Transcriptome Analysis of Early Lateral Root Formation in Tomato
Abstract
:1. Introduction
2. Results
2.1. Temporal Dynamics of Lateral Root (LR) Development in Tomato Seedlings
2.2. Cytological Analysis of Tomato LRs
2.3. Cluster Analysis of Transcriptome Data from Different Stages of LR Development
2.4. Co-Expression Analysis of Genes in 16 Clusters of the Tomato Root Transcriptome
2.5. Expression of TFs Related to LR Formation
2.6. Marker Gene Expression in LR Development and by Quantitative Real-Time PCR (qPCR) Validation
2.7. Determination of Endogenous IAA Content in Tomato
2.8. Tomato Seedlings Treated with Different Concentrations of IAA and NPA
3. Discussion
4. Materials and Methods
4.1. Plant Material and Growth Conditions
4.2. Paraffin Sectioning of Tomato Seedling Roots
4.3. RNA Extraction and Transcriptome Sequencing
4.4. Sample Correlation
4.5. Gene Expression Analysis and Identification of Differentially Expressed Genes (DEGs)
4.6. K-Means Analysis and GO Enrichment Analysis
4.7. Validation of RNA-Seq Data by qPCR
4.8. Measuring Endogenous Levels of IAA, IAA Precursors, and IAA Metabolites
4.9. IAA and NPA Treatments at Different Concentrations
4.10. Statistical Analysis Methods
Supplementary Materials
Author Contributions
Funding
Data Availability Statement
Conflicts of Interest
References
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Zhang, A.; Shang, Q. Transcriptome Analysis of Early Lateral Root Formation in Tomato. Plants 2024, 13, 1620. https://doi.org/10.3390/plants13121620
Zhang A, Shang Q. Transcriptome Analysis of Early Lateral Root Formation in Tomato. Plants. 2024; 13(12):1620. https://doi.org/10.3390/plants13121620
Chicago/Turabian StyleZhang, Aiai, and Qingmao Shang. 2024. "Transcriptome Analysis of Early Lateral Root Formation in Tomato" Plants 13, no. 12: 1620. https://doi.org/10.3390/plants13121620