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Nov 26, 2024;11 (1): 1287.

Chromosome-level genome assembly of Cryptosporidium parvum by long-read sequencing of ten oocysts.

Yuancai Chen, Jianying Huang, Huikai Qin, Kaihui Zhang, Yin Fu, Junqiang Li, Rongjun Wang, Kai Chen, Jie Xiong, Wei Miao, Guangying Wang, Longxian Zhang
Author Information
  1. Yuancai Chen: College of Veterinary Medicine, Henan Agricultural University, Zhengzhou, 450046, P. R. China.
  2. Jianying Huang: College of Veterinary Medicine, Henan Agricultural University, Zhengzhou, 450046, P. R. China.
  3. Huikai Qin: College of Veterinary Medicine, Henan Agricultural University, Zhengzhou, 450046, P. R. China.
  4. Kaihui Zhang: College of Veterinary Medicine, Henan Agricultural University, Zhengzhou, 450046, P. R. China.
  5. Yin Fu: College of Veterinary Medicine, Henan Agricultural University, Zhengzhou, 450046, P. R. China.
  6. Junqiang Li: College of Veterinary Medicine, Henan Agricultural University, Zhengzhou, 450046, P. R. China.
  7. Rongjun Wang: College of Veterinary Medicine, Henan Agricultural University, Zhengzhou, 450046, P. R. China.
  8. Kai Chen: Key Laboratory of Aquatic Biodiversity and Conservation, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072, China.
  9. Jie Xiong: Key Laboratory of Aquatic Biodiversity and Conservation, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072, China. ORCID
  10. Wei Miao: Key Laboratory of Aquatic Biodiversity and Conservation, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072, China.
  11. Guangying Wang: Key Laboratory of Aquatic Biodiversity and Conservation, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072, China. wangguangying@ihb.ac.cn.
  12. Longxian Zhang: College of Veterinary Medicine, Henan Agricultural University, Zhengzhou, 450046, P. R. China. zhanglx8999@henau.edu.cn.
PMID: 39592642 DOI: 10.1038/s41597-024-04150-x

Abstract

Cryptosporidium parvum is a zoonotic parasite of the intestine and poses a threat to human and animal health. However, it is difficult to obtain a large number of oocysts for genome sequencing using in vitro culture. To address this challenge, we employed the strategy of whole-genome amplification of 10 oocysts followed by long-read sequencing and obtained a high-quality genome assembly of C. parvum IIdA19G1 subtype isolated from a pre-weaning calf with diarrhea. The assembled genome was 9.13 Mb long and encompassed eight chromosomes with six capped by telomeric sequences at one or both ends. In total, 3,915 protein-coding genes were predicted, exhibiting a high completeness with 98.2% single-copy BUSCO genes. To our current knowledge, this represents the first chromosome-level genome assembly of C. parvum achieved through the combined use of whole-genome amplification of 10 oocysts and long-read sequencing. This achievement not only advances our understanding of the genomic landscape of this zoonotic intestinal parasite, but also provides valuable resources for comparative genomics and evolutionary analyses within the Cryptosporidium clade.

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MeSH Term

Cryptosporidium parvum
Oocysts
Genome, Protozoan
Animals
Chromosomes
Cattle
Cryptosporidiosis
Journal Article Dataset

Links to CNCB-NGDC Resources

GSA: CRA013315 (MGI short reads raw sequencing data)
GSA: CRA013316 (PacBio HiFi long reads raw sequencing data)
GSA: CRA013320 (ONT long reads raw sequencing data)
GWH: GWHEQBI00000000 (Cryptosporidium parvum)

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