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A genome assembly of the barley 'transformation reference' cultivar Golden Promise

By Miriam Schreiber, Martin Mascher, Jonathan Wright, Sudharasan Padmarasu, Axel Himmelbach, Darren Heavens, Linda Milne, Bernardo J. Clavijo, Nils Stein, Robbie Waugh

Posted 13 Feb 2020
bioRxiv DOI: 10.1101/2020.02.12.945550 (published DOI: 10.1534/g3.119.401010)

Background: Barley ( Hordeum vulgare ) is one of the most important crops worldwide and is also considered a research model for the large-genome small grain temperate cereals. Despite genomic resources improving all the time, they are limited for the cv. Golden Promise, the most efficient genotype for genetic transformation. Findings: We have developed a barley cv. Golden Promise reference assembly integrating Illumina paired-end reads, long mate-pair reads, Dovetail Chicago in vitro proximity ligation libraries and chromosome conformation capture sequencing (Hi-C) libraries into a contiguous reference assembly. The assembled genome of 7 chromosomes and 4.13Gb in size, has a super-scaffold N50 after Chicago libraries of 4.14Mb and contains only 2.2% gaps. Using BUSCO (benchmarking universal single copy orthologous genes) as evaluation the genome assembly contains 95.2% of complete and single copy genes from the plant database. Conclusions: A high-quality Golden Promise reference assembly will be useful and utilised by the whole barley research community but will prove particularly useful for CRISPR-Cas9 experiments.

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