Highly Continuous Genome Assembly of Eurasian Perch (Perca fluviatilis) Using Linked-Read Sequencing
Mikhail Yu Ozerov1, Freed Ahmad1, Riho Gross2
1Department of Biology, University of Turku, 20014, Finland.
G3 (Bethesda, Md.)
|October 26, 2018
Summary
Researchers have assembled and annotated the Eurasian perch genome using linked-read technology. This new, highly continuous genome sequence provides valuable genomic resources for Perca fluviatilis.
Area of Science:
- Genomics
- Aquaculture
- Ecology
Background:
- The Eurasian perch (Perca fluviatilis) is ecologically and economically important but lacks comprehensive genomic data.
- Existing genomic resources for P. fluviatilis are limited, hindering research and aquaculture development.
Purpose of the Study:
- To perform a de novo assembly and annotation of the P. fluviatilis whole genome sequence.
- To provide a highly continuous and complete genome assembly for future research.
Main Methods:
- Utilized linked-read technology (10X Genomics Chromium) for genome sequencing.
- Employed the Supernova assembler for de novo assembly of the perch genome.
- Performed gene prediction and functional annotation.
Main Results:
- Generated a draft perch genome assembly of approximately 1.0 Gbp with a scaffold N50 of 6.3 Mb.
- Achieved 88.0% BUSCO completeness, indicating high genome integrity.
- Predicted and functionally annotated 23,397 protein-coding genes.
Conclusions:
- Linked-read technology offers a fast, accurate, and cost-effective method for assembling large eukaryotic genomes.
- The presented P. fluviatilis genome assembly is a significant improvement over existing drafts and a valuable resource for diverse studies.
- This genomic resource will facilitate future research in perch genetics, ecology, physiology, and comparative genomics within the Percidae family.
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