Seasonal and annual changes in the microbial communities of Ofunato Bay, Japan, based on metagenomics
Abstract Five years of datasets from 2015 to 2019 of whole genome shotgun sequencing for cells trapped on 0.2-µm filters of seawater collected monthly from Ofunato Bay, an enclosed bay in Japan, were analysed, which included the 2015 data that we had reported previously. Nucleotide sequences were de...
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2021
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oai:doaj.org-article:9f87b569bcfc45b5b350b0adcca2308d2021-12-02T19:02:37ZSeasonal and annual changes in the microbial communities of Ofunato Bay, Japan, based on metagenomics10.1038/s41598-021-96641-92045-2322https://doaj.org/article/9f87b569bcfc45b5b350b0adcca2308d2021-08-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-96641-9https://doaj.org/toc/2045-2322Abstract Five years of datasets from 2015 to 2019 of whole genome shotgun sequencing for cells trapped on 0.2-µm filters of seawater collected monthly from Ofunato Bay, an enclosed bay in Japan, were analysed, which included the 2015 data that we had reported previously. Nucleotide sequences were determined for extracted DNA from three locations for both the upper (1 m) and deeper (8 or 10 m) depths. The biotic communities analysed at the domain level comprised bacteria, eukaryotes, archaea and viruses. The relative abundance of bacteria was over 60% in most months for the five years. The relative abundance of the SAR86 cluster was highest in the bacterial group, followed by Candidatus Pelagibacter and Planktomarina. The relative abundance of Ca. Pelagibacter showed no relationship with environmental factors, and those of SAR86 and Planktomarina showed positive correlations with salinity and dissolved oxygen, respectively. The bacterial community diversity showed seasonal changes, with high diversity around September and low diversity around January for all five years. Nonmetric multidimensional scaling analysis also revealed that the bacterial communities in the bay were grouped in a season-dependent manner and linked with environmental variables such as seawater temperature, salinity and dissolved oxygen.Atsushi KobiyamaJonaira RashidMd. Shaheed RezaYuri IkedaYuichiro YamadaToshiaki KudoNanami MizusawaSaki YanagisawaDaisuke IkedaShigeru SatoTakehiko OgataKazuho IkeoShinnosuke KagaShiho WatanabeKimiaki NaikiYoshimasa KagaSatoshi SegawaYumiko TadaTatsuya MusashiKatsuhiko MinetaTakashi GojoboriShugo WatabeNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-13 (2021) |
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Medicine R Science Q Atsushi Kobiyama Jonaira Rashid Md. Shaheed Reza Yuri Ikeda Yuichiro Yamada Toshiaki Kudo Nanami Mizusawa Saki Yanagisawa Daisuke Ikeda Shigeru Sato Takehiko Ogata Kazuho Ikeo Shinnosuke Kaga Shiho Watanabe Kimiaki Naiki Yoshimasa Kaga Satoshi Segawa Yumiko Tada Tatsuya Musashi Katsuhiko Mineta Takashi Gojobori Shugo Watabe Seasonal and annual changes in the microbial communities of Ofunato Bay, Japan, based on metagenomics |
| description |
Abstract Five years of datasets from 2015 to 2019 of whole genome shotgun sequencing for cells trapped on 0.2-µm filters of seawater collected monthly from Ofunato Bay, an enclosed bay in Japan, were analysed, which included the 2015 data that we had reported previously. Nucleotide sequences were determined for extracted DNA from three locations for both the upper (1 m) and deeper (8 or 10 m) depths. The biotic communities analysed at the domain level comprised bacteria, eukaryotes, archaea and viruses. The relative abundance of bacteria was over 60% in most months for the five years. The relative abundance of the SAR86 cluster was highest in the bacterial group, followed by Candidatus Pelagibacter and Planktomarina. The relative abundance of Ca. Pelagibacter showed no relationship with environmental factors, and those of SAR86 and Planktomarina showed positive correlations with salinity and dissolved oxygen, respectively. The bacterial community diversity showed seasonal changes, with high diversity around September and low diversity around January for all five years. Nonmetric multidimensional scaling analysis also revealed that the bacterial communities in the bay were grouped in a season-dependent manner and linked with environmental variables such as seawater temperature, salinity and dissolved oxygen. |
| format |
article |
| author |
Atsushi Kobiyama Jonaira Rashid Md. Shaheed Reza Yuri Ikeda Yuichiro Yamada Toshiaki Kudo Nanami Mizusawa Saki Yanagisawa Daisuke Ikeda Shigeru Sato Takehiko Ogata Kazuho Ikeo Shinnosuke Kaga Shiho Watanabe Kimiaki Naiki Yoshimasa Kaga Satoshi Segawa Yumiko Tada Tatsuya Musashi Katsuhiko Mineta Takashi Gojobori Shugo Watabe |
| author_facet |
Atsushi Kobiyama Jonaira Rashid Md. Shaheed Reza Yuri Ikeda Yuichiro Yamada Toshiaki Kudo Nanami Mizusawa Saki Yanagisawa Daisuke Ikeda Shigeru Sato Takehiko Ogata Kazuho Ikeo Shinnosuke Kaga Shiho Watanabe Kimiaki Naiki Yoshimasa Kaga Satoshi Segawa Yumiko Tada Tatsuya Musashi Katsuhiko Mineta Takashi Gojobori Shugo Watabe |
| author_sort |
Atsushi Kobiyama |
| title |
Seasonal and annual changes in the microbial communities of Ofunato Bay, Japan, based on metagenomics |
| title_short |
Seasonal and annual changes in the microbial communities of Ofunato Bay, Japan, based on metagenomics |
| title_full |
Seasonal and annual changes in the microbial communities of Ofunato Bay, Japan, based on metagenomics |
| title_fullStr |
Seasonal and annual changes in the microbial communities of Ofunato Bay, Japan, based on metagenomics |
| title_full_unstemmed |
Seasonal and annual changes in the microbial communities of Ofunato Bay, Japan, based on metagenomics |
| title_sort |
seasonal and annual changes in the microbial communities of ofunato bay, japan, based on metagenomics |
| publisher |
Nature Portfolio |
| publishDate |
2021 |
| url |
https://doaj.org/article/9f87b569bcfc45b5b350b0adcca2308d |
| work_keys_str_mv |
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1718377225767616512 |