ArticleNature biotechnology2012
Reference genome sequence of the model plant Setaria.
Article in Nature biotechnology, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 451 papers.
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Who cites it
451 citing papers in PubMed.
- Article
- Seed shattering habit in millets and the secrets of the abscission layer - a comprehensive review.Protoplasma · 2026Review
- Profiling maize embryonic leaf development and discovering new genes using high-resolution spatial long-read isoform sequencing.Nature plants · 2026Article
- Integrative RNA sequencing uncovers the miRNA-mRNA landscape of water-deficit response in Setaria italica.Planta · 2026Article
- Genome-wide association analysis and candidate gene identification for plant height in Shanxi local foxtail millet varieties.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Harnessing genomics and transcriptomics to explore the genetic and molecular basis of abiotic stress tolerance in minor millets - a comprehensive review.Functional & integrative genomics · 2026Review
- Genome analysis of Channel millet reveals a wild dodecaploid shaped by environmental variability.Nature communications · 2026Article
- Widespread non-target-site resistance in Setaria viridis to four classes of herbicide.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- The Genome-Wide Identification and Expression Analysis of the AMT Gene Family in Foxtail Millet.Biology · 2026Article
- Comprehensive genomic and haplotype analysis of the phytocyanin gene family reveals evolutionary expansion and functional diversification in Setaria italica.Plant cell reports · 2026Article
- Genome-wide identification of the histone gene family in foxtail millet (Setaria italica) and analysis of its expression pattern in response to abiotic stress.BMC plant biology · 2026Article
- Moderate densification and fertilization enhance water use efficiency in foxtail millet by optimizing water consumption partitioning.Frontiers in plant science · 2026Article
- Development of liquid chip for functional genes in foxtail millet (Frontiers in plant science · 2026Article
- Genome-wide comparative analysis of the JmjC gene family inFrontiers in plant science · 2026Article
- Multi-omics analysis reveals the phenylalanine pathway associated with stem development under organic and compound fertilizers inFrontiers in plant science · 2026Article
- Climate-driven redistribution of foxtail millet (Frontiers in plant science · 2026Article
- Recurrent polyploidy and descending dysploidy as plant genome shapers: Insights from Sporobolus (Chloridoideae, Poaceae) genomes.PloS one · 2026Article
- Transcriptomics and resequencing reveal dual evolutionary strategies for salt tolerance in foxtail millet (Frontiers in plant science · 2026Article
- Deciphering plant stress resilience in different millet crops: from multi-omics discoveries to predictive breeding for climate-resilient crop enhancement.Frontiers in plant science · 2026Review
- Harnessing Setaria as a Model for CPlants (Basel, Switzerland) · 2025Review
391 more citing papers are in PubMed but not listed here.
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Authors and funding
34 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
We generated a high-quality reference genome sequence for foxtail millet (Setaria italica). The ∼400-Mb assembly covers ∼80% of the genome and >95% of the gene space. The assembly was anchored to a 992-locus genetic map and was annotated by comparison with >1.3 million expressed sequence tag reads. We produced more than 580 million RNA-Seq reads to facilitate expression analyses. We also sequenced Setaria viridis, the ancestral wild relative of S. italica, and identified regions of differential single-nucleotide polymorphism density, distribution of transposable elements, small RNA content, chromosomal rearrangement and segregation distortion. The genus Setaria includes natural and cultivated species that demonstrate a wide capacity for adaptation. The genetic basis of this adaptation was investigated by comparing five sequenced grass genomes. We also used the diploid Setaria genome to evaluate the ongoing genome assembly of a related polyploid, switchgrass (Panicum virgatum).
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