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Title: Analysis of Stomach and Gut Microbiomes of the Eastern Oyster (Crassostrea virginica) from Coastal Louisiana, USA

Abstract

In this paper, we used high throughput pyrosequencing to characterize stomach and gut content microbiomes of Crassostrea virginica, the Easter oyster, obtained from two sites, one in Barataria Bay (Hackberry Bay) and the other in Terrebonne Bay (Lake Caillou), Louisiana, USA. Stomach microbiomes in oysters from Hackberry Bay were overwhelmingly dominated by Mollicutes most closely related to Mycoplasma; a more rich community dominated by Planctomyctes occurred in Lake Caillou oyster stomachs. Gut communities for oysters from both sites differed from stomach communities, and harbored a relatively diverse assemblage of phylotypes. Phylotypes most closely related to Shewanella and a Chloroflexi strain dominated the Lake Caillou and Hackberry Bay gut microbiota, respectively. While many members of the stomach and gut microbiomes appeared to be transients or opportunists, a putative core microbiome was identified based on phylotypes that occurred in all stomach or gut samples only. The putative core stomach microbiome comprised 5 OTUs in 3 phyla, while the putative core gut microbiome contained 44 OTUs in 12 phyla. These results collectively revealed novel microbial communities within the oyster digestive system, the functions of the oyster microbiome are largely unknown. Finally, a comparison of microbiomes from Louisiana oysters with bacterial communities reported formore » other marine invertebrates and fish indicated that molluscan microbiomes were more similar to each other than to microbiomes of polychaetes, decapods and fish.« less

Authors:
 [1];  [1];  [2];  [1]
  1. Louisiana State Univ., Baton Rouge, LA (United States). Dept. of Biological Sciences
  2. Los Alamos National Lab. (LANL), Los Alamos, NM (United States). Bioscience Division
Publication Date:
Research Org.:
Los Alamos National Lab. (LANL), Los Alamos, NM (United States); Louisiana State Univ., Baton Rouge, LA (United States)
Sponsoring Org.:
USDOE; National Science Foundation (NSF); Louisiana State Univ. (United States). Gulf of Mexico Research Initiative (GoMRI-LSU)
OSTI Identifier:
1321720
Report Number(s):
LA-UR-12-24361
Journal ID: ISSN 1932-6203
Grant/Contract Number:  
20080464ER; OCE-1043126
Resource Type:
Accepted Manuscript
Journal Name:
PLoS ONE
Additional Journal Information:
Journal Volume: 7; Journal Issue: 12; Journal ID: ISSN 1932-6203
Publisher:
Public Library of Science
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; biological science; microbiome; stomach; oysters; lakes; mollicutes; sequence analysis; sequence databases; malacology

Citation Formats

King, Gary M., Judd, Craig, Kuske, Cheryl R., and Smith, Conor. Analysis of Stomach and Gut Microbiomes of the Eastern Oyster (Crassostrea virginica) from Coastal Louisiana, USA. United States: N. p., 2012. Web. doi:10.1371/journal.pone.0051475.
King, Gary M., Judd, Craig, Kuske, Cheryl R., & Smith, Conor. Analysis of Stomach and Gut Microbiomes of the Eastern Oyster (Crassostrea virginica) from Coastal Louisiana, USA. United States. doi:10.1371/journal.pone.0051475.
King, Gary M., Judd, Craig, Kuske, Cheryl R., and Smith, Conor. Wed . "Analysis of Stomach and Gut Microbiomes of the Eastern Oyster (Crassostrea virginica) from Coastal Louisiana, USA". United States. doi:10.1371/journal.pone.0051475. https://www.osti.gov/servlets/purl/1321720.
@article{osti_1321720,
title = {Analysis of Stomach and Gut Microbiomes of the Eastern Oyster (Crassostrea virginica) from Coastal Louisiana, USA},
author = {King, Gary M. and Judd, Craig and Kuske, Cheryl R. and Smith, Conor},
abstractNote = {In this paper, we used high throughput pyrosequencing to characterize stomach and gut content microbiomes of Crassostrea virginica, the Easter oyster, obtained from two sites, one in Barataria Bay (Hackberry Bay) and the other in Terrebonne Bay (Lake Caillou), Louisiana, USA. Stomach microbiomes in oysters from Hackberry Bay were overwhelmingly dominated by Mollicutes most closely related to Mycoplasma; a more rich community dominated by Planctomyctes occurred in Lake Caillou oyster stomachs. Gut communities for oysters from both sites differed from stomach communities, and harbored a relatively diverse assemblage of phylotypes. Phylotypes most closely related to Shewanella and a Chloroflexi strain dominated the Lake Caillou and Hackberry Bay gut microbiota, respectively. While many members of the stomach and gut microbiomes appeared to be transients or opportunists, a putative core microbiome was identified based on phylotypes that occurred in all stomach or gut samples only. The putative core stomach microbiome comprised 5 OTUs in 3 phyla, while the putative core gut microbiome contained 44 OTUs in 12 phyla. These results collectively revealed novel microbial communities within the oyster digestive system, the functions of the oyster microbiome are largely unknown. Finally, a comparison of microbiomes from Louisiana oysters with bacterial communities reported for other marine invertebrates and fish indicated that molluscan microbiomes were more similar to each other than to microbiomes of polychaetes, decapods and fish.},
doi = {10.1371/journal.pone.0051475},
journal = {PLoS ONE},
number = 12,
volume = 7,
place = {United States},
year = {2012},
month = {12}
}

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Works referencing / citing this record:

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journal, January 2019


16S rRNA sequencing reveals likely beneficial core microbes within faecal samples of the EU protected slug Geomalacus maculosus
journal, July 2018


Geohistorical records indicate no impact of the Deepwater Horizon oil spill on oyster body size
journal, November 2016

  • Dietl, Gregory P.; Durham, Stephen R.
  • Royal Society Open Science, Vol. 3, Issue 11
  • DOI: 10.1098/rsos.160763

The role of tissue type, sampling and nucleic acid purification methodology on the inferred composition of Pacific oyster ( Crassostrea gigas ) microbiome
journal, June 2019

  • Pathirana, E.; McPherson, A.; Whittington, R.
  • Journal of Applied Microbiology, Vol. 127, Issue 2
  • DOI: 10.1111/jam.14326

Looking like the locals - gut microbiome changes post-release in an endangered species
journal, October 2019


Microbiome of the Black-Lipped Pearl Oyster Pinctada margaritifera, a Multi-Tissue Description With Functional Profiling
journal, July 2019


Tissue-Specific Microbiomes of the Red Sea Giant Clam Tridacna maxima Highlight Differential Abundance of Endozoicomonadaceae
journal, November 2019