For the most up to date list of papers from the lab-check Gabrielle’s google scholar page

2020 Gruber, A, C McKay, G Rocap, M Oborník Comparison of different versions of SignalP and TargetP for diatom plastid protein predictions with ASAFind  Matters 6 (6), e202005000001

2019      Fuchsman, CA,  Palevsky, HI, Widner, B, Duffy M, Carlson, MCG, Neibauer, JA Mulholland, MR, Keil, RG, Devol, A, G Rocap.  Cyanobacteria and cyanophage contributions to carbon and nitrogen cycling in an oligotrophic oxygen deficient zone. The ISME Journal,  13 (11), 2714-2726.

2019      Saunders, J. K., Fuchsman, CA, McKay, C and G Rocap. Complete arsenic-based respiratory cycle in the marine microbial communities of pelagic oxygen-deficient zones. Proceedings of the National Academy of Sciences 116 (20) 9925-9930

2019      Lee, MD, NA Ahlgren, JD Kling, NG Walworth, G Rocap, MA Saito, DA Hutchins, and Eric A. Webb Marine Synechococcus isolates representing globally abundant genomic lineages demonstrate a unique evolutionary path of genome reduction without a decrease in GC content. Environmental Microbiology. 21(5), 1677–1686

2018      Ahlgren, NA, CA Fuchsman, G Rocap, JA Fuhrman.  Discovery of several novel, widespread, and ecologically distinct marine Thaumarchaeota viruses that encode amoC nitrification genes. The ISME Journal, 13:618–631

B Widner, CA Fuchsman, BX Chang, G Rocap, MR Mulholland. 2018. Utilization of urea and cyanate in waters overlying and within the eastern tropical north Pacific oxygen deficient zone.  FEMS microbiology ecology 94 (10), fiy138

Fuchsman,CA, Devol,AH, Saunders, JK, McKay,C and G Rocap. 2017 Niche Partitioning of the N cycling microbial community of an offshore Oxygen Deficient Zone. Frontiers in microbiology 8, 2384

Fuchsman, CA, Collins, RE, Rocap, G and WJ Brazelton 2017. Effect of the environment on horizontal gene transfer between bacteria and archaea PeerJ 5, e3865 3 doi:10.7717/peerj.3865

Carlson, M.C.G, McCary, N. D., Leach, T. S. and G. Rocap. 2016. Pseudo-nitzschia challenged with co-occurring viral communities display diverse infection phenotypes. Frontiers in Microbiology 7:527. doi:10.3389/fmicb.2016.00527

Sohm, J. A., Ahlgren, N. A., Thomson, Z., Williams, C., Moffett, J.W., Saito, M.A., Webb, E.A., and G. Rocap. 2016. Co-occurring Synechococcus ecotypes occupy four major oceanic regimes defined by temperature, macronutrients, and iron. ISME Journal 10:333–345  doi: 10.1038/ismej.2015.115

Saunders, J. K. and G. Rocap. 2016. Arsenic detoxification strategies vary with environmental phosphate concentrations in global Prochlorococcus populations. ISME Journal 10:197-209 doi:10.1038/ismej.2015.85

Speitz, R. K., Williams, C. M., Rocap. G., and M. C. Horner-Devine. 2015. A dissolved oxygen threshold for shifts in bacterial community structure in a seasonally hypoxic estuary, PLOS One, 10.1371/journal.pone.0135731

Guannel, M. L., Haring, D, Twiner, M.J., Wang, Z., Noble, A., Lee, P., Saito, M.A., and G. Rocap. 2015. Toxigenicity and biogeography of the diatom Pseudo-nitzschiaacross distinct environmental regimes in the South Atlantic Ocean. Marine Ecology Progress Series 526:67-87 doi:10.3354/meps11027

Gruber, A., G. Rocap, P. G. Kroth, E. V. Armbrust and T. Mock.  2015. Plastid proteome prediction for diatoms and other algae with secondary plastids of the red lineage. The Plant Journal 81: 519-528 DOI: 10.1111/tpj.12734

Ahlgren, N. A., Noble A., Patton, A.P., Roache-Johnson, K., Jackson, L., Robinson, D., McKay, C., Moore, L.R., Saito, M.A. and G. Rocap. 2014. The unique trace metal and mixed layer conditions of the Costa Rica upwelling dome support a distinct and dense community of Synechococcus. Limnology and Oceanography 59(6), 2014, 2166-2184 | DOI: 10.4319/lo.2014.59.6.2166

Biller, S.J., Berube, P. M., Berta-Thompson, J. W., Kelly, L., Roggensack, S.E., Awad, L., Roache-Johnson, K. H., Ding, H., Giovannoni, S. J., Rocap, G., Moore, L.R. and S. W. Chisholm. 2014. Genomes of diverse isolates of the marine cyanobacterium Prochlorococcus Scientific Data 1, Article number: 140034 ​doi:10.1038/sdata.2014.34

Starkenburg, S.R., Kwon, K.J., Jha, R.A., McKay, C., Jacobs, M. Chertkov, O., Twary, S., Rocap, G. and Cattolico, R.A. 2014. A pangenomic analysis of the Nannochloropsis organellar genomes reveals novel genetic variations in key metabolic genes. BMC Genomics, 15:212  (2014) doi:10.1186/1471-2164-15-212

Nahas Reistetter, E., Krumhardt, K., Callnan, K., Roache-Johnson, K., Saunders, J. Moore, L. R. and G. Rocap. 2013. Effects of phosphorus starvation versus limitation on the marine cyanobacterium Prochlorococcus MED4 II: gene expression. Environmental Microbiology doi:10.1111/1462-2920.12129 (pdf)

Krumhardt, K., Callnan, K., Roache-Johnson, K., Swett, T., Robinson, D., Nahas Reistetter, E., Saunders, J. Rocap, G. and L. R. Moore. 2013. Effects of phosphorus starvation versus limitation on the marine cyanobacterium Prochlorococcus MED4 I: Uptake Physiology. Environmental Microbiology doi:10.1111/1462-2920.12079 (pdf)

Rodríguez-Martínez, R., G. Rocap, G. Salazar and R. Massana. 2013. Biogeography of the uncultured marine picoeukaryote MAST-4: temperature-driven distribution patterns. ISME Journal doi:10.1038/ismej.2013.53 (pdf)

Curtis, B. et al. 2012. Algal genomes reveal evolutionary mosaicism and the fate of nucleomorphs. Nature 492:59-65 doi:10.1038/nature11681 (pdf)

Ahlgren, N.A. and G. Rocap. 2012 Diversity and distribution of marine Synechococcus: multiple gene phylogenies for consensus classification and development of qPCR assays for sensitive measurement of clades in the ocean Frontiers in Aquatic Microbiology doi: 10.3389/fmicb.2012.00213

Rodríguez-Martínez, R., G. Rocap, R. Logares, S. Romac and R. Massana. 2012 Low Evolutionary Diversification in a Widespread and Abundant Uncultured Protist (MAST-4). Molecular Biology and Evolution 29 (5): 1393-1406. doi: 10.1093/molbev/msr303 (pdf)

Guannel, M. L., M. C. Horner-Devine and G. Rocap.  2011. Bacterial community composition differs with species and toxigenicity of the diatom Pseudo-nitzschia Aquatic Microbial Ecology, 64: 117-133. doi:10.3354/ame01513 (pdf)

Morris, R. M., B. Nunn, C. Frazar, D. Goodlett, Y.S. Ting and G. Rocap. 2010. Comparative metaproteomics reveals ocean-scale shifts in microbial nutrient utilization and energy transduction ISME Journal 4:673-685 (pdf)

Ong, H. C., S. W. Wilhelm, C. J. Gobler, G. Bullerjahn, M. A. Jacobs, J. McKay, E. H. Sims, W. G. Gillett, Y. Zhou, E. Haugen, G. Rocap, R. A. Cattolico. 2010 Analyses of the complete chloroplast genome sequences of two members of the Pelagophyceae:  Aureococcus anophagefferens CCMP1984 and Aureoumbra lagunensisCCMP1507 Journal of Phycology 46:602-615  (pdf)

Collins, R. E., G. Rocap, J. Deming. 2010. Persistence of bacterial and archaeal communities in sea ice through an Arctic winter. Environmental Microbiology 12:1828-1841 (pdf)

Adams, N. G., V. L. Trainer, G. Rocap, R.P. Herwig. L. Hauser. 2009. Genetic population structure of Pseudo-nitzschia (Bacillariophyceae) from the Pacific Northwest and the North Sea.  Journal of Phycology 45:1037-1045. (pdf)

Cattolico, R.A. M. A. Jacobs, Y. Zhou, J. Chang, M. Duplessis, T. Lybrand, J. McKay, H.C. Ong, E. Sims, and G. Rocap. 2008.  Chloroplast genome sequencing analysis of Heterosigma akashiwo CCMP452 (West Atlantic) and NIES 293 (West Pacific) strains BMC Genomics 9:211 doi:10.1186/1471-2164-9-211  (pdf)

Hubbard, K. A. G. Rocap and E. V. Armbrust. 2008  Inter- and intra-specific community structure within the diatom genus Pseudo-nitzschia (Bacillariophyceae).  Journal of Phycology 44: 637-649 (pdf)

Collins, R.E. and G. Rocap. 2007 REPK: an analytical web server to select restriction endonucleases for terminal restriction fragment length polymorphism analysis.  Nucleic Acids Research 35 (Web server issue): W58-W62; (pdf)

Ahlgren, N. A. and G. Rocap. 2006. Culture isolation and culture-independent clone libraries reveal new marine Synechococcus ecotypes with distinctive light and N physiologies. Applied and Environmental Microbiology 72: 7193-7204. PDF file (752 kb)

Fuchsman, C. A. and G. Rocap. 2006. Whole genome reciprocal BLAST analysis reveals Planctomycetes do not share an unusually high number of genes with Eukaryaand Archaea. Applied and Environmental Microbiology 72:6841-6844 PDF file (214 kb)

Van Mooy, B.A.S., G. Rocap, H. F. Fredricks, C. T. Evans and A. H. Devol. 2006. Sulfolipids dramatically decrease phosphorus demand by picocyanobacteria in oligotrophic marine environments. PNAS. 103:8607-8612. PDF file (856 kb)

Ahlgren, N. A., G. Rocap, and S. W. Chisholm. 2005. Measurement of Prochlorococcus ecotypes using real-time polymerase chain reaction reveals different abundances of genotypes with similar light physiologies Environmental Microbiology 8: 441-454 PDF file (257 kb)

Saito, M. A., G. Rocap, and J. W. Moffett. 2005. Production of Cobalt Binding Ligands in a Synechococcus Feature at the Costa Rica Upwelling Dome. Limnology and Oceanography 50: 279-290. PDF file (380 kb)

Rocap, G., F. W. Larimer, J. Lamerdin, S. Malfatti, P. Chain, N. A. Ahlgren, A. Arellano, M. Coleman, L. Hauser, W. R. Hess, Z. I. Johnson, M. Land, D. Lindell, A. F. Post, W. Regala, M. Shah, S. L. Shaw, C. Steglich, M. B. Sullivan, C. S. Ting, A. Tolonen, E. A. Webb, E. R. Zinser and S. W. Chisholm. 2003. Genome divergence in two Prochlorococcus ecotypes reflects oceanic niche differentiation. Nature 424: 1042-1047. PDF file (430 kb)
Supplementary Information (418 kb)

Rocap, G., D. L. Distel, J. B.Waterbury and S. W. Chisholm. 2002. Resolution of Prochlorococcus and Synechococcus ecotypes using 16S-23S rRNA internal transcribed spacer (ITS) region sequences. Applied and Environmental Microbiology, 68: 1180-1191. PDF file (362 kb)

Ting, C. S., G. Rocap, J. King and S. W. Chisholm. 2002. Cyanobacterial Photosynthesis in the Oceans: Origins and Significance of Divergent Light Harvesting Strategies. Trends in Microbiology. 10:134-142. PDF file (136 kb)

Moore, L. R., A. F. Post, G. Rocap and S. W. Chisholm. 2002. Differential nitrogen utilization of the marine cyanobacteria Prochlorococcus and Synechococcus.Limnology and Oceanography 47: 989-996. PDF file (178 kb).

Hess, W. R., G. Rocap, C. S. Ting, F. W. Larimer, S. Stilwagon, J. Lamerdin and S. W. Chisholm. 2001. The photosynthetic apparatus of Prochlorococcus – a genomic perspective. Photosynthesis Research, 70:53-71. PDF file (717 kb)

Ting, C., G. Rocap, J. King and S. W. Chisholm. 2001. Phycobiliprotein genes of the marine prokaryote Prochlorococcus: Evidence for rapid evolution of genetic heterogeneity. Microbiology 147: 3171-3182. PDF file (1.6 Mb)

Rocap, G., L. R. Moore and S. W. Chisholm. 1999. Molecular Phylogeny of Prochlorococcus ecotypes. in Marine Cyanobacteria, L. Charpy and A. W. D. Larkum ed. Bulletin de líInstitute Océanographique, Monaco, special issue No. 19. pp. 107-116. PDF file (548 kb)

Moore, L. R., G. Rocap and S. W. Chisholm. 1998. Physiology and Molecular Phylogeny of Coexisting Prochlorococcus ecotypes. Nature 393: 464-467. PDF file (345 kb)