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<p><i>Chromochloris zofingiensis</i> has emerged as a promising economic microalgal strain owing to its capacity for the integrated production of triacylglycerol (TAG) and astaxanthin. To advance its development as a robust model alga for studying lipid metabolism and astaxanthin biosynthesis, we performed a comprehensive genome sequencing strategy integrating Nanopore long-reads and Illumina short-reads, together with Hi-C and PacBio full-length transcriptome sequencing. This enabled an improved chromosome-level genome assembly comprising of 17 chromosomes with a total size of 57.09 Mb and a scaffold N50 of 3.18 Mb. In total, 94.85% of the assembled sequences are anchored on 17 chromosomes. Compared to the sole published genome draft, the new assembly exhibits substantial enhancements in completeness and accuracy, with 12,480 protein-coding genes predicted. Furthermore, we presented the first genome-wide DNA methylation landscape of <i>C. zofingiensis</i> through the combined analysis of Nanopore and Bisulfite sequencing data. In summary, this improved, chromosome-scale genome provides a valuable genetic resource for in-depth molecular research and genetic engineering of this oleaginous astaxanthin-producing alga.</p>

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Chromosome-level genome assembly and DNA methylation data of the oleaginous astaxanthin-producing alga Chromochloris zofingiensis

  • 期刊论文

  • 出版模式：

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  • 发表日期：

    2026年6月24日

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  • Yu Zhang,
  • Yibo Wang,
  • Shuangyu Li,
  • Liqin Sun,
  • Jin Liu

摘要

Chromochloris zofingiensis has emerged as a promising economic microalgal strain owing to its capacity for the integrated production of triacylglycerol (TAG) and astaxanthin. To advance its development as a robust model alga for studying lipid metabolism and astaxanthin biosynthesis, we performed a comprehensive genome sequencing strategy integrating Nanopore long-reads and Illumina short-reads, together with Hi-C and PacBio full-length transcriptome sequencing. This enabled an improved chromosome-level genome assembly comprising of 17 chromosomes with a total size of 57.09 Mb and a scaffold N50 of 3.18 Mb. In total, 94.85% of the assembled sequences are anchored on 17 chromosomes. Compared to the sole published genome draft, the new assembly exhibits substantial enhancements in completeness and accuracy, with 12,480 protein-coding genes predicted. Furthermore, we presented the first genome-wide DNA methylation landscape of C. zofingiensis through the combined analysis of Nanopore and Bisulfite sequencing data. In summary, this improved, chromosome-scale genome provides a valuable genetic resource for in-depth molecular research and genetic engineering of this oleaginous astaxanthin-producing alga.