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Study

Study Name: Freshwater lake microbial communities from the Great Lakes, USA, analyzing microbial food webs and carbon cycling

Projects

Biosamples

Organisms

Biosamples: 78 Seq. Projects: 78
STUDY INFORMATION
GOLD Study ID Gs0110155
Study Name Freshwater lake microbial communities from the Great Lakes, USA, analyzing microbial food webs and carbon cycling
Other Names The bacterial component of the microbial loop in the Laurentian Great Lakes and their role in the carbon cycle.
NCBI Umbrella Bioproject Name
NCBI Umbrella Bioproject Accession
SRA Studies
SRA Study Id SRP231904  (Link to NCBI )
Study Title Freshwater viral communities from Lake Michigan, USA - Su13.ND.MM110.S.N metagenome
Study Abstract
  
SRA Study Id SRP099918  (Link to NCBI )
Study Title Freshwater lake microbial communities from Lake Huron, USA, analyzing microbial food webs and carbon cycling - Su13.BD.MM110.SN metagenome
Study Abstract
  
SRA Study Id SRP097816  (Link to NCBI )
Study Title Metatranscriptome of freshwater lake microbial communities from Lake Michigan, USA - Su13.BD.MM110.SN
Study Abstract
  
SRA Study Id SRP099917  (Link to NCBI )
Study Title Freshwater lake microbial communities from Lake Huron, USA, analyzing microbial food webs and carbon cycling - Su13.BD.MLB.DD metagenome
Study Abstract
  
SRA Study Id SRP097817  (Link to NCBI )
Study Title Metatranscriptome of freshwater lake microbial communities from Lake Michigan, USA - Su13.BD.MM110.SD
Study Abstract
  
SRA Study Id SRP097818  (Link to NCBI )
Study Title Metatranscriptome of freshwater lake microbial communities from Lake Michigan, USA - Sp13.BD.MLB.SN
Study Abstract
  
SRA Study Id SRP099919  (Link to NCBI )
Study Title Freshwater lake microbial communities from Lake Huron, USA, analyzing microbial food webs and carbon cycling - Su13.BD.MM110.DCMD metagenome
Study Abstract
  
SRA Study Id SRP097863  (Link to NCBI )
Study Title Metatranscriptome of freshwater lake microbial communities from Lake Michigan, USA - Su13.BD.MM15.DN
Study Abstract
  
SRA Study Id SRP097864  (Link to NCBI )
Study Title Metatranscriptome of freshwater lake microbial communities from Lake Michigan, USA - Su13.BD.MM110.DCMD
Study Abstract
  
SRA Study Id SRP099920  (Link to NCBI )
Study Title Lentic microbial communities from Lake Huron, USA - Laurentian Great Lakes Su13.BD.MLB.SD metagenome
Study Abstract
  
SRA Study Id SRP097821  (Link to NCBI )
Study Title Metatranscriptome of freshwater lake microbial communities from Lake Michigan, USA - Su13.BD.MM110.DN
Study Abstract
  
SRA Study Id SRP097865  (Link to NCBI )
Study Title Metatranscriptome of freshwater lake microbial communities from Lake Michigan, USA - Su13.BD.MLB.SD
Study Abstract
  
SRA Study Id SRP097823  (Link to NCBI )
Study Title Metatranscriptome of freshwater lake microbial communities from Lake Michigan, USA - Fa13.BD.MM15.DN
Study Abstract
  
SRA Study Id SRP097824  (Link to NCBI )
Study Title Metatranscriptome of freshwater lake microbial communities from Lake Michigan, USA - Fa13.BD.MM15.SD
Study Abstract
  
SRA Study Id SRP097825  (Link to NCBI )
Study Title Metatranscriptome of freshwater lake microbial communities from Lake Michigan, USA - Su13.BD.MLB.DD
Study Abstract
  
SRA Study Id SRP097826  (Link to NCBI )
Study Title Metatranscriptome of freshwater lake microbial communities from Lake Michigan, USA - Fa13.BD.MM15.SN
Study Abstract
  
SRA Study Id SRP231898  (Link to NCBI )
Study Title Freshwater viral communities from Lake Michigan, USA - Sp13.ND.MM110.S.N metagenome
Study Abstract
  
SRA Study Id SRP099907  (Link to NCBI )
Study Title Freshwater lake microbial communities from Lake Huron, USA, analyzing microbial food webs and carbon cycling - Sp13.BD.MM110.SN metagenome
Study Abstract
  
SRA Study Id SRP231892  (Link to NCBI )
Study Title Freshwater viral communities from Lake Michigan, USA - Su13.VD.MM15.D.N metagenome
Study Abstract
  
SRA Study Id SRP099906  (Link to NCBI )
Study Title Freshwater lake microbial communities from Lake Huron, USA, analyzing microbial food webs and carbon cycling - Sp13.BD.MM15.DD metagenome
Study Abstract
  
SRA Study Id SRP231890  (Link to NCBI )
Study Title Freshwater viral communities from Lake Michigan, USA - Su13.VD.MM110.S.N metagenome
Study Abstract
  
SRA Study Id SRP231891  (Link to NCBI )
Study Title Freshwater viral communities from Lake Michigan, USA - Su13.VD.MLB.D.D metagenome
Study Abstract
  
SRA Study Id SRP231896  (Link to NCBI )
Study Title Freshwater viral communities from Lake Michigan, USA - Fa13.VD.MM110.D.N metagenome
Study Abstract
  
SRA Study Id SRP231894  (Link to NCBI )
Study Title Freshwater viral communities from Lake Michigan, USA - Fa13.VD.MM110.S.D metagenome
Study Abstract
  
SRA Study Id SRP231895  (Link to NCBI )
Study Title Freshwater viral communities from Lake Michigan, USA - Fa13.VD.MM110.S.N metagenome
Study Abstract
  
SRA Study Id SRP099912  (Link to NCBI )
Study Title Freshwater lake microbial communities from Lake Huron, USA, analyzing microbial food webs and carbon cycling - Sp13.BD.MM110.DD metagenome
Study Abstract
  
SRA Study Id SRP097811  (Link to NCBI )
Study Title Metatranscriptome of freshwater lake microbial communities from Lake Michigan, USA - Sp13.BD.MM110.SD
Study Abstract
  
SRA Study Id SRP097812  (Link to NCBI )
Study Title Metatranscriptome of freshwater lake microbial communities from Lake Michigan, USA - Sp13.BD.MM110.SN
Study Abstract
  
SRA Study Id SRP099914  (Link to NCBI )
Study Title Freshwater lake microbial communities from Lake Huron, USA, analyzing microbial food webs and carbon cycling - Sp13.BD.MM110.SD metagenome
Study Abstract
  
SRA Study Id SRP099916  (Link to NCBI )
Study Title Freshwater lake microbial communities from Lake Huron, USA, analyzing microbial food webs and carbon cycling - Su13.BD.MM15.SN metagenome
Study Abstract
  
SRA Study Id SRP097814  (Link to NCBI )
Study Title Metatranscriptome of freshwater lake microbial communities from Lake Michigan, USA - Sp13.BD.MM110.DD
Study Abstract
  
SRA Study Id SRP097815  (Link to NCBI )
Study Title Metatranscriptome of freshwater lake microbial communities from Lake Michigan, USA - Su13.BD.MM15.SN
Study Abstract
  
SRA Study Id SRP099915  (Link to NCBI )
Study Title Freshwater lake microbial communities from Lake Huron, USA, analyzing microbial food webs and carbon cycling - Sp13.BD.MLB.SN metagenome
Study Abstract
  
SRA Study Id SRP231889  (Link to NCBI )
Study Title Freshwater viral communities from Lake Michigan, USA - Su13.VD.MLB.S.D metagenome
Study Abstract
  
SRA Study Id SRP256629  (Link to NCBI )
Study Title Freshwater viral communities from Lake Michigan, USA - Su13.VD.MM15.S.D metagenome
Study Abstract
  
SRA Study Id SRP231887  (Link to NCBI )
Study Title Freshwater viral communities from Lake Michigan, USA - Sp13.VD.MM110.S.D metagenome
Study Abstract
  
SRA Study Id SRP231888  (Link to NCBI )
Study Title Freshwater viral communities from Lake Michigan, USA - Sp13.VD.MM15.S.N metagenome
Study Abstract
  
SRA Study Id SRP255059  (Link to NCBI )
Study Title Freshwater viral communities from Lake Michigan, USA - Su13.VD.MM110.DCM.D metagenome
Study Abstract
  
SRA Study Id SRP231886  (Link to NCBI )
Study Title Freshwater viral communities from Lake Michigan, USA - Sp13.VD.MM110.D.D metagenome
Study Abstract
  
SRA Study Id SRP256622  (Link to NCBI )
Study Title Freshwater viral communities from Lake Michigan, USA - Sp13.VD.MM15.D.D metagenome
Study Abstract
  
SRA Study Id SRP183327  (Link to NCBI )
Study Title Metatranscriptome of freshwater lake microbial communities from Lake Michigan, USA - Sp13.BD.MM15.DD
Study Abstract
  
SRA Study Id SRP183326  (Link to NCBI )
Study Title Metatranscriptome of freshwater lake microbial communities from Lake Michigan, USA - Sp13.BD.MM15.SN
Study Abstract
  
SRA Study Id SRP099903  (Link to NCBI )
Study Title Freshwater lake microbial communities from Lake Huron, USA, analyzing microbial food webs and carbon cycling - Sp13.BD.MM15.SN metagenome
Study Abstract
  
SRA Study Id SRP099905  (Link to NCBI )
Study Title Freshwater lake microbial communities from Lake Huron, USA, analyzing microbial food webs and carbon cycling - Sp13.BD.MM15.SD metagenome
Study Abstract
  
SRA Study Id SRP183325  (Link to NCBI )
Study Title Metatranscriptome of freshwater lake microbial communities from Lake Michigan, USA - Sp13.BD.MM15.SD
Study Abstract
  
SRA Study Id SRP097827  (Link to NCBI )
Study Title Metatranscriptome of freshwater lake microbial communities from Lake Michigan, USA - Fa13.BD.MM110.SN
Study Abstract
  
SRA Study Id SRP097829  (Link to NCBI )
Study Title Metatranscriptome of freshwater lake microbial communities from Lake Michigan, USA - Fa13.BD.MM110.SD
Study Abstract
  
SRA Study Id SRP256634  (Link to NCBI )
Study Title Freshwater viral communities from Lake Michigan, USA - Fa13.VD.MM15.S.D metagenome
Study Abstract
  
SRA Study Id SRP256635  (Link to NCBI )
Study Title Freshwater viral communities from Lake Michigan, USA - Fa13.ND.MM110.D.N metagenome
Study Abstract
  
SRA Study Id SRP097831  (Link to NCBI )
Study Title Metatranscriptome of freshwater lake microbial communities from Lake Michigan, USA - Fa13.BD.MLB.DN
Study Abstract
  
SRA Study Id SRP255060  (Link to NCBI )
Study Title Freshwater viral communities from Lake Michigan, USA - Fa13.VD.MM15.D.N metagenome
Study Abstract
  
SRA Study Id SRP097832  (Link to NCBI )
Study Title Metatranscriptome of freshwater lake microbial communities from Lake Michigan, USA - Fa13.BD.MM110.DN
Study Abstract
  
SRA Study Id SRP255061  (Link to NCBI )
Study Title Freshwater viral communities from Lake Michigan, USA - Su13.VD.MM110.S.D metagenome
Study Abstract
  
SRA Study Id SRP255062  (Link to NCBI )
Study Title Freshwater viral communities from Lake Michigan, USA - Su13.VD.MM15.S.N metagenome
Study Abstract
  
SRA Study Id SRP097834  (Link to NCBI )
Study Title Metatranscriptome of freshwater lake microbial communities from Lake Michigan, USA - Fa13.BD.MLB.SN
Study Abstract
  
SRA Study Id SRP097835  (Link to NCBI )
Study Title Lentic ecosystem from Lake Huron, USA - Fa13.BD.MLB.SN metagenome
Study Abstract
  
SRA Study Id SRP097914  (Link to NCBI )
Study Title Metatranscriptome of freshwater lake microbial communities from Lake Michigan, USA - Su13.BD.MM15.SD
Study Abstract
  
SRA Study Id SRP231909  (Link to NCBI )
Study Title Freshwater viral communities from Lake Michigan, USA - Fa13.ND.MLB.S.N metagenome
Study Abstract
  
SRA Study Id SRP231908  (Link to NCBI )
Study Title Freshwater viral communities from Lake Michigan, USA - Fa13.ND.MM110.S.N metagenome
Study Abstract
  
Legacy ER Study ID 65349
Legacy GOLD ID Gm0065349
Added By Michelle Isbandi on 2014-01-21
Last Modified By Galina Ovchinnikova on 2017-02-16
PI Vincent Denef
Description While the role of bacterio- and virioplankton communities as part of the marine and freshwater microbial loop is well appreciated, the resolution at which these communities are incorporated into food web models is very coarse. Efforts to increase this resolution by employing novel DNA sequencing-based technologies are being performed at rapidly increasing rates in marine environments yet lag significantly behind in freshwater environments. The bacterial, archaeal, and viral components of the microbial food web are important recyclers of nutrients and carbon, and feed into higher tropic levels primarily through heterotrophic nanoflagelate grazing. They also have important interactions with DOC, the major regulator of UV penetration in lake water. Most ecosystem models have a component for detritus and nutrient recycling, but they are black box approaches that do no take into account the underlying spatial and seasonal variability in species composition and activity. The sampling across seasons, day and night, along the depth profile, and along a transect from littoral to pelagic allows us to generate a more integrated view of the microbial food web structure. By including metatransciptomics and metaproteomics we can make inferences regarding microbial activity levels (8), in particular regarding the role of different populations in the carbon cycle and how environmental constraints control these activities. We are participating in research cruises coordinated by the NOAA Great Lakes Ecological Research Laboratory. Samples are being collected in the spring, summer, and fall of 2012 along a transect that starts out of Alpena, MI: Thunder Bay, Lake Huron Work Sites. This set of cruises is part of a multiagency study to understand the structure and function of the Lake Huron food web during a large field campaign entitled "2012 Lake Huron Coordinated Science and Monitoring Initiative". As such, it provides the opportunity to obtain a highly genetically resolved view of the bacterioplankton and virus communities in a Laurentian Great Lake in the context of geochemical and biological (phytoplankton, zooplankton, larval and adult fish) metadata. Very few such studies have been performed in any system, terrestrial or aquatic. This is the first major project in Lake Huron that would incorporate a detailed sequencing-based analysis of the microbial food web, and will form a point of reference to identify the effects of climate change, land use change, and invasive species on the Laurentian Great Lakes. To cover most of the extant diversity, the samples selected for metaomics studies will derive from stations TB10 and TB82. These are the sites that are the most and least impacted by terrestrial runoff, respectively, and thus represent the lake littoral and pelagic environment.
Relevance
Study Information Visibility Public
Metagenomic Study Yes
Publication
Is GEBA No
Is HMP No
ECOSYSTEM CLASSIFICATION
Ecosystem Environmental
Ecosystem Category Aquatic
Ecosystem Type Freshwater
Ecosystem Subtype Lentic
Specific Ecosystem Unclassified
Ecosystem Path ID 4174
STUDY COMPOSITION
Number of Biosamples 78
Number of Organisms 0
Number of Seq Projects 78
Number of Analysis Projects 173
Number of Related Studies 0

 

 

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