Data for: Tomato root specialized metabolites evolved through gene duplication and regulatory divergence within a biosynthetic gene cluster
Data files
Apr 03, 2024 version files 39.96 MB
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Kerwin_et_al_SA_Table_S2.xlsx
39.95 MB
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README.md
1.92 KB
Abstract
Tremendous plant metabolic diversity arises from phylogenetically-restricted specialized metabolic pathways. Specialized metabolites are synthesized in dedicated cells or tissues, with pathway genes sometimes colocalizing in biosynthetic gene clusters (BGCs). However, the mechanisms by which spatial expression patterns arise and the role of BGCs in pathway evolution remain underappreciated. In this study, we investigated the mechanisms driving acylsugar evolution in the Solanaceae. Previously thought to be restricted to glandular trichomes, acyl sugars were recently discovered in cultivated tomato roots. We demonstrated that acyl sugars in cultivated tomato roots and trichomes have different sugar cores, identified root-enriched paralogs of trichome acyl sugar pathway genes, and characterized a key paralog required for root acyl sugar biosynthesis, SlASAT1-LIKE (SlASAT1-L), which is nested within a previously-reported trichome acyl sugar BGC. Finally, we provided evidence that ASAT1-L arose through duplication of its paralog, ASAT1, and was trichome-expressed before acquiring root-specific expression in the Solanum genus. Our results illuminate the genomic context and molecular mechanisms underpinning metabolic diversity in plants.
https://doi.org/10.5061/dryad.8cz8w9gzh
This dataset consists of Table S2 from Tomato root specialized metabolites evolved through gene duplication and regulatory divergence within a biosynthetic gene cluster.
Description of the data and file structure
Table S2 summarizes results from differential gene expression analysis and weighted gene coexpression analysis (WGCNA) of 274 publicly available cultivated tomato (Solanum lycopersicum) transcriptome samples, representing 84 tissue-developmental stage sample groups. Table S2 contains 125 columns and 26,364 rows, with results from each gene expressed across the 84 tissue-developmental stage groups (26,364 of 34,620 annotated genes were expressed in our dataset). The WGCNA coexpression network module that each gene falls into is listed in column one. The name, description, and genomic position of each gene are listed in columns two to seven. Columns eight to 41 summarize results from differential gene expression analyses, including relative transcript abundance as log2 adjusted fold-change (adjFC) and multiple-test corrected p-value for each pairwise comparison. Columns 42 to 125 list absolute expression abundance in transcripts per million (TPM) for each of the 84 tissue-developmental stage sample groups.
For details on each transcriptome sample, please refer to Table S1 of “Tomato root specialized metabolites evolved through gene duplication and regulatory divergence within a biosynthetic gene cluster”.
For details on differential gene expression analysis and WGCNA, please refer to the methods documented in “Tomato root specialized metabolites evolved through gene duplication and regulatory divergence within a biosynthetic gene cluster”.
- Kerwin, Rachel E.; Hart, Jaynee E.; Fiesel, Paul D. et al. (2024). Tomato root specialized metabolites evolved through gene duplication and regulatory divergence within a biosynthetic gene cluster. Science Advances. https://doi.org/10.1126/sciadv.adn3991