苹果 '红富士' 单倍型解析基因组组装

A haplotype-resolved genome assembly of Malus domestica 'Red Fuji'.

机构信息

Beijing Key Laboratory for Agriculture Application and New Technique, Colege of Plant Science and Technology, Bejing University of Agriculture, Bejing, 102206, China.

Bioinformatics Center, Bejing University of Agriculture, Bejing, 102206, China.

出版信息

Sci Data. 2024 Jun 6;11(1):592. doi: 10.1038/s41597-024-03401-1.

DOI:10.1038/s41597-024-03401-1

PMID:38844753

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11156929/

Abstract

The 'Red Fuji' apple (Malus domestica), is one of the most important and popular economic crops worldwide in the fruit industry. Using PacBio HiFi long reads and Hi-C reads, we assembled a high-quality haplotype-resolved genome of 'Red Fuji', with sizes of 668.7 and 668.8 Mb, and N50 sizes of 34.1 and 31.4 Mb. About 97.2% of sequences were anchored in 34 chromosomes. We annotated both haploid genomes, identifying a total of 95,439 protein-coding genes in the two haplotype genomes, with 98% functional annotation. The haplotype-resolved genome of 'Red Fuji' apple stands as a precise benchmark for an array of analyses, such as comparative genomics, transcriptomics, and allelic expression studies. This comprehensive resource is paramount in unraveling variations in allelic expression, advancing quality improvements, and refining breeding efforts.

摘要

“红富士”苹果（Malus domestica）是全球水果产业中最重要、最受欢迎的经济作物之一。利用 PacBio HiFi 长读长和 Hi-C 读长，我们组装了一个高质量的“红富士”单倍型基因组，大小分别为 668.7 和 668.8Mb，N50 大小分别为 34.1 和 31.4Mb。大约 97.2%的序列锚定在 34 条染色体上。我们注释了两个单倍型基因组，在两个单倍型基因组中共鉴定了 95439 个蛋白质编码基因，其中 98%具有功能注释。“红富士”苹果的单倍型基因组为一系列分析提供了精确的基准，如比较基因组学、转录组学和等位基因表达研究。这个全面的资源对于揭示等位基因表达的变异、提高质量改进和优化育种工作至关重要。