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Distinct Oceanic Microbiomes From Viruses to Protists Located Near the Antarctic Circumpolar Current.

ABSTRACT: Microbes occupy diverse ecological niches and only through recent advances in next generation sequencing technologies have the true microbial diversity been revealed. Furthermore, lack of perceivable marine barriers to genetic dispersal (i.e., mountains or islands) has allowed the speculation that organisms that can be easily transported by currents and therefore proliferate everywhere. That said, ocean currents are now commonly being recognized as barriers for microbial dispersal. Here we analyzed samples collected from a total of six stations, four located in the Indian Ocean, and two in the Southern Ocean. Amplicon sequencing was used to characterize both prokaryotic and eukaryotic plankton communities, while shotgun sequencing was used for the combined environmental DNA (eDNA), microbial eDNA (meDNA), and viral fractions. We found that Cyanobacteria dominated the prokaryotic component in the South-West Indian Ocean, while ?-Proteobacteria dominated the South-East Indian Ocean. A combination of ?- and ?-Proteobacteria dominated the Southern Ocean. Alveolates dominated almost exclusively the eukaryotic component, with variation in the ratio of Protoalveolata and Dinoflagellata depending on station. However, an increase in haptophyte relative abundance was observed in the Southern Ocean. Similarly, the viral fraction was dominated by members of the order Caudovirales across all stations; however, a higher presence of nucleocytoplasmic large DNA viruses (mainly chloroviruses and mimiviruses) was observed in the Southern Ocean. To our knowledge, this is the first that a statistical difference in the microbiome (from viruses to protists) between the subtropical Indian and Southern Oceans. We also show that not all phylotypes can be found everywhere, and that meDNA is not a suitable resource for monitoring aquatic microbial diversity.

SUBMITTER: Flaviani F

PROVIDER: S-EPMC6056678 | biostudies-literature | 2018

REPOSITORIES: biostudies-literature

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Distinct Oceanic Microbiomes From Viruses to Protists Located Near the Antarctic Circumpolar Current.

Flaviani Flavia F Schroeder Declan C DC Lebret Karen K Balestreri Cecilia C Highfield Andrea C AC Schroeder Joanna L JL Thorpe Sally E SE Moore Karen K Pasckiewicz Konrad K Pfaff Maya C MC Rybicki Edward P EP

Frontiers in microbiology 20180717

Microbes occupy diverse ecological niches and only through recent advances in next generation sequencing technologies have the true microbial diversity been revealed. Furthermore, lack of perceivable marine barriers to genetic dispersal (i.e., mountains or islands) has allowed the speculation that organisms that can be easily transported by currents and therefore proliferate everywhere. That said, ocean currents are now commonly being recognized as barriers for microbial dispersal. Here we analy ...[more]

PMID: 30065704

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Project description:During the Austral summer 2009 we studied three areas surrounding the Antarctic Peninsula: the Bellingshausen Sea, the Bransfield Strait and the Weddell Sea. We aimed to investigate, whether viruses or protists were the main agents inducing prokaryotic mortality rates, and the sensitivity to temperature of prokaryotic heterotrophic production and mortality based on the activation energy (Ea) for each process. Seawater samples were taken at seven depths (0.1-100 m) to quantify viruses, prokaryotes and protists abundances, and heterotrophic prokaryotic production (PHP). Viral lytic production, lysogeny, and mortality rates of prokaryotes due to viruses and protists were estimated at surface (0.1-1 m) and at the Deep Fluorescence Maximum (DFM, 12-55 m) at eight representative stations of the three areas. The average viral lytic production ranged from 1.0 ± 0.3 × 107 viruses ml-1 d-1 in the Bellingshausen Sea to1.3 ± 0.7 × 107 viruses ml-1 d-1 in the Bransfield Strait, while lysogeny, when detectable, recorded the lowest value in the Bellingshausen Sea (0.05 ± 0.05 × 107 viruses ml-1 d-1) and the highest in the Weddell Sea (4.3 ± 3.5 × 107 viruses ml-1 d-1). Average mortality rates due to viruses ranged from 9.7 ± 6.1 × 104 cells ml-1 d-1 in the Weddell Sea to 14.3 ± 4.0 × 104 cells ml-1 d-1 in the Bellingshausen Sea, and were higher than averaged grazing rates in the Weddell Sea (5.9 ± 1.1 × 104 cells ml-1 d-1) and in the Bellingshausen Sea (6.8 ± 0.9 × 104 cells ml-1 d-1). The highest impact on prokaryotes by viruses and main differences between viral and protists activities were observed in surface samples: 17.8 ± 6.8 × 104 cells ml-1 d-1 and 6.5 ± 3.9 × 104 cells ml-1 d-1 in the Weddell Sea; 22.1 ± 9.6 × 104 cells ml-1 d-1 and 11.6 ± 1.4 × 104 cells ml-1 d-1 in the Bransfield Strait; and 16.1 ± 5.7 × 104 cells ml-1 d-1 and 7.9 ± 2.6 × 104 cells ml-1 d-1 in the Bellingshausen Sea, respectively. Furthermore, the rate of lysed cells and PHP showed higher sensitivity to temperature than grazing rates by protists. We conclude that viruses were more important mortality agents than protists mainly in surface waters and that viral activity has a higher sensitivity to temperature than grazing rates. This suggests a reduction of the carbon transferred through the microbial food-web that could have implications in the biogeochemical cycles in a future warmer ocean scenario.

Dataset Information

Distinct Oceanic Microbiomes From Viruses to Protists Located Near the Antarctic Circumpolar Current.

Publications

Distinct Oceanic Microbiomes From Viruses to Protists Located Near the Antarctic Circumpolar Current.

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