Abstract

The Genomics Core Facility will provide access to higher-level bioinformatics capabilities for multiple sequence alignment, and phylogenetic inference or population biology analyses. The faculty and bioinformatics staff of the Bay Paul Center for Comparative Molecular Biology and Evolution has considerable expertise in pure statistics, genome assembly, astrophysical modeling, gene expression, phylogenetics, information management, data acquisition pipelines, and data basing. The combination of this expertise with our advanced computational resources will meet anticipated needs for each of the projects supported by The Woods Hole Center for Oceans and Human Health. Dr. Sogin in consultation with Dr. Andrew McArthur, will advise PIs of individual projects on the use of appropriate computer algorithms. The general approach will be to use CLUSTALX {Jeanmougin, 1998 #27} for the alignment of large data sets. Manual corrections (interactive changes in positioning of gaps) may be used to improve the alignments. The phylogenetic analyses will normally only consider regions where there is confidence in homology of the compared sites.

  Funding Agency

Agency
National Institute of Health (NIH)
Institute
National Institute of Environmental Health Sciences (NIEHS)
Type
Specialized Center (P50)
Project #
5P50ES012742-04
Application #
7348419
Study Section
Special Emphasis Panel (ZES1)
Project Start
Project End
Budget Start
2007-01-01
Budget End
2007-12-31
Support Year
4
Fiscal Year
2007
Total Cost
$96,555
Indirect Cost

  Institution

Name
Woods Hole Oceanographic Institution
Department
Type
DUNS #
001766682
City
Woods Hole
State
MA
Country
United States
Zip Code
02543

  Publications

Goldstone, Jared V; Sundaramoorthy, Munirathinam; Zhao, Bin et al. (2016) Genetic and structural analyses of cytochrome P450 hydroxylases in sex hormone biosynthesis: Sequential origin and subsequent coevolution. Mol Phylogenet Evol 94:676-687
Halliday, Elizabeth; Ralston, David K; Gast, Rebecca J (2015) Contribution of sand-associated enterococci to dry weather water quality. Environ Sci Technol 49:451-8
Fernandes, Luciano F; Hubbard, Katherine A; Richlen, Mindy L et al. (2014) Diversity and toxicity of the diatom Pseudo-nitzschia Peragallo in the Gulf of Maine, Northwestern Atlantic Ocean. Deep Sea Res Part 2 Top Stud Oceanogr 103:139-162
Halliday, Elizabeth; McLellan, Sandra L; Amaral-Zettler, Linda A et al. (2014) Comparison of bacterial communities in sands and water at beaches with bacterial water quality violations. PLoS One 9:e90815
Butman, Bradford; Aretxabaleta, Alfredo L; Dickhudt, Patrick J et al. (2014) Investigating the importance of sediment resuspension in Alexandrium fundyense cyst population dynamics in the Gulf of Maine. Deep Sea Res Part 2 Top Stud Oceanogr 103:79-95
Anderson, Donald (2014) HABs in a changing world: a perspective on harmful algal blooms, their impacts, and research and management in a dynamic era of climactic and environmental change. Harmful Algae 2012 (2012) 2012:3-17
Kleindinst, Judith L; Anderson, Donald M; McGillicuddy Jr, Dennis J et al. (2014) Categorizing the severity of paralytic shellfish poisoning outbreaks in the Gulf of Maine for forecasting and management. Deep Sea Res Part 2 Top Stud Oceanogr 103:277-287
Anderson, Donald M; Keafer, Bruce A; Kleindinst, Judith L et al. (2014) Alexandrium fundyense cysts in the Gulf of Maine: long-term time series of abundance and distribution, and linkages to past and future blooms. Deep Sea Res Part 2 Top Stud Oceanogr 103:6-26
McGillicuddy Jr, D J; Townsend, D W; Keafer, B A et al. (2014) Georges Bank: a leaky incubator of Alexandrium fundyense blooms. Deep Sea Res Part 2 Top Stud Oceanogr 103:163-173
Pilskaln, C H; Anderson, D M; McGillicuddy, D J et al. (2014) Spatial and temporal variability of Alexandrium cyst fluxes in the Gulf of Maine: Relationship to seasonal particle export and resuspension. Deep Sea Res Part 2 Top Stud Oceanogr 103:40-54

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