Summary of project PR001379
This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench, https://www.metabolomicsworkbench.org, where it has been assigned Project ID PR001379. The data can be accessed directly via it's Project DOI: 10.21228/M8G70N This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
| Project ID: | PR001379 |
| Project DOI: | doi: 10.21228/M8G70N |
| Project Title: | Multi-omics analyses of 398 foxtail millet accessions reveal genomic regions associated with domestication, metabolite traits and anti-inflammatory effects |
| Project Type: | metabolite traits |
| Project Summary: | Foxtail millet, domesticated from the wild species green foxtail, provides a rich source of phytonutrients for humans. To evaluate how breeding changed the metabolome of foxtail millet grains, we generated and analyzed datasets encompassing genomes, transcriptomes, metabolomes and anti-inflammatory indices from 398 foxtail millet accessions. We identified hundreds of common variants that influence numerous secondary metabolites, with significant heterogeneity in the natural variation of metabolites and their underlying genetic architectures between different sub-groups of foxtail millet. The combined results from variations in genome, transcriptome and metabolome illustrated how breeding has altered foxtail millet metabolite content. Selection for alleles of genes associated with yellow grains led to altered metabolite profiles, such as carotenoids and endogenous hormones. The importance of PSY1 (phytoene synthase 1) for millet color was validated using CRISPR-Cas9. The in vitro cell inflammation assay showed that 83 metabolites have anti-inflammatory effects. This multi-omics study illustrates how the breeding history of foxtail millet has impacted metabolites. It provides some fundamental resources for understanding how grain quality could be associated with different metabolites, and highlights future perspectives on millet genetic research and metabolome-assisted improvement. |
| Institute: | Shanxi Agricultural University |
| Department: | College of Life Sciences |
| Laboratory: | Shanxi Key Laboratory of Minor Crop Germplasm Innovation and Molecular Breeding |
| Last Name: | Li |
| First Name: | Xukai |
| Address: | Mingxiannan No.1, Jinzhong, Shanxi, 030801, China |
| Email: | xukai_li@sxau.edu.cn |
| Phone: | +86 15340810703 |
| Funding Source: | the National Key R&D Program of China (2019YFD1000700 and 2019YFD1000702) |
Summary of all studies in project PR001379
| Study ID | Study Title | Species | Institute | Analysis(* : Contains Untargted data) | Release Date | Version | Samples | Download(* : Contains raw data) |
|---|---|---|---|---|---|---|---|---|
| ST002168 | Multi-omics analyses of 398 foxtail millet accessions reveal genomic regions associated with domestication, metabolite traits and anti-inflammatory effects | Foxtail millet (Setaria italica) | Shanxi Agricultural University | MS* | 2022-05-31 | 1 | 1088 | Uploaded data (4.9G)* |
