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ABSTRACT: RNA-seq of two foxtail millet grains

PROVIDER: PRJNA673778 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR12972556_1.fastq.gz	Fastqsanger.gz
	SRR12972556_2.fastq.gz	Fastqsanger.gz
	SRR12972557_1.fastq.gz	Fastqsanger.gz
	SRR12972557_2.fastq.gz	Fastqsanger.gz
	SRR12972558_1.fastq.gz	Fastqsanger.gz

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Multi-omics analyses of 398 foxtail millet accessions reveal genomic regions associated with domestication, metabolite traits and anti-inflammatory effects

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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Project description:The study aims to identify molecular variations across these six lines of foxtail millet.

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Effects of arbuscular mycorrhizal symibiosis on gene expression in the foxtail millet roots

Project description:To investigate the involvement of arbuscular mycorrhizal symbiosis in the moleular regulation in foxtail millet roots and the effects of genetic variation on AMS-mediated molecular regulation, we isolated total RNA from the roots of 3 different landraces for comprehensive transcriptomic analysis. We then performed gene expression profiling analysis using data obtained from RNA-seq of 3 different landraces (Hanevalval, TT8, ICE36) after 6-week mock or arbuscular mycorrhizal fungi treatments.

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Project description:RNA-seq of Foxtail Millet

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Project description:rna-seq of foxtail millet

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Transcriptome sequencing of Foxtail millet Setaria italica for different tissues

Project description:Transcriptome sequencing of Foxtail millet Setaria italica (Zhang-gu) for different tissues. Four RNA pools were created corresponding to four different tissues: root, leaf, stem, spica (tassel) at developmental stage, then each pool was sequenced.

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Differential proteomics investigation of foxtail millet unravels alteration of stress responsive proteins under drought

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Project description:RNA-seq of foxtail millet panicle

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