title: Massively parallel sequencing-based survey of eukaryotic community structures in Hiroshima Bay and Ishigaki Island.
abstract: In this study, we compared the eukaryote biodiversity between Hiroshima Bay and Ishigaki Island in Japanese coastal waters by using the massively parallel sequencing (MPS)-based technique to collect preliminary data. The relative abundance of Alveolata was highest in both localities, and the second highest groups were Stramenopiles, Opisthokonta, or Hacrobia, which varied depending on the samples considered. For microalgal phyla, the relative abundance of operational taxonomic units (OTUs) and the number of MPS were highest for Dinophyceae in both localities, followed by Bacillariophyceae in Hiroshima Bay, and by Bacillariophyceae or Chlorophyceae in Ishigaki Island. The number of detected OTUs in Hiroshima Bay and Ishigaki Island was 645 and 791, respectively, and 15.3% and 12.5% of the OTUs were common between the two localities. In the non-metric multidimensional scaling analysis, the samples from the two localities were plotted in different positions. In the dendrogram developed using similarity indices, the samples were clustered into different nodes based on localities with high multiscale bootstrap values, reflecting geographic differences in biodiversity. Thus, we succeeded in demonstrating biodiversity differences between the two localities, although the read numbers of the MPSs were not high enough. The corresponding analysis showed a clear seasonal change in the biodiversity of Hiroshima Bay but it was not clear in Ishigaki Island. Thus, the MPS-based technique shows a great advantage of high performance by detecting several hundreds of OTUs from a single sample, strongly suggesting the effectiveness to apply this technique to routine monitoring programs.
authors.affiliation: Research Center for Aquatic Genomics, National Research Institute of Fisheries Science, 2-12-4 Fukuura, Kanazawa-ku, Yokohama, Kanagawa 236-8648, Japan. Electronic address: snagai@affrc.go.jp.
authors.forename: Satoshi
authors.initials: S
authors.lastname: Nagai
authors.affiliation: AXIOHELIX Co. Ltd., 5-11 Hakozaki, Nihonbashi, Chuouku 103-0015, Tokyo, Japan.
authors.forename: Kohsuke
authors.initials: K
authors.lastname: Hida
authors.affiliation: AXIOHELIX Co. Ltd., 5-11 Hakozaki, Nihonbashi, Chuouku 103-0015, Tokyo, Japan.
authors.forename: Shingo
authors.initials: S
authors.lastname: Urusizaki
authors.affiliation: Research Center for Aquatic Genomics, National Research Institute of Fisheries Science, 2-12-4 Fukuura, Kanazawa-ku, Yokohama, Kanagawa 236-8648, Japan.
authors.forename: Yoshihito
authors.initials: Y
authors.lastname: Takano
authors.affiliation: Research Center for Aquatic Genomics, National Research Institute of Fisheries Science, 2-12-4 Fukuura, Kanazawa-ku, Yokohama, Kanagawa 236-8648, Japan.
authors.forename: Yuki
authors.initials: Y
authors.lastname: Hongo
authors.affiliation: Research Center for Subtropical Fisheries, Seikai National Fisheries Research Institute, 148-446 Fukai-Ohta, Ishigaki, Okinawa 907-0451, Japan.
authors.forename: Takahiko
authors.initials: T
authors.lastname: Kameda
authors.affiliation: Research Center for Subtropical Fisheries, Seikai National Fisheries Research Institute, 148-446 Fukai-Ohta, Ishigaki, Okinawa 907-0451, Japan; National Research Institute of Fisheries and Environmental of Inland Sea, 2-17-5 Maruishi, Ohno, Hatsukaichi, Hiroshima 739-0452, Japan.
authors.forename: Kazuo
authors.initials: K
authors.lastname: Abe
mesh_terms: D044822:Biodiversity; D018744:DNA, Plant / Q000235:genetics; D005057:Eukaryotic Cells / Q000145:classification*; D059014:High-Throughput Nucleotide Sequencing / Q000379:methods*; D007564:Japan; D010839:Phytoplankton / Q000145:classification / Q000235:genetics; D011795:Surveys and Questionnaires
chemical_list: D018744:DNA, Plant
keywords: Eukaryotic biodiversity; Hiroshima Bay Sea; Ishigaki Island; MPS-based technique; Metagenome; Operational taxonomic units