Chromosome-Scale Genome Assembly of the Sheep-Biting Louse Bovicola ovis Using Nanopore Sequencing Data and Pore-C Analysis

Chian Teng Ong; Karishma T Mody; Antonino S Cavallaro; Yakun Yan; Loan T Nguyen; Renfu Shao; Neena Mitter; Timothy J Mahony; Elizabeth M Ross

doi:10.3390/ijms25147824

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Chromosome-Scale Genome Assembly of the Sheep-Biting Louse Bovicola ovis Using Nanopore Sequencing Data and Pore-C Analysis

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Chromosome-Scale Genome Assembly of the Sheep-Biting Louse Bovicola ovis Using Nanopore Sequencing Data and Pore-C Analysis

Chian Teng Ong, Karishma T Mody, Antonino S Cavallaro, Yakun Yan, Loan T Nguyen, Renfu Shao, Neena Mitter, Timothy J Mahony and Elizabeth M Ross

International Journal of Molecular Sciences, Vol.25(14), pp.1-15

2024

DOI: https://doi.org/10.3390/ijms25147824

PMCID: PMC11276745

PMID: 39063065

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Abstract

Bovicola ovis

Pore-C

genome assembly

Bovicola ovis, commonly known as the sheep-biting louse, is an ectoparasite that adversely affects the sheep industry. Sheep louse infestation lowers the quality of products, including wool and leather, causing a loss of approximately AUD 123M per annum in Australia alone. The lack of a high-quality genome assembly for the sheep-biting louse, as well as any closely related livestock lice, has hindered the development of louse research and management control tools. In this study, we present the assembly of B. ovis with a genome size of ~123 Mbp based on a nanopore long-read sequencing library and Illumina RNA sequencing, complemented with a chromosome-level scaffolding using the Pore-C multiway chromatin contact dataset. Combining multiple alignment and gene prediction tools, a comprehensive annotation on the assembled B. ovis genome was conducted and recalled 11,810 genes as well as other genomic features including orf, ssr, rRNA and tRNA. A manual curation using alignment with the available closely related louse species, Pediculus humanus, increased the number of annotated genes to 16,024. Overall, this study reported critical genetic resources and biological insights for the advancement of sheep louse research and the development of sustainable control strategies in the sheep industry.

Details

Title: Chromosome-Scale Genome Assembly of the Sheep-Biting Louse Bovicola ovis Using Nanopore Sequencing Data and Pore-C Analysis
Authors: Chian Teng Ong - The University of Queensland
Karishma T Mody (Corresponding Author) - The University of Queensland
Antonino S Cavallaro - The University of Queensland
Yakun Yan - The University of Queensland
Loan T Nguyen - The University of Queensland
Renfu Shao - University of the Sunshine Coast, Queensland, Centre for Bioinnovation
Neena Mitter - The University of Queensland
Timothy J Mahony - The University of Queensland
Elizabeth M Ross (Corresponding Author) - The University of Queensland
Publication details: International Journal of Molecular Sciences, Vol.25(14), pp.1-15
Publisher: MDPI AG
Date published: 2024
DOI: 10.3390/ijms25147824
ISSN: 1422-0067
PMID: 39063065; PMC11276745
Copyright note: © 2024 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
Data Availability: The datasets generated during the current study are available in the NCBI sequence read archive (SRA) database under BioProject PRJNA1121947 and BioSamples SAMN41769694.
Grant note: This research was funded by Advance Queensland Industry Research Fellowship with grant number CTS 25856/19 and UQ Research Support Package: Strategic Research Investment.
Organisation Unit: School of Science, Technology and Engineering; Centre for Bioinnovation
Language: English
Record Identifier: 991047797802621
Output Type: Journal article

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