48

Havird, J.C. J.R. Weeks, S. Hau, S.R. Santos. Invasive fishes in the Hawaiian anchialine ecosystem: investigating potential predator avoidance by endemic organisms. Hydrobiologia in press.

47

Kirk, N.L., D.J. Thornhill, D.W. Kemp, W.K. Fitt, S.R. Santos. Ubiquitous associations and a peak fall prevalence between apicomplexan symbionts and reef corals in Florida and the Bahamas. Coral Reefs in press.

46

Weese, D.A., Y. Fujita, M. Hidaka, S.R. Santos. 2012. The long and short of it: Genetic variation and population structure of the anchialine atyid shrimp Caridina rubella on Miyako-jima, Japan. Journal of Crustacean Biology 32:109-117. Request Reprint

45

Kocot, K.M., J.T. Cannon, C. Todt, M.R. Citarella, A.B. Kohn, A.Meyer, S.R. Santos, C. Schander, L.L. Moroz, B. Lieb, K.M. Halanych. 2011. Phylogenomics reveals deep molluscan relationships. Nature. 477:452-457. Download article directly from Nature website

44

Stephens, J.D., S.R. Santos, D.R. Folkerts. 2011. Genetic differentiation, structure, and a transition zone among populations of the pitcher plant moth Exyra semicrocea: Implications for conservation. PLoS One. 6:e22658. Download article directly from PLoS One website

43

Roopin, M., D.J. Thornhill, S.R. Santos, N.E. Chadwick. 2011. Ammonia flux, physiological parameters, and Symbiodinium diversity in the anemonefish symbiosis on Red Sea coral reefs. Symbiosis. 53:63-74. (featured cover article) Request Reprint

42

Santos, S.R., D.A. Weese. 2011. Invited Contribution: Rocks and Clocks: Linking geologic history and rates of genetic differentiation in anchialine organisms. Hydrobiologia. 677:54-63. Request Reprint

41

Santos, S.R., Y. Xiang, A.W. Tagawa. 2011. Population structure and comparative phylogeography of jack species (Caranx ignobilis and C. melampygus) in the high Hawaiian Islands. Journal of Heredity. 102:47-54. PDF Supplementary Materials Raising Islands feature by Jan TenBruggencate

40

Thornhill, D.J., K. Doubleday, D.W. Kemp, S.R. Santos. 2010. Host hybridization alters specificity of cnidarian-dinoflagellate associations. Marine Ecology Progress Series. 420:113-123. Request Reprint

39

Betancur-R, R., A. Acero P., H. Duque-Caro, S.R. Santos. 2010. Phylogenetic and morphologic analyses of a coastal fish reveals a marine biogeographic break of terrestrial origin in the southern Caribbean. PLoS One. 5:e11566. Download article directly from PLoS One website

38

Russ, A., S.R. Santos, C. Muir. 2010. Genetic population structure of an anchialine shrimp, Metabetaeus lohena (Crustacea: Alpheidae), in the Hawaiian Islands. Revista de Biologia Tropical. 58:159-170. PDF

37

Santos, S.R., J. Toyoshima, R.A. Kinzie III. 2009. Invited Contribution: Spatial and temporal dynamics of symbiotic dinoflagellates (Symbiodinium:Dinophyta) in the perforate coral Montipora capitata. Galaxea JCRS. 11:139-147. PDF

36

Thornhill, D.J., Y. Xiang, W.K. Fitt, S.R. Santos. 2009. Reef endemism, host specificity and temporal stability in populations of symbiotic dinoflagellates from two ecologically dominant Caribbean corals. PLoS One. 4:e6262. Featured Weekly Image in EveryOne, the PLoS One Community Blog Download article directly from PLoS One website

35

Cummings, S.P., P. Gyaneshwar, P. Vinuesa, F.T. Farruggia, M. Andrews, D. Humphry, G.N. Elliott, A. Nelson, C. Orr, D. Pettitt, G.R. Shah, S.R. Santos, H.B. Krishnan, D. Odee, F.M.S. Moreira, J.I. Sprent, J.P.W. Young, E.K. James. 2009. Nodulation of Sesbania species by Rhizobium (Agrobacterium) strain IRBG74 and other rhizobia. Environmental Microbiology. 11:2510-2525. PDF

34

Kirk, N.L., J.P Andras, C.D Harvell, S.R Santos, M.A. Coffroth. 2009. Population structure of Symbiodinium sp. associated with the common sea fan, Gorgonia ventalina, in the Florida Keys across distance, depth, and time. Marine Biology. 156:1609-1623. Request Reprint  Supplementary Materials at Marine Biology Website

33

Boyd, R.S., M.A. Wall, S.R. Santos, M.A. Davis. 2009. Variation of morphology and elemental concentrations in the California nickel hyperaccumulator Streptanthus polygaloides (Brassicaceae). Northeastern Naturalist. 16:21-38. Request Reprint

32

Weese, D.A., S.R. Santos. 2009. Genetic identification of source populations for an aquarium-traded invertebrate. Animal Conservation. 12:13-19. (featured cover article) Request Reprint

31

Kocot, K.M., S.R. Santos. 2009. Secondary structural modeling of the second internal transcribed spacer (ITS2) from Pfiesteria-like dinoflagellates (Dinophyceae). Harmful Algae. 8:441-446. PDF  Supplementary Materials

30

Thornhill, D.J., K.T. Fielman, S.R. Santos, K.M. Halanych. 2008. Siboglinid-bacteria endosymbiosis: A model system for studying symbiotic mechanisms. Communicative & Integrative Biology. 1:1-4.  PDF

29

Craft, J.D., A.D. Russ, M.N. Yamamoto, T.Y. Iwai Jr., S. Hau, J. Kahiapo, C.T. Chong, S. Ziegler-Chong, C. Muir, Y. Fujita, D.A. Polhemus, R.A. Kinzie III, S.R. Santos. 2008. Islands under islands: The phylogeography and evolution of Halocaridina rubra Holthuis, 1963 (Crustacean: Decapoda: Atyidae) in the Hawaiian archipelago. Limnology and Oceanography. 53:675-689.  PDF  Supplementary Material #1  Supplementary Material #2

28

Thornhill, D.J., T.C. LaJeunesse, S.R. Santos. 2007. Measuring rDNA diversity in eukaryotic microbial systems: How intragenomic variation, pseudogenes, and PCR artifacts confound biodiversity estimates. Molecular Ecology. 16:5326-5340.  PDF  Supplementary Materials  Download datasets

27

Ivey, J.L., S.R. Santos. 2007. The complete mitochondrial genome of the Hawaiian anchialine shrimp Halocaridina rubra Holthuis, 1963 (Crustacea: Decapoda: Atyidae). Gene. 394:35-44. PDF  View genome  Download datasets

26

Hunter, R.L., T.C. LaJeunesse, S.R. Santos. 2007. Structure and evolution of the rDNA internal transcribed spacer (ITS) region 2 in the symbiotic dinoflagellates (Symbiodinium, Dinophyta). Journal of Phycology. 43:120-128. PDF  Supplementary Materials  Download datasets

25

Kuguru, B., G. Winters, S. Beer, S.R. Santos, N.E. Chadwick. 2007. Adaptation strategies of the corallimorpharian Rhodactis rhodostoma to irradiance and temperature. Marine Biology. 151:1287-1298. PDF

24

Humphry, D.R., M. Andrews, S.R. Santos, E.K. James, L.V. Vinogradova, L. Perin, V.M. Reis, S.P. Cummings. 2007. Phylogenetic assignment and mechanism of action of a crop growth promoting Rhizobium radiobacter strain used as a biofertiliser on graminaceous crops in Russia. Antonie van Leeuwenhoek. 91:105-113. PDF

23

Cummings, S.P., D.R. Humphry, S.R. Santos, M. Andrews, E.K. James. 2006. The potential and pitfalls of exploiting nitrogen fixing bacteria in agricultural soils as a substitute for inorganic fertiliser. Environmental Biotechnology. 2:1-10. PDF

22

Coffroth, M.A., C.F. Lewis, S.R. Santos, J.L. Weaver. 2006. Environmental populations of the symbiotic dinoflagellate, Symbiodinium (Freudenthal), can initiate symbioses with reef cnidarians. Current Biology. 16:R985-R987. PDF  Supplementary Materials

21

Santos, S.R. 2006. Patterns of genetic connectivity among anchialine habitats: a case study of the endemic Hawaiian shrimp Halocaridina rubra on the Island of Hawaii. Molecular Ecology. 15:2699-2718. PDF

20

Moran, N.A., P.H. Degan, S.R. Santos, H.E. Dunbar, H. Ochman. 2005. The players in a mutualistic symbiosis: Insects, bacteria, viruses and virulence genes. Proceedings of the National Academy of Sciences USA. 102:16919-16926. PDF  Supporting data set

19

Coffroth, M.A., S.R. Santos. 2005. Invited Review: Genetic diversity of symbiotic dinoflagellates in the genus Symbiodinium. Protist. 156:19-34. PDF

18

Ochman, H., S.R. Santos. 2005. Exploring microbial microevolution with microarrays. Infection, Genetics and Evolution. 5:103-108. PDF

17

Santos, S.R., H. Ochman. 2004. Identification and phylogenetic sorting of bacterial lineages using universally conserved genes and proteins. Environmental Microbiology. 6:754-759.PDF  Download datasets

16

Santos, S.R. 2004. Comments on the article of Gou et al. (2003, J. Exp. Mar. Biol. Ecol. 296, 135-144): Phylogenetic analysis of a free-living strain of Symbiodinium isolated from Jiaozhou Bay, P.R. China. Journal of Phycology. 40:395-397. PDF

15

Takabayashi, M., S.R. Santos, C.B. Cook. 2004. Mitochondrial DNA phylogeny of the symbiotic dinoflagellates (Symbiodinium, Dinophyta). Journal of Phycology. 40:160-164. PDF

14

Santos, S.R., T.L. Shearer, A.R. Hannes, M.A. Coffroth. 2004. Fine-scale diversity and specificity in the most prevalent lineage of symbiotic dinoflagellates (Symbiodinium, Dinophyceae) of the Caribbean. Molecular Ecology. 13:459-469. PDF

13

Francino, M.P., S.R. Santos, H. Ochman. 2003. Phylogenetic Relationships of Bacteria with Special Reference to Endosymbionts and Enteric Species. For: M. Dworkin (Editor-in-Chief), The Prokaryotes: An Evolving Electronic Resource for the Microbiological Community, 3rd edition, release 3.13, May 12, 2003. Springer-Verlag, New York.

12

Santos, S.R., R.A. Kinzie III, K. Sakai, M.A. Coffroth.  2003. Molecular characterization of nuclear small subunit (18S)-rDNA pseudogenes in a symbiotic dinoflagellate (Symbiodinium, Dinophyta). Journal of Eukaryotic Microbiology. 50:417-421. PDF

11

Santos, S.R., C. Gutierrez-Rodriguez, M.A. Coffroth. 2003. Phylogenetic identification of symbiotic dinoflagellates via length heteroplasmy in domain V of chloroplast large subunit (cp23S)-rDNA sequences. Marine Biotechnology. 5:130-140. (featured cover article) PDF

10

Santos, S.R., C. Gutierrez-Rodriguez, H.R. Lasker, M.A. Coffroth. 2003. Symbiodinium sp. associations in the gorgonian Pseudopterogorgia elisabethae in the Bahamas: high levels of genetic variability and population structure in symbiotic dinoflagellates. Marine Biology. 143:111-120. PDF  Supplementary Materials

9

Ochman, H., S.R. Santos. 2003. Eyeing bacterial genomes. Current Opinion in Microbiology. 6:109-113. PDF

8

Santos, S.R., M.A. Coffroth. 2003. Molecular genetic evidence that dinoflagellates belonging to the genus Symbiodinium Freudenthal are haploid. The Biological Bulletin. 204:10-20. (featured cover article) PDF

7

Santos, S.R., D.J. Taylor, R.A. Kinzie III, K. Sakai, M.A. Coffroth. 2002. Evolution of length variation and heteroplasmy in the chloroplast rDNA of symbiotic dinoflagellates (Symbiodinium, Dinophyta) and a novel insertion in the universal core region of the large subunit rDNA. Phycologia. 41:311-318. (featured cover article) PDF

6

Santos, S.R., D.J. Taylor, R.A. Kinzie III, M. Hidaka, K. Sakai, M.A. Coffroth. 2002. Molecular phylogeny of symbiotic dinoflagellates inferred from partial chloroplast large subunit (23S)-rDNA sequences. Molecular Phylogenetics and Evolution. 23:97-111. PDF

5

Kinzie, R.A. III, M. Takayama, S.R. Santos, M.A. Coffroth. 2001. The adaptive bleaching hypothesis: Experimental tests of critical assumptions. The Biological Bulletin. 200:51-58. PDF

4

Coffroth, M.A., S.R. Santos, T.L. Goulet. 2001. Early ontogenetic expression of specificity in a cnidarian-algal symbiosis. Marine Ecology Progress Series. 222:85-96. PDF

3

Santos, S.R., D.J. Taylor, M.A. Coffroth. 2001. Genetic comparisons of freshly isolated vs. cultured symbiotic dinoflagellates: Implications for extrapolating to the intact symbiosis. Journal of Phycology. 37:900-912. PDF

2

Larned, S.T., S.R. Santos. 2000. Light- and nutrient-limited periphyton in low order streams of Oahu, Hawaii. Hydrobiologia. 432:101-111. PDF

1

Santos, S.R. 1995. Ultraviolet radiation: helpful or harmful to growth of  cultured zooxanthellae? In Gulko, D. and Jokiel, P.L. [Eds.] Ultraviolet Radiation and Coral Reefs. HIMB Technical Report No. 41, Hawaii, pp. 165-169. PDF