Xin-Dong Xu: State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, College of Life Science and Technology, Guangxi University, Nanning 530004, China.
Ru-Peng Zhao: State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, College of Life Science and Technology, Guangxi University, Nanning 530004, China.
Liang Xiao: Cash Crops Research Institute, Guangxi Academy of Agricultural Sciences, Nanning 530007, China.
Liuying Lu: Cash Crops Research Institute, Guangxi Academy of Agricultural Sciences, Nanning 530007, China.
Min Gao: State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, College of Life Science and Technology, Guangxi University, Nanning 530004, China.
Yu-Hong Luo: State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, College of Life Science and Technology, Guangxi University, Nanning 530004, China.
Zu-Wen Zhou: State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, College of Life Science and Technology, Guangxi University, Nanning 530004, China.
Si-Ying Ye: State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, College of Life Science and Technology, Guangxi University, Nanning 530004, China.
Yong-Qing Qian: State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, College of Life Science and Technology, Guangxi University, Nanning 530004, China.
Bing-Liang Fan: State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, College of Life Science and Technology, Guangxi University, Nanning 530004, China.
Xiaohong Shang: Cash Crops Research Institute, Guangxi Academy of Agricultural Sciences, Nanning 530007, China.
Pingli Shi: Cash Crops Research Institute, Guangxi Academy of Agricultural Sciences, Nanning 530007, China.
Wendan Zeng: Cash Crops Research Institute, Guangxi Academy of Agricultural Sciences, Nanning 530007, China.
Sheng Cao: Cash Crops Research Institute, Guangxi Academy of Agricultural Sciences, Nanning 530007, China.
Zhengdan Wu: Cash Crops Research Institute, Guangxi Academy of Agricultural Sciences, Nanning 530007, China.
Huabing Yan: Cash Crops Research Institute, Guangxi Academy of Agricultural Sciences, Nanning 530007, China.
Ling-Ling Chen: State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, College of Life Science and Technology, Guangxi University, Nanning 530004, China.
Jia-Ming Song: State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, College of Life Science and Technology, Guangxi University, Nanning 530004, China. ORCID
Cassava is a crucial crop that makes a significant contribution to ensuring human food security. However, high-quality telomere-to-telomere cassava genomes have not been available up to now, which has restricted the progress of haploid molecular breeding for cassava. In this study, we constructed two nearly complete haploid resolved genomes and an integrated, telomere-to-telomere gap-free reference genome of an excellent cassava variety, 'Xinxuan 048', thereby providing a new high-quality genomic resource. Furthermore, the evolutionary history of several species within the Euphorbiaceae family was revealed. Through comparative analysis of haploid genomes, it was found that two haploid genomes had extensive differences in linear structure, transcriptome features, and epigenetic characteristics. Genes located within the highly divergent regions and differentially expressed alleles are enriched in the functions of auxin response and the starch synthesis pathway. The high heterozygosity of cassava 'Xinxuan 048' leads to rapid trait segregation in the first selfed generation. This study provides a theoretical basis and genomic resource for molecular breeding of cassava haploids.
