COMPREHENSIVE LITERATURE REVIEW ON THE FUNCTION OF THE SCARECROW (SCR) GENE IN REGULATING QUIESCENT CENTRE AND LATERAL ROOT FORMATION IN ARABIDOPSIS THALIANA

Salsa Hafizha; Wan Syafi’i

doi:10.31849/sdxnyn85

Authors

Salsa Hafizha Universitas Riau
Wan Syafi’i Riau University

DOI:

https://doi.org/10.31849/sdxnyn85

Keywords:

SCARECROW, Quiescent Centre, Lateral Root Formation, Arabidopsis thaliana, Transcription Factor, Tissue Differentiation, Root Stem Cells, Root Meristem

Abstract

The SCARECROW (SCR) transcription factor is a crucial genetic component that regulates root tissue growth and differentiation in plants. This study aims to analyze the literature on the function of the SCARECROW gene in the formation of the quiescent centre (QC) and the process of lateral root development in the model plant Arabidopsis thaliana. Using a systematic literature review approach, various relevant scientific sources—including research journals, textbooks, and review articles—were examined to understand the molecular mechanisms involving SCARECROW. The analysis indicates that the SCR gene plays a key role in maintaining the activity and identity of stem cells surrounding the QC through interactions with other transcription factors such as SHORT-ROOT (SHR) and WOX5. Furthermore, SCR is also involved in the initiation and differentiation pattern of lateral roots, where it regulates the formation of the endodermal layer and new tissue organization that supports the establishment of the secondary QC. This review emphasizes the dual role of SCARECROW—as a regulator of tissue differentiation and as a guardian of meristem stability. Consequently, the findings provide valuable insights into the genetic and physiological mechanisms underlying root growth in Arabidopsis thaliana, contributing to a broader understanding of plant developmental biology.

References

Aljedaani, F., Luo, Y., Deng, Y., Smet, W., Nasim, Z., Xu, X., Shahul Hameed, U. F., Xiao, T. T., Gonzalez-Kise, J. K., Arold, S., & Blilou, I. (2025). The dual function of EMB1579 in transcription and splicing governs tissue patterning in Arabidopsis root meristem. Cell Reports, 44(5), 115660.

Benfey, P. N., Linstead, P. J., Roberts, K., Schiefelbein, J. W., Hauser, M.-T., & Aeschbacher, R. A. (1993). Root development in Arabidopsis: four mutants with dramatically altered root morphogenesis. Development, 119, 57–70.

Betegón-Putze, I., Mercadal, J., Bosch, N., Planas-Riverola, Á., Marques-Bueno, M., Vilarrasa-Blasi, J., … Caño-Delgado, A. I. (2021). Precise transcriptional control of cellular quiescence by BRAVO and WOX5 in the Arabidopsis root apex. Molecular Systems Biology.

Chang, J., Hu, J., Wu, L., Chen, W., Shen, J., Qi, X., & Li, J. (2024). Three RLKs integrate SHR–SCR and gibberellins to govern ground-tissue patterning in Arabidopsis thaliana. Current Biology.

Cruz-Ramírez, A., Díaz-Triviño, S., Blilou, I., Grieneisen, V. A., Sozzani, R., Zamioudis, C., … & Scheres, B. (2012). A bistable circuit involving SCARECROW–RETINOBLASTOMA integrates cues to inform asymmetric stem cell division. Cell, 150(5), 1002–1015.

Di Laurenzio, L., Wysocka-Diller, J., Malamy, J. E., Pysh, L., Helariutta, Y., Freshour, G., Hahn, M. G., Feldmann, K. A., & Benfey, P. N. (1996). The SCARECROW gene regulates an asymmetric cell division that is essential for generating the radial organization of the Arabidopsis root. Cell, 86(3), 423–433.

Dolan, L., Janmaat, K., Willemsen, V., Linstead, P., Poethig, S., Roberts, K., & Scheres, B. (1993). Cell organization in the Arabidopsis thaliana root. Development, 119, 71–84.

Forzani, C., Aichinger, E., & Sabatini, S. (2014). WOX5 suppresses CYCLIN D activity to establish quiescence at the center of the root stem cell niche. Current Biology, 24(16), 1939–1944.

Goh, T., Toyokura, K., Wells, D. M., Fukaki, H., & Guyomarc’h, S. (2021). SCR-dependent initiation of the quiescent centre in lateral root primordia of Arabidopsis. Development, 148(5), dev195859.

Goh, T., Toyokura, K., Wells, D. M., Swarup, K., Yamamoto, M., Mimura, T., Weijers, D., Fukaki, H., Laplaze, L., Bennett, M. J., & Guyomarc’h, S. (2016). Quiescent centre initiation in the Arabidopsis lateral root primordia is dependent on the SCARECROW transcription factor. Development, 143(18), 3363–3371.

Helariutta, Y., Fukaki, H., Wysocka-Diller, J., Nakajima, K., Jung, J., Sena, G., Hauser, M.-T., & Benfey, P. N. (2000). The SHORT-ROOT gene controls radial patterning of the Arabidopsis root through movement of a transcription factor. Cell, 101(5), 555–567.

Huang, C., Wang, D., Yang, Y., Zhang, H., Li, Y., & Yuan, W. (2024). Suppressor of Frigida 4 cooperates with the histone methylation reader EBS to positively regulate root development. Plant Physiology, 196(1), 225–239.

Liu, Z., Zhang, R., Duan, W., Xue, B., Pan, X., Li, Y., & Sun, P. (2022). BIG Modulates Stem Cell Niche and Meristem Development via SCR/SHR Pathway in Arabidopsis Roots. International Journal of Molecular Sciences, 23(12), 6784.

Moubayidin, L., & Müller, B. (2021). Auxin–cytokinin crosstalk in the Arabidopsis root meristem. Plant Cell Reports, 40(8), 1513–1525.

Moubayidin, L., Di Mambro, R., & Sabatini, S. (2013). Coordination of plant stem cell activities: auxin and cytokinin cross talk. Current Opinion in Plant Biology, 16(1), 39–44.

Pardal, R. (2021). Root stem cell niche networks: It’s complexed! Insights from Arabidopsis. Journal of Experimental Botany, 72(19), 6727–6738.

Pérez-Sancho, J., et al. (2024). Insights into multilevel spatial regulation within the root stem cell niche of Arabidopsis thaliana. Planta.

Review: Root stem cell homeostasis in Arabidopsis thaliana involves a complex regulatory network crucial for growth and developmental plasticity. (2025). EMBO Reports.

Sabatini, S., Heidstra, R., Wildwater, M., & Scheres, B. (2003). SCARECROW is involved in positioning the stem cell niche in the Arabidopsis root meristem. Genes & Development, 17(3), 354–358.

Sessa, G. (2025). Out of the niche: A bird’s-eye view of the molecular mechanism of the plant stem cell niche. Journal of Experimental Botany.

Toyokura, K., Goh, T., Shinohara, H., Shinoda, A., & Fukaki, H. (2019). WOX5 and SCARECROW are required for the maintenance of quiescent centre in lateral roots. Plant and Cell Physiology, 60(5), 1073–1083.

Wang, B., Shi, X., Gao, J., Liao, R., Fu, J., Bai, J., & Cui, H. (2023). SCARECROW maintains the stem cell niche in Arabidopsis roots by ensuring telomere integrity. Plant Physiology, 192(2), 1115–1131.

Winter, C. M., et al. (2024). SHR and SCR coordinate root patterning and growth early in the cell cycle. Nature.

Zhai, N., et al. (2023). Developmental trajectory of pluripotent stem cell gene network involving SCR, SHR, and WOX5 in Arabidopsis callus formation. Development, 150(5), dev200879.

Zhou, J., Li, H., Wang, Y., & Li, Y. (2022). DNA methylation dynamics modulate root meristem adaptation under nutrient stress in Arabidopsis thaliana. Frontiers in Plant Science, 13, 845971.