A chromosomal-scale genome assembly of modern cultivated hybrid sugarcane provides insights into origination and evolution

文献类型： 外文期刊

第一作者： Bao, Yixue

作者： Bao, Yixue;Zhang, Qing;Huang, Jiangfeng;Yao, Wei;Yu, Zehuai;Deng, Zuhu;Yu, Xikai;Lu, Shan;Li, Ru;Zou, Chengwu;Xu, Yuzhi;Liu, Zongling;Yu, Fan;Song, Jiaming;Huang, Youzong;Zhang, Jisen;Wang, Haifeng;Chen, Baoshan;Zhang, Muqing;Bao, Yixue;Zhang, Qing;Huang, Jiangfeng;Yao, Wei;Yu, Zehuai;Deng, Zuhu;Yu, Xikai;Lu, Shan;Li, Ru;Zou, Chengwu;Xu, Yuzhi;Liu, Zongling;Yu, Fan;Song, Jiaming;Huang, Youzong;Zhang, Jisen;Wang, Haifeng;Chen, Baoshan;Zhang, Muqing;Zhang, Qing;Zhang, Shengcheng;Yu, Jiaxin;Kong, Weilong;Wang, Yibin;Song, Yuhan;Zhang, Xingtan

作者机构：

期刊名称：NATURE COMMUNICATIONS （ 影响因子：14.7； 五年影响因子：16.1 ）

ISSN：

年卷期： 2024 年 15 卷 1 期

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收录情况： SCI

摘要： Sugarcane is a vital crop with significant economic and industrial value. However, the cultivated sugarcane's ultra-complex genome still needs to be resolved due to its high ploidy and extensive recombination between the two subgenomes. Here, we generate a chromosomal-scale, haplotype-resolved genome assembly for a hybrid sugarcane cultivar ZZ1. This assembly contains 10.4 Gb genomic sequences and 68,509 annotated genes with defined alleles in two sub-genomes distributed in 99 original and 15 recombined chromosomes. RNA-seq data analysis shows that sugar accumulation-associated gene families have been primarily expanded from the ZZSO subgenome. However, genes responding to pokkah boeng disease susceptibility have been derived dominantly from the ZZSS subgenome. The region harboring the possible smut resistance genes has expanded significantly. Among them, the expansion of WAK and FLS2 families is proposed to have occurred during the breeding of ZZ1. Our findings provide insights into the complex genome of hybrid sugarcane cultivars and pave the way for future genomics and molecular breeding studies in sugarcane. Modern sugarcane cultivars have complicated genome due to interspecific crosses and multiple backcrossing. Here, the authors report the haplotype-resolved, chromosome-level genome assembly of a modern hybrid sugarcane cultivar and reveal the expansion of genes related to sugar accumulation and smut resistance.

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