A Genome Assembly of the Barley ‘Transformation Reference’ Cultivar Golden Promise

G3: Genes, Genomes, Genetics - Tập 10 Số 6 - Trang 1823-1827 - 2020
Miriam Schreiber1, Martin Mascher2,3, Jonathan Wright4, Sudharsan Padmarasu3, Axel Himmelbach3, Darren Heavens4, Linda Milne5, Bernardo Clavijo4, Nils Stein6,3, Robbie Waugh1,7,8
1Cell and Molecular Sciences, The James Hutton Institute, Invergowrie, Dundee, Scotland DD2 5DA, UK
2German Centre for Integrative Biodiversity Research (iDiv), Halle-Jena-Leipzig, Deutscher Platz 5e, 04103, Leipzig, Germany
3Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) Gatersleben, Seeland, Germany
4Earlham Institute, Norwich Research Park, Norwich NR4 7UH, UK
5Information and Computational Sciences, The James Hutton Institute, Invergowrie, Dundee, Scotland DD2 5DA, UK
6CiBreed - Center for Integrated Breeding Research, Georg-August University Göttingen, Department of Crop Sciences, Von Siebold Straße 8, 37075 Göttingen, Germany
7Division of Plant Sciences, University of Dundee at The James Hutton Institute, Invergowrie, Dundee, Scotland DD2 5DA, UK
8School of Agriculture and Wine, University of Adelaide, Plant Genome Building, Waite Campus, Urrbrae, Adelaide, South Australia

Tóm tắt

AbstractBarley (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. 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. A high-quality Golden Promise reference assembly will be useful and utilized by the whole barley research community but will prove particularly useful for CRISPR-Cas9 experiments.

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G3: Genes, Genomes, Genetics

Tập 10 Số 6

1823-1827

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