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dc.contributor.authorKudo, Toshiaki
dc.contributor.authorReza, Md. Shaheed
dc.contributor.authorKobiyama, Atsushi
dc.contributor.authorRashid, Jonaira
dc.contributor.authorYamada, Yuichiro
dc.contributor.authorIkeda, Yuri
dc.contributor.authorIkeda, Daisuke
dc.contributor.authorMizusawa, Nanami
dc.contributor.authorYanagisawa, Saki
dc.contributor.authorIkeo, Kazuho
dc.contributor.authorSato, Shigeru
dc.contributor.authorOgata, Takehiko
dc.contributor.authorKaga, Shinnosuke
dc.contributor.authorWatanabe, Shiho
dc.contributor.authorNaiki, Kimiaki
dc.contributor.authorKaga, Yoshimasa
dc.contributor.authorSegawa, Satoshi
dc.contributor.authorMineta, Katsuhiko
dc.contributor.authorBajic, Vladimir B.
dc.contributor.authorGojobori, Takashi
dc.contributor.authorWatabe, Shugo
dc.date.accessioned2019-08-05T07:23:21Z
dc.date.available2019-08-05T07:23:21Z
dc.date.issued2019-07-25
dc.identifier.citationKudo, T., Reza, M. S., Kobiyama, A., Rashid, J., Yamada, Y., Ikeda, Y., … Watabe, S. (2019). Marine Metagenomic Sequence Counts of Reads Assigned to Taxa Consistently Proportionate to Read Counts Obtained for per g of Seawater Sample. Marine Metagenomics, 183–188. doi:10.1007/978-981-13-8134-8_12
dc.identifier.doi10.1007/978-981-13-8134-8_12
dc.identifier.urihttp://hdl.handle.net/10754/656340
dc.description.abstractDevelopment of high-throughput DNA sequencing technologies has enabled scientists to generate vast amounts of genetic information that may provide a comprehensive understanding of key roles played by environmental microorganisms. Generally the microorganisms inhabit a particular niche and correlate well with environmental changes. It is accepted that the read counts obtained through metagenomic analyses correlate semi-quantitatively with the relative abundance of bacterial species. In our marine metagenomic study conducted on the Ofunato Bay, Iwate Prefecture, Japan, we observed such correlation which exists for bacterioplankton Candidatus Pelagibacter ubique, identified as the dominant bacterial species of the bay. Shotgun metagenomic analyses identified three strains of Ca. Pelagibacter in the bay, viz., dmdA-HTCC1062, dmdA-HTCC9022, and O19-dmdA, that showed a dynamic change throughout the year particularly in the 10-m depth zone. Interestingly, the total abundances of those strains that fall in the Ca. Pelagibacter genus were found to correlate well with the read counts per g seawater samples used for analyses. It is assumed that whole-genome sequence (WGS) reads for members of the metagenome would show similar trend provided that proper precautions are taken to ensure collection of representative sample from the environment.
dc.publisherSpringer Nature
dc.relation.urlhttp://link.springer.com/10.1007/978-981-13-8134-8_12
dc.rightsArchived with thanks to Marine Metagenomics
dc.subjectCandidatus Pelagibacter
dc.subjectDominant strain
dc.subjectMarine bacterioplankton
dc.titleMarine Metagenomic Sequence Counts of Reads Assigned to Taxa Consistently Proportionate to Read Counts Obtained for per g of Seawater Sample
dc.typeBook Chapter
dc.contributor.departmentComputational Bioscience Research Center (CBRC)
dc.contributor.departmentApplied Mathematics and Computational Science Program
dc.contributor.departmentComputer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division
dc.contributor.departmentBioscience Program
dc.contributor.departmentBiological and Environmental Sciences and Engineering (BESE) Division
dc.rights.embargodate2020-07-25
dc.eprint.versionPost-print
dc.contributor.institutionKitasato University School of Marine Biosciences, Sagamihara, Japan
dc.contributor.institutionDepartment of Fisheries Technology, Bangladesh Agricultural University, Mymensingh, Bangladesh
dc.contributor.institutionNational Institute of Genetics, Shizuoka, Japan
dc.contributor.institutionIwate Fisheries Technology Center, Iwate, Japan
dc.contributor.institutionOfunato Fisheries Promotion CenterIwate Prefectural Government, Iwate, Japan
kaust.personMineta, Katsuhiko
kaust.personBajic, Vladimir B.
kaust.personGojobori, Takashi
dc.date.published-online2019-07-25
dc.date.published-print2019


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