Haplotype-resolved genome analyses of a heterozygous diploid potato

文献类型： 外文期刊

第一作者： Zhou, Qian

作者： Zhou, Qian;Tang, Die;Zhang, Yu;Zhang, Chunzhi;Huang, Sanwen;Zhou, Qian;Huang, Wu;Zhang, Zhonghua;Huang, Sanwen;Yang, Zhongmin;Hamilton, John P.;Robin Buell, C.;Visser, Richard G. F.;Bachem, Christian W. B.;Zhang, Zhonghua

作者机构：

期刊名称：NATURE GENETICS （ 影响因子：38.33； 五年影响因子：36.431 ）

ISSN： 1061-4036

年卷期： 2020 年 52 卷 10 期

页码：

收录情况： SCI

摘要： Potato (Solanum tuberosumL.) is the most important tuber crop worldwide. Efforts are underway to transform the crop from a clonally propagated tetraploid into a seed-propagated, inbred-line-based hybrid, but this process requires a better understanding of potato genome. Here, we report the 1.67-Gb haplotype-resolved assembly of a diploid potato, RH89-039-16, using a combination of multiple sequencing strategies, including circular consensus sequencing. Comparison of the two haplotypes revealed similar to 2.1% intragenomic diversity, including 22,134 predicted deleterious mutations in 10,642 annotated genes. In 20,583 pairs of allelic genes, 16.6% and 30.8% exhibited differential expression and methylation between alleles, respectively. Deleterious mutations and differentially expressed alleles were dispersed throughout both haplotypes, complicating strategies to eradicate deleterious alleles or stack beneficial alleles via meiotic recombination. This study offers a holistic view of the genome organization of a clonally propagated diploid species and provides insights into technological evolution in resolving complex genomes.

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