Evidence map›Paper›PMID 25615446›Full record

ArticlePloS one2015

Pyrosequencing revealed SAR116 clade as dominant dddP-containing bacteria in oligotrophic NW Pacific Ocean.

Dong Han Choi, Ki-Tae Park, Sung Min An, Kitack Lee, Jang-Cheon Cho, Jung-Hyun Lee, Dongseon Kim, Dongchull Jeon, Jae Hoon Noh

Open access · goldAbstract read
In one paragraph

Article in PloS one, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.

0numbers the graph read from it
0cells of the map it votes in
12citing papers in PubMed
4.1field-weighted citation impact, top 7% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

12 citing papers in PubMed, 40 citations in OpenAlex.

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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

9 authors at 4 institutions in 1 country.

Dong Han ChoiMarine Biotechnology Research Division, Korea Institute of Ocean Science and Technology, Ansan, Republic of Korea; Department of Marine Biotechnology, Korea University of Science and Technology, Daejeon, Republic of Korea.
Ki-Tae ParkSchool of Environmental Science and Engineering, Pohang University of Science and Technology, Pohang, Korea.
Sung Min AnMarine Ecosystem Research Division, Korea Institute of Ocean Science and Technology, Ansan, Republic of Korea.
Kitack LeeSchool of Environmental Science and Engineering, Pohang University of Science and Technology, Pohang, Korea.
Jang-Cheon ChoDivision of Biology and Ocean Sciences, Inha University, Incheon, Republic of Korea.
Jung-Hyun LeeMarine Biotechnology Research Division, Korea Institute of Ocean Science and Technology, Ansan, Republic of Korea; Department of Marine Biotechnology, Korea University of Science and Technology, Daejeon, Republic of Korea.
Dongseon KimOcean Circulation and Climate Research Division, Korea Institute of Ocean Science and Technology, Ansan, Republic of Korea.
Dongchull JeonOcean Circulation and Climate Research Division, Korea Institute of Ocean Science and Technology, Ansan, Republic of Korea.
Jae Hoon NohMarine Ecosystem Research Division, Korea Institute of Ocean Science and Technology, Ansan, Republic of Korea; Department of Marine Biology, Korea University of Science and Technology, Daejeon, Republic of Korea.
Korea Institute of Ocean Science and Technology · KRPohang University of Science and Technology · KRInha University · KRKorea University of Science and Technology · KR

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Dimethyl sulfide (DMS) is a climatically active gas released into the atmosphere from oceans. It is produced mainly by bacterial enzymatic cleavage of dimethylsulfoniopropionate (DMSP), and six DMSP lyases have been identified to date. To determine the biogeographical distribution of bacteria relevant to DMS production, we investigated the diversity of dddP—the most abundant DMS-producing gene—in the northwestern Pacific Ocean using newly developed primers and the pyrosequencing method. Consistent with previous studies, the major dddP-containing bacteria in coastal areas were those belonging to the Roseobacter clade. However, genotypes closely related to the SAR116 group were found to represent a large portion of dddP-containing bacteria in the surface waters of the oligotrophic ocean. The addition of DMSP to a culture of the SAR116 strain Candidatus Puniceispirillum marinum IMCC1322 resulted in the production of DMS and upregulated expression of the dddP gene. Considering the large area of oligotrophic water and the wide distribution of the SAR116 group in oceans worldwide, we propose that these bacteria may play an important role in oceanic DMS production and biogeochemical sulfur cycles, especially via bacteria-mediated DMSP degradation.

Indexed as

DNA, BacterialGenes, BacterialHigh-Throughput Nucleotide SequencingLyasesMolecular Sequence DataPacific OceanPhylogenyRoseobacterSeawaterSequence Analysis, DNASulfidesSulfonium Compoundsdimethylpropiothetindimethyl sulfideDNA, BacterialLyasesSulfidesSulfonium Compounds

Identifiers

PMID25615446
PMCPMC4304780
OpenAlexW2061707213

What OpenQuestion holds

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LicenceCC BY
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Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.