利用长读长技术实现玉米染色体的无缝组装。
Gapless assembly of maize chromosomes using long-read technologies.
机构信息
Department of Genetics, University of Georgia, Athens, GA, 30602, USA.
Genome Informatics Facility, Iowa State University, Ames, IA, 50011, USA.
出版信息
Genome Biol. 2020 May 20;21(1):121. doi: 10.1186/s13059-020-02029-9.
Creating gapless telomere-to-telomere assemblies of complex genomes is one of the ultimate challenges in genomics. We use two independent assemblies and an optical map-based merging pipeline to produce a maize genome (B73-Ab10) composed of 63 contigs and a contig N50 of 162 Mb. This genome includes gapless assemblies of chromosome 3 (236 Mb) and chromosome 9 (162 Mb), and 53 Mb of the Ab10 meiotic drive haplotype. The data also reveal the internal structure of seven centromeres and five heterochromatic knobs, showing that the major tandem repeat arrays (CentC, knob180, and TR-1) are discontinuous and frequently interspersed with retroelements.
构建无间隙的复杂基因组端粒到端粒组装体是基因组学的终极挑战之一。我们使用两个独立的组装体和一个基于光学图谱的合并管道，生成了一个由 63 个 contigs 组成的玉米基因组（B73-Ab10），其 contig N50 为 162Mb。该基因组包括无间隙的染色体 3（236Mb）和染色体 9（162Mb）组装体，以及 Ab10 减数分裂驱动单倍型的 53Mb 序列。该数据还揭示了七个着丝粒和五个异染色质 knob 的内部结构，表明主要串联重复阵列（CentC、knob180 和 TR-1）是不连续的，并且经常与反转录元件交错。
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