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<p>Onion (<i>Allium cepa</i> L.) is an economically valuable crop, but its large, repeat-enriched genome makes genome assembly difficult and limits molecular breeding and biological studies. Herein, we present a chromosomal-level reference genome assembly of the double-haploid onion line DHW30006, constructed by combining PacBio, Illumina, and Hi-C sequencing approaches. The assembled genome totaled 12.77 Gb, with 65,730 gene models, and was anchored to eight pseudo-chromosomes covering 12.07 Gb (94.5%), with a scaffold N50 of 1.40 Gb. DHW30006 onion genome contained improved gene models covering approximately 580 Mb (4.54%) of the genic regions with an average gene length of 8,827 bp and 5.48 exons per gene. These gene models represented the most improved annotation among <i>Allium</i> genomes. This onion genome will serve as a valuable resource for breeding and biological research in <i>Allium</i> plants.</p>

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Chromosome-level genome assembly and improved annotation of onion genome (Allium cepa L.)

  • 期刊论文

  • 出版模式：

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  • 发表日期：

    2025年2月26日

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  • Heejung Cho,
  • Myunghee Jung,
  • Seung Jae Lee,
  • Ji Yeon Park,
  • Yedomon Ange Bovys Zoclanclounon,
  • Cheol-Woo Kim,
  • JiWon Han,
  • Jung Sun Kim,
  • Do-Sun Kim,
  • Younhee Shin,
  • Yoon-Jung Hwang,
  • Tae-Ho Lee,
  • Si Myung Lee,
  • Sang-Ho Kang,
  • So Youn Won,
  • Jin-Hyun Kim,
  • Hye Yoon Jang,
  • Hye-Eun Lee,
  • Eun Su Lee,
  • Sang-Choon Lee,
  • Hyeonso Ji,
  • Seong-Han Sohn,
  • Byoung Ohg Ahn

摘要

Onion (Allium cepa L.) is an economically valuable crop, but its large, repeat-enriched genome makes genome assembly difficult and limits molecular breeding and biological studies. Herein, we present a chromosomal-level reference genome assembly of the double-haploid onion line DHW30006, constructed by combining PacBio, Illumina, and Hi-C sequencing approaches. The assembled genome totaled 12.77 Gb, with 65,730 gene models, and was anchored to eight pseudo-chromosomes covering 12.07 Gb (94.5%), with a scaffold N50 of 1.40 Gb. DHW30006 onion genome contained improved gene models covering approximately 580 Mb (4.54%) of the genic regions with an average gene length of 8,827 bp and 5.48 exons per gene. These gene models represented the most improved annotation among Allium genomes. This onion genome will serve as a valuable resource for breeding and biological research in Allium plants.