Award Abstract # 0849578
Pickled Protists or Community Uniquely Adapted to Hypersalinity

NSF Org: OCE
Division Of Ocean Sciences
Recipient: WOODS HOLE OCEANOGRAPHIC INSTITUTION
Initial Amendment Date: February 3, 2009
Latest Amendment Date: February 12, 2014
Award Number: 0849578
Award Instrument: Standard Grant
Program Manager: David Garrison
OCE
 Division Of Ocean Sciences
GEO
 Directorate For Geosciences
Start Date: April 1, 2009
End Date: December 31, 2014 (Estimated)
Total Intended Award Amount: $490,094.00
Total Awarded Amount to Date: $588,094.00
Funds Obligated to Date: FY 2009 = $490,094.00
FY 2011 = $98,000.00
History of Investigator:
  • Virginia Edgcomb (Principal Investigator)
    vedgcomb@whoi.edu
  • Joan Bernhard (Co-Principal Investigator)
Recipient Sponsored Research Office: Woods Hole Oceanographic Institution
266 WOODS HOLE RD
WOODS HOLE
MA  US  02543-1535
(508)289-3542
Sponsor Congressional District: 09
Primary Place of Performance: Woods Hole Oceanographic Institution
266 WOODS HOLE RD
WOODS HOLE
MA  US  02543-1535
Primary Place of Performance
Congressional District:
09
Unique Entity Identifier (UEI): GFKFBWG2TV98
Parent UEI:
NSF Program(s): BIOLOGICAL OCEANOGRAPHY
Primary Program Source: 01000910DB NSF RESEARCH & RELATED ACTIVIT
01001112DB NSF RESEARCH & RELATED ACTIVIT
Program Reference Code(s): 0000, 9117, BIOT
Program Element Code(s): 165000
Award Agency Code: 4900
Fund Agency Code: 4900
Assistance Listing Number(s): 47.050

ABSTRACT

Protists are an essential component of microbial food webs and play a central role in global biogeochemical cycles, and thus are key players in sustaining the healthy functioning of any ecosystem. Over the past few years a rich diversity of protists has been revealed in a range of extreme environments, indicating that the frontiers of eukaryotic life are still being explored. Only recently, one of the most extreme marine environments known to science was discovered in the eastern Mediterranean Sea at a depth of ~3500m, namely deep hypersaline anoxic basins (DHABs). These basins are characterized by extremely high salt concentrations (up to saturation) that have been considered anathema to life. Instead, highly diverse communities of bacteria exist in the waters of these basins. With the exception of a preliminary study to this proposal that indicated a diverse and active assemblage of protists in the water column along the halocline and below the halocline, these DHABs remain largely unexplored regarding eukaryotic life forms. The sediments of the DHABs have not been explored for protists at all.

The investigators will collect water column and sediment samples on a short cruise to two basins with different brine chemistries. An exciting combination of molecular, cultivation-independent and culture-based approaches will be used to study the microbial communities of Bannock and Discovery Basins as well as determine adaptive strategies of marine protist communities to hypersaline, anoxic environments and the degree of their potential impact on biogeochemical cycling as a result of their predation activities, the degree to which the dominant protists maintain bacterial or archaeal symbionts, and the identity of those symbionts. Methods to be employed include RNA-based sequence analysis of diversity based on 18S rDNA genes, statistical analyses of community composition and phylotype richness, geochemical documentation of the water column and sediments using classical and microelectrode approaches, expression profiling using 3'-UTR fragments of mRNAs, sequencing of complete gene transcripts for proteins appearing to confer adaptation to hypersalinity, analysis of the proteome signatures, FISH-SEM to characterize novel extremophiles, CARD-FISH to identify eukaryote prey and putative symbionts, and TEM to assess morphology and endobiont presence in common benthic morphotypes.

Broader Impacts.
Hypersaline environments rank highly in the list of extreme systems that have attracted increasing notice in science as well as by the lay public. For example, considering predictions of increasing temperatures and drought in certain regions of our planet, the number of hypersaline habitats may increase dramatically causing this ecosystem to gain importance on a global scale. Thus, an understanding of the ecosystem in these habitats will help predict future ecosystem functioning due to global change. From a different perspective, revealing the mechanisms of adaptation to high salinity has become a major objective, both for biological science and for potential commercial exploitation of natural products associated with those adaptations. Additionally, this project has varied educational components, ranging from middle school to graduate studies, and outreach opportunities for secondary school science teachers and the lay public. For example, this project will partially support one graduate student, who will join the research cruise to gain first-hand oceanographic experience and augment their knowledge of marine microbial ecology and physiology. The methodologies and results of this project will be presented at a well-established annual workshop for middle and secondary science teachers from around the world.

PUBLICATIONS PRODUCED AS A RESULT OF THIS RESEARCH

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(Showing: 1 - 10 of 24)
Stock, A., Breiner, H.-W., Pachiadaki, M., Edgcomb, V., Filker, S., LaCono, V., Yakimov, M., Stoeck, T "Microbial eukaryote life in the new hypersaline deep-sea basin Thetis" Extremophiles , v.16 , 2011 , p.21-3
Edgcomb, V., Orsi, W., Breiner, H.-W., Stoeck, T "Eastern Mediterranean Deep Hypersaline Anoxic Lakes: Novel Active Kinetoplastids Associated with Halocline Habitats" Frontiers in Extreme Microbiology , v.58 , 2011
Filker, S., Stock, A., Breiner, H.W., Edgcomb, V.P., Orsi, W., Yakimov, M.M., and Stoeck, T. "Environmental selection of protistan communities in hypersaline anoxic deep-sea basins, Eastern Mediterranean Sea." Microbiology Open , v.in pres , 2013 , p.54-63 10.1002/mbo3.56
Orsi, W., S. Charvet, J. Bernhard, and Edgcomb, V.P. "Prevalence of partnerships between bacteria and ciliates in oxygen-depleted marine water columns" Frontiers in Extreme Microbiol. , v.3 , 2012 , p.341 10.3389/fmicb.2012.00341
Stock, A., Breiner, H.-W., Pachiadaki, M., Edgcomb, V.P., Filker, S., LaCono, V., Yakimov, M., Stoeck, T. 2011 "Microbial eukaryote life in the new hypersaline deep-sea basin Thetis" Extremophiles , v.16 , 2013 , p.21-34
Edgcomb, V.P., W. Orsi, H.-W. Breiner, A. Stock, S. Filker, M.M. Yakimov, and T. Stoeck. "Novel kinetoplastids associated with hypersaline anoxic lakes in the Eastern Mediterranean deep-sea" Deep Sea Research , v.58 , 2011 , p.1040-1048
Stock, A., Edgcomb, V.P., Orsi, W., Filker, S., Breiner, H.W., Yakimov, M.M., Stoeck, T. "Evidence for isolated evolution of deep-sea ciliate communities through environmental selection and geological chronology" BMC Microbiology , v.13 , 2013 10.1186/1471-2180-13-150
Edgcomb, V.P., Bernhard JM. "Heterotrophic protists in hypersaline microbial mats and deep hypersaline basin water columns" Special Issue ?Extremophiles and Extreme Environments? Life , 2013 10.3390/life3020346
Filker, S., Stock, A., Breiner, H.W., Edgcomb, V.P., Orsi, W., Yakimov, M.M., and Stoeck, T. "Environmental selection of protistan communities in hypersaline anoxic deep-sea basins, Eastern Mediterranean Sea" MicrobiologyOpen 2 , 2012 , p.54
Orsi, W., S. Charvet, J. Bernhard, and Edgcomb, V.P "Prevalence of partnerships between bacteria and ciliates in oxygen-depleted marine water columns" Frontiers in Extreme Microbiol. , v.3 , 2012 10.3389/fmicb.2012.00341
Edgcomb, V.P., W. Orsi, H.-W. Breiner, A. Stock, S. Filker, M.M. Yakimov, and T. Stoeck "Novel kinetoplastids associated with hypersaline anoxic lakes in the Eastern Mediterranean deep sea" Deep-Sea Research , v.58 , 2011 , p.1040-1048
(Showing: 1 - 10 of 24)

PROJECT OUTCOMES REPORT

Disclaimer

This Project Outcomes Report for the General Public is displayed verbatim as submitted by the Principal Investigator (PI) for this award. Any opinions, findings, and conclusions or recommendations expressed in this Report are those of the PI and do not necessarily reflect the views of the National Science Foundation; NSF has not approved or endorsed its content.

Award Number: 0849578

Project Outcomes Report

Principal Investigator: Virginia P. Edgcomb

Organization: Woods Hole Oceanographic Institution

Submitted by: Virginia P. Edgcomb

Program Officer Name: David L. Garrison

Title: Pickled Protists or Community Uniquely Adapted to Hypersalinity

 

Goals: The overall goal of this project was to explore protistan life in the in the seawater-brine interfaces of both the water column and within sediments, as well as the brines, of geochemically contrasting  deep hypersaline anoxic basins in the deepest part of the Eastern Mediterranean Sea (~3500-4000m water depth). We sought various lines of evidence for active eukaryotic communities, including visualization of intact cells with intact nuclei using light and epifluorescence microscopy, positive labeling by CellTracker Green which reacts with esterases, positive iTag amplification using extracted RNA as template (cDNA), and detection of expressed metabolic genes within the mRNA fraction of isolated total RNA.

Outcomes: We analyzed the first comparative metatranscriptome of a microbial community along a water-column halocline of the deep hypersaline anoxic basin Thetis. This study provided remarkable insights into community activities and biogeochemical cycling in this deep extreme habitat, including the discovery of nitrogen fixation in the anoxic most hypersaline water layer, strategies used for osmotic balance, and insights into carbon fixation pathways utilized under those conditions. Driven by the needs of this project, a new water-column sampler (the Microbial Sampler-Submersible Incubation Device (MS-SID)) was developed for collecting filtered and unfiltered water samples and preserving them in situ in order to minimize biases associated with sample handling and recovery from the deep ocean. This instrument is helping to reshape how microbiologists examine communities in the deep sea and is now available for use by the wider community. Using this instrument we conducted the first grazing study to determine the impacts of protist phagotrophy on microbial communities in deep-sea waters. These studies included DHAB halocline waters and applied in situ approaches to assess impacts on carbon turnover in the deep sea. This showed that protist phagotrophy turns over approximately 25% of the prokaryotic biomass daily, and likely contributes significantly to new sources of labile organic carbon at these sites/depths. Using the MS-SID we conducted the first direct comparison of metatranscriptome results for a deep-water (2200m) sample collected using this technology vs. traditional Niskin-bottle water collection with subsequent on-deck water processing. This revealed the importance of using in situ approaches for precise assessments of in situ activities. Scanning electron microscopy and fluorescent in situ hybridization (FISH) revealed intact protists from water-column haloclines and brines, including numerous ciliates hosting visible epibionts in several halocline and some brine samples.

Using the Remotely Operated Vehicle (ROV) Jason, we collected precisely placed cores from where the halocline impinges on the seafloor.  These cores were collected from different zones of the halocline, to allow comparisons of their protistan communities. Using microscopy, we visualized living (DAPI-positive, esterase active, and intact) protists in halocline sediments from three different DHABs (L’Atalante, Urania, Discovery) and we isolated intact messenger and ribosomal RNA from protists in these habitats. Halocline sediments appear to support more abundant communities of protists than the control (normal salini...

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