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Publications

Journal Article Dataset Epublish

PubMed: 40592872 DOI: 10.1038/s41597-025-05405-x

A chromosome-scale genome assembly of Giardia duodenalis by long-read sequencing of ten trophozoites.

Sci Data 12(1):1079

Authors: Jingjing Sun, Yuancai Chen, Yizhuo Wei, Kaihui Zhang, Yin Fu, Zi Yan, Xingyu Zhu, Sumei Zhang, Longxian Zhang, Junqiang Li

Affiliations

  • College of Veterinary Medicine, Henan Agricultural University, Zhengzhou, 450046, China.
  • International Joint Research Laboratory for Zoonotic Diseases of Henan, Zhengzhou, 450046, China.
  • Key Laboratory of Quality and Safety Control of Poultry Products, Ministry of Agriculture and Rural Affairs, Zhengzhou, 450046, China.
  • College of Veterinary Medicine, Henan Agricultural University, Zhengzhou, 450046, China. International Joint Research Laboratory for Zoonotic Diseases of Henan, Zhengzhou, 450046, China. Key Laboratory of Quality and Safety Control of Poultry Products, Ministry of Agriculture and Rural Affairs, Zhengzhou, 450046, China.
  • College of Veterinary Medicine, Henan Agricultural University, Zhengzhou, 450046, China. International Joint Research Laboratory for Zoonotic Diseases of Henan, Zhengzhou, 450046, China. Key Laboratory of Quality and Safety Control of Poultry Products, Ministry of Agriculture and Rural Affairs, Zhengzhou, 450046, China.
  • College of Veterinary Medicine, Henan Agricultural University, Zhengzhou, 450046, China. International Joint Research Laboratory for Zoonotic Diseases of Henan, Zhengzhou, 450046, China. Key Laboratory of Quality and Safety Control of Poultry Products, Ministry of Agriculture and Rural Affairs, Zhengzhou, 450046, China.

Abstract

Giardia duodenalis, a protozoan parasite of important zoonotic concern, is estimated to cause approximately 280 million human infections annually worldwide. Currently, genome sequencing of G. duodenalis mainly relies on in vitro axenic clones; however, for non-culturable or hard-to-cultivate microorganisms, obtaining sufficient DNA for whole-genome sequencing poses a great challenge. In this study, we isolated ten G. duodenalis trophozoites using single-cell selection technology, followed by the extraction of whole-genome DNA and its amplification via multiple displacement amplification (MDA). The G. duodenalis DNA was sequenced by long-read sequencing (Oxford Nanopore Technologies and Pacific Biosciences), and three main assembly tools (Canu, MECAT2, and RagTag) were used to assemble the sequenced data. As a result, a chromosome-scale genome of G. duodenalis was successfully assembled (assemblage A1 isolate g12a2), with a total genome size of 11.1 Mbp, five contigs, and an N50 value of 3.1 Mbp. This study achieved a chromosome-scale G. duodenalis genome sequencing and assembly from groups of 10 trophozoites, which facilitates protozoan single cell genomics research.

MeSH

Cells, Genome, Chromosomes, Trophozoites