Seasonal changes in the abundance of bacterial genes related to dimethylsulfoniopropionate catabolism in seawater from Ofunato Bay revealed by metagenomic analysis

Ofunato Bay is located in the northeastern Pacific Ocean area of Japan, and it has the highest biodiversity of marine organisms in the world, primarily due to tidal influences from the cold Oyashio and warm Kuroshio Currents. Our previous results from performing shotgun metagenomics indicated that C...

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Published inGene Vol. 665; pp. 174 - 184
Main Authors Kudo, Toshiaki, Kobiyama, Atsushi, Rashid, Jonaira, Reza, Md. Shaheed, Yamada, Yuichiro, Ikeda, Yuri, Ikeda, Daisuke, Mizusawa, Nanami, Ikeo, Kazuho, Sato, Shigeru, Ogata, Takehiko, Jimbo, Mitsuru, Kaga, Shinnosuke, Watanabe, Shiho, Naiki, Kimiaki, Kaga, Yoshimasa, Segawa, Satoshi, Mineta, Katsuhiko, Bajic, Vladimir, Gojobori, Takashi, Watabe, Shugo
Format Journal Article
LanguageEnglish
Published Netherlands Elsevier B.V 30.07.2018
Subjects
Bacterial functions
DMSP catabolic genes
Metagenomics
Ofunato Bay
Metagenomics
WGS
DMSP
DAPI
MeSH
DMS
DO
PCA
PFD
Bacterial functions
chl-a
DMSP catabolic genes
Ofunato Bay
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Abstract Ofunato Bay is located in the northeastern Pacific Ocean area of Japan, and it has the highest biodiversity of marine organisms in the world, primarily due to tidal influences from the cold Oyashio and warm Kuroshio Currents. Our previous results from performing shotgun metagenomics indicated that Candidatus Pelagibacter ubique and Planktomarina temperata were the dominant bacteria (Reza et al., 2018a, 2018b). These bacteria are reportedly able to catabolize dimethylsulfoniopropionate (DMSP) produced from phytoplankton into dimethyl sulfide (DMS) or methanethiol (MeSH). This study was focused on seasonal changes in the abundances of bacterial genes (dddP, dmdA) related to DMSP catabolism in the seawater of Ofunato Bay by BLAST+ analysis using shotgun metagenomic datasets. We found seasonal changes among the Candidatus Pelagibacter ubique strains, including those of the HTCC1062 type and the Red Sea type. A good correlation was observed between the chlorophyll a concentrations and the abundances of the catabolic genes, suggesting that the bacteria directly interact with phytoplankton in the marine material cycle system and play important roles in producing DMS and MeSH from DMSP as signaling molecules for the possible formation of the scent of the tidewater or as fish attractants.
AbstractList Ofunato Bay is located in the northeastern Pacific Ocean area of Japan, and it has the highest biodiversity of marine organisms in the world, primarily due to tidal influences from the cold Oyashio and warm Kuroshio Currents. Our previous results from performing shotgun metagenomics indicated that Candidatus Pelagibacter ubique and Planktomarina temperata were the dominant bacteria (Reza et al., 2018a, 2018b). These bacteria are reportedly able to catabolize dimethylsulfoniopropionate (DMSP) produced from phytoplankton into dimethyl sulfide (DMS) or methanethiol (MeSH). This study was focused on seasonal changes in the abundances of bacterial genes (dddP, dmdA) related to DMSP catabolism in the seawater of Ofunato Bay by BLAST+ analysis using shotgun metagenomic datasets. We found seasonal changes among the Candidatus Pelagibacter ubique strains, including those of the HTCC1062 type and the Red Sea type. A good correlation was observed between the chlorophyll a concentrations and the abundances of the catabolic genes, suggesting that the bacteria directly interact with phytoplankton in the marine material cycle system and play important roles in producing DMS and MeSH from DMSP as signaling molecules for the possible formation of the scent of the tidewater or as fish attractants.
Author Watanabe, Shiho
Jimbo, Mitsuru
Kobiyama, Atsushi
Ikeda, Daisuke
Reza, Md. Shaheed
Bajic, Vladimir
Ikeo, Kazuho
Ogata, Takehiko
Kaga, Shinnosuke
Yamada, Yuichiro
Naiki, Kimiaki
Segawa, Satoshi
Sato, Shigeru
Kudo, Toshiaki
Ikeda, Yuri
Rashid, Jonaira
Mizusawa, Nanami
Kaga, Yoshimasa
Mineta, Katsuhiko
Gojobori, Takashi
Watabe, Shugo
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Keywords Metagenomics
WGS
DMSP
DAPI
MeSH
DMS
DO
PCA
PFD
Bacterial functions
chl-a
DMSP catabolic genes
Ofunato Bay
Language English
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Snippet Ofunato Bay is located in the northeastern Pacific Ocean area of Japan, and it has the highest biodiversity of marine organisms in the world, primarily due to...
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SubjectTerms Bacterial functions
DMSP catabolic genes
Metagenomics
Ofunato Bay
Title Seasonal changes in the abundance of bacterial genes related to dimethylsulfoniopropionate catabolism in seawater from Ofunato Bay revealed by metagenomic analysis
URI https://dx.doi.org/10.1016/j.gene.2018.04.072
https://www.ncbi.nlm.nih.gov/pubmed/29705130
https://search.proquest.com/docview/2032794136
Volume 665
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