School of Marine and Atmospheric Sciences
Stony Brook University
Stony Brook, NY 11794-5000
USA

Site designed and maintained by
Bassem Allam
Bassem.Allam@stonybrook.edu

Current Students Graduate Students
Soren Dahl Soren received his Master’s degree from the Marine Science Research Center in August of 2006. His thesis research, as a New York Sea Grant Scholar with Allam, investigated the transmission of QPX disease in hard clams through laboratory trials and field assays. Soren is now a student in the PhD program and will continue to work in with QPX concerning the potential role of environmental influences on that disease system. Soren also maintains an interest in conservation which has lead to involvement with the Student Conservation Association, the Blue Ocean Institute and volunteering with The Nature Conservancy; stocking hard clam spawner sanctuaries in Great South Bay. More information about his investigations can be found at Allam's QPX pages.
Jesse Hornstein After obtaining a Bachelor degree from Stony Brook University, Jesse pursued his studies in our school as a Master's student since Fall 2007. His general interests are shellfish biology and ecology and he is particularly interested in understanding factors that affect surfclam recruitment in NY's inshore populations. He is currently developing his research in close collaboration with the New York State Department of Environmental Conservation (Maureen Davidson) and with MADL faculty (Allam and Pales Espinosa) and other faculty members of our school (Drs Kamazima Lwiza and Robert Cerrato). More about Jesse's project can be found here.
Soojin Jeon Soojin received her Master's degree from Pukyong National University (Republic of Korea) in February 2007 before joining SoMAS as a PhD student. She will be generating a thesis project in the near future. She currently assists Fast with his investigations of viral hemorrhagic septicaemia virus. More information about that project can be found here.
Qianqian Liu Qianqian's initial investigations focused on the molecular genetic variations within and among isolates of QPX, a parasite of the hard clam. Her current studies focus on developing a quantitative real-time PCR technique to study the dynamics of QPX abundance in its host and in the natural environment. She aims to understand the transmission and progression of QPX disease in hard clams and she is particularly interested in studying the community structure (diversity and abundance) of labyrinthulomycetes (thraustochytrids), a group of microorganisms which are relatives of QPX in taxonomy, to understand their ecological roles in coastal ocean environment. Qianqian is co-advised by Allam and Dr Jackie Collier. More information about her investigations can be found at Allam's QPX pages.
Margaret ("Maggi") Mars Maggi is a New York Sea Grant scholar working with Allam to study shell-associated defense parameters (hemocyanin, phenoloxidase activity and other antimicrobial compounds) in the American lobster, Homarus americanus, in relation to Epizootic Shell Disease. She is co-advised by Allam and by Dr Anne McElroy. More about her research project can be found here.	Picture to come
Mickael Perrigault Mickael received his master degree from the University of Brest in France where his studies focused on bacterial diseases of the Manila clam Ruditapes philippinarum. He joined the PhD program of the School of Marine and Atmospheric Sciences in 2004 under the supervision of Allam. As part of his PhD research, Mickael currently studies host-pathogen interactions of the QPX disease in the hard clams. He is particularly interested in molecular virulence factors of the pathogen, host defenses and their modulations by environmental parameters. For more information on Mickael's work, visit:http://MySBfiles.stonybrook.edu/~mperriga/MP_CV_current.pdf
Mark Sokolowski After initially coming to Stony Brook University with an interest in aquatic animal diseases caused by parasites, Mark's current interest has moved slightly into the field of parasite ecology and biodiversity. Under the direction of Dove, his research focuses on the distribution of parasite species and how these distributions scale up to communities of parasites within and amongst host. This research intersects with the biodiversity of the parasite community and how that diversity is partitioned in a host community. He is still interested in the pathology that a host endures in the host-parasite relationship from the aspect of the amount, measured in bio-volume, of parasites needed to cause disease or death.
Sarah Winnicki Sarah received her BS in Aquaculture and Fisheries Technology from the University of Rhode Island in 2005. She is currently a master's candidate at the School of Marine and Atmospheric Science (SoMAS) and performs research under the supervision of Allam. Her thesis work involves interactions between Perkinsus marinus, a marine protistan parasite and its host Crassostrea virginica (Eastern oyster). Specifically she is investigating the role of both mucus and pallial surfaces of the oyster in the uptake and infectivity of Perkinsus marinus
Undergraduate and high school interns   Laura Gambino Grade 12 student at Miller Place High School Laura has been working with Allam since fall 2007 studying the effect of environmental conditions on humoral defense factors of the hard clam

Prior Students


Graduate students
Margaret Homerding, 2009 (Allam)
Wade Carden, 2007 (Allam)
Deenie Bugge, 2006 (Allam)
Amanda Tribble, 2005 (Dove)
Hua Qian, 2004 (Allam)

Undergraduate and high school interns
Richard ("Eddie") Grove, High School Intern, Port Washington High School, 2009 (Allam)
Clarissa Clark, Undergraduate Intern, Stony Brook University, 2008 (Pales Espinosa)
Daniel Whitesell, Undergraduate Intern, Stony Brook University, 2008 (Pales Espinosa)
Michael Loiacono, High School Intern, Ward Melville High School, 2008 (Allam)
Bryan Tan, High School Intern, East Islip High School, 2008 (Allam)
Eliott Kurtz, High School Intern, Mount Sinai High School, 2008 (Fast)
Matt Clark, High School Intern, Mount Sinai High School, 2008 (Fast)
Dahlia Hassan, High School Intern, Port Washington High School, 2008 (Pales Espinosa)
Michael Taddeo, Stony Brook University, Undergraduate Intern, 2008 (Fast)
Chuan Hao Chen, High School Intern, Manhasset High School, 2007 (Allam)
Sophia Christides, High School Intern, Plainview High School, 2007 (Allam)
Yuk-Ting Lau, Stony Brook University, Undergraduate Intern, 2003- 2006 (Allam)
Monica Chu, NSF's REU Intern, Massachusetts Institute of Technology, 2006 (Allam)
Alexandra Hay, High School Intern, Jericho High School, 2006 (Allam)
Jason Havelin, Stony Brook University, Undergraduate Intern, 2005 (Allam)
Brandon Moss, High School Intern, Plainview High School, 2004 (Allam)


Students Publications

2009

Perrigault M, Allam B. (2009). Cytotoxicity of Quahog Parasite Unknown (QPX) toward hard clam (Mercenaria mercenaria) haemocytes and interactions between different pathogen isolates and host strains. Parasitology. In Press.

Pales Espinosa, E., Perrigault, M., Ward, J.E., Shumway, S.E., Allam, B. (2009). Lectins associated with the feeding organs of the oyster Crassostrea virginica can mediate particle selection. Biological Bulletin. In Press.

Liu Q, Allam B., Collier JL. (2009). A quantitative real-time PCR assay for QPX (Thraustochytridae), a parasite of the hard clam (Mercenaria mercenaria). Submitted to Applied and Environmental Microbiology. In Press.

Perrigault M, Buggé DM, Hao CC, Allam B. (2009). Modulatory effects of hard clam (Mercenaria mercenaria) tissue extracts on the in vitro growth of its pathogen QPX. Journal of Invertebrate Pathology 100: 1-8.

2008

Dahl, S.F., Perrigault M., Allam, B. (2008). Laboratory transmission studies of QPX disease in the hard clam: Pathogenicity of different pathogen isolates toward various clam stocks. Aquaculture 280:64-70.

2007

Buggé D, Allam B. (2007). Effects of starvation and macroalgae extracts on the survival and growth of Quahog Parasite Unknown (QPX). Journal of Experimental Marine Biology and Ecology 348: 60-69.

Buggé D, Hégaret H, Wikfors G, Allam B. (2007). Oxidative burst in hard clam (Mercenaria mercenaria) haemocytes. Fish and Shellfish Immunology 23(1): 188-196.

Dahl, S.F., Allam, B. (2007). Laboratory transmission studies of QPX disease in the hard clam: Development of an infection procedure. Journal of Shellfish Research 26: 383-389.

Lyons, M. Maille, Yuk-Ting Lau, Wade E. Carden, J. Evan Ward, Steven B. Roberts, Roxanna Smolowitz, Joseph Vallino, and Bassem Allam. 2007. Characteristics of marine aggregates in shallow-water ecosystems: Implications for disease ecology. EcoHealth 4: 406-420.

Qian H., Liu Q., Allam B., Collier JL. (2007). Molecular genetic variation within and among isolates of QPX (Thraustochytridae), a parasite of the hard clam Mercenaria mercenaria. Disease of Aquatic Organisms 77: 159-168.

2006

Moss B., Allam B. (2006). Fluorometric measurement of oxidative burst in lobster hemocytes and inhibiting effect of pathogenic bacteria and hypoxia. Journal of Shellfish Research 25(3): 1051-1057.

Sokolowski, M. S. and Dove, A. D. M. 2006. Histopathological Examination of Wild American Eels Infected with Anguillicola crassus. Journal of Aquatic Animal Health 18: 257-262.

2005

Buggé D.M., Allam B. (2005). A fluorometric technique for the in vitro measurement of growth and viability in Quahog Parasite Unknown. Journal of Shellfish Research 24: 1013-1018.

Dove A.D.M., Allam B., Powers J.J., Sokolowski M.S. (2005). A prolonged thermal stress experiment on the American lobster, Homarus americanus. Journal of Shellfish Research 24: 761-765.

Dove, A. D. M., Sokolowski, M. S., Bartlett, S. L. and Bowser, P. R. 2005. Spatio-Temporal Variation in Serum Chemistry of the Lobster, Homarus americanus Milne-Edwards. Journal of Fish Diseases 28: 663-675.

Students Presentations

2009

Perrigault M, Dahl SF, Liu Q, Collier JL, Barnes D, Allam B. Effects of environmental factors on hard clam (Mercenaria mercenaria) immunity, QPX survival and host-pathogen interactions. 101st Meeting of the National Shellfisheries Association. March 22-26, 2009. Savannah, Georgia, USA.

2008

Dahl S. and Allam B. (2008) QPX disease progress in cultured and wild type hard clams in New York Waters. National Shellfisheries Association, 100th Annual Meeting, April 6-10, 2008. Providence, Rhode Island.

Liu Q., Collier J., Pawagi S., Barnes D. and Allam B. (2008). Quahog Parasite Unknown (QPX) dynamics in wild hard clams from Raritan Bay, New York. 100th Annual Meeting of National Shellfisheries Association. April 6–10, 2008. Providence, Rhode Island, USA.

Perrigault M., Buggé D.M., Chen C.H., Allam B. (2008). Investigations of anti-QPX factors in plasma from susceptible and resistant hard clam stocks. February 27-March 1, 2008. Milford, Connecticut, USA.

Perrigault M., Allam B. (2008). Cytotoxicity of three QPX (quahog parasite unknown) isolates on hemocytes from different hard clam (Mercenaria mercenaria) stocks. 100th Annual Meeting of National Shellfisheries Association. April 6–10, 2008. Providence, Rhode Island, USA.

Perrigault M., Buggé D.M., Chen C.H., Allam B. (2008). Investigations of anti-QPX factors in plasma from susceptible and resistant hard clam stocks. 100th Annual Meeting of National Shellfisheries Association. April 6–10, 2008. Providence, Rhode Island, USA.

Perrigault M., Tanguy A., Allam B. (2008). Identification and expression of regulated genes in the hard clam, Mercenaria mercenaria, in response to quahog parasite unknown (QPX). 100th Annual Meeting of National Shellfisheries Association. April 6–10, 2008. Providence, Rhode Island, USA.

Perrigault M., Dahl S.F., Liu, Q.Q, Collier J.L., Allam B. (2008). Effects of environmental parameters on defense factors, QPX disease progression and associated mortalities in the hard clam, Mercenaria mercenaria. 100th Annual Meeting of National Shellfisheries Association. April 6–10, 2008. Providence, Rhode Island, USA.

Winnicki S.M., Carden W., Holohan B., Ralph G., Ward E. and Allam B. (2008). Establishment of Perkinsus marinus infection in Crassostrea virginica: insights into the portal of entry and the potential role of marine aggregates in parasite acquisition. 100th Annual Meeting of National Shellfisheries Association. April 6–10, 2008. Providence, Rhode Island, USA.

2007

Liu, Q., B. Allam, and J. L. Collier. 2007. Development of a QPCR assay for the thraustochytrid QPX (Labyrinthulomycota). Phycological Society of America and International Society of Protistologists Joint Annual Meeting. 5-9 August. Providence, Rhode Island, USA.

Perrigault M., Buggé D.M., Allam B. (2007). Survival and growth of Quahog Parasite Unknown (QPX) on simple media derived from marine organisms. Meeting of the World Aquaculture Society. February 26-March 2, 2007. San Antonio, Texas, USA.

2006

Buggé D.M., Perrigault M., Allam B. (2006). In vitro investigations of quahog parasite unknown (QPX). February 27-March 1, 2005. Milford, Connecticut, USA.

Carden, W.E., Lau Y.T., Lyons M.M., Ward J.E., Smolowitz R., Vallino J., Allam B. (2006). Lethal marine snow: pathogenic bacteria and protists in marine aggregates. Annual PI Meeting, Ecology of Infectious Disease Program. November 16-17, 2006. Atlanta, Georgia, USA.

Collier J., Qian H., Liu Q., Allam B. (2006). Molecular genetic variation among QPX isolates. Annual Meeting of the National Shellfisheries Association. March 26-30, 2006. Monterey, California, USA.

Dahl, S. and B. Allam (2006). Quahog Parasite Unknown (QPX) Disease in the Hard Clam: Current Status in New York and Summary of Research Results. 2006 Northeast Shellfish Sanitation Association meeting. Port Jefferson, NY.

Dahl, S., M. Perrigault and B. Allam. (2006).Tolerance of Different Hard Clam Stocks to Various Isolates of Quahog Parasite Unknown (QPX). 9th International Conference on Shellfish Restoration. Charleston, SC.

Liu Q., Allam B., Collier J. (2006). Investigation of genetic variability of QPX, a pathogen of the hard clam Mercenaria mercenaria. February 27-March 1, 2005. Milford, Connecticut, USA.

Lyons M., Lau Y.-T., Carden W.E., Allam B., Smolowitz R., Vallino J., Ward J.E. (2006). Lethal marine snow: investigating the significance of marine aggregates in shallow water ecosystems. Annual PI Meeting, Ecology of Infectious Disease Program. November 16-17, 2006. Atlanta, Georgia, USA.

2005

Buggé D., Dahl S., Allam B. (2005). Investigations of the virulence and environmental tolerance of different isolates of Quahog Parasite Unknown (QPX). February 28-March 2, 2005. Milford, Connecticut, USA.

Buggé D., Dahl S., Allam B. (2005). Setup of a fluorometric plate reader technique for in vitro measurement of QPX viability and proliferation. Annual Meeting of the National Shellfisheries Association. April 10-14, 2005. Philadelphia, Pennsylvania, USA.

Dahl S., Buggé D., Allam B. (2005). Transmission of Quahog Parasite Unknown in hard clams: interactions between different host strains and pathogen isolates. Annual Meeting of the National Shellfisheries Association. April 10-14, 2005. Philadelphia, Pennsylvania, USA.

Sokolowski, M. S. and Dove, A. D. M. 2005. Histopathological Examination of Wild American Eels, Anguilla rostrata, Infected with Anguillicola crassus. 80th Annual Meeting of the American Society of Parasitologist July 8-11.

Sokolowski, M. S. and Dove, A. D. M. 2005. Mycobacteria Infections in New York Striped Bass and Bluefish. 30th Annual Eastern Fish Health Workshop June 13-17.

2004

Sokolowski, M. S. and Dove, A. D. M. 2004. Histopathological Examination of Wild American Eels, Anguilla rostrata, Infected with Anguillicola crassus. 29th Annual Eastern Fish Health Workshop March 22-26.

2003

Sokolowski, M. S., Huffman, J. E. and Washuta, E. 2003. Investigations of Genetic Polymorphism among Anguillicola crassus in Populations of Anguilla rostrata. 28th Annual Eastern Fish Health Workshop April 21-25.