WormBase ParaSite HomeVersion: WBPS19 (WS291)-  Archive: WBPS18

Paragonimus skrjabinimiyazakii

BioProject PRJNA245325 | Data Source The Genome Institute | Taxonomy ID 59628

About Paragonimus skrjabinimiyazakii

Paragonimus skrjabinimiyazakii is one of two species of Paragonimus thought to cause Paragonimiasis in humans. Paragonimiasis is a food-borne zoonosis endemic to western Japan.

Genome Assembly & Annotation


The full assembly process is outlined in Rosa et al., (2020). Sequences were generated on the Illumina platform and assembled using Allpaths_LG. An in-house tool, Pygap, was used to improve scaffolding. L_RNA_scaffolder which uses transcript alignments to improve contiguity was also used.


The full annotation process is outlined in Rosa et al., (2020). The nuclear genome was annotated using the MAKER pipeline v2.31.8. RNA-seq reads were aligned to their respective genome assemblies and assembled using StringTie v1.2.4. Ab initio gene predictions from BRAKER v2 and AUGUSTUS v3.2.2 (trained by BRAKER and run within MAKER) were refined using transcript and protein evidence.

Key Publications

Assembly Statistics

AssemblyP_miyazaki_1.0.pg.lrna, GCA_014338405.1
Database VersionWBPS19
Genome Size915,809,684
Data SourceThe Genome Institute
Annotation Version2023-09-WormBase

Gene counts

Coding genes12,650
Non coding genes1,268
Small non coding genes1,268
Gene transcripts13,918

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