Quail MA, Smith M, Coupland P, Otto TD, Harris SR, Connor TR, et al. It is not only suitable for genome editing and gene cloning, but also for RNA-seq and whole-genome re-sequencing studies.Īpple Illumina sequencing Malus x domestica PacBio sequencing. The new apple genome assembly will serve as a valuable resource for investigating complex apple traits at the genomic level. Further annotation analyses predicted 53,922 protein-coding genes and 2,765 non-coding RNA genes. The contig N50 size is 111,619 bp, representing a 7 fold improvement. The final draft genome is approximately 632.4 Mb, representing ~ 90 % of the estimated genome. Here we present an improved hybrid de novo genomic assembly of apple (Golden Delicious), which was obtained from 76 Gb (~102 × genome coverage) Illumina HiSeq data and 21.7 Gb (~29 × genome coverage) PacBio data. These downsides make it difficult to apply this reference in transcriptive or whole-genome re-sequencing analyses. Although a useful resource, this assembly covers only ~89 % of the non-repetitive portion of the genome, and has a relatively short (16.7 kb) contig N50 length. Currently, a single reference genome is available for apple, assembled from 16.9 × genome coverage short reads via Sanger and 454 sequencing technologies. A high-quality apple genome assembly is crucial for the selection and breeding of new cultivars. In 2012, global apple production accounted for at least one tenth of all harvested fruits. apple (Malus × domestica Borkh) is a popular temperate fruit with high nutrient levels and diverse flavors. 8 State Key Laboratory of Crop Stress Biology for Arid Areas, College of Horticulture, Northwest A&F University, Yangling, 712100, China. 7 State Key Laboratory of Crop Stress Biology for Arid Areas, College of Horticulture, Northwest A&F University, Yangling, 712100, China. 6 Faculty of Life Science and Technology, Kunming University of Science and Technology, Kunming, 650500, China. 5 College of Biological big data, Yunnan Agriculture University, Kunming, 650504, China. 4 Department of Horticulture, Michigan State University, East Lansing, MI, 48824, USA.3 Agri-biotech-lab Company, Kunming, 650220, China.2 State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, 650223, China.1 State Key Laboratory of Crop Stress Biology for Arid Areas, College of Horticulture, Northwest A&F University, Yangling, 712100, China.
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