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Article
The Perennial Ryegrass GenomeZipper: Targeted Use of Genome Resources for Comparative Grass Genomics
Plant Physiology
  • Matthias Pfeifer, Helmholtz Center Munich
  • Mihaela Martis, Helmholtz Center Munich
  • Torben Asp, Aarhus University
  • Klaus F. X. Mayer, Helmholtz Center Munich
  • Thomas Lubberstedt, Iowa State University
  • Stephen Byrne, Aarhus University
  • Ursula Frei, Iowa State University
  • Bruno Studer, ETH Zurich
Document Type
Article
Publication Version
Accepted Manuscript
Publication Date
2-1-2013
DOI
10.1104/pp.112.207282
Abstract

Whole-genome sequences established for model and major crop species constitute a key resource for advanced genomic research. For outbreeding forage and turf grass species like ryegrasses (Lolium spp.), such resources are yet to be developed. Here, we present a model of the perennial ryegrass (Lolium perenne L.) genome on the basis of conserved synteny to barley (Hordeum vulgare L.) and the model grass genome Brachypodium (Brachypodium distachyon L.), as well as rice (Oryza sativa L.) and sorghum [Sorghum bicolor (L.) Moench]. A transcriptome-based genetic linkage map of perennial ryegrass served as a scaffold to establish the chromosomal arrangement of syntenic genes from model grass species. This scaffold revealed a high degree of synteny and macro-collinearity, and was then utilised to anchor a collection of perennial ryegrass genes in silico to their predicted genome position. This resulted in the unambiguous assignment of 3,315 out of 8,876 previously unmapped genes to the respective chromosomes. In total, the GenomeZipper incorporates 4,035 conserved grass gene loci which were used for the first genomewide sequence divergence analysis between perennial ryegrass, barley, Brachypodium, rice, and sorghum. The perennial ryegrass GenomeZipper is an ordered, information-rich genome scaffold, facilitating map-based cloning and genome assembly in perennial ryegrass and closely related Poaceae species. It also represents a milestone in describing synteny between perennial ryegrass and fully sequenced model grass genomes, thereby increasing our understanding of genome organization and evolution in the most important temperate forage and turf grass species.

Comments

This is a manuscript of an article published as Pfeifer, Matthias, Mihaela Martis, Torben Asp, Klaus FX Mayer, Thomas Lübberstedt, Stephen Byrne, Ursula Frei, and Bruno Studer. "The perennial ryegrass GenomeZipper: targeted use of genome resources for comparative grass genomics." Plant physiology 161, no. 2 (2013): 571-582. doi: 10.1104/pp.112.207282. Copyright American Society of Plant Biologists. Posted with permission.

Copyright Owner
American Society of Plant Biologists
Language
en
File Format
application/pdf
Citation Information
Matthias Pfeifer, Mihaela Martis, Torben Asp, Klaus F. X. Mayer, et al.. "The Perennial Ryegrass GenomeZipper: Targeted Use of Genome Resources for Comparative Grass Genomics" Plant Physiology Vol. 161 (2013) p. 571 - 582
Available at: http://works.bepress.com/thomas-lubberstedt/78/