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Publications

Invited Bookchapters

  1. 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.
  2. Lin, S. and Carpenter, E. J. 1999. Molecular ecology of marine Phytoplankton: A practical procedure. In: Xu, H. and Colwell, R. R. (eds.) Proceedings of the International Symposium on Progress and Prospect of Marine Biotechnology (ISPPMB'98). China Ocean Press. 255-268.
  3. Carpenter, E. J., Lin, S. and Chang, J. 1998. Phytoplankton growth studies by cell Cycle analysis. In: K. E. Cooksey [Ed.] Some Molecular Approaches to the Study of the Ocean. Chapman & Hall. p227-245.

Journal articles

  1. 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: 2003320038.
  2. Gantt, E., Berg, G. M., Bhattacharya, D. et al. (Lin, S. in 15th position, aphabetical order). 2010. Porphyra: Complex Life Histories in a Harsh Environment: P. umbilicalis, an Intertidal Red Alga for Genomic Analysis. Red Algae in the Genomic Age : Cellular Origin, Life in Extreme Habitats and Astrobiology, Vol. 13 (Part 3): 129-148. DOI: 10.1007/978-90-481-3795-4_7.
  3. Zhang, H., Dungan, C. F. and Lin, S. 2010. Introns, alternative splicing, spliced leader trans-splicing and differential expression of pcna and cyclin in Perkinsus marinus. Protist 10.1016/j.protis.2010.03.003.
  4. Qiu, D., Huang, L., Huang, H. Yang, J., and Lin, S. 2010. Two functionally distinct ciliates dwelling in Acropora coralsin Sanya, South China Sea. Appl. Environ. Microbiol. 76: 5639-5643.
  5. Hou, Y., Zhang, H., Miranda, L. and Lin, S. 2010. Serious overestimation in quantitative PCR by circular (supercoiled) plasmid standard: microalgal pcna as the model gene. PLoS ONE 5(3): e9545. doi:10.1371/journal.pone.0009545.
  6. Qiu, D., Huang, L., Zhang, J. and Lin, S. 2010. Phytoplankton dynamics in and near the highly eutrophic Pearl River Estuary, South China Sea. Cont. Shelf Res. 30: 177-186.
  7. 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.
  8. 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.
  9. Lin, S., Sandh, G., Zhang, H., Cheng, J., Perkins, K., Carpenter, E. J. and Bergman, B. 2009. Two flavodoxin genes in Trichodesmium ( Oscillatoriales , Cyanophyceae): remarkable sequence divergence and possible functional diversification. J. Exp. Mar. Biol. Ecol. 371: 93-101.
  10. Stefaniak, L., Lambert, G., Gittenberger, A. Zhang, H., Lin, S. and Whitlatch, R. B. 2009. Genetic conspecificity of the worldwide populations of Didemnum vexillum Kott, 2002. Aquat. Invasion. 4: 29-44.
  11. 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.
  12. Zhang, H. and Lin, S. 2009. Retrieval of missing spliced leader in dinoflagellates. PLoS ONE 4(1): e4129. doi:10.1371/journal.pone.0004129.
  13. 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.
  14. Zhang, H., Bhattacharya, D., Maranda, L. and Lin, S. 2008. Mitochondrial cob and cox1 and their mRNA editing in Dinophysis acuminata from Narragansett Bay, with special reference to the phylogenetic position of Dinophysis. Appl. Envion. Microbiol. 74: 1546-1554.
  15. Zhang, H. and Lin, S. 2008. Status of mRNA editing and SL RNA trans-splicing group Oxyrrhis, Noctiluca, Heterocapsa, and Amphidinium as basal lineages of dinoflagellates. J. Phycol. 44: 703-711.
  16. Huang, B., Hou, J., Lin, S., Chen, J. and Hong, H. 2008. Development of a PNA probe for the detection of the toxic dinoflagellate Takayama pulchellum. Harmful Algae 7: 495-503.
  17. Lin, S. 2008. Use of molecular markers for early warning detection of harmful algal blooms. Int. J. Environ. Pollution 33: 381-400.
  18. He, P., Xu, S., Zhang, H., Wen, S., Dai, Y., Lin, S. and Yarish, C. 2008. Bioremediation efficiency in the removal of dissolved inorganic nutrients by the red seaweed, Porphyra yezoensis, cultivated in the open sea. Water Res. 42: 1281 – 1289.
  19. Zhang, H., Bhattacharya, D. and Lin, S. 2007. A three-gene dinoflagellate phylogeny suggests monophyly ofProrocentrales and a basal position for Amphidinium and Heterocapsa  J. Mol. Evol. 65: 463-474.
  20. 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.
  21. Beauchamp, K. and Lin, S. 2006. Stimulation of Pfiesteria piscicida (Dinophyceae) growth by animal sera. J. Xiamen Univ. (Natural Science) 45 (no.z2): 225-232.
  22. Lin, S., Zhang, H., Hou, Y., Miranda, L. and Bhattacharya, D. 2006. Development of a dinoflagellate-oriented PCR primer set leads to the detection of picoplanktonic dinoflagellates from Long Island Sound. Appl. Environ. Micribiol. 72: 5626-5630.
  23. Lin, S., Zhang, H. and Dubois, A. 2006. Low abundance distribution and of Pfiesteria piscicida in Pacific and Western Atlantic as detected by mtDNA-18S rDNA Real-Time PCR. J. Plankton Res. 28: 667-681.
  24. Lin, S., Zhang, H. and Jiao, N. 2006. Potential utility of mitochondrial cytochrome b and its mRNA editing in resolving closely related dinoflagellates: a case study of Prorocentrum (Dinophyceae). J. Phycol. 42: 646-654.
  25. Lin, S. 2006. The Smallest dinoflagellate genome is yet to be found: A comment on LaJeunesse et al. “Symbiodinium (Pyrrhophyta) genome sizes (DNA content) are smallest among dinoflagellates” J. Phycol. 42: 746-748.
  26. Zhang, H., Hou, Y. and Lin, S. 2006. Isolation and characterization of PCNA from the dinoflagellate Pfiesteria piscicida. J. Euk. Microbiol. 53: 142-150.
  27. Zhang, H. and Lin, S. 2005. Development of a cob-18S rDNA Real-Time PCR assay for quantifying Pfiesteria shumwayae in the natural environment. Appl. Environ. Microbiol. 71: 7053-7063.
  28. Lin, S. and Zhang, H. 2005. Isolation of mitochondrial cytochrome b gene and development of a Real-Time quantitative PCR technique for detecting Neoparamoeba aestuarina. J. Shellfish Res. 24: 733-739.
  29. Zhang, H. Bhattacharya, D. and Lin, S. 2005. Phylogeny of Dinoflagellates Based on Mitochondrial Cytochrome b and Nuclear Small Subunit rDNA Sequence Comparisons. J. Phycol. 41: 411-420.
  30. Lin, S., Mulholland, M. R., Zhang, H., Feinstein, T. N., Jochem, F. J., and Carpenter, E. J. 2004. Intense grazing and prey-dependent growth of Pfiesteria piscicida (Dinophyceae). J. Phycol. 40: 1062-1073.
  31. McManus, G., Zhang, H. and Lin, S. 2004. The marine planktonic ciliates that prey on macroalgae and enslave their chloroplasts. Limnol. Oceanogr. 49: 308-313.
  32. Zhang, H. and Lin, S. 2003. Complex gene structure of the form II Rubisco in the dinoflagellate Prorocentrum minimum (dinophyceae). J. Phycol. 39: 1160-1171.
  33. Lin, S., Feinstein, T. N., Zhang, H. and Carpenter, E. J. 2003. Development of an immunofluorescence technique for detecting Pfiesteria piscicida. Harmful Algae 2: 223-231.
  34. Lin, S. and Zhang, H. 2003. Mitogen-activated protein kinase (MAPK) in Pfiesteria piscicida and its growth rate-related expression. Appl. Environ. Microbiol. 69: 343-349.
  35. Feinstein, T. N. Traslavina, R., Sun, M.-Y., Lin, S. 2002.
  36. Lin, S., Zhang, H., Spencer, D., Norman, J. and Gray, M. W. 2002. Widespread and extensive editing of mitochondrial mRNAs in dinoflagellates. J. Mol. Biol. 320:727-739.
  37. Zhang, H. and Lin, S. 2002. Detection and quantification of Pfiesteria piscicida by using the mitochondrial cytochrome b gene. Appl. Environ. Microbiol. 68: 989-994.
  38. Lin, S. and Corstjens, P. L. A. M. 2002. Molecular cloning and expression of the Proliferating Cell Nuclear Antigen gene from the coccolithorid  Pleurochrysis carterae (Haptophyceae). J. Phycol. 38: 164-173.
  39. Lin, S., Gobler, C. and Carpenter, E. J. 2001. Cytological and biochemical responses to iron stress in Dunaliella tertiolecta. Phycologia 40: 403-410.
  40. Lin, S., Magaletti, E., and Carpenter, E. J. 2000. Molecular cloning and antibody development of cyclin box in the brown tide alga Aureococcus anophagefferens. Mar. Biotech. 2: 577-586.
  41. Carpenter, E. J., Lin, S. and Capone, D. 2000. Bacterial activity in South Pole snow. Appl. Environ. Microbiol. 66: 4514-4517.
  42. Lin, S. and Carpenter, E. J. 1999. A PSTTLRE-form of cdc2-like gene in the marine microalga Dunaliella tertiolecta. Gene 239: 39-48.
  43. Lin, S., Henze, S., Lundgren, P., Bergman, B. and Carpenter, E. J. 1998. Whole-cell immunolocalization of nitrogenase in marine diazotrophic cyanobacteria Trichodesmium spp. App. Environ. Microbiol. 64: 3052-3058.
  44. Lin, S. and Carpenter, E. J. 1998. Detection and preliminary characterization of the PCNA gene in marine phytoplankton. Mol. Mar. Biol. Biotech. 7: 62-71.
  45. Lin, S., Chang, J., and Carpenter, E. J. 1997. Can a non-terminal event of the cell cycle be used for estimating species-specific growth rates of phytoplankton?  Mar. Ecol. Prog. Ser. 151:283-290.
  46. Lin, S. and Carpenter, E. J. 1997. Pyrenoid-Rubisco in relation to the cell cycle and            growth phase in Dunaliella tertiolecta (Chlorophyceae). Phycologia 36: 24-31.
  47. Lin, S. and Carpenter, E. J. 1997. Rubisco of Dunaliella tertiolecta is redistributed between the pyrenoid and the stroma as a light-shade response. Mar. Biol. 127: 521-529.
  48. Lin, S. and Carpenter, E. J. 1996. An empirical protocol of immunofluorescence for marine phytoplankton. J. Phycol. 32: 1083-1094.
  49. Lin, S., Carpenter, E. J., and Chang, J. 1996. Detection of p34cdc2- and cyclin B-like proteins in Dunaliella tertiolecta. Mar. Biol. 125: 603-610.
  50. Lin, S. and Carpenter, E. J. 1995 Growth characteristics of phytoplankton determined by cell cycle proteins: The cell cycle of Ethmodiscus rex in the southwestern North Atlantic Ocean and Caribbean Sea. J. Phycol  31: 778-785.
  51. Lin, S. Chang, J., and Carpenter, E. J. 1995. Growth characteristics of phytoplankton determined by cell cycle proteins: PCNA immunostaining of Dunaliella tertiolecta. J. Phycol. 31: 388-395.
  52. Lin, S., Chang, J., and  Carpenter, E. J. 1994. Detection of proliferating cell nuclear antigen (PCNA) analog in four species of marine phytoplankton. J. Phycol. 30: 449-456.
  53. Lin, S. and Li, S. 1991. Reproductive rate of a marine planktonic copepod Labidocera euchaeta Giesbrecht in Xiamen Harbor. Chin. J. Oceanol. Limnol. 9(4): 319-328.
  54. Lin, S. and Li, S. 1990. Development rate of Labidocera euchaeta Giesbrecht in Xiamen Harbor. Acta Oceanologica Sinica, 9(3): 439-447.
  55. Lin, S. and Li, S. 1990. Growth rate of a marine planktonic copepod Labidocera euchaeta Giesbrecht. J. Oceanogr. Taiwan Strait 9(1): 48-55.
  56. Lin, S. 1989. Studies on biochemical genetic mechanisms in metabolism, growth, and ecological adaptation of marine planktonic copepods. In: Selected Symp. Nation. Confer. Young Mar. Sci. China. Chinese Society of Oceanography. Ocean Press, Beijing.
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