TY - JOUR
T1 - A Genome Assembly of the Barley 'Transformation Reference' Cultivar Golden Promise
AU - Schreiber, Miriam
AU - Mascher, Martin
AU - Wright, Jonathan
AU - Padmarasu, Sudharasan
AU - Himmelbach, Axel
AU - Heavens, Darren
AU - Milne, Linda
AU - Clavijo, Bernardo J.
AU - Stein, Nils
AU - Waugh, Robbie
N1 - The research leading to these results was funded by the H2020 European Research Council (ERC Shuffle, Project ID: 66918) to RW. We acknowledge the Scottish Government RESAS Strategic research program for supporting this research. MM and NS were supported by a grant from the German Federal Ministry of Education and Research (BMBF, FKZ 031B0190A ‘SHAPE’). We would like to thank and acknowledge Dovetail for their End-of-Year Matching Funds Grant to MS.
PY - 2020/6/1
Y1 - 2020/6/1
N2 - 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.
AB - 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.
KW - Barley reference assembly
KW - Golden Promise
UR - http://www.scopus.com/inward/record.url?scp=85085715351&partnerID=8YFLogxK
U2 - 10.1534/g3.119.401010
DO - 10.1534/g3.119.401010
M3 - Article
C2 - 32241919
VL - 10
SP - 1823
EP - 1827
JO - G3: Genes | Genomes | Genetics
JF - G3: Genes | Genomes | Genetics
IS - 6
ER -