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The Perennial Ryegrass GenomeZipper – Targeted Use of Genome Resources for Comparative Grass Genomics

Authors :
Matthias Pfeifer
Ursula K. Frei
Torben Asp
Thomas Lübberstedt
Mihaela Martis
Bruno Studer
Stephen Byrne
Klaus F. X. Mayer
Source :
Pfeiffer, M, Martis, M, Asp, T, Mayer, K F X, Lübberstedt, T, Byrne, S, Frei, U & Studer, B 2013, ' The Perennial Ryegrass GenomeZipper – Targeted Use of Genome Resources for Comparative Grass Genomics ', Plant Physiology, vol. 161, no. 2, pp. 571-582 . https://doi.org/10.1104/pp.112.207282, Plant Physiol. 161, 571-582 (2013), PLANT PHYSIOLOGY, Pfeifer, M, Martis, M, Asp, T, Mayer, K F X, Lübberstedt, T, Byrne, S, Frei, U & Studer, B 2013, The Perennial Ryegrass GenomeZipper – Targeted Use of Genome Resources for Comparative Grass Genomics . in Plant Biotech Denmark Annual meeting 2013 . pp. 118, Plant Biotech Denmark Annual Meeting 2013, Copenhagen, Denmark, 31/01/2013 . < http://www.plant-biotech.dk/Annual_meeting.aspx >
Publication Year :
2013

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 have yet to be developed. Here, we present a model of the perennial ryegrass (Lolium perenne) genome on the basis of conserved synteny to barley (Hordeum vulgare) and the model grass genome Brachypodium (Brachypodium distachyon) as well as rice (Oryza sativa) and sorghum (Sorghum bicolor). 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 macrocollinearity and was then utilized to anchor a collection of perennial ryegrass genes in silico to their predicted genome positions. 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 genome-wide 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.

Details

Language :
English
Database :
OpenAIRE
Journal :
Pfeiffer, M, Martis, M, Asp, T, Mayer, K F X, L&#252;bberstedt, T, Byrne, S, Frei, U &amp; Studer, B 2013, &#39; The Perennial Ryegrass GenomeZipper – Targeted Use of Genome Resources for Comparative Grass Genomics &#39;, Plant Physiology, vol. 161, no. 2, pp. 571-582 . https://doi.org/10.1104/pp.112.207282, Plant Physiol. 161, 571-582 (2013), PLANT PHYSIOLOGY, Pfeifer, M, Martis, M, Asp, T, Mayer, K F X, L&#252;bberstedt, T, Byrne, S, Frei, U &amp; Studer, B 2013, The Perennial Ryegrass GenomeZipper – Targeted Use of Genome Resources for Comparative Grass Genomics . in Plant Biotech Denmark Annual meeting 2013 . pp. 118, Plant Biotech Denmark Annual Meeting 2013, Copenhagen, Denmark, 31/01/2013 . < http://www.plant-biotech.dk/Annual_meeting.aspx >
Accession number :
edsair.doi.dedup.....094c24b5827e728e7b24cd57ec5c88c2
Full Text :
https://doi.org/10.1104/pp.112.207282