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David Walsh
Post-Doctoral Fellow

Curriculum Vitae: Click here

Research interests:
My interest is in microbial diversity, evolution and speciation. In particular I want to know how genomic variability arises in natural microbial communities and what forces are important in its maintenance and elimination, i.e. the contribution of adaptation and neutral mechanisms to evolutionary change. These questions are being addressed using community phylogenetics to compare the distribution of genomic variation across geochemical gradients in a near shore anoxic basin.

Education:
Ph.D.	Department of Biochemistry and Molecular Biology. Dalhousie University. Canada.
B.Sc.	Biochemistry and Microbiology. University of Victoria, Victoria, B.C. Canada.
Diploma	Applied Chemistry and Biochemistry. Camosun College, Victoria, B.C. Canada.

Publications:

Walsh D.A., Zaikova E., Howes C.G., Song Y.C., Wright J.J., Tringe S. G., Tortell P.D., Hallam S.J. (2009) Metagenome of a versatile chemolithoautotroph from expanding oceanic dead zones. Science. 326: 578-82.

Zaikova E.,† Walsh D.A.†, Stilwell C., Mohn W.W., Tortell P.D., Hallam S.J. (2009) Microbial community dynamics in a seasonally anoxic fjord: Saanich Inlet, British Columbia. Environ Microbiol. (Published online 24 Sep). (†=These authors contributed equally to this work.)

Walsh D.A. and Sharma A.K. (2009) Molecular phylogenetics: testing evolutionary hypotheses. Methods Mol Biol. 502: 131-68.

Walsh D.A., Boudreau M.E., Bapteste E., Doolittle W.F. (2007) The root of the tree: lateral gene transfer and the nature of the domains. In Archaea: Evolution, Physiology, and Molecular Biology, R.A. Garrett and H.-P. Klenk (Eds.), Blackwell Publishing.

Sharma A.K., Walsh D.A., Bapteste E., Rodriguez-Valera F., Doolittle W.F., Papke R.T. (2007) Evolution of rhodopsin ion pumps in haloarchaea. BMC Evol Biol. 7:79.

Guy C.P., Haldenby S., Brindley A., Walsh D.A., Briggs G.S., Warren M.J., Allers T., Bolt E.L. (2006) Interactions of RadB, a DNA repair protein in archaea, with DNA and ATP. J Mol Biol. 358: 46-56.

Mongodin E.F., Nelson K.E., Daugherty S., Deboy R.T., Wister J., Khouri H., Weidman J., Walsh D.A., Papke R.T., Sanchez-Perez G., Sharma A.K., Nesbø C.L., MacLeod D., Bapteste E,. Doolittle W.F., Charlebois R.L., Legault B., Rodriguez-Valera F. (2005) The genome of Salinibacter ruber: convergence and gene exchange among hyperhalophilic bacteria and archaea. Proc Natl Acad Sci U S A. 102: 18147-52.

Walsh D.A., Papke R.T., Doolittle W.F. (2005) Archaeal diversity along a soil salinity gradient prone to disturbance. Environ Microbiol. 7: 1655-66.

Bapteste E. and Walsh D.A. (2005) Does the 'Ring of Life' ring true? Trends Microbiol. 13: 256-61.

Walsh D.A. and Doolittle W.F. (2005) The 'real domains' of life. Curr Biol. 15: R237-R240.

Walsh D.A., Bapteste E., Kamekura M., Doolittle W.F. (2004) Evolution of the RNA polymerase B' subunit gene (rpoB') in Halobacteriales: a complementary molecular marker to the SSU rRNA gene. Mol Biol Evol. 21: 1-12.

Boucher Y., Douady C.J., Papke R.T., Walsh D.A., Boudreau M.E.R., Nesbø C.L., Case R.J., Doolittle W.F. (2003) Lateral gene transfer and the origins of prokaryotic groups. Annu Rev Genet. 37: 283-328. Other contributions

Zaikova E., Hawley A., Walsh D.A., Hallam S.J. (2009) Seawater sampling and collection. J Vis Exp. 28.

Walsh D.A., Zaikova E., Hallam S.J. (2009) Large volume (20L+) filtration of coastal seawater samples. J Vis Exp. 28.

Walsh D.A., Zaikova E., Hallam S.J. (2009) Small volume (1-3L) filtration of coastal seawater samples. J Vis Exp. 28.

Wright J.J., Lee S., Zaikova E., Walsh D.A., Hallam S.J. (2009) DNA extraction from 0.22 µm Sterivex filters and cesium chloride density gradient centrifugation. J Vis Exp. 31.

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