Progress 10/01/12 to 09/30/17
Outputs
Target Audience:This project has focused on sharing the information gathered through our recent and current collaborative research on probiotics development and mechanisms of disease resistancein oysters with stakeholders. We have worked with these stakeholders to help identify how to integrate thisknowledge into disease management plans used by the shellfish industry, as well as help determine in the future how these technologies work and how they can be further improved. Stakeholders include: researchers in shellfish genomics, pathology, biology, and immunology; town, state, and federal managers and regulators; and members of the bivalve shellfish industry. Changes/Problems:
Nothing Reported
What opportunities for training and professional development has the project provided?The Eastern Oyster Genome Consortium held a workshop in Comparative Genomics in shellfish species at the 2017 Annual Meeting of the National Shellfisheries Association, attended by more than 30 researchers and students. This workshop provided training on tools to explore the recently (Fall 2017) released eastern oyster genome. Another workshop targeted to the shellfish industry was held by the East Coast Shellfish Breeding Consortium at the Northeast Aquaculture Conference and Exposition in Providence in January 2017. The industry workshop solidified the relationship between the East Coast Shellfish Breeding Consortium and the shellfish industry, helping researchers in the Consortium refine future goals and plan of work. For example, input from industry indicated the importance of adaptation to a changing environment as a trait to be included in the breeding programs. The shellfish industry is embracing the development of oyster lines with improved performance through selective breeding, and is willing to participate in research testing the performance of those lines. How have the results been disseminated to communities of interest?Results have been disseminated at regional, national, and international meetings, such as the Milford Aquaculture Seminar, the Plant and Animal Genomics Conference, the International Conference in Fish and Shellfish Immunology, and the Annual Meeting of the National Shellfisheries Association. Results from the research associated with these outreach efforts, funded by different agencies, havebeen published in relevant journals such as Journal of Shellfish Research, Fish and Shellfish Immunology, Aquacutlure, BMC Genomics, and BMC Microbiology. What do you plan to do during the next reporting period to accomplish the goals?
Nothing Reported
Impacts
What was accomplished under these goals?
Our continuous collaborative efforts in research and extension in the areas of probiotics development for shellfish aquaculture have led to the development of twoproducts that are effective and have been formulated for use by the industry. Through meetings with industry at the Milford Aquaculture Seminar and other venues, we have established partnerships with a commercial venture (Envera) to develop commercial products and with several shellfish hatcheries through the East coast of the US to test these formulated probiotics in commercial settings. Proposals have been submitted to fund these efforts. In the area of development of markers for disease resistance in oysters, collaborative efforts and further funding from USDA (AFRI and NRSP-8) has led to the growth of the Eastern Oyster Genome Consortium, the release of the reference genome of the eastern oyster genome, and further collaborative proposals to USDA and NSF to develop tools to analyze the eastern oyster for molecular mechanisms driving traits of commercial and ecological interest, such as disease resistance and adaptation to environmental stress.
Publications
- Type:
Journal Articles
Status:
Published
Year Published:
2017
Citation:
Abdelrahman, H., ElHady, M., Alcivar-Warren, A., Allen, S., Al-Tobasei, R., Bao, L., Beck, B., Blackburn, H., Bosworth, B., Buchanan, J., Chappell, J., Daniels, W., Dong, S., Dunham, R., Durland, E., Elaswad, A., Gomez-Chiarri, M., Gosh, K., Guo, X., Hackett, P., Hanson, T., Hedgecock, D., Howard, T., Holland, L., Jackson, M., Jin, Y., Kahlil, K., Kocher, T., Leeds, T., Li, N., Lindsey, L., Liu, S., Liu, Z., Martin, K., Novriadi, R., Odin, R., Palti, Y., Peatman, E., Proestou, D., Qin, G., Reading, B., Rexroad, C., Roberts, S., Salem, M., Severin, A., Shi, H., Shoemaker, C., Stiles, S., Tan, S., Tang, K.F.J., Thongda, W., Tiersch, T., Tomasso, J., Prabowo, W.T., Vallejo, R., van der Steen, H., Vo, K., Waldbieser, G., Wang, H., Wang, X., Xiang, J., Yang, Y., Yant, R., Yuan, Z., Zeng, Q., Zhou, T., 2017. Aquaculture genomics, genetics and breeding in the United States: current status, challenges, and priorities for future research. BMC Genomics 18, 191. doi:10.1186/s12864-017-3557-1
- Type:
Conference Papers and Presentations
Status:
Published
Year Published:
2017
Citation:
Stevick, R., Pimentel, Z., Zhang, Y., Post, A.F., Gomez-Chiarri, M. A Metagenomic Approach to Analyze Changes in Rearing Water Microbial Communities in an Oyster Hatchery. Presented at: National Shellfisheries Association, Annual Meeting, Knoxville, TN, March 26-30, 2017. Oral presentation
- Type:
Conference Papers and Presentations
Status:
Published
Year Published:
2017
Citation:
Roberts, E. M., McDowell, I., Modak, T., Gomez-Chiarri, M. Expression and genome mapping of a novel expanded immune gene family, GIMAP, in the eastern oyster in response to Roseovarius Oyster Disease. Presented at: National Shellfisheries Association, Annual Meeting, Knoxville, TN, March 26-30, 2017. Poster presentation
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Progress 10/01/15 to 09/30/16
Outputs
Target Audience:This project has focused on sharing the information gathered through our recent and current collaborative research on probiotics development and mechanisms of disease resistant in oysters with stakeholders. We have worked with these stakeholders to help identify how to integrate these knowledge into disease management plans used by the shellfish industry, as well as help determine in the future how these technologies work and how they can be further improved. Stakeholders include: researchers in shellfish genomics, pathology, biology, and immunology; town, state, and federal managers and regulators; and members of the bivalve shellfish industry. Changes/Problems:
Nothing Reported
What opportunities for training and professional development has the project provided?
Nothing Reported
How have the results been disseminated to communities of interest?Results have been disseminated at regional, national, and international meetings, such as the Milford Aquaculture Seminar, the Plant and Animal Genomics Conference, and the International Conference in Fish and Shellfish Immunology. Results from the research associated with these outreach efforts, funded by different agencies, has been published in relevant journals such as Journal of Shellfish Research, Fish and Shellfish Immunology, and Aquaculture. What do you plan to do during the next reporting period to accomplish the goals?We will continue our outreach and extension efforts with the industry, as well as our efforts to build collaborative teams of researchers working on shellfish genomics and breeding. These efforts will include the organization of a session and hands-on workshop in Comparative Genomics at the 2017 Annual Meeting of the National Shellfisheries Association (Knoxville, TN, March 2017) and oral and poster presentations at the Northeast Aquaculture Conference and Exposition (Providence RI, Jan 2017) and Plant and Animal Genomics 2017 (San Diego, Jan 2017).
Impacts
What was accomplished under these goals?
Our continuous collaborative efforts in research and extension in the areas of probiotics development for shellfish aquaculture have led to the development of 2 products that are effective and have been formulated for use by the industry. Through meetings with industry at the Milford Aquaculture Seminar and other venues, we have established partnerships with a commercial venture (Envera) to develop commercial products and with several shellfish hatcheries through the East coast of the US to test these formulated probiotics in commercial settings. In the area of development of markers for disease resistance in oysters, we keep recruiting new members to the Eastern Oyster Genome Consortium through outreach efforts at meetings such as the Plant and Animal Genomics, newsgroups and listservers, and publications. We also continue efforts to further develop and grow the East Coast Shellfish Breeding Consortium.
Publications
- Type:
Conference Papers and Presentations
Status:
Published
Year Published:
2016
Citation:
Gomez-Chiarri M, Guo X, Warren W, Proestou D. Sequencing the genome of the eastern oyster. Plant and Animal Genomics Meeting, Aquaculture Genomics Workshop. San Diego, CA, January 2016
- Type:
Conference Papers and Presentations
Status:
Published
Year Published:
2016
Citation:
Gomez-Chiarri M. Novel expanded immune gene families in the Eastern oyster Crassostrea virginica. Keynote presentation, 2nd International Conference of Fish and Shellfish Immunology, Portland, Maine, June 2016
- Type:
Conference Papers and Presentations
Status:
Published
Year Published:
2016
Citation:
Gomez-CHiarri M, Nelson D, Rowley D. Probiotics for bivalve shellfish
hatcheries: challenges and opportunities. 36th Milford Aquaculture Seminar, CT, January 2016
- Type:
Journal Articles
Status:
Published
Year Published:
2016
Citation:
Proestou, D.A., Vinyard, B.T., Corbett, R.J., Piesz, J., Allen Jr., S.K., Small, J.M., Li, C., Liu, M., DeBrosse, G., Guo, X., Rawson, P., G�mez-Chiarri, M., 2016. Performance of selectively-bred lines of eastern oyster, Crassostrea virginica, across eastern US estuaries. Aquaculture 464, 1727. doi:10.1016/j.aquaculture.2016.06.012
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Progress 10/01/14 to 09/30/15
Outputs
Target Audience:This project has focused on sharing the information gathered through our recent and current collaborative research on probiotics development and development of genetic markers for Marker Assisted Selection with stakeholders involved in the oyster farming industry. We will work with these stakeholders to help identify how to integrate these knowledge into disease management plans used by the shellfish industry, as well as help determine in the future how these technologies work and how they can be further improved. Stakeholders have been identified in collaboration with extension agents and other collaborators and messages in listservers like mollwrcc (established by WERA099 - Broodstock Selection, Shellfish Genetics and Breeding group) and the East Coast Shellfish Growers Association. These stakeholders include: researchers in shellfish pathology, biology, and immunology; town, state, and federal managers and regulators; and members of the oyster industry. We placed special emphasis in involving commercial shellfish hatcheries in the Mid-Atlantic region and Northeast US, from Virginia to Maine, since they would not only benefit directly from the use of probiotics to prevent disease outbreaks, but would also be key in providing access to the industry to disease resistant oyster strains. Changes/Problems:
Nothing Reported
What opportunities for training and professional development has the project provided?The project director attended a USDA NRSP-8 funded workshop on shellfish genomics in Monterey in 2015, to discuss collaborative efforts leading to the development of resources for research in shellfish species. How have the results been disseminated to communities of interest?The project director attended the Northeast Aquaculture Conference and Exposition, Portland, Maine, January 2015, the Annual Meeting of the National Shellfisheries Association, Monterey, California, March 2015 and the Eastern Fish Health Workshop, Charleston, SC, April 2015). These meetings are widely attended by the shellfish industry and researchers in bivalve health. Results from research on health management strategies for shellfish hatcheries and the testing of the performance of disease resistant strains was presented to researchers and industry representatives attending these meetings. Targeted members of the shellfish hatchery industry were reached through email, phone conversations and site visits. What do you plan to do during the next reporting period to accomplish the goals?The project director plans to attend the following meetings: Plant and Animal Genomics Aquaculture Workshop (San Diego, January 2016), Fish and Shellfish Immunology (Portland, Maine, June 2015, giving a plenary talk) and the Aquaculture Genomics Workshop (Auburn, March 2016) to continue meeting with collaborators and reaching the shellfish industry. The East Coast Shellfish Breeding Consortium will continue efforts to aid the shellfish industry by developing tools for marker assisted selection in oysters and will prepare a proposal for an eastern oyster breeding program for the East Coast of the United States. The University of Rhode Island Probiotics Working Group will continue research on using probiotics to manage diseases in shellfish hatcheries through funding from USDA AFRI and NRAC.
Impacts
What was accomplished under these goals?
The project director focused efforts on preparing publications and presentations focused on: 1) informing the industry on the resources for health management (probiotics and genetic tools for breeding disease resistance) created through collaborative research; and 2) reaching researchers and potential new collaborators to inform about new genetics and genomics resources being created for shellfish. These efforts resulted in 2 review publications and 3 presentations at meetings attended by the industry and other target audiences. Research on the efficacy of probiotics to prevent disease in shellfish hatcheries in collaboration with 5 commercial and university-linked hatcheries, which will provide the tools to enhance breeding programs through marker assisted selection, continues thanks to funding from the Northeast Aquaculture Research Center. The sequencing of the eastern oyster genome is in process thanks funding from USDA AFRI.
Publications
- Type:
Journal Articles
Status:
Published
Year Published:
2015
Citation:
G�mez-Chiarri, M., Guo, X., Tanguy, A., He, Y., Proestou, D. The use of -omic tools in the study of disease processes in marine bivalve mollusks. Journal of Invertebrate Pathology (2015), Pathogens and Disease Processes in Marine Molluscs 131, 137154. doi:10.1016/j.jip.2015.05.007
- Type:
Journal Articles
Status:
Published
Year Published:
2015
Citation:
G�mez-Chiarri, M., Warren, W.C., Guo, X., Proestou, D. Developing tools for the study of molluscan immunity: The sequencing of the genome of the eastern oyster, Crassostrea virginica. Fish & Shellfish Immunology, SI: Molluscan Immunity (2015) 46, 24. doi:10.1016/j.fsi.2015.05.004
- Type:
Theses/Dissertations
Status:
Published
Year Published:
2015
Citation:
Bao, K., 2015. Detecting and verifying microsatellite markers associated with disease resistance in cultured populations of eastern oysters, Crassostrea virginica. Dissertations and Masters Theses (Campus Access) 156.
- Type:
Conference Papers and Presentations
Status:
Published
Year Published:
2015
Citation:
Gomez-Chiarri, M., Zhao, W., Sohn, S., Dao, C.A., Rowley, D., Nelson, D.R., 2015. Fight them using their own tools (and some others): The role of biofilm formation on the probiotic activity of Phaeobacter gallaeciensis S4. Presented at the Eastern Fish Health Workshop, Charleston, SC, March 2015.
- Type:
Conference Papers and Presentations
Status:
Published
Year Published:
2015
Citation:
Sohn, S.B., Zhao, W., Rowley, D., Nelson, D.R., Smolowitz, R.M., Gomez-Chiarri, M., 2015. Probiotics for shellfish hatcheries: From mechanisms of action to hatchery trials. J. Shellfish Res. Abstracts of the Annual Meeting. Presented at the National Shellfisheries Association, Journal of Shellfish Research, Monterey, CA, March 2015.
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Progress 10/01/13 to 09/30/14
Outputs
Target Audience: This project has focused on sharing the information gathered through our recent and current collaborative research on probiotics development and development of genetic markers for Marker Assisted Selection with stakeholders involved in the oyster farming industry. We worked with these stakeholders to help identify how to integrate these knowledge into disease management plans used by the shellfish industry, as well as help determine in the future how these technologies work and how they can be further improved. Stakeholders have been identified in collaboration with extension agents and other collaborators and messages in listservers like mollwrcc (established by WERA099 - Broodstock Selection, Shellfish Genetics and Breeding group - mollwrcc@lists.oregonstate.edu) and the East Coast Shellfish Growers Association. These stakeholders included: researchers in shellfish pathology, biology, and immunology; town, state, and federal managers and regulators; and members of the bivalve shellfish industry. We placed special emphasis in involving commercial shellfish hatcheries in the Mid-Atlantic region and Northeast US, from Virginia to Maine, since they would not only benefit directly from the use of probiotics to prevent disease outbreaks, but would also be key in providing access to the industry to disease resistant oyster strains Changes/Problems:
Nothing Reported
What opportunities for training and professional development has the project provided?
Nothing Reported
How have the results been disseminated to communities of interest? The principal investigator attended the Milford Aquaculture Seminar in Shelton, Connecticut, February 2014 and the National Shellfisheries Association meeting in Jacksonville, Florida in March 2014. Results from research on health management strategies for shellfish hatcheries and the testing of the performance of disease resistant strains was presented to researchers and industry representatives attending the meetings. What do you plan to do during the next reporting period to accomplish the goals? The principal investigator plans to attend the Northeast Aquaculture Conference and Exposition (NACE) in Portland, Maine (January 2015) and the annual meeting of the National Shellfisheries Association in Monterey, California (March 2015) to continue meeting with collaborators and reaching the shellfish industry. The East Coast Shellfish Breeding Consortium will continue efforts to aid the shellfish industry by developing tools for marker assisted selection in oysters and will prepare a proposal for an Eastern oyster breeding program for the East Coast of the United States.
Impacts
What was accomplished under these goals?
Members of the research community shellfish industry were reached through conferences, email, phone conversations and site visits. Microbial samples were collected from a set of hatcheries upon request from the hatchery managers. Research on the efficacy of probiotics to prevent disease in shellfish hatcheries continues thanks to funding from the Northeast Aquaculture Research Center, and 5 commercial and university-linked hatcheries agreed to participate on another proposal to the Northeast Aquaculture Research Center to expand research on probiotics as health management tools. The East Coast Shellfish Breeding Consortium was successful in securing funding from AFRI to support the sequencing of the Eastern oyster genome, which will provide the tools to enhance breeding programs through marker assisted selection.
Publications
- Type:
Journal Articles
Status:
Published
Year Published:
2014
Citation:
McDowell IC, Nikapitiya C, Aguiar D, Lane CE, Istrail S, Gomez-Chiarri M: Transcriptome of American Oysters, Crassostrea virginica, in Response to Bacterial Challenge: Insights into Potential Mechanisms of Disease Resistance. PLoS ONE (2014), 9:e105097.
- Type:
Journal Articles
Status:
Published
Year Published:
2014
Citation:
Nikapitiya C, McDowell I, Sohn SB, G�mez-Chiarri M: Identification of potential markers of disease resistance in American oysters, Crassostrea virginica, through gene expression studies. Fish & Shellfish Immunology (2014) 41(1):27-36.
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Progress 10/01/12 to 09/30/13
Outputs
Target Audience: This project will focus on sharing the information gathered through our recent and current collaborative research on probiotics development and development of genetic markers for Marker Assisted Selection with stakeholders involved in the oyster farming industry. We will work with these stakeholders to help identify how to integrate these knowledge into disease management plans used by the shellfish industry, as well as help determine in the future how these technologies work and how they can be further improved. These stakeholders include: researchers in shellfish pathology, biology, and immunology; town, state, and federal managers and regulators; and members of the oyster industry. We placed special emphasis in involving commercial shellfish hatcheries in the Mid-Atlantic region and Northeast US, from Virginia to Maine. Changes/Problems:
Nothing Reported
What opportunities for training and professional development has the project provided?
Nothing Reported
How have the results been disseminated to communities of interest?
Nothing Reported
What do you plan to do during the next reporting period to accomplish the goals? The principal investigator will be attending the Milford Aquaculture Seminar in Shelton, Connecticut, February 2014 and the National Shellfisheries Association meeting in Jacksonville, Florida in March 2014 to present research on health management strategies for shellfish hatcheries and the testing of the performance of disease resistant strains. A survey for industry is being developed in collaboration with the East Coast Shellfish Growers Association, the East Coast Shellfish Breeding Consortium, and the Agricultural Research Services Shellfish Genetics Laboratory. Research on the efficacy of probiotics to prevent disease in shellfish hatcheries continues thanks to funding from the Northeast Aquaculture Research Center.
Impacts
What was accomplished under these goals?
A meeting of the Shellfish Breeding Consortium (including representatives from the East Coast Shellfish Growers Association, University of Maine, University of Rhode Island, Rutgers University, University of Maryland Center Environmental Studies, Virginia Institute of Marine Science, and University of North Carolina Wilmington) was held in December 2013 to discuss progress on collaborative projects with the newly established Agricultural Research Services Shellfish Genetics Laboratory at the University of Rhode Island. Research on the performance of 6 disease resistant strains of oysters in 5 locations from Virginia to Maine suggested a strong effect of the environment on strain performance, with strains performing best at the environment in which they were developed. Future action items included: a) development of a survey of hatcheries for research needs and current pressing issues to be delivered by the East Coast Shellfish Growers Association; and b) discussion of strategies for the development of regional breeding programs.
Publications
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