Clonorchis sinensis
BioProject PRJNA386618 | Data Source The University of Melbourne | Taxonomy ID 79923
About Clonorchis sinensis
The trematode Clonorchis sinensis, or Chinese liver fluke, is a parasitic human liver fluke. The parasite lives in the liver of humans, is believed to be the third most prevalent worm parasite in the world, and is endemic to Japan, China, Taiwan, and Southeast Asia. Recent studies have proved that it is capable of causing cancer of liver and bile duct, and in fact the International Agency for Research on Cancer has classed it as a group 1 biological carcinogen in 2009.
There is 1 alternative genome project for Clonorchis sinensis available in WormBase ParaSite: PRJDA72781
Genome Assembly & Annotation
Assembly
The chromosome-level assembly presented here was added in WormBase ParaSite release 16, and represents version 2 of GCA_003604175. The assembly was generated by scaffolding version 1 of the assembly with Hi-C data, paired-end and mate-pair libraries and Oxford Nanopore long-read libraries, as described by Young et al., 2021.
Annotation
The gene set presented here was generated by Young et al. by transferring gene models from V1 of the assembly using liftOver, followed by further refinement with funannotate and PASA.
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Key Publications
- Young ND, Stroehlein AJ, Kinkar L, Wang T, Sohn WM, Chang BCH, Kaur P, Weisz D, Dudchenko O, Aiden EL, Korhonen PK, Gasser RB. High-quality reference genome for Clonorchis sinensis. Genomics, 2021;113(3):1605-1615
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Assembly Statistics
| Assembly | CSKR.v2, GCA_003604175.2 |
| Strain | Cs-k2 |
| Database Version | WBPS17 |
| Genome Size | 558,124,894 |
| Data Source | The University of Melbourne |
| Annotation Version | 2021-04-WormBase |
Gene counts
| Coding genes | 13,489 |
| Gene transcripts | 14,408 |
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