Reconstruction of mitochondrial genomes from raw sequencing data provides insights on the phylogeny of Ixodes ticks and cautions for species misidentification

Mohamed, Wessam Mohamed Ahmed; Moustafa, Mohamed Abdallah Mohamed; Kelava, Samuel; Barker, Dayana; Matsuno, Keita; Nonaka, Nariaki; Shao, Renfu; Mans, Ben J.; Barker, Stephen C.; Nakao, Ryo

Reconstruction of mitochondrial genomes from raw sequencing data provides insights on the phylogeny of Ixodes ticks and cautions for species misidentification

Mohamed, Wessam Mohamed Ahmed; Moustafa, Mohamed Abdallah Mohamed; Kelava, Samuel et al.

Ticks and Tick-Borne Diseases, 2022, 13(1), 101832

Permalink : https://hdl.handle.net/2115/87841

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論文情報

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アクセス権	open access
URI	https://hdl.handle.net/2115/87841
タイトル	Reconstruction of mitochondrial genomes from raw sequencing data provides insights on the phylogeny of Ixodes ticks and cautions for species misidentification
著者	Mohamed, Wessam Mohamed Ahmed ; Moustafa, Mohamed Abdallah Mohamed ; Kelava, Samuel ; Barker, Dayana ; Matsuno, Keita ; Nonaka, Nariaki ; Shao, Renfu ; Mans, Ben J. ; Barker, Stephen C. ; Nakao, Ryo
著者名 Mohamed, Wessam Mohamed Ahmed
著者名 Moustafa, Mohamed Abdallah Mohamed
著者名 Kelava, Samuel
著者名 Barker, Dayana
e-Rad_Researcher 40753306 著者名 Matsuno, Keita
e-Rad_Researcher 50281853 著者名 Nonaka, Nariaki
著者名 Shao, Renfu
著者名 Mans, Ben J.
著者名 Barker, Stephen C.
e-Rad_Researcher 50633955 著者名 Nakao, Ryo
言語	英語
キーワード	High-throughput sequencing
	Ixodes persulcatus
	Mitogenome
	Phylogenetic analysis
発行日	2022-01-01
出版者	Elsevier
収録物名	Ticks and Tick-Borne Diseases
巻(号)	13(1)
ページ	101832
抄録	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.
資源タイプ	学術雑誌論文
出版タイプ	Accepted Manuscript
権利情報	Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
権利情報	© 2022. This manuscript version is made available under the CC-BY-NC-ND 4.0 license http://creativecommons.org/licenses/by-nc-nd/4.0/
PISSN	1877-959X
関連情報 (isVersionOf)	出版社版DOI https://doi.org/10.1016/j.ttbdis.2021.101832