Data for: Tomato root specialized metabolites evolved through gene duplication and regulatory divergence within a biosynthetic gene cluster

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 a..., , , # **Data for: Tomato root specialized metabolites evolved through gene duplication and regulatory divergence within a biosynthetic gene cluster**

[https://doi.org/10.5061/dryad.8cz8w9gzh](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 colum...

植物代谢多样性的广度源于系统发育受限的特化代谢通路。特化代谢物在特定细胞或组织中合成，其通路基因有时会共定位在生物合成基因簇（biosynthetic gene clusters, BGCs）中。然而，空间表达模式的形成机制，以及BGCs在通路演化中的作用，迄今仍未得到充分重视。本研究针对茄科植物中酰基糖的演化机制展开探究。此前认为酰基糖仅存在于腺毛中，近期却在栽培番茄的根系中发现了酰基糖。本研究证实栽培番茄根系与腺毛中的酰基糖具有不同的糖核心结构，鉴定出腺毛酰基糖通路基因的根系富集旁系同源基因，并解析了根系酰基糖生物合成所需的关键旁系同源基因SlASAT1-LIKE（SlASAT1-L）——该基因嵌套于此前报道的腺毛酰基糖BGC中。最后，本研究提供了证据表明ASAT1-L……

# **数据集主题：番茄根系特化代谢物通过生物合成基因簇内的基因复制与调控分化演化而来**

[https://doi.org/10.5061/dryad.8cz8w9gzh](https://doi.org/10.5061/dryad.8cz8w9gzh)

本数据集包含上述研究的补充表S2，其对应论文主题为《番茄根系特化代谢物通过生物合成基因簇内的基因复制与调控分化演化而来》。

## **数据与文件结构说明**

补充表S2汇总了274份公开可用的栽培番茄（Solanum lycopersicum）转录组样本的差异基因表达分析与加权基因共表达网络分析（weighted gene coexpression analysis, WGCNA）结果，这些样本涵盖84个组织-发育阶段样本组。补充表S2共包含125列与26364行，涵盖84个组织-发育阶段样本组中每个表达基因的分析结果（本数据集的注释基因共34620个，其中26364个基因有表达量数据）。每个基因所属的WGCNA共表达网络模块信息将在……列中列出。