Chromosome-scale genome assembly provides insights into rye biology, evolution, and agronomic potential

M. Timothy Rabanus‐Wallace; Bernd Hackauf; Martin Mascher; Thomas M. Lux; Thomas Wicker; Heidrun Gundlach; Mariana Alejandra Baez; Andreas Houben; Klaus Mayer; Liangliang Guo; Jesse Poland; Curtis Jerry Pozniak; Sean Walkowiak; Joanna Melonek; Coraline Rosalie Praz; Mona Schreiber; Hikmet Budak; Matthias Heuberger; Burkhard Steuernagel; Brande B. H. Wulff; Andreas Börner; Brook Byrns; Jana Čížková; Brian Fowler; Allan K. Fritz; Axel Himmelbach; Gemy Kaithakottil; Jens Keilwagen; Beat Keller; David J. F. Konkin

doi:10.1038/s41588-021-00807-0

GenomicsNature GeneticsMar 18, 2021

Peer-reviewed journal article

Chromosome-scale genome assembly provides insights into rye biology, evolution, and agronomic potential

M. Timothy Rabanus‐Wallace iD, Bernd Hackauf iD, Martin Mascher iD, Thomas M. Lux iD, Thomas Wicker iD, Heidrun Gundlach iD, Mariana Alejandra Baez iD, Andreas Houben iD, Klaus Mayer iD, Liangliang Guo, Jesse Poland iD, Curtis Jerry Pozniak iD, Sean Walkowiak iD, Joanna Melonek iD, Coraline Rosalie Praz iD, Mona Schreiber iD, Hikmet Budak iD, Matthias Heuberger iD, Burkhard Steuernagel iD, Brande B. H. Wulff iD, Andreas Börner iD, Brook Byrns iD, Jana Čížková iD, Brian Fowler iD, Allan K. Fritz iD, , Nils Stein iD

Abstract

We present a chromosome-scale annotated assembly of the rye (Secale cereale L. inbred line Lo7) genome, which we use to explore Triticeae genomic evolution, and ryes superior disease and stress tolerance. The rye genome shares chromosome-level organization with other Triticeae cereals, but exhibits unique retrotransposon dynamics and structural features. Crop improvement in rye, as well as in wheat and triticale, will profit from investigations of rye gene families implicated in pathogen resistance, low temperature tolerance, and fertility control systems for hybrid breeding. We show that rye introgressions in wheat breeding panels can be characterised in high-throughput to predict the yield effects and trade-offs of rye chromatin.

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