Cited by 11Microbial Community Ecology and PhysiologyMarine Biology and Ecology ResearchGenomics and Phylogenetic Studies

Seasonal and annual changes in the microbial communities of Ofunato Bay, Japan, based on metagenomics

Open access
Kobiyama, Atsushi, Rashid, Jonaira, Reza, Md. Shaheed, Ikeda, Yuri, Yamada, Yuichiro, Kudo, Toshiaki, Mizusawa, Nanami, Yanagisawa, Saki +14 more·2021·Scientific Reports

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.

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

A few free checks a day · papers already verified open instantly · results are public

Integrity signals

Registry

Crossref · 10.1038/s41598-021-96641-9

Cites

77 of 77 references verified0 citation errors · 0 not checkable

Statistics

Claims the paper makes

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

A few free checks a day · papers already verified open instantly · results are public

Claims other papers make about this one

Each is checked against this paper’s own text: does it say what the citing paper says it does?

Self-check

Percentages, sums and reported differences re-computed from the paper’s own numbers.

The self-check needs the paper’s full text.

Cites

Flagged first, then by citations

Cited by

Sorted by citations

Authors
Kobiyama, A., Rashid, J., Reza, M. S., Ikeda, Y., Yamada, Y., Kudo, T., Mizusawa, N., Yanagisawa, S., Ikeda, D., Sato, S., Ogata, T., Ikeo, K., Kaga, S., Watanabe, S., Naiki, K., Kaga, Y., Segawa, S., Tada, Y., Musashi, T., Mineta, K., Gojobori, T., & Watabe, S.
Affiliations
  • Kitasato University (JP)
  • Bangladesh Fisheries Research Institute (BD)
  • Bangladesh Agricultural University (BD)
  • National Institute of Genetics (JP)
  • Iwate Fisheries Technology Center (JP)
  • Iwate Prefectural Inland Fisheries Technology Center (JP)
  • King Abdullah University of Science and Technology (SA)
Corresponding author
  • Gojobori, Takashi
  • Watabe, Shugo
Venue
Scientific Reports
Published
2021-08-26
Volume
11
Issue
1
Pages
17277-17277
ISSN
2045-2322 (ISSN-L)
OpenAlex
W3195959347
Cited by
11
References
77
Citations by year
2026: 2 · 2025: 2 · 2024: 2 · 2023: 4 · 2022: 1
FWCI
0.95
Type
journal article
Language
en
Open access
Locations
  • Scientific Reports (publishedVersion, cc-by)
  • PubMed Central (publishedVersion, cc-by)
  • PubMed (publishedVersion)
  • HAL (submittedVersion, cc-by)
  • DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion, cc-by-sa)
  • King Abdullah University of Science and Technology Repository (King Abdullah University of Science and Technology) (submittedVersion, cc-by)
  • Greater South Information System
Funders
King Abdullah University of Science and Technology (URF/1/1976-03-01, URF/1/1976-17-01, URF/1/1976-20-01)
Topics
  • Physical Sciences › Environmental Science › Ecology › Microbial Community Ecology and Physiology
  • Physical Sciences › Earth and Planetary Sciences › Oceanography › Marine Biology and Ecology Research
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
Keywords
microbial communities, seasonal variation, enclosed bay, bacterial diversity, SAR86, eukaryotes, archaea, viruses, salinity, dissolved oxygen, seawater temperature, metagenomics, whole genome shotgun sequencing
MeSH terms
Whole Genome Sequencing, Cyanobacteria, Bacteria, Geography, Japan, Oxygen, Population Dynamics, Seasons, Seawater, Temperature, Ecosystem, Salinity, Metagenomics, Bays, Microbiota

About these checks

Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.

Statistics and arithmetic are recomputed, not judged.

Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.

What counts as a claim ›How we measure confidence ›How we check this ›

Are you an author, or do you see a problem with this page? Request a review