4.4 Article

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

期刊

TICKS AND TICK-BORNE DISEASES
卷 13, 期 1, 页码 -

出版社

ELSEVIER GMBH
DOI: 10.1016/j.ttbdis.2021.101832

关键词

High-throughput sequencing; Ixodes persulcatus; Mitogenome; Phylogenetic analysis

资金

  1. KAKENHI [16H06431, 19H03118, 19F19097, 20K21358, 20KK0151]
  2. Japan Program for Infectious Diseases Research and Infrastructure from the Japan Agency for Medical Research and Development (AMED) [20wm0225016j0001]
  3. Grants-in-Aid for Scientific Research [19F19097, 20KK0151] Funding Source: KAKEN

向作者/读者索取更多资源

High-throughput sequencing technology has been used to sequence whole genomes of organisms rapidly and cost-effectively. In this study, mitochondrial genome sequences of Ixodes persulcatus from different sources were compared, revealing clustering of Chinese-constructed mitogenomes with Japanese-sequenced mitogenomes. Additionally, identification errors were found in mitogenome sequences from two data sets.
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.

作者

我是这篇论文的作者
点击您的名字以认领此论文并将其添加到您的个人资料中。

评论

主要评分

4.4
评分不足

次要评分

新颖性
-
重要性
-
科学严谨性
-
评价这篇论文

推荐

暂无数据
暂无数据