Reference Genome Sequence Of The Model Plant Setaria

ASU Author/Contributor (non-ASU co-authors, if there are any, appear on document)
Matt Estep, Assistant Professor (Creator)
Appalachian State University (ASU )
Web Site:

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).

Additional Information

Jeffrey L Bennetzen, Jeremy Schmutz, Hao Wang, Ryan Percifield, Jennifer Hawkins, Ana C Pontaroli, Matt Estep, Liang Feng, Justin N Vaughn, Jane Grimwood, Jerry Jenkins, Kerrie Barry, Erika Lindquist, Uffe Hellsten, Shweta Deshpande, Xuewen Wang, Xiaomei Wu, Therese Mitros, Jimmy Triplett, Xiaohan Yang, Chu-Yu Ye, Margarita Mauro-Herrera, Lin Wang, Pinghua Li, Pinghua Li, Rita Sharma, Pamela C Ronald, Olivier Panaud, Elizabeth A Kellogg, Thomas P Brutnell, Andrew N Doust, Gerald A Tuskan, Daniel Rokhsar & Katrien M Devos (2011) "Reference Genome Sequence Of The Model Plant Setaria" Nature Biotechnology vol 30 #6 Version of Record Available @ [doi:10.1038/nbt.2196]
Language: English
Date: 2011
genome sequence, setaria, phylogeny, BES data

Email this document to