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Welcome to the Lin Lab

Our research on phytoplankton is fairly diverse in nature but currently focuses on dinoflagellates, a phylum closely related to malaria parasite, apicomplexans, and ciliates. Dinoflagellates are important primary producers. Many of them are heterotrophic or mixotrophic. Symbiodinium (zooxanthellae) is essential to growth of reef-building corals. Dinoflagellates are major contributors of red tides (or harmful algal blooms), and some of them produce toxins. We are interested in how these organisms came to be what they are and do what they do, from a genomic perspective. Their genome is enormous, and their gene expression pattern and regulation are unusual compared to other eukaryotes. We study genome makeup, evolution, transcriptome, mRNA editing, and molecular markers (for phylogeny, population dynamics, and in situ cell division rate).

Recent Publications

Lin, S., Zhang, H., Zhuang, Y., Bao, T. and Gill, J. 2010. Spliced leader-based metatranscriptomic analyses lead to recognition of hidden genomic features in dinoflagellates. Proc. Natl. Acad. Sci. USA 107: 20033–20038.

Hou, Y. and Lin, S. 2009. Distinct gene number-genome size relationships for eukaryotes and non-eukaryotes: gene content estimation for dinoflagellate genomes. PLoS ONE 4(9): e6978. doi 10.1371/journal.pone.0006978.

Zhang, H., Campbell, D. A., Strum, N. R. and Lin, S. 2009. Dinoflagellate spliced leader RNA genes display a variety of sequences and genomic arrangements. Mol. Biol. Evol. 26: 1757-1771.

Lin, S., Zhang, H., Hou, Y., Zhuang, Y. and Miranda, L. 2009. High-level diversity of dinoflagellates in the natural environment, revealed by assessment of mitochondrial cox1 and cob for dinoflagellate DNA barcoding. Appl. Environ. Microbiol. 75: 1279-1290.

Lin, S., Zhang, H. and Gray, M. W. 2008. RNA editing in dinoflagellates and its implications for the evolutionary history of the editing machinery. In: H. Smith (ed.), RNA and DNA editing: Molecular Mechanisms and Their Integration into Biological Systems. John Wiley & Sons, Inc. p280-309.

Zhang, H., Litaker, W., Vandersea, M. W., Tester, P. and Lin, S. 2008. Geographic distribution of Karlodinium veneficum in the US east coast as detected by dual-gene Real-Time PCR assay. J. Plankton Res. 30: 905-922.

Zhang, H., Hou, Y., Miranda, L., Campbell, D. A., Sturm, N. R., Gaasterland, T. and Lin, S. 2007. Spliced leader RNA trans-splicing in dinoflagellates. Proc. Natl. Acad. Sci. USA 104: 4618-4623.

Click here for more publications.

This lab is funded by grants from following organizations


Click Here for Senjie's Faculty Page.

News Table
  • Another weird feature was recently found for dinoflagellates (see PNAS 104: 4618-4623).
  • Dr. Sheng Liu is visiting from the South China Sea Institution of Oceanography and working on LIS phytoplankton.
  • Former graduate student Tim Feinstein is finishing up his Ph. D. at Carnegie Mellon University.
  • Former graduate student Paola Batta Lona joins the Census of Marine Life project in Ann Bucklin's lab.
  • Former undergraduate student Keri Perkins has been in Italy and is coming back to the US.
  • Former high school student researcher Ryan Traslavina is studying Veterinary Medicine.