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<p><i>Scirpus</i> × <i>mariqueter</i> (Tang &amp; F.T.Wang) Tatanov, which is endemic to eastern estuaries in China, is a tidal zone-engineering species with great promise for managing greenhouse gases and enhancing ecosystem resilience against invasive species. Although <i>S. mariqueter</i> is widely recognized as a hybrid species derived from <i>Bolboschoenus planiculmis</i> (F. Schmidt) T.V. Egorova and <i>Schoenoplectus triqueter</i> (L.) Palla, its speciation remains highly controversial. The lack of a reference genome is the major cause of this ambiguity. We generated the first chromosome-level genome assembly for <i>S. mariqueter</i> combining PacBio long-reads, Illumina short-reads, and the Hi-C method. The genome assembly consisted of 227.75 Mb (contig N50: 3.89 Mb). We also constructed a haploid karyotype comprising 54 pseudochromosomes. The average size of these pseudochromosomes was small (4.05 Mb). Thirty-two pseudochromosomes were assembled to a telomere to telomere level. Repetitive elements represented approximately 54.12% of the genome. We predicted and annotated 25,239 protein-coding genes. The overall BUSCO score was 95.10%, with notably few duplicated genes (1.70%). This high-quality genome provides critical data for future studies.</p>

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Chromosome-level genome assembly for clubrush (Scirpus × mariqueter) endemic to China

  • 期刊论文

  • 出版模式：

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  • 发表日期：

    2025年5月22日

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  • Yu Ning,
  • Yang Li,
  • Chun Yi Li,
  • Jin Zhi Wang,
  • Tian Shi Wang,
  • Yan Chao Zheng,
  • Yang Ying Zhan,
  • Shen Jian Xu,
  • Shu Bin Dong,
  • Yi Fei Wang

摘要

Scirpus × mariqueter (Tang & F.T.Wang) Tatanov, which is endemic to eastern estuaries in China, is a tidal zone-engineering species with great promise for managing greenhouse gases and enhancing ecosystem resilience against invasive species. Although S. mariqueter is widely recognized as a hybrid species derived from Bolboschoenus planiculmis (F. Schmidt) T.V. Egorova and Schoenoplectus triqueter (L.) Palla, its speciation remains highly controversial. The lack of a reference genome is the major cause of this ambiguity. We generated the first chromosome-level genome assembly for S. mariqueter combining PacBio long-reads, Illumina short-reads, and the Hi-C method. The genome assembly consisted of 227.75 Mb (contig N50: 3.89 Mb). We also constructed a haploid karyotype comprising 54 pseudochromosomes. The average size of these pseudochromosomes was small (4.05 Mb). Thirty-two pseudochromosomes were assembled to a telomere to telomere level. Repetitive elements represented approximately 54.12% of the genome. We predicted and annotated 25,239 protein-coding genes. The overall BUSCO score was 95.10%, with notably few duplicated genes (1.70%). This high-quality genome provides critical data for future studies.