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Washington state shellfish hatchery microbiome

ABSTRACT: Effluent from geoduck clam larval rearing tanks at two different pH (8.2 and 7.1) was collected at 4 time points (Days 1, 5, 8, and 12) over 12 days in a shellfish hatchery in Washington state, USA. The water was filtered to 0.2 microns to retain the bacterial fraction.

INSTRUMENT(S): Q Exactive

ORGANISM(S): Marine Metagenome

SUBMITTER: Emma Timmins-Schiffman

LAB HEAD: Brook Nunn

PROVIDER: PXD020692 | Pride | 2021-04-21

REPOSITORIES: Pride

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	2018_March_5_UWPRQE_HatchMicro_01.pep.xml	Pepxml
	2018_March_5_UWPRQE_HatchMicro_01.raw	Raw
	2018_March_5_UWPRQE_HatchMicro_03.pep.xml	Pepxml
	2018_March_5_UWPRQE_HatchMicro_03.raw	Raw
	2018_March_5_UWPRQE_HatchMicro_04.pep.xml	Pepxml

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Publications

Coupled microbiome analyses highlights relative functional roles of bacteria in a bivalve hatchery.

Timmins-Schiffman Emma E White Samuel J SJ Thompson Rhonda Elliott RE Vadopalas Brent B Eudeline Benoit B Nunn Brook L BL Roberts Steven B SB

Environmental microbiome 20210331 1

<h4>Background</h4>Microbial communities are ubiquitous throughout ecosystems and are commensal with hosts across taxonomic boundaries. Environmental and species-specific microbiomes are instrumental in maintaining ecosystem and host health, respectively. The introduction of pathogenic microbes that shift microbiome community structure can lead to illness and death. Understanding the dynamics of microbiomes across a diversity of environments and hosts will help us to better understand which taxa ...[more]

PMID: 33902744

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Project description:Pacific geoduck (Panopea generosa) clams are found along the Northeast Pacific coast where they are significant components of coastal and estuarine ecosystems and the basis of a highly profitable aquaculture industry. The Pacific coastline, however, is also the sight of rapidly changing ocean habitat, including significant reductions in pH. To better understand the physiological impact of ocean acidification on geoduck clams, we characterized for the first time the proteomic profile of this bivalve during early larval development and compared it to that of larvae exposed to low pH.Geoduck larvae wer reared at pH 7.5 (ambient) or 7.1 in a commercial shellfish hatchery from day 6 to 19 post-fertilization , and sampled at six time points for an in-depth proteomics analysis using high-resolution data dependent analysis. We found that larvae reared at low pH were smaller than those reared at ambient pH, especially in the prodissoconch II phase of development, and displayed a delay in their competency for settlement. Proteomic profiles revealed that metabolic, cell cycle, and protein turnover pathways differed between the two pH, suggesting that differing phenotypic outcomes between pH 7.5 and 7.1 are likely due to environmental disruptions to the timing of molecular physiological events. In summary, ocean acidification likely caused an energetic stress on geoduck larvae, casuing a shift in physiological prioritization.

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