Emonet Aurélia, Awad Mohamed, Tikhomirov Nikita, Vasilarou Maria, Pérez-Antón Miguel, Gan Xiangchao, Novikova Polina Yu, Hay Angela
Max Planck Institute for Plant Breeding Research, Carl-von-Linné-Weg 10, 50829, Köln, Germany.
State Key Laboratory for Crop Genetics and Germplasm Enhancement, Bioinformatics Center, Academy for Advanced Interdisciplinary Studies, Nanjing Agricultural University, 210095, Nanjing, China.
GigaByte. 2024 Dec 23;2024:gigabyte145. doi: 10.46471/gigabyte.145. eCollection 2024.
is an amphicarpic plant in the Brassicaceae family. Plants develop two fruit types, one above and another below ground. This rare trait is associated with octoploidy in . The absence of genomic data for currently limits our understanding of the development and evolution of amphicarpy. Here, we produced a chromosome-scale assembly of the genome using high-fidelity long read sequencing with the Pacific Biosciences platform. We assembled 32 chromosomes and two organelle genomes with a total length of 597.2 Mb and an N50 of 18.8 Mb. Genome completeness was estimated at 99.8%. We observed structural variation among homeologous chromosomes, suggesting that originated via allopolyploidy, and phased the octoploid genome into four sub-genomes using orthogroup trees. This fully phased, chromosome-level genome assembly is an important resource to help investigate amphicarpy in and the origin of trait novelties by allopolyploidy.
是十字花科的一种兼性结果植物。植株会发育出两种果实类型，一种在地上，另一种在地下。这种罕见的性状与该植物的八倍体有关。目前缺乏该植物的基因组数据限制了我们对兼性结果发育和进化的理解。在此，我们使用太平洋生物科学公司的平台通过高保真长读长测序生成了该植物基因组的染色体水平组装。我们组装了32条染色体和两个细胞器基因组，总长度为597.2兆碱基，N50为18.8兆碱基。基因组完整性估计为99.8%。我们观察到同源染色体之间的结构变异，表明该植物起源于异源多倍体，并使用直系同源群树将八倍体基因组划分为四个亚基因组。这种完全划分阶段的染色体水平基因组组装是帮助研究该植物兼性结果以及异源多倍体性状新奇性起源的重要资源。
