene expression dynamics for each cell type and tissue differentiation in wild-type and cell identity mutants. The specific process is as follows:

(1) First transfer cell type and developmental stage annotation tags from the atlas to the two biological replicates of shr-2 and scr-4 mutant roots. We can confidently detect significant and subtle cell type changes in the mutants by the resolution of the atlas annotation.

(2) By integrating scr-4 biological replicates and extracting only the cortical and endothelial annotated cells, we can analyze the effect of individual cells on the mixed properties of scr-4 mutant layers.

(3) We can quantify mutant layer developmental trajectories to explore the possibility that scr-4 mutant layer cells acquire cortical identity early in development and subsequently alter their fate.

Lifeasible offers Arabidopsis roots as a powerful model for using scRNA-seq to study the complete developmental trajectory from stem cells to differentiated tissues, focusing on mutant studies of transcription factors of known function. If you are interested in our services or have some questions, please feel free to contact us or make an online inquiry.

Reference

1. Shahan R, Hsu C W, Nolan T M, et al. A single-cell Arabidopsis root atlas reveals developmental trajectories in wild-type and cell identity mutants[J]. Developmental cell, 2022, 57(4): 543-560. e9.

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