Data for: Differentially expressed genes comparing WT plants vs xal1-2

The balance between cell growth, proliferation, and differentiation rates emerges from gene regulatory networks coupled to various signal transduction pathways, including reactive oxygen species (ROS) and transcription factors (FTs), enabling developmental responses to environmental cues. The Arabidopsis thaliana's primary root has become a valuable system for unraveling such networks. Recently, the role of transcription factors mediating ROS's inhibition of primary root growth has begun to be characterized. This study demonstrates that the MADS-box transcription factor XAANTAL1 (XAL1) is an essential regulator of hydrogen peroxide (H2O2) in primary root growth and root stem cell niche identity. Interestingly, our findings suggest that XAL1 acts as a positive regulator of H2O2 concentration in the root meristem by directly regulating genes involved in oxidative stress response, such as PEROXIDASE 28 (PER28). Moreover, we found that XAL1 is necessary for the H2O2-induced inhibition of pr..., Three biological replicates, each consisting of approximately 60 plants, were prepared. The total RNA from 8dps roots was extracted using the Quick-RNA Miniprep Plus Kit (Zymo Research, Irvine, USA), including a DNaseI treatment step to remove contaminating DNA. The RNA integrity and quantity were assessed using a 2100 Bioanalyzer. Subsequently, the RNA was sequenced at the “Unidad de Síntesis y Secuenciación de DNA” of the Universidad Nacional Autónoma de México located at the Instituto de Biotecnología in Cuernavaca, Morelos, using an Illumina platform. For the analysis of differential transcript accumulation analysis, the raw sequencing data underwent trimming with Trimmomatic version 0.39 (Bolger et al., 2014) using the following parameters: ILLUMINACLIP: 2:30:10 LEADING:3 TRAILING:3 SLIDING WINDOW:4:15 MINLEN:50 HEADCROP:10. The quality of reads was evaluated with FastQC version 0.11.9 (Andrews, 2010) both before and after the trimming process. Biological replicates were aligned to..., , # Data for: Differentially expressed genes comparing WT plants vs xal1-2

---

## Description of the Data and file structure

File name: Supplementary_data_DEGs_Zluhan-Martinez.xlsx

Differentially expressed genes comparing WT plants vs xal1-2. The output of DESeq2 is shown.

* Gene: gene locus
* baseMean: mean value of normalized read counts of all the samples used for the comparison.
* log2FoldChange: log2 values of fold changes of normalized read counts in datasets comparing WT and xal1-2.
* lfcSE: the standard error estimate for the log2 fold change.
* stat: Wald statistics.
* pvalue: Wald test p-value.
* padj: Benjamini-Hochberg adjusted p-value.
* symbol: Gene name abbreviation.
* Downregulated: if it is down- or up-regulated