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Whole genome sequencing of six strains of Philippine local foxtail millet (Setaria italica) accessions

ABSTRACT: Whole genome sequencing of six strains of Philippine local foxtail millet (Setaria italica) accessions

PROVIDER: PRJEB59514 | ENA |

REPOSITORIES: ENA

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Dataset's files

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			Action	DRS
	ERR10837967_1.fastq.gz	Fastqsanger.gz
	ERR10837967_2.fastq.gz	Fastqsanger.gz
	ERR10837968_1.fastq.gz	Fastqsanger.gz
	ERR10837968_2.fastq.gz	Fastqsanger.gz
	ERR10837969_1.fastq.gz	Fastqsanger.gz

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Whole genome sequencing of six strains of Philippine local foxtail millet (Setaria italica) accessions

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Project description:Whole genome sequencing of two strains of Philippine local foxtail millet (Setaria italica) accessions

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Project description: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.

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