Assessment of helminth biodiversity in wild rats using 18S rDNA based metagenomics

Ryusei Tanaka; Akina Hino; Isheng J. Tsai; Juan Emilio Palomares-Rius; Ayako Yoshida; Yoshitoshi Ogura; Tetsuya Hayashi; Haruhiko Maruyama; Taisei Kikuchi

doi:10.1371/journal.pone.0110769

Assessment of helminth biodiversity in wild rats using 18S rDNA based metagenomics

Ryusei Tanaka, Akina Hino, Isheng J. Tsai, Juan Emilio Palomares-Rius, Ayako Yoshida, Yoshitoshi Ogura, Tetsuya Hayashi, Haruhiko Maruyama, Taisei Kikuchi

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45 Citations (Scopus)

Abstract

Parasite diversity has important implications in several research fields including ecology, evolutionary biology and epidemiology. Wide-ranging analysis has been restricted because of the difficult, highly specialised and time-consuming processes involved in parasite identification. In this study, we assessed parasite diversity in wild rats using 18S rDNA-based metagenomics. 18S rDNA PCR products were sequenced using an Illumina MiSeq sequencer and the analysis of the sequences using the QIIME software successfully classified them into several parasite groups. The comparison of the results with those obtained using standard methods including microscopic observation of helminth parasites in the rat intestines and PCR amplification/sequencing of 18S rDNA from isolated single worms suggests that this new technique is reliable and useful to investigate parasite diversity.

Original language	English
Article number	e110769
Journal	PloS one
Volume	9
Issue number	10
DOIs	https://doi.org/10.1371/journal.pone.0110769
Publication status	Published - Oct 23 2014
Externally published	Yes

All Science Journal Classification (ASJC) codes

Biochemistry, Genetics and Molecular Biology(all)
Agricultural and Biological Sciences(all)
General

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abstract = "Parasite diversity has important implications in several research fields including ecology, evolutionary biology and epidemiology. Wide-ranging analysis has been restricted because of the difficult, highly specialised and time-consuming processes involved in parasite identification. In this study, we assessed parasite diversity in wild rats using 18S rDNA-based metagenomics. 18S rDNA PCR products were sequenced using an Illumina MiSeq sequencer and the analysis of the sequences using the QIIME software successfully classified them into several parasite groups. The comparison of the results with those obtained using standard methods including microscopic observation of helminth parasites in the rat intestines and PCR amplification/sequencing of 18S rDNA from isolated single worms suggests that this new technique is reliable and useful to investigate parasite diversity.",

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AU - Hino, Akina

AU - Tsai, Isheng J.

AU - Palomares-Rius, Juan Emilio

AU - Yoshida, Ayako

AU - Ogura, Yoshitoshi

AU - Hayashi, Tetsuya

AU - Maruyama, Haruhiko

AU - Kikuchi, Taisei

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Assessment of helminth biodiversity in wild rats using 18S rDNA based metagenomics

Abstract

All Science Journal Classification (ASJC) codes

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