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https://hdl.handle.net/2440/126551
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Type: | Journal article |
Title: | A genome assembly of the barley 'transformation reference' cultivar golden promise |
Author: | Schreiber, M. Mascher, M. Wright, J. Padmarasu, S. Himmelbach, A. Heavens, D. Milne, L. Clavijo, B.J. Stein, N. Waugh, R. |
Citation: | G3: Genes, Genomes, Genetics, 2020; 10(6):1823-1827 |
Publisher: | Genetics Society of America |
Issue Date: | 2020 |
ISSN: | 2160-1836 2160-1836 |
Statement of Responsibility: | Miriam Schreiber, Martin Mascher, Jonathan Wright, Sudharasan Padmarasu, Axel Himmelbach ... Robbie Waugh ... et al. |
Abstract: | 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. 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. |
Keywords: | Barley Golden Promise reference assembly |
Rights: | © 2020 Schreiber et al.This is an open-access article distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. |
DOI: | 10.1534/g3.119.401010 |
Published version: | http://dx.doi.org/10.1534/g3.119.401010 |
Appears in Collections: | Agriculture, Food and Wine publications Aurora harvest 8 |
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