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ABSTRACT: BSR-Seq data of foxtail millet

PROVIDER: PRJNA792301 | ENA |

REPOSITORIES: ENA

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Dataset's files

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			Action	DRS
	SRR17400717_1.fastq.gz	Fastqsanger.gz
	SRR17400717_2.fastq.gz	Fastqsanger.gz
	SRR17400718_1.fastq.gz	Fastqsanger.gz
	SRR17400718_2.fastq.gz	Fastqsanger.gz
	SRR17400719_1.fastq.gz	Fastqsanger.gz

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Transcriptome profiling of developing inflorescences reveals SiMADS1 as a key regulator of floral development in foxtail millet [DAP-seq]

Project description:Inflorescence development of foxtail millet (Setaria italica L.) is important for its yield and quality. The molecular basis of foxtail millet inflorescence development is poorly understood. In this study, we analyzed the transcriptome landscape of three developing inflorescence stages in foxtail millet and compared with two-week seedlings. The transcriptome revealed the expression model of genes that may be engagement in inflorescence development, such as kinase, transporter, E3 ubiquitin ligase, reactive oxygen species (ROS) related proteins, MADS-box family, shoot apical meristem pathway related proteins, cell cycle associated proteins, ribosomal proteins and etc. The SiMADS1 knockout line exhibits a phenotype of defective floral organs, resulting in greatly reduced yield. We further analyzed the transcriptomes of simads1 at the green anther and panicle stages. By integrating transcriptomes data with DAP-seq analysis, we identified multiple downstream regulatory genes of SiMADS1. This study provides new genetic resources for further analysis of the molecular mechanism of inflorescence development in foxtail millet.

2026-09-01 | GSE309337 | GEO

Project description:SLAF and BSR sequencing data of foxtail millet

| PRJNA967632 | ENA

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

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

2023-02-15 | E-MTAB-12658 | biostudies-arrayexpress

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

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

2023-06-10 | E-MTAB-13027 | biostudies-arrayexpress

Transcriptome sequencing of Foxtail millet Setaria italica for different tissues

Project description:Transcriptome sequencing of Foxtail millet Setaria italica (Zhang-gu) for different tissues.

2012-03-31 | GSE36391 | GEO

H3K27ac-associated regulatory atlas in foxtail millet and green foxtail validation

Project description:This high-throughput sequencing submission contains H3K27ac CUT&Tag data used to build a source-supported regulatory atlas for foxtail millet, Setaria italica, and a single Setaria viridis validation sample used for representative candidate loci. The data support an H3K27ac-associated regulatory map, sequence-model based candidate cis-regulatory region prediction, and conservative candidate-locus prioritization.

2026-06-30 | GSE336591 | GEO

Transposable element polymorphisms underlie epigenetic variation and phenotypic diversification during foxtail millet domestication [miRNA-Seq]

Project description:Transposable elements (TEs) are mobile DNA sequences that can reshape genomes, yet their role in crop domestication and adaptation has not been systematically investigated. Here we show that TE-associated genetic variants drive heritable epigenetic changes underlying key domestication traits in foxtail millet (Setaria italica), a cereal domesticated from green millet within the past ~11,000 years. By analyzing DNA methylation, transcriptome, small RNA, and structural variation data across 60 wild and domesticated accessions of foxtail millet, we identify 76,815 differentially methylated regions (DMRs), which associated with extensive polymorphic TE insertions. The epigenomic variation enable the discovery of a polymorphic TE inventory linked to key domestication traits, including seed shattering, branching, and growth habit. Functional analyses reveal two DNA/PIF-Harbinger elements insertions in the 5’ UTR regions of pleiotropic gene SiGW3 modulate its expression and regulate the plant architecture, panicle morphology, and grain size. Our findings highlight that naturally occurring TE polymorphisms can generate epigenetic variations and contributing to phenotypic evolution during crop domestication, offering insights for crop improvement and adaptive breeding.

2026-09-17 | GSE347113 | GEO

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

Project description:Foxtail millet (Setaria italica L. P. Beauv) has been considered as a tractable model crop in recent years due to its short growing cycle, lower repetitive DNA, inbreeding nature, small diploid genome, and outstanding abiotic stress-tolerance characteristics. With modern agriculture often facing various adversities, it’s urgent to dissect the mechanisms of how foxtail millet responds and adapts to drought and stress on the proteomic-level.

2019-11-12 | PXD008176 | Pride

Project description:BSA-Seq data of foxtail millet

| PRJNA803824 | ENA

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.

2012-03-31 | E-GEOD-36391 | biostudies-arrayexpress

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