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A novel approach, based on BLSOMs (Batch Learning Self-Organizing Maps), to the microbiome analysis of ticks

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Please use this identifier to cite or link to this item:http://hdl.handle.net/2115/53167

Title: A novel approach, based on BLSOMs (Batch Learning Self-Organizing Maps), to the microbiome analysis of ticks
Authors: Nakao, Ryo Browse this author →KAKEN DB
Abe, Takashi Browse this author
Nijhof, Ard M Browse this author
Yamamoto, Seigo Browse this author
Jongejan, Frans Browse this author
Ikemura, Toshimichi Browse this author
Sugimoto, Chihiro Browse this author →KAKEN DB
Keywords: BLSOMs
emerging diseases
metagenomics
microbiomes
symbionts
ticks
Issue Date: Mar-2013
Publisher: Nature Publishing Group
Journal Title: The ISME Journal
Volume: 7
Issue: 5
Start Page: 1003
End Page: 1015
Publisher DOI: 10.1038/ismej.2012.171
PMID: 23303373
Abstract: Ticks transmit a variety of viral, bacterial and protozoal pathogens, which are often zoonotic. The aim of this study was to identify diverse tick microbiomes, which may contain as-yet unidentified pathogens, using a metagenomic approach. DNA prepared from bacteria/archaea-enriched fractions obtained from seven tick species, namely Amblyomma testudinarium, Amblyomma variegatum, Haemaphysalis formosensis, Haemaphysalis longicornis, Ixodes ovatus, Ixodes persulcatus and Ixodes ricinus, was subjected to pyrosequencing after whole-genome amplification. The resulting sequence reads were phylotyped using a Batch Learning Self-Organizing Map (BLSOM) program, which allowed phylogenetic estimation based on similarity of oligonucleotide frequencies, and functional annotation by BLASTX similarity searches. In addition to bacteria previously associated with human/animal diseases, such as Anaplasma, Bartonella, Borrelia, Ehrlichia, Francisella and Rickettsia, BLSOM analysis detected microorganisms belonging to the phylum Chlamydiae in some tick species. This was confirmed by pan-Chlamydia PCR and sequencing analysis. Gene sequences associated with bacterial pathogenesis were also identified, some of which were suspected to originate from horizontal gene transfer. These efforts to construct a database of tick microbes may lead to the ability to predict emerging tick-borne diseases. Furthermore, a comprehensive understanding of tick microbiomes will be useful for understanding tick biology, including vector competency and interactions with pathogens and symbionts.
Type: article (author version)
URI: http://hdl.handle.net/2115/53167
Appears in Collections:人獣共通感染症リサーチセンター (Research Center for Zoonosis Control) > 雑誌発表論文等 (Peer-reviewed Journal Articles, etc)

Submitter: 中尾 亮

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