Journal article
Reconstruction of mitochondrial genomes from raw sequencing data provides insights on the phylogeny of Ixodes ticks and cautions for species misidentification
Ticks and Tick-borne Diseases, Vol.13(1), pp.1-6
2022
PMID: 34607157
Abstract
High-throughput sequencing (HTS) technology has profoundly been involved in sequencing whole genomes of several organisms in a fast and cost-effective manner. Although HTS provides an alternative biomonitoring method to the time-consuming and taxonomy-expertise dependent morphological approach, still we cannot rule out the possibility of the impediment and misidentification biases. In this article we aim to retrieve whole mitochondrial genome (mitogenome) sequences from publicly available raw sequencing data for phylogenetic comparison of Ixodes persulcatus. For this comparison, we sequenced whole mitogenomes of four I. persulcatus ticks from Japan and constructed mitogenomes from raw sequencing data of 74 I. persulcatus ticks from China. Bayesian phylogenetic trees were inferred by the concatenated fifteen mitochondrial genes. We further tested our results by the phylogenetic analysis of cytochrome c oxidase subunit 1 (cox1) gene and internal transcribed spacer 2 (ITS2) sequences. Our findings showed that 70 constructed mitogenomes from China were clustered with the sequenced four mitogenomes of I. persulcatus from Japan. We also revealed that mitogenome sequences retrieved from two data sets CRR142297 and CRR142298 were clustered with Ixodes nipponensis. Moreover, other two mitogenome sequences from CRR142310 and CRR142311 formed a clade with Ixodes pavlovskyi. The phylogenetic analysis of cox1 gene and ITS2 sequences confirmed the identification errors of these four samples. The overall phylogenetics in our study concluded that accurate morphological identification is necessary before implementing HTS to avoid any misidentification biases.
Details
- Title
- Reconstruction of mitochondrial genomes from raw sequencing data provides insights on the phylogeny of Ixodes ticks and cautions for species misidentification
- Authors
- Wessam Mohamed Ahmed Mohamed (Author) - Hokkaido UniversityMohamed Abdallah Mohamed Moustafa (Author) - Hokkaido UniversitySamuel Kelava (Author) - The University of QueenslandDayana Barker (Author) - The University of QueenslandKeita Matsuno (Author) - Hokkaido UniversityNariaki Nonaka (Author) - Hokkaido UniversityRenfu Shao (Author) - University of the Sunshine Coast, Queensland, GeneCology Research Centre - LegacyBen J Mans (Author) - Onderstepoort Veterinary InstituteStephen C Barker (Author) - The University of QueenslandRyo Nakao (Author) - Hokkaido University
- Publication details
- Ticks and Tick-borne Diseases, Vol.13(1), pp.1-6
- Publisher
- Elsevier GmbH
- Date published
- 2022
- DOI
- 10.1016/j.ttbdis.2021.101832
- ISSN
- 1877-9603
- PMID
- 34607157
- Organisation Unit
- University of the Sunshine Coast, Queensland; School of Science, Technology and Engineering; Centre for Bioinnovation
- Language
- English
- Record Identifier
- 99571608902621
- Output Type
- Journal article
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- Domestic collaboration
- International collaboration
- Web Of Science research areas
- Infectious Diseases
- Microbiology
- Parasitology
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