Publications

(Note: these are for personal use. Please do not request copies of "in press" citations)

2017 | 2016 | 2015 | 2014 | 2013 | 2012 | 2011 | 2010 | 2009 | 2008 | 2007 | 2006 | 2005 | 2004 | 2003 | 2002 | 2001 | 2000 | 1999 | 1998 | 1997 | 1996 | 1995 | 1994


2017


del Campo, J., James, E. R., FioRito, R., Boscaro, V., Hehenberger, E., Karnkowska, A., Kolisko, M., Irwin, N. A. T., Mathur, V., Scheffrahn, R. H., and Keeling, P. J. 2017. Pseudotrichonympha leei sp. nov., Pseudotrichonympha lifsoni sp. nov., and Pseudotrichonympha pearti sp. nov., parabasalian flagellates from the hindguts of rhinotermatid termites. Scientific Reports, 7, 16349. (PDF)

Janouškovec, J., Tikhonenkov, D. V., Burki, F., Howe, A. T., Rohwer, F. L., Mylnikov, A. P. and Keeling, P. J. 2017. A New Lineage of Eukaryotes Illuminates Early Mitochondrial Genome Reduction. Curr. Biol. 27, 1-8. (PDF)

Gavelis, G. S., Keeling, P. J., and Leander, B. S. 2017. How exaptations facilitated eye evolution: Seeing the light by accident:. BioEssays, 39, 7. (PDF)

Keeling, P. J. and del Campo, J. 2017. Marine protists are not just big bacteria. Curr. Biol., 27, R541-R549. (PDF)

Hehenberger, E., Tikhonenkov, D. V., Kolisko, M., del Campo, J., Esaulov, A. S., Mylnikov, A. P. and Keeling, P. J. 2017. Novel freshwater predators reshape holozoan phylogeny and reveal the presence of a two-component signalling system in the ancestor of animals. Curr. Biol. 27, 2043-2050. (PDF)

Gavelis, G. S., Wakeman, K. C., Ripken, C., Mitarai, S., Herranz, M., Ozbek, S., Holstein, T., Tillmann, U., Keeling, P. J., and Leander, B. S. 2017. Microbial arms race: Ballistic “nematocysts” in dinoflagellates represent a new extreme in organelle complexity. Science Advances, 3, e1602552. (PDF)

Keeling, P. J. and McCutcheon, J. P. 2017 Endosymbiosis: the feeling is not mutual. J. Theor. Biol. S0022-5193, 30279-3085. (PDF)

Freeman, M. A., Fuss, J., Kristmundsson, A., Bjorbaekmo, M. F. M., Mangot, J. F., del Campo, J., Keeling, P. J., Shalchian-Tabrizi, K., and Bass, D. 2017. X-cells are golbally distributed, genetically divergent fish parasites related to perkinsids and dinoflagellates. Curr. Biol. 27, 1645-1651. (PDF)

Pyle, J. D., Keeling, P. J., and Nibert, M L. 2017. An Amalga-like virus infecting Antospora locustae, a microsporidian pathogen of grasshoppers. Virus Res. 233, 95-104. (PDF)

Boscaro, V. Kolisko, M. Felletti, M., Vannini, C., Lynn, D. H., and Keeling, P. J. 2017. Parallel genome reduction in symbionts descended from closely related free-living ancestors. Nat. Ecol. Evol. 1, 1160-1167. (PDF)

Hehenberger, E., James, E. R., del Campo, J., Buckland-Nicks, J. A., Reimchen, T. E., and Keeling, P. J. 2017. Fish Parasite dinoflagellates Haidadinium ichthyophilum and Piscinoodinium share a recent common ancestor. J. Eukaryot. Microbiol. in press. (PDF)

Strassert, J. F. H., Karnkowska, A., Hehenberger, E., del Campo, J., Kolisko, M., Okamoto, N., Burki, F., Janouškovec, J., Leonard, G., Richards, T. A., Worden, A. Z., Santoro, A. E., Keeling, P. J. 2017. Single cell genomics shows uncultured Marine Alveolates (MALVs) represent multiple independent lineages in early dinoflagellate evolution. ISME J. in press. (PDF)

Gile, G. H., James, E. R., Tai, V., Harper, J. T., Merrell, T. L., Boscaro, V., Husnik, F., Scheffrahn, R. H., and Keeling P. J. 2017. New species of Spirotrichonympha from Reticulitermes and the relationship among genera in Spirotrichonymphaea (Parabasalia). J. Eukarot. Microbial. in press. (PDF)

Boscaro, V., James, E. R., FioRito, R., Hehenberger, E., Karnkowska, A., del Campo, J., Kolisko, M., Irwin, N. A. T., Mathur, V., Scheffrahn, R. H., and Keeling, P. J. 2017. Molecular characterization and phylogeny of four new Trichonympha (Parabasalia, Trichonymphea) species from lower termite hindguts. Int. J. System. Evol. Microbiol., 67, 3570-3575. (PDF)


2016


Stentiford, G.D., Becnel, J., Weiss, L., Keeling, P. J., Didier, E., Williams, B. A. P., Bjornson, S., Kent, M., Freeman, M.A., Brown, M., Troemel, E., Roesel, K., Sokolova, K., Snowden, K.F., Solter, L. 2016. Microsporidia – Emergent pathogens in the global food chain. Trends Parasitol., 32, 336-348. (PDF)

Strassert, J. F., Tikhonekov, D., Pombert, J.-F., Kolisko, M., Mylnikov, A. P., and Keeling, P. J. 2016. Moramonas marocensis n. g., n. sp., a jakobid flagellate isolated from desert soil with a bacteria-like mitochondrial genome. Open Biology, 6, 2. (PDF)

Orsi, W. D., Smith, J. M., Liu, Z., Sakamoto, C. M., Wilken, S., Poirier, C., Richards, T. A., Keeling, P. J., Worden, A. Z., and Santoro, A. E. 2016. Diverse, uncultivated bacteria and archaea underlying the cycling of dissolved protein in the ocean. ISME J. 10, 2158-2173. (PDF)

Tai, V. Carpenter, K. J., Weber, P. K., Nalepa, C. A., Perlman, S. J., Keeling, P. J. 2016. Genome evolution and nitrogen fixation in bacterial ectosymbionts of a protist inhabiting wood-feeding cockroaches. Appl. Env. Microbiol. 82, 4682-4695. (PDF)

Pan, J., del Campo, J., and Keeling, P. J. 2016. Reference tree and environmental sequence diversity of the Labyrinthulomycetes. J. Eukaryot. Microbiol. 64, 88-96. (PDF)

Keeling, P. J. 2016. Evolution of the genetic code. Curr. Biol. 26, R851-853. (PDF)

Hehenberger, E., Burki, F., Kolisko, M. and Keeling, P. J. 2016. Functional relationship between a dinoflagellate host and its diatom endosymbiont. Mol. Biol. Evol. 33, 2376-2390. (PDF)

Janouškovec, J. & Keeling, P. J. 2016. Causality and the origin of parasitism. Curr. Biol. 26, R174-177. (PDF)

Keeling, P. J. 2016. Chlorarachiophyta. Handbook of Protists. Pp. 1-17. doi:10.1007/978-3-319-32669-6_34-1.

Smith, D. R. and Keeling, P. J. 2016. Protists and the wild, wild west of gene expression: new frontiers, lawlessness, and misfits. Annu. Rev. Microbiol. 70, 161-178. (PDF)

Gawryluk, R. M. R., del Campo, J., Okamoto, N. Strassert, J. F., Lukes, J., Richards, T. A., Worden, A. Z., Santoro, A. E., and Keeling, P. J. 2016. Morphological identification and single-cell genomics of marine diplonemids. Curr. Biol. 22, 3053-3059. (PDF)

Syberg-Olsen, M., Irwin, N. A. T., Vannini, C., Erra, F., Di Giuseppe, G., Boscaro, V., and Keeling P. J. 2016. Biogeography and character evolution of the ciliate genus Euplotes (Ciliophora, Spriotrichea), with description of Euplotes curdsi sp. nov. PLoS One 11, e0165442. (PDF)

Novák L., Zubáčová Z., Karnkowska A., Kolisko M., Hroudová M., Stairs C.W., Simpson A.G., Keeling P.J., Roger A.J., Čepička I., Hampl V. 2016. Arginine deaminase pathway enzymes: evolutionary history in metamonads and other eukaryotes. BMC Evol. Biol. 16, 197. (PDF)

Burki, F., Kaplan, M., Tikhonenkov, D. V., Zlatogursky, V., Minh, B. Q., Radaykina, L. V., Smirnov, A., Mylnikov, A. P., and Keeling, P. J. 2016. Untangling the early diversification of eukaryotes: a phylogenomic study of the evolutionary origins of Centrohelida, Haptophyta and Cryptista. Proc. Roy. Soc. B, 283, 1823. (PDF)


2015


Tikhonenkov, D. V., Janouškovec, J., Keeling, P. J., and Mylnikov, A. P. 2015. The morphology, ultrastructure and SSU rRNA gene sequence of a new freshwater flagellate, Neobodo borokensis n. sp. (Kinetoplastea, Excavata). J. Eukaryot. Microbiol., Epub ahead of print. (PDF)

Keeling, P. J., McCutcheon, J. P., and Doolittle, W. F. 2015. Symbiosis becoming permanent: Survival of the luckiest. Proc. Natl. Acad. Sci. USA, 112, 10101-10103. (PDF)

Gavelis, G. S., White, R. A., Suttle, C. A., Keeling, P. J., and Leander, B. S. 2015. Single-cell transcriptomics using spliced leader PCR: Evidence for multiple losses of photosynthesis in polykrikoid dinoflagellates. BMC Genomics, 16, 528. (PDF)

Woo, Y. H., Ansari, H., Otto, T. D., Klinger, C. M., Kolisko, M., Michálek, J., Saxena, A., Shanmugam, D., Tayyrov, A., Veluchamy, A., Ali, S., Bernal, A., del Campo, J., Cihlář, J., Flegontov, P., Gornik, S. G., Hajduškov&a, E., Horák, A., Janouškovec, J., Katris, N. J., Mast, F. D., Miranda-Saavedra, D., Mourier, T., Naeem, R., Nair, M., Panigrahi, A. K., Rawlings, N. D., Padron-Regalado, E., Ramaprasad, A., Samad, N., Tomčala, A., Wilkes, J., Neafsey, D. E., Doerig, C., Bowler, C., Keeling, P. J., Roos, D. S., Dacks, J. B., Templeton, T. J., Waller, R. F., Lukeš, J., Oborník, M., and Pain, A. 2015. Chromerid genomes reveal the evolutionary path from photosynthetic algae to obligate intracellular parasites. Elife, 4, e06974. (PDF)

Gavelis, G. S., Hayakawa, S., White, R. A. 3rd, Gojobori, T., Suttle, C. A., Keeling, P. J., and Leander, B. S. 2015. Eye-like ocelloids are built from different endosymbiotically acquired components. Nature, 523, 204-207. (PDF)

Gile, G. H., James, E. R., Okamoto, N., Carpenter, K. J., Burki, F., Scheffrahn, R. H., and Keeling, P. J. 2015. Molecular evidence for the polyphyly of Macrotrichomonas (Parabasalia: Cristamonadea) and a proposal for Macrotrichomonoides n. gen. J. Eukaryot. Microbiol., 62, 494-504. (PDF)

Flegontov, P. Michálek, J., Tomčala, A., Janouškovec, J., Jirků, M., Lai, D. H., Hajdůšková, E., Otto, T. D., Keeling, P. J., Pain, A., Oborník, M. Lukeš, J. 2015. Divergent mitochondrial respiratory chains in phototrophic relatives of apicomplexan parasites. Mol. Biol. Evol., 32, 1115-1131. (PDF)

Smith, D. R. and Keeling, P. J. 2015. Mitochondrial and plastid genome architecture: reoccurring themes, but significant differences at the extremes. Proc. Natl. Acad. Sci. USA, 112, 10177-10184. (PDF)

Janouškovec, J., Tikhonenhov, D. V., Burki, F., Howe, A. T., Kolisko, M., Mylnikov, A. P., and Keeling, P. J. 2015. Factors mediating plastid dependency and the origins of parasitism in apicomplexans and their close relatives. Proc. Natl. Acad. Sci. USA, 112, 10200-10207. (PDF)

Pombert, J. F., Haag, K. L. Beidas, S., Ebert, D., and Keeling, P. J. 2015. The Ordospora colligata genome: evolution of extreme reduction in microsporidia and host-to-parasite horizontal gene transfer. mBio 6, e02400-14. (PDF)

Tai, V. James, E. R., Nalepa, C. A., Scheffrahn, R. H., Perlman, S. J., and Keeling, P. J. 2015. The role of host phylogeny varies in shaping microbial diversity in the hindguts of lower termites. Appl. Environ. Microbiol., 81, 1059-1070. (PDF)

Tai, V. Gile, G. H., Pan, J., James, E. R., Carpenter, K. J., and Keeling, P. J. 2015. The phylogenetic position of Kofodia loriculara and implications on the evolution of critsamonads. J. Eukaryot. Microbiol. 62, 255-259. (PDF)

Worden, A. Z., Fellows, M. J., Giovannoni, S. J., Wilken, S. Zimmerman, A., and Keeling, P. J. 2015. Rethinking the marine carbon cycle: factoring in mutifarious lifestyles of microbes. Science 347, 1257594. (PDF)


2014


Mikhailov, K. V., Janouškovec, J., Tikhonenkov, D. V., Mirzaeva, G. S., Diakin, A. Y., Simdyanov, T. G., Mylnikov, A. P., Keeling, P. J. and Aleoshin, V. V. 2014. A complex distribution of elongation family GTPases EF1A and EFL in basal alveolate lineages. Gen. Biol. Evol. 6, 2361-2367. (PDF)

Okamoto, N. and Keeling, P. J. 2014. A comparative overview of the flagellar apparatus of dinoflagellates, perkinsids, and colpodellids. Microorganisms 2, 73-91. (PDF)

Keeling, P. J. and Rayner, J. C. 2014. The origins of malaria: there are more things in heaven and earth. Parasitology 25, 1-10. (PDF)

Hehenberger, E., Imanian, B., Burki, F., and Keeling, P. J. 2014. Evidence for the retention of two evolutionary distinct plastids in dinoflagellates with diatom endosymbionts. Gen. Biol. Evol. 6, 2321-2334. (PDF)

Kolisko, M., Boscaro, V., Burki, F., Lynn, D. and Keeling, P. J. 2014. Single-cell transcriptomics for microbial eukaryotes. Curr. Biol. 17, R1081-10-82. (PDF)

Pombert, J. F., James, E. R., Janouškovec, J., Smirnov, A., Gray, M. W., and Keeling, P. J. 2014. The complete mitochondrial genome of an unidentified Phalansterium species. Protist Genomics, 2, 25-32. (PDF)

Burki, F. Imanian, B., Hehenberger, E., Hirakawa, Y. Maruyama, S., and Keeling, P. J. 2014. Endosymbiotic gene transfer in tertiary plastid containing dinoflagellates. Eukaryotic Cell, 13, 246-255. (PDF)

Imanian, B. and Keeling, P. J. 2014. Horizontal gene transfer and redundancy of tryptophan biosynthetic enzymes in dinotoms. Genome Biol. Evol., 6, 333-343. (PDF)

Tikhonenkov, D. V., Janouškovec, J., Mylnikov, A. P., Mikhailov, K. V., Simdyanov, T. G., Aleoshin, V. V., and Keeling, P. J. 2014. Description of Colponema vietnamica sp. n. and Acavomonas peruviana n. gen. n. sp., two new alveolate phyla (Colponemidia nom. nov. and Acavomonidia nom. nov.) and their contributions to reconstructing the ancestral state of alveolates and eukaryotes. PLoS One 9, e95467. (PDF)

Lee, R., Lai, H., Malik, S. B., Saldarriaga, J. F., Keeling, P. J., and Slamovits, C. H. 2014. Analysis of EST data of the marine protist Oxyrrhis marina, an emerging model for alveolate biology and evolution. BMC Genomics 15, 122. (PDF)

del Campo, J. Sieracki, M. E., Molestina, R., Keeling, P. J., Massana, R. and Ruiz-Trilo, I. 2014. The others: our biased perspectives of eukaryotes. Trends Ecol. Evol. 29, 252-259. (PDF)

Pombert, J.-F., Blouin, N. A., Lane, C., Boucias, D., and Keeling, P. J. 2014. A lack of parasitic reduction in the obligate parasitic green alga Helicosporidium. Plos Genet. 10, e1004355. (PDF)

Hirakawa, Y. Suzuki, S., Archibald, J. M., Keeling, P. J., and Ishida, K.-I. 2014. Over-expression of molecular chaperone genes in nucleomorph genomes. Mol. Biol. Evol. 31, 1437-1443. (PDF)

Keeling, P. J. et al (65 authors) 2014. The Marine Microbial Eukaryote Transcriptome Sequencing Project (MMETSP): Illuminating the functional diversity of eukaryotic life in the oceans through transcriptome sequencing. PLoS Biol., 12, e1001889. (PDF)

Burki, F. and Keeling, P. J. 2014. Rhizaria. Curr. Biol., 24, R103-107. (PDF)

Okamoto, N. and Keeling, P. J. 2014. The 3D structure of the apical complex and its association with the flagellar apparatus revealed by serial TEM tomography in Psammosa pacifica, a distant relative of the Apicomplexa. Plos ONE, 9, e84653. (PDF)

Keeling, P. J. 2014. The impact of history on our perception of evolutionary events: endosymbiosis and the origins of eukaryotic complexity. Cold Spring Harb. Perspect. Biol., 6, a016196. (PDF)


2013


Janouškovec, J., Tikhonenkov, D. V., Mikhailov, K. V., Simdyanov, T. G., Aleoshin, V. V., Mylnikov, A. P., and Keeling, P. J. 2013. Colponemids represent multiple ancient alveolate lineages. Curr. Biol., 23, 2546-2552. (PDF)

Burki F., Corradi, N., Sierra, R., Pawlowski, J., Meyer, G. R., Abbott, C. L. and Keeling, P. J. 2013. Phylogenomics of the ‘amitochondriate’ intracellular parasite Mikrocytos mackini reveals first evidence for a mitosome in Rhizaria. Curr. Biol., 23, 1541-1547. (PDF)

Janouškovec, J., Sobotka, R., Lai, De-Hua, Flegontov, P. Konik, P., Komenda, J., Prasil, O., Pain, A., Obornik, M., Lukeš, J., Keeling, P. J. 2013. Split photosystem protein, linearized topology, and growth of structural complexity in the recombination-driven plastid genome of Chromera velia. Mol. Biol. Evol., 30, 2447-2462. (PDF)

James, E. R., Scheffrahan, R. H., and Keeling, P. J. Trichonympha burlesquei from Reticulitermes virginicus and evidence against a cosmopolitan distribution of Trichonympha agilis in many termite hosts. Int. J. Syst. Evol. Microbiol., 63, 3873-3876. (PDF)

Carpenter, K. J., Weber, P. K., Davisson, M. L. Pett-Ridge, J., Haverty, M. I., and Keeling, P. J. 2013. Correlated SEM, FIB-SEM, TEM, and nanoSIMS imaging of microbes from the hindgut of a lower termite: Methods for in-situ functional and ecological studies of uncultivable microbes. Microscopy and Microanalysis, 19, 1490-1501. (PDF)

Pombert, J.-F., James, E. R., Janouškovec, J., Smirnov, A., Gray, M. W., and Keeling, P. J. The complete mitochondrial genome of an unidentified Phalansterium species. Protist Genomics, 2, 25-32. (PDF)

Gile, G. H., Carpenter, K. J., James, E. R., Scheffrahn, and Keeling, P. J. 2013. Morphology and molecular phylogeny of Staurojoenina mulleri sp. nov. (Trichonymphida, Parabasalia) from the hindgut of the kalotermitid Neotermes jouteli. J. Eukaryot. Microbiol. 60, 203-213. (PDF)

Hirakawa, Y. Burki, F., and Keeling, P. J. 2013. Dual targeting of aminoacyl-tRNA synthetases to the mitochondrion and complex plastids of chlorarachniophytes. J. Cell. Sci. 125, 6176-6184. (PDF)

Janouškovec, J., Shao-Lun, L. Martone, P. T., Carre, W., Leblanc, C., Collen, J., Keeling, P. J. Evolution of red algal plastid genomes: ancient architectures, introns, horizontal gene transfer, and taxonomic utility of plastid markers. Plos One 8, e59001. (PDF)

Tai, V. James, E. R., Perlman, S. and Keeling, P. J. Single-cell DNA barcoding identifies new species of Trichonympha and Trichomitopsis from the hindgut of the termite Zootermopsis angusticollis. Plos One 8, e58728. (PDF)

James, E. R., Okamoto, N., Burki, F., Scheffrahn, R. and Keeling, P. J., 2013. Cthulhu macrofasciculumque n. g., n. sp. and Cthylla microfasciculumque n. g., n. sp., a newly identified lineage of parabasalian termite symbionts. Plos One 8, e58509. (PDF)

Smith, D. R., Hamaji, T., Olson, B. J., Durand, P. M., Ferris, P., Michod, R. E., Featherston, J., Nozaki, H., and Keeling, P. J. 2013. Organelle genome complexity scales positively with organism size in volvocine green algae. Mol. Biol. Evol. 30, 793-797. (PDF)

Pan, G., Xu, J., Li, T., Xia, Q., Liu, S., Zhang, G., Deng, H., Li, S., Li, C., Liu, H., Yang, L., Liu, T., Zhang, Z., Wu, Z., Fan, W., Dang, X., Xiang, H., Tao, M., Li, Y., Hu, J., Li, Z., Lin, L., Lou, J., Geng, L., Wang, L., Long, M., He, N., Zhang, Z., Wang, J., Wan, Y., Lu, C., Keeling, P. J., Wang, J., Xiang, Z., Zhou, Z. Comparative genomics of silkworm microsporidia reveal an association between host-range and genome expansion. BMC Genomics. 14, 186. (PDF)

Pombert, J.-F., Xu, J., Smith, D. R., Heiman, D., Young, S., Cuomo, C. A., Weiss, L. M. and Keeling, P. J. 2013. Complete genome sequences from three genetically distinct strains reveal a high intra-species genetic diversity in the microsporidian Encephalitozoon cuniculi. Eukaryot. Cell, 12, 503-511. (PDF)

James, E. R., Burki, F., Harper, J. T., Scheffrahn, and Keeling, P. J. 2013. Molecular characterisation of parabasalian symbionts Coronympha clevelandii and Trichonympha subsquilla from the Hawaiian lowland tree termite Incisitermes immigrans. J. Eukaryot. Microbiol. 60, 313-316. (PDF)

Keeling, P. J. 2013. The number, speed, and impact of plastid endosymbioses on eukaryotic evolution. Ann. Rev. Plant Biol. 64, 583-607. (PDF)

Smith, D. R. and Keeling, P. J. 2013. Gene conversion shapes linear mitochondrial genome architecture. Genome Biol. Evol. 5, 905-912. (PDF)

Burki F., Corradi, N., Sierra, R., Pawlowski, J., Meyer, G. R., Abbott, C. L. and Keeling, P. J. Phylogenomics of the ‘amitochondriate’ intracellular parasite Mikrocytos mackini reveals first evidence for a mitosome in Rhizaria. Curr. Biol. 23, 1541-1547. (PDF)

Tai, V. and Keeling, P. J. 2013. Termite hindguts and the ecology of microbial communities in the sequencing age. J. Eukaryot. Microbiol. 60, 421-428. (PDF)

Janouškovec, J., Liu, S.-L., Martone, P. T., Carré, W., Leblanc, C., Collén, J., and Keeling, P. J. 2013. Evolution of red algal plastid genomes: ancient architectures, introns, horizontal gene transfer, and taxonomic utility of plastid markers. PLoS ONE 8(3), e59001. (PDF)


2012


Imanian, B., Pombert. J.-F., Dorrell, R. G., and Keeling, P.J. 2012. Tertiary endosymbiosis in two dinotoms has generated little change in the mitochondrial genomes of their dinoflagellate hosts and diatom endosymbionts. PLoS One. 7, e43763. (PDF)

Pawlowski, J., Adl, S., Audi, S., Bass, D., Belbahri, L., Berney, C., Bowser, S.S., Cepicka, I., Decelle, J., Dunthorn, M., Fiore, A. M., Gile, G. G., Holzman, M., Jahn, R., Keeling, P.J., Kostka, M., Kudryavtsev, A., Lara, E, Le Gall, L., Lukeš, J., Mann, D., Mitchell, E., Nitsche, F., Romeralo, M., Saunders, G. W., Simpson, A. G. B., Smirnov, A. V., Spouge, J., Stern, R. F., Stoeck, T., Zimmermann, J., Schindel, D., de Vargas, C. 2012. CBOL protist working group: barcoding eukaryotic richness beyond animal, plant and fungal kingdoms. PLoS Biol. 10, 21001419. (PDF)

Curtis, B.A., Tanifuji, G., Burki, F., Gruber, A., Irimia, M., Maruyama, S., Arias, M.C., Ball, S.G., Gile, G.H., Hirakawa, Y., Hopkins, J.F., Kuo, A., Rensing, S.A., Schmutz, J., Symeonidi, A., Elias, M., Eveleigh, R.J., Herman, E.K., Klute, M.J., Nakayama, T., Oborník, M., Reyes-Prieto, A., Armbrust, E.V., Aves, S.J., Beiko, R.G., Coutinho, P., Dacks, J.B., Durnford, D.G., Fast, N.M., Green, B.R., Grisdale, C.J., Hempel, F., Henrissat, B., Höppner, M.P., Ishida, K., Kim, E., Kořený, L., Kroth, P.G., Liu, Y., Malik, S.B., Maier, U.G., McRose, D., Mock, T., Neilson, J.A., Onodera, N.T., Poole, A.M., Pritham, E.J., Richards, T.A., Rocap, G., Roy, S.W., Sarai, C., Schaack, S., Shirato, S., Slamovits, C.H., Spencer, D.F., Suzuki, S., Worden, A.Z., Zauner, S., Barry, K., Bell, C., Bharti, A.K., Crow, J.A., Grimwood, J., Kramer, R., Lindquist, E., Lucas, S., Salamov, A., McFadden, G.I., Lane, C.E., Keeling, P.J., Gray, M.W., Grigoriev, I.V., Archibald, J.M. 2012. Algal genomes reveal evolutionary mosaicism and the fate of nucleomorphs. Nature 492, 59-65. (PDF)

Stern, R. F., Andersen, R. A., Jameson, I. Kupper, F. C., Coffroth, M.-A., Vaulot, D., LeGall, F., Veron, B., Brand, J. J. Skelton, H., Kasai, F., Lilly, E. L., and Keeling, P. J. 2012. The ribosomal internal transcribed spacer (ITS) as a candidate dinoflagellate barcode marker. PLoS One, 7, e42780. (PDF)

Smith, D.R., Hua, J., Lee, R.W., and Keeling, P.J. 2012. Relative rates of evolution among the three genetic compartments of the red alga Porphyra differ from those of green plants and do not correlate with genome architecture. Mol. Phylogenet. Evol., 65, 339-344. (PDF)

Pombert, J.-F., Selman, M., Burki, F., Bardell, F. T., Farinelli, L., Solter, L.F., Whitman, D.W., Weiss, L.M., Corradi, N., and Keeling, P. J. 2012. Gain and loss of multiple functionally related, horizontally transferred genes in the reduced genomes of two microsporidian parasites. Proc. Natl. Acad. Sci. USA, 109, 12638-12643. (PDF)

Worden, A. Z., Janouškovec, J., McRose, D., Engman, A., Welsh, R. M., Malfatti, S., Tringe, S.G., and Keeling, P. J. (2012). Global distribution of a wild alga revealed by targeted metagenomics. Curr. Biol. 22(17), R675–R677. (PDF)

Janouškovec, J., Horák, A., Barott, K. L., Rohwer, F. L., and Keeling, P. J. 2012. Environmental distribution of a novel coral-associated eukaryote related to apicomplexan parasites. ISME J. 7, 444-447. (PDF)

Pombert, J.-F., James, E. R., Janouškovec, J., and Keeling, P. J. (2012). Evidence for transitional stages in the evolution of euglenid group II introns and twintrons in the Monomorphina aenigmatica plastid genome. PLoS ONE 7(12), e53433. (PDF)

Burki, F., Hirakawa, Y., and Keeling, P.J. 2012. Intragenomic spread of plastid-targeting presequences the coccolithophore Emiliania huxleyi. Mol. Biol. Evol. 22, R518-R520. (PDF)

Janouškovec, J. Horák, A., Barrot, K. L., Rohwer, F. L., and Keeling, P. J. 2012. Global analysis of plastid diversity reveals new apicomplexan-related lineages associated with coral reefs. Curr. Biol. 22(13), R518–9. (PDF)

Hirakawa, Y. Burki, F., and Keeling, P. J. 2012. Genome-based reconstruction of the protein import machinery in the secondary plastid of a chlorarachniophyte alga. Eukaryot. Cell, 11:324-333. (PDF)

Yuan, C.L., Krause, P., Keeling, P. J., Horák, A. Bent, S., Rollend, L., and Hua, X.G. 2012. A primitive apicomplexan-related parasitic infection in a woman with relapsing Babesia-like Illness. Emerg. Infect. Dis. 18, 125-1127. (PDF)

Smith, D. R. and Keeling, P. J.2012. Twenty-fold difference in evolutionary rates between the mitochondrial and plastid genomes of species with secondary red plastids. J. Eukaryot. Microbiol. 59, 181-184. (PDF)

Smith, D. R., Kaya, E., Yanagihara, A. A., Collins, A. G., Pirro, S. and Keeling, P. J. 2012. First complete mitochondrial genome sequence from a box jellyfish reveals a highly fragmented, linear architecture and insights into telomere evolution. Genome Biol. Evol. 4, 52-58. (PDF)

Zhao, S., Burki, F., Brate, J., Keeling, P. J., Klaveness, D., and Shalchian-Tabrizi, K. 2012. Collodictyon – an ancient lineage in the tree of eukaryotes. Mol. Biol. Evol. 29, 1557-1568. (PDF)

Burki, F. Okamoto, N. Pombert, J.-F., and Keeling, P. J. 2012. Phylogenomic evidence for a pholyphyletic origin of the cryptophytes, haptophytes, and associated heterotrophic lineages. Proc. Roy. Soc. B, 279, 2246-2254. (PDF)

Okamoto, N.,Burki, F. and Keeling, P. J. 2012. Description of two species of early branching dinoflagellates, Psammosa pacifica n. g., n. sp. and P. atlantica n. sp. PLoS One 7, e34900. (PDF)

Ghosh, K., Nieves, E., Keeling, P. J., Cali, A., and Weiss, L. 2012. A new vesicular compartment in Encephalitozoon cuniculi. Microb. Infect. 14, 324-328. (PDF)

Burki, F., Felgontov, P. Obernik, M., Cihlar, J., Pain, A., Lukeš, J., and Keeling, P.J. 2012. Re-evaluating the green vs. red signal in eukaryotes with secondary plastids of red algal origin. Genome Biol. Evol. 4, evs049. (PDF)


2011


Ghosh, K., Nieves, E., Keeling, P. J., Pombert, J. F., Henrich, P. P., Cali, A., and Weiss, L. 2011. Branching network of proteinaceous filaments within the parasitophorous vacuole of Encephalitozoon cuniculi and Encephalitozoon hellem. Infect. Immun. 79, 1374-1385. (PDF)

Smith, D.R., Burki, F., Yamada, T., Grimwood, J., Grigoriev, I.V., Van Etten, J.L., Keeling, P.J. 2011. The GC-rich mitochondrial and plastid genomes of the green alga Coccomyxa give Insight into the evolution of organelle DNA nucleotide landscape. PLoS One. 6, e23624. (PDF)

Fernandez-Robledo, J.A., Caler, E., Matsuzaki, M., Keeling, P.J., Roos, D.S., Vasta, G.R. 2011. The search for a missing link: a relic plastid in Perkinsus? Int. J. Parasitol. 41, 1217-1229. (PDF)

Imanian, B., Pombert. J.-F., Dorrell, R. G., and Keeling, P.J. 2012. Tertiary endosymbiosis in two dinotoms has generated little change in the mitochondrial genomes of their dinoflagellate hosts and diatom endosymbionts. PLoS One. 7, e43763. (PDF)

Gile, G. H., James, E. R., Scheffrahn, R. H., Carpenter, K. J., and Keeling, P. J. 2011. Molecular and morphological analysis of the Calonymphidae with a description of Calonympha chia sp. nov., Snyderella kirbyi sp. nov., and Snyderella swezyae sp. nov. Int. J. Syst. Evol. Microbiol. 61, 2547-2558. (PDF)

Saldarriaga, J. F., Gile, G. H., James, E. R., Horák, A., Scheffrahan, R. H., and Keeling, P. J. 2011. Morphology and molecular phylogeny of Pseudotrichonympha hertwigi and Pseudotrichonympha paulistana (Trichonymphea, Parabasalia) from neotropical rhinotermitids. J. Eukaryot. Microbiol. 58, 487-496. (PDF)

Barott, K. L., Rodriguez-Brito, B., Janouškovec, J. Marhaver, K. L., Smith, J. E., Keeling, P. J., Rohwer, F. L. 2011. Microbial diversity associated with four functional groups of benthic reef algae and the reef-building coral Montastraea annularis. Environ. Microbiol. 13, 1192-1204. (PDF)

Selman, M., Pombert, J.-F., Solter, L., Farinelli, L., Weiss, L. M., Keeling, P. J., and Corradi, N. 2011. Acquisition of an animal gene by microsporidain intracellular parasites. Curr. Biol. Curr. Biol. 21, R576-577. (PDF)

Carpenter, K. J., Horák, A., Chow, L., and Keeling, P. J. 2011. Symbiosis, morphology, and phylogeny of Hoplonymphidae (Parabasalia) of the wood-feeding roach Cryptocercus punctulatus. J. Eukaryot. Microbiol. J. Eukaryot. Microbiol. 58, 426-436. (PDF)

Koreny, L., Sobotka, R., Janouškovec, J., Keeling, P. J., and Obernik, M. Apicomplexan parasites and photosynthetic chromerids synthesize tetrapyrroles using a homologous non-canonical pathway. Plant Cell. 23, 3454-3462. (PDF)

Hirakawa, Y., Burki, F., and Keeling, P. J. 2011. Nucleus- and nucleomorph-targeted histone proteins in a cholarachniophyte alga. Mol. Microbiol. 80, 1339-1449. (PDF)

Hirakawa, Y., Howe, A., James, E. R., and Keeling, P. J. 2011. Morphological diversity between culture strains of a chlorarachniophyte, Lotharella globosa. PLoS One 6, e23193. (PDF)

Smith, D.R., Burki, F., Yamada, T., Grimwood, J., Grigoriev, I.V., Van Etten, J.L., Keeling, P.J. 2011. The GC-rich mitochondrial and plastid genomes of the green alga Coccomyxa give insight into the evolution of organelle DNA nucleotide landscape. PLoS One. 6, e23624. (PDF)

Botté, C. Y., Yamaryo-Botte, Y., Janouškovec, J., Keeling, P. J., and McFadden, G. I. 2011. Identification of plant-like galactolipids in Chromera velia, a photosynthetic relative of malaria parasites. J. Biol. Chem. 286, 29893-29903. (PDF)

Doolittle, W. F., Lukeš, J., Archibald, J. M., Keeling, P. J., and Gray, M. W. 2011. Does constructive neutral evolution play a role in the origin of cellular complexity? BioEssays, 33, 427-429. (PDF)

Keeling, P. J. 2011. Endosymbiosis: bacteria sharing the load. Curr. Biol. 21, R623-624. (PDF)

Hirakawa, Y., Burki, F., and Keeling, P. J. 2011. NucKeeling, P. J. and Corradi, N. 2011. Shrink it or loose it: balancing loss of function with shinking genomes in the microsporidia. Virulence 1, 67-70.

Slamovits, C. H., Okamoto, N., Burri, L., James, E. R., and Keeling, P. J. 2011. A bacterial proteorhodopsin proton pump in marine heterotrophic eukaryotes. Nat. Comm. 2, 183. (PDF)

Lowe, C. D., Keeling, P. J., Martin, L. E., Slamovits, C. H., Watts, P. C., Montangnes, D. J. S. 2011. Who is Oxyrrhis marina? Morphological and phylogenetic studies of an unusual dinoflagellate. J. Plankton Res. 33, 591-602. (PDF)

Slamovits, C. H., and Keeling, P. J. 2011. Contributions of Oxyrrhis marina to molecular biology, genomics, and organelle evolution of alveolates. J. Plankton Res. 33, 555-567. (PDF)

Montagnes, D.J.S., Lowe, C.D., Martin, L. E., Watts, P.C., Roberts, E.C., Wooton, E.C., Keeling, P.J., Slamovits, C.H., Kimmance, S.E., Davidson, K., Jeon, H. J., Breckels, M.N., Boakes, D.E., Steinke, M., and Yang, Z. 2011. Oxhrrhis marina, the “pink rat”: a model protozoon. J. Plankton Res. 33, 549-554. (PDF)

Obornik, M., Vancova, M. Lai, D.H., Janouškovec, J., Keeling, P.J., and Lukeš, J. 2011. Morphology and ultrastructure of multiple life cycle stages of the photosynthetic relative of apicomplexa, Chromera velia. Protist, 162, 115-130. (PDF)


2010


Burki, F., Kudryavtsev, A., Matz, M.V., Aglyamova, G.V., Bulman, S., Fiers, M., Keeling, P.J., Pawlowski, J. 2010. Evolution of Rhizaria: new insights from phylogenomic analysis of uncultivated protists. BMC Evol. Biol., 10, 377. (PDF)

Cocquyt, E. Gile, G. H., Leliaert, F., Verbruggen, H. Keeling, P. J., and de Clerk, O. 2010. Complex phylogenetic distribution of a non-canonical genetic code in green algae. BMC Evol. Biol. 10, 327. (PDF)

Gray, M. W., Lukeš, J., Archibald, J. M., Keeling, P. J., and Doolittle, W. F. 2010. Irremediable complexity? Science 330, 920-921. (PDF)

Hirakawa, Y., Gile, G. H., Ota, S., Keeling, P. J., Ishida, K. I. 2010. Characterization of periplastidal compartment targeting signals in chlorarachniophytes. Mol. Biol. Evol. 27, 1538-1545. (PDF)

Stern, R.F., Horák, A., Andrew, R. L., Coffroth, M. A., Anderson, R. A., Kupper, F. C., Jameson, I., Hoppenrath, M., Veron, B., Kasai, F., Brand, J., James, E. R., and Keeling, P. J. 2010. Environmental barcoding reveals massive dinoflagellate diversity in marine environments. Plos One, 5, e13991. (PDF)

Corradi, N., Pombert, J.F., Farinelli, L., Didier, E.S., and Keeling, P.J. 2010. The complete sequence of the smallest known nuclear genome from the microsporidian Encephalitozoon intestinalis. Nat. Comm. 1, 77. (PDF)

Lee, S.C., Corradi, N., Doan, S., Dietrich, F.S., Keeling, P.J., and Heitman, J. 2010. Evolution of the sex-related locus and genomic features shared in microsporidia and fungi. Plos. One 5, e10539. (PDF)

Imanian, B., Pombert, J.F., and Keeling, P.J. 2010. The complete plastid genomes of the two ‘dinotoms’ Durinskia baltica and Kryptoperidinium foliaceum. Plos One 5, e10711. (PDF)

Gile, G.G., Stern, R.F., James, E.R., and Keeling, P.J. 2010 DNA barcoding of chlorarachniophytes using nucleomorph and nuclear ITS sequences. J. Phycol. 46, 743-750. (PDF)

Keeling, P.J., Corradi, N., Morrison, H.G., Haag, K.L., Ebert, D., Weiss, L.M., Akiyoshi, D.E., and Tzipori, S. 2010. The reduced genome of the parasitic microsporidian Enterocytozoon bieneusi lacks genes for core carbon metabolism. Gen. Biol. Evol. 2, 304-309. (PDF)

Janouškovec J., Horák A., Obornik M., Lukeš J., Keeling P.J. 2010. A common red algal origin of the apicomplexan, dinoflagellate, and heterokont plastids. Proc. Natl. Acad. Sci. USA. 107, 10949-10954. (PDF)

Williams B.A., Elliot C., Burri L., Kido Y., Kita K., Moore A.L., and Keeling P.J. 2010. A broad distribution of the alternative oxidase in microsporidian parasites. PLoS Pathog. 5, e1000761. (PDF)

Gill E.E., Lee R.C., Corradi N., Grisdale C.J., Limpright V.O., Keeling P.J., Fast N.M. 2010. Splicing and transcription differ between spore and intracellular life stages in the parasitic microsporidia. Mol. Biol. Evol. 27, 1579-1584. (PDF)

Hirakawa Y., Gile G.H., Ota S., Keeling P.J., Ishida K.I. 2010. Characterization of periplastidal compartment targeting signals in chlorarachniophytes. Mol. Biol. Evol. 27, 1538-1545. (PDF)

Pombert J.F., Keeling P.J. 2010. The mitochondrial genome of the entomoparasitic green alga Helicosporidium. PLoS One. 5, e8954. (PDF)

Keeling, P. J. 2010. The endosymbiotic origin, diversification, and fate of plastids. Proc. Roy Soc. Lond. 365, 729-48. (PDF)

Carpenter, K. J., Horák, A., and Keeling, P.J. 2010. Phylogenetic position and morphology of Spirotrichosomidae (Parabasalia): new evidence from Leptospironympha of Cryptocercus punctulatus. Protist 161, 122-132. (PDF)


2009


Corradi, N., Haag, K. L., Pombert, J. F., Ebert, D., and Keeling, P. J. 2009. Draft genome sequence of the Daphnia pathogen Octosporea bayeri: insights into the gene content of a large microsporidian genome and a model for host-parasite interactions. Genome Biol. 10, R106. (PDF)

Keeling, P. J. 2009. A 1673 view of the microbial universe. Make 20, 125-128. (PDF)

Burki, F., Inagaki, I. Brate, J., Archibald, J. M., Keeling, P. J., Cavalier-Smith, T. Horák, A., Sakaguchi, M. Hashimoto, T., Klaveness, D. Jokobsen, K. S., Pawlowski, J., and Shalchian-Tabrizi, K. 2009. Early evolution of eukaryotes: two enigmatic heterotrophic groups are related to photosynthetic chromalveolates. Genom. Biol. Evol. 1, 231-238. (PDF)

Keeling, P. J. 2009. Five things to know about Microsporidia. PLoS Pathog. 5, e1000489. (PDF)

Corradi, N. and Keeling, P. J. 2009. Microsporidia: a journey through radical taxonomic revisions. Fungal Biology Reviews, 23, 1-8. (PDF)

Keeling, P. J. 2009. Functional and ecological impacts of horizontal gene transfer in eukaryotes. Curr. Opin. Genet. Dev., 19, 613-619. (PDF)

Keeling, P. J. 2009. Creationists Made Me Do It. Science 325, 945. (PDF)

Redhead, S. A., Kirk, P. M., Keeling, P. J., and Weiss, L. M. 2009. Proposals to exclude the phylum Microsporidia from the Code (048-051). Taxon 58, 669. (PDF)

Redhead, S. A., Kirk, P. M., Keeling, P. J., and Weiss, L. M. 2009. Proposals 048-051 to amend the International Code of Botanical Nomenclature. Mycotaxon 108, 505-507.

Elias, M. Patron, N. J. and Keeling, P. J. 2009. Phylogenetic analysis of RAB1 GTPase reveals a unique paraloge shared by chromalveolates and chrlorarachniophytes. J. Eukaryot. Microbiol. 56, 348-356. (PDF)

Okamoto, N., Chantangsi, C. Horák, A. Leander, B. S., and Keeling, P. J. 2009. Molecular phylogenetic position and description of the novel karablepharid Roombia truncata gen. et sp. Nov., and establishment of the Hacrobia taxon nov. PLoS One 17, e7080. (PDF)

Gile, G. H., Novis, P. M., Cragg, D. S., Zuccarello, G. C., and Keeling, P. J. 2009. The distribution of EF-1alpha, EFL, and a non- canonical genetic code in the Ulvophyceae: discrete genetic characters support a consistent phylogenetic framework. J. Eukaryot. Microbiol. 56, 367-372. (PDF)

Elias, M., Patron, N. J. and Keeling, P. J. 2009. The RAB family GTPase Rab1A from Plasmodium falciparum defines a unique paralog shared by chromalveolates and rhizaria. J. Eukaryot. Microbiol. 56, 348-356. (PDF)

Lukeš, J., Leander, B.S. and Keeling, P. J. 2009. Cascades of convergent evolution: the corresponding evolutionary histories of euglenozoans and dinoflagellates. Proc. Natl. Acad. Sci. USA 106, 9963-9970. (PDF)

Harper, J. T., Gile, G. H., James, E. R., Carpenter, K. J. and Keeling, P. J. 2009. The inadequacy of morphology for species and genus delineation in microbial eukaryotes: an example from the parabasalian termite symbiont Coronympha. PLoS One 4, e6577. (PDF)

Slamovits, C. H. and Keeling, P. J. 2009. Evolution of ultrasmall introns in highly reduced nuclear genomes. Mol. Biol. Evol. 26, 1699-1705. (PDF)

Carpenter, K. J., Chow, L. and Keeling, P. J. 2009. Morphology, phylogeny, and diversity of Trichonympha (Parabasalia: Hypermastigida) of the wood-feeding cockroach Cryptocercus puntulatus. J. Eukaryot. Microbiol. 56, 305-313. (PDF)

Gile, G. H., Faktorova, D., Castlejohn, C. A., Burger, G., Lang, B. F., Farmer, M. A., Lukeš, J. and Keeling, P. J. 2009. Distribution and phylogeny of EFL and EF-1alpha in Euglenozoa suggests ancestral co-occurrence followed by differential loss. PLoS One 4, e5162. (PDF)

Keeling, P. J. 2009. Role of horizontal gene transfer in the evolution of photosynthetic eukaryotes and their plastids. Methods Mol. Biol. 532, 501-515. (PDF)

Akiyoshi, D. E., Morrison, H. G., Lei, S., Feng, X., Zhang, Q. Corradi, N. Mayanja, H., Tumwine, J. K., Keeling, P. J., Weiss, L. M., Tzipori, S. 2009. Genomic survey of the non-cultivatable opportunistic human pathogen, Enterocytozoon bieneusi. PLoS Pathog. 5, e1000216. (PDF)

Keeling, P.J. 2009. Chromalveolates and the evolution of plastids by secondary endosymbiosis. J. Eukaryot. Microbiol. 56, 1-8. (PDF)


2008


Lee, R. C., Williams, B. A., Brown, A. M., Adamson, M. L., Keeling, P. J., and Fast, N. M. 2008. Alpha- and beta-tubulin phylogenies support a close relationship between the microsporidia Brachiola algerae and Antonospora locustae. J. Eukaryot. Microbiol. 55, 388-392. (PDF)

Williams, B. A., Lee, R. C., Becnel, J. J., Weiss, L. M., Fast, N. M., and Keeling, P. J. 2008. Genome sequence surveys of Brachiola algerae and Edhazardia aedis reveal microsporidia with low gene densities. BMC Genomics 9, 200. (PDF)

Corradi, N. Burri, L., and Keeling, P.J. 2008. mRNA processing in Antonospora locustae spores. Mol. Gen. Genom., 280, 565-574. (PDF)

Lee, S. C., Corradi, N., Byrnew, E. J., Torres-Martinez, S., Dietrich, F. S., Keeling, P.J., and Heitman, J. 2008. Microsporidia evolved from ancestral sexual fungi. Curr. Biol. 18, 1675-1679. (PDF)

Keeling, P. J. and Archibald, J. M. 2008. Organelle evolution: what's in a name? Curr. Biol. 18, R345-347. (PDF)

McEwan, M. L., Humayun, R., Slamovits, C. H. and Keeling, P. J. 2008. Nuclear genome sequence survey of the dinoflagellate Heterocapsa triquetra. J. Eukaryot. Microbiol., 55(6), 530-535. (PDF)

Gile, G. H. and Keeling, P. J. 2008. Nucleus-encoded periplastid-targeted EFL in chlorarachniophytes. Mol. Biol. Evol., 25(9):1967-1977. (PDF)

Keeling, P. J. and Palmer, J. D. 2008. Horizontal gene transfer in eukaryotic evolution. Nat. Rev. Genet., 9, 605-618. (PDF)

Slamovits, C. H. and Keeling, P. J. 2008. Widespread recycling of processed cDNAs in dinoflagellates. Curr. Biol. 18, R550-R552. (PDF)

Slamovits, C. H., Keeling, P. J. 2008. Plastid-derived genes in the non-photosynthetic alveolate Oxyrrhis marina. Mol. Biol. Evol. 25, 1297-1306. (PDF)

Williams, B. A. P., Cali, A., Takvorian, P. M. and Keeling, P. J. 2008. Distinct localization patterns of two putative mitochondrial proteins in the microsporidian Encephalitozoon cuniculi. J. Eukaryot. Microbiol. 55, 131-133. (PDF)

Corradi, N., Gangaeva, A., and Keeling, P. J. 2008. Comparative profiling of overlapping transcription in the compacted genomes of microsporidia Antonospora locustae and Encephalitozoon cuniculi. Genomics 91, 388-893. (PDF)

Williams, B. A. P., Haferkamp, I. and Keeling, P. J. 2008. An ADP/ATP mitochondrial carrier protein in the microsporidian Antonospora locustae. J. Mol. Biol. 375, 1249-1257. (PDF)

Carpenter, K. J., Waller, R. F. and Keelilng, P. J. 2008. Surface morphology of Saccinobaculus (Oxymonadida): implications for character evolution and function in oxymonads. Protist, 159, 209-221. (PDF)

Keeling, P. J. 2008. Evolutionary biology - Bridge over troublesome plastids. Nature 451, 896-897. (PDF)


2007


Corradi, N., Akiyoshi, D. E., Morrison, H. G., Fend, X., Weiss, L. M., Tzipori, S., & Keeling, P. J. 2007. Patterns of genome evolution between the compacter genomes of the microsporidian parasites Encephalitozoon cuniculi, Antonospora locustae and Enterocytozoon bieneusi. PLoS One. 2(12): e1277. (PDF)

de Koning, A. P., Noble, G. P. Wong, J. Heiss, A. A., and Keeling, P. J. 2007. Envronmental PCR survey to determine the distribution of a non-canonical genetic code in uncultivable oxymonads. Env. Microbiol., 10(1), 65-74. (PDF)

Noble, G. P. Rogers, M. B. & Keeling, P. J. 2007. Complex distribution of EFL and EF-1alpha proteins in the green algal lineage. BMC Evol. Biol. 7, 82. (PDF)

Imanian, B. and Keeling, P. J. 2007. The dinoflagellates Durinskia baltica and Kryptoperidinium foliaceum retain functionally overlapping mitochondria from two evolutionarily distinct lineages. BMC Evol. Biol. 7, 172. (PDF)

Jackson, C., Norman, J. E., Schnare, M. N., Gray, M. W., Keeling, P. J. and Waller, R. F. 2007. Broad genomic and transcriptional analysis reveals a highly derived genome in dinoflagellate mitochondria. BMC Biol. 5, 41. (PDF)

Keeling, P. J. 2007. Deep questions in the tree of life. Science 317, 1875-1876. (PDF)

Slamovits, C. H., Saldarriaga, J. F., Larocque, A. and Keeling, P. J. 2007. The highly reduced and fragmented mitochondrial genome of the early-branching dinoflagellate Oxyrrhis marina shares characteristics with both apicomplexan and dinoflagellate mitochondrial genomes. J. Mol. Biol. 372, 356-368. (PDF)

Rogers, M. B., Patron, N. J. and Keeling, P. J. Horizontal transfer of a eukaryotic plastid-targeted protein to cyanobacteria. BMC Biol. 5, 26. (PDF)

Rogers, M. B., Watkins, R. F., Harper, J. T., Durnford, D. G., Gray, M. W. and Keeling, P. J. 2007. A complex distribution of three eukaryotic genes derived by lateral gene transfer. BMC. Evol. Biol. 7, 89. (PDF)

Patron, N. J., Inagaki, Y., and Keeling, P. J. 2007. Multiple gene phylogenies support the monophyly of cryptomonad and haptophyte host lineages. Curr. Biol. 17, 887-891. (PDF)

Rogers, M. B., Gilson, P. R., Su, V., McFadden, G. I. and Keeling, P. J. 2007. The complete chloroplast genome of the chlorarachniophyte Bigelowiella natans: evidence for independent origins of chlorarachniophyte and euglenid secondary endosymbionts. Mol. Biol. Evol. 24, 54-62. (PDF)

Keeling, P. J. 2007. Ostreococcus tauri: seeing though the genes to the genome. Trends Genet. 23, 151-154. (PDF)

Akiyoshi, D. E., Weiss, L. M., Feng, X., Williams, B. A. P., Keeling, P. J., Zhang, Q. & Tzipori, S. 2007. Analysis of the beta-tubulin genes from Enterocytozoon bieneusi isolates from human and rhesus macaque. J. Eukaryot. Microbiol. 54, 38-41. (PDF)

Burri, L. and Keeling, P. J. 2007. Protein targeting to cryptic mitochondria of parasitic protists. Int. J. Parasitol. 37, 265-272. (PDF)

Imanian, B., Carpenter, K. J. & Keeling P. J. 2007. The mitochondrial genome of a tertiary endosymbiont retains gene for electron transport proteins. J. Eukaryot. Microbiol. 54, 146-153. (PDF)

Koziol, A., Borza, T., Ishida, K.-I., Keeling, P. J., Lee, R. W. and Durnford, D. G. 2007. Tracing the evolution of the light-harvesting antennae in chlorophyll a/b-containing organisms. Plant Physiol. 143, 1802-1816. (PDF)

Carpenter, K. J and Keeling, P. J. 2007. Morphology and phylogenetic position of Eucomonympha imla (Parabasalia: Hypermastigida). J. Eukaryot. Microbiol. 54, 263-270. (PDF)

Noble, G. P., Rogers, M. B. and Keeling, P. J. 2007. Complex distribution of EFL and EF-1a proteins in the green algal lineage. BMC Evol. Biol. 7, 82. (PDF)


2006


Gile, G. H., Patron, N. J. and Keeling, P. J. 2006. EFL GTPase and the distribution of EFL and EF-1a in chromalveolates. Protist, 157, 435-444. (PDF)

Heiss, A. A. & Keeling, P. J. 2006. The phylogenetic position of the oxymonad Saccinobaculus based on SSU rRNA. Protist, 157, 335-344. ( PDF)

Eisen, J. A., Wu, M., Wu, D., Thiagarajan, M., Wortman, J., Badger, J. H., Ren, Q., Amedeo, P., Jones, K. M., Tallon, L. J., Delcher, A. L., Salzberg, S. L., delToro, C., Ryder, H. F., Williamson, S. C., Barbeau, R. A., Silva, J. C., Haas, B. J., Mahoros, W. H., Farzad, M., Carlton, J. M., Garg, J., Pearlman, R. E., Karrer, K. M., Sun, L., Smith, R. K., Manning, G., Elde, N. C., Turkewitz, A. P., Asai, D. J., Wilkes, D. E., Wang, Y., Cai, H., Collins, K., Wilamoqska, K., Ruzzo, W. L., Weinberg, Z., Stewart, B. A., Lee, S. R., Wloga, D, Rogowski, K., Frankel, J., Gaertig, J., Tsao, C. C., Gorovsky, M. A., Keeling, P. J., Waller, R. F., Patron, N. J., Cherry, J. M., Stover, N. A., Krieger, C. J., Hamilton, E. P., Orias, E. Coyne, R. S. 2006. Macronuclear genome sequence of the ciliate Tetrahymean thermophila, a model eukaryote. PLoS Biology. 4, e268. (PDF)

Waller, R. F. & Keeling, P. J. 2006. Alveolate and chlorophycean mitochondrial cox2 split twice independently. Gene 383, 33-37. (PDF)

Gould, S. B., Sommer, M. S., Kroth, P., Gile, G. H., Keeling, P. J., & Maier, U.-G. 2006. Nucleus-to-nucleus gene transfer and protein retargeting into a remnant cytoplasm of cryptophytes and diatoms. Mol. Biol. Evol. 23, 2413-2422. (PDF)

Burri, L. Williams, B. A. P., Bursac, D. Lithgow, T. & Keelilng, P. J. 2006. Progressive reduction of complexity in the mitosomal targeting machinery of microsporidian parasites. Proc. Natl. Acad. Sci. USA 103, 15916-15920. (PDF)

Waller, R. F., Slamovits, C. H. & Keeling, P. J. 2006. Lateral transfer of a multigene region from cyanobacteria to dinoflagellates resulting in a novel plastid-targeted fusion protein. Mol. Biol. Evol., 23, 1437-1443. (PDF)

Slamovits, C. H., Burri, L., and Keeling, P. J. 2006. Characterisation of a divergent Sec61beta in microsporidia. J. Mol. Biol., 359, 1196-1202. (PDF)

Gilson, P. R., Su, V., Slamovits, C. H., Reith, M. E., Keeling, P. J. & McFadden, G. I. 2006. Complete nucleotide sequence of the chlorarachniophyte nucleomorph: Natureís smallest nucleus. Proc. Natl. Acad. Sci. USA, 103, 9566-9571. (PDF)

Patron, N. J., Rogers, M. B. and Keeling, P. J. 2006. Comparative rates of evolution in endosymbiotic nuclear genomes. BMC Evol. Biol., 6, 46. (PDF)

Waller, R. F., Patron, N. J., & Keeling, P. J. 2006. Phylogenetic history of plastid-targeted proteins in peridinin-containing dinoflagellates. Int. J. System. Evol. Microbiol. 56, 1429-1447.( PDF)

Keeling, P. J. & Brugerolle, G. 2006. Evidence from SSU rRNA phylogeny that Octomitus is a sister lineage to Giardia. Protist, 157, 205-212. (PDF)

Slamovits, C. H. & Keeling, P. J. 2006. A high density of ancient spliceosomal introns in oxymonad excavates. BMC Evol. Biol., 6, 34. (PDF)

De Koning, A. P. & Keeling, P. J. 2006. The complete plastid genome sequence of the parasitic green alga Helicosporidium is highly reduced and structured. BMC Biology. 4, 12. (PDF)

Patron, N. J., Waller, R. W. & Keeling, P. J. 2006. A tertiary plastid uses genes from two endosymbionts. J. Mol. Biol. 357, 1373-1382.( PDF)

Slamovits, C. H. & Keeling, P. J. 2006. Pyruvate-phosphate dikinase from the oxymonad Streblomastix strix and the evolution of pyrophosphate-dependent glycolysis in anaerobic eukaryotes. Eukaryot. Cell , 5, 148-154. (PDF)


2005


Keeling, P.J., Burger, G., Durnford, D.G., Lang, B.F., Lee, R.W., Pearlman, R.E., Roger, A.J., and Gray, M.W. 2005. The tree of eukaryotes. Trends in Ecology and Evolution, 20(12), 670-676. (PDF)

Keeling, P.J. and Slamovits, C.H. 2005. Causes and effects of nuclear genome reduction. Curr. Opin. Genet. Dev. 15(6), 601-608. (PDF)

Patron, N. J. and Keeling, P. J. 2005. Common evolutionary origin of starch biosynthetic enzymes in green and red algae. J. Phycol. 41, 1131-1141. (PDF)

Williams, B. A. P., Slamovits, C. H., Patron, N. J., Fast, N. M., and Keeling, P. J. 2005. A high frequency of overlapping gene expression in compacted eukaryotic genomes. Proc. Natl. Acad. Sci. USA 102 , 10936-10941. (PDF)

Takishita, K., Patron, N. J., Ishida, K.-I., Maruyama, T., and Keeling, P. J. 2005. A transcriptional fusion of genes encoding glyceraldehydes-3-phosphate dehydrogenase (GAPDH) and enolase in dinoflagellates. J. Eukaryot. Microbiol. 52 , 343-348. (PDF)

Williams, B. A. P. and Keeling, P. J. 2005. Microsporidian m itochondrial proteins: expression in Antonospora locustae spores and identification of two novel genes. J. Eukaryot. Microbiol. 52 , 271-276. (PDF)

Patron, N. J., Waller, R. F., Archibald, J. M. and Keeling, P. J. 2005. Complex protein targeting to dinoflagellate plastids. J. Mol. Biol. 348 , 1015-1024. (PDF)

de Koning, A. P., Tartar, A., Boucias, D. G., and Keeling, P. J. 2005. Expressed sequence tag (EST) survey of the highly adapted green algal parasite, Helicosporidium. Protist 156 , 181-190. (PDF)

Keeling, P. J., Williams, B. A. P., Law, J., Fast, N. M., and Slamovits, C. H. 2005. Comparative genomics of microsporidia. Folia Parasitol. 52 , 8-14. (PDF)

Harper, J. T., Waanders, E. & Keeling, P. J. 2005. On the monophyly of chromalveolates using a six-protein phylogeny of eukaryotes. Int. J. System. Evol. Microbiol., 55, 487-496. (PDF)

Likic, V. A., Perry, A. Hulett, J., Derby, M., Traven, A., Waller, R. F., Keeling, P. J., Koehler, C. M., Curran, S. P., Gooley, P. R., and Lithgow, T. 2005. Patterns that define the four domains conserved in known and novel isoforms of the protein import receptor Tom20. J. Mol. Biol. 347, 81-93. (PDF)


2004


Keeling, P J., Archibald, J. M., Fast, N. M. and Palmer, J. D. 2004. The evolution of modern eukaryotic phytoplankton. Science, 306, 2191. (PDF)

McEwan, M. L. and Keeling, P. J. 2004. HSP90, tubulin and actin are retained in the tertiary endosymbiont genome of Kryptoperidium foliaceum. J. Eukaryot. Microbiol. 51, 651-659. (PDF)

Keeling, P. J. and Slamovits, C. H. 2004. Simplicity and complexity of microsporidian genomes. Eukaryotic Cell 3 , 1363-1369. (PDF)

Keeling, P. J. and Inagaki, Y. 2004. A class of eukaryotic GTPase with a punctate distribution suggestiong multiple functional replacements of translation elongation factor-1 alpha. Proc. Natl. Acad. Sci. USA 101 , 15380-15385. (PDF)

Patron, N. J., Rogers, M. B. and Keeling, P. J. 2004. Gene replacement of fructose-1,6-bisphophate aldolase supports the hypothesis of a single photosynthetic ancestor of chromalveolates. Eukaryot. Cell. 3 , 1169-1174. (PDF)

de Koning, A. P. & Keeling, P. J. 2004. Nucleus-encoded plastid-targeted genes in Helicosporidium:functional diversity of a cryptic plastid in a parasite. Eukaryot. Cell, 3, 1198-1205. (PDF)

Rogers. M. B., Archibald, J. M., Field, M. A., Li, C, Striepen, B. & Keeling, P. J. 2004. Plastid-targeting peptides from the chlorarachniophyte Bigelowiella natans. J. Eukaryot. Microbiol., 51 , 529-535. (PDF)

Harper, J. T. & Keeling, P. J. 2004. Lateral transfer and the complex distribution of insertions in eukaryotic enolases. Gene, 340 , 227-235. (PDF)

Keeling, P. J. 2004. Diversity and evolutionary history of plastids and their hosts. Am. J. Bot., 91, 1481-1493. (PDF)

Slamovits, C. H. and Keeling, P. J. 2004. Class II photolyase in a microsporidian intracellular parasite. J. Mol. Biol., 341 , 713-721. (PDF)

Rogers, M. B. & Keeling, P. J. 2004. Lateral transfer and re-compartmentalisation in Calvin cycle enzymes in plants and algae. J. Mol. Evol., 58 , 367-375. (PDF)

Leander, B. S. & Keeling, P. J. 2004. Symbiotic innovation in the oxymonad Streblomastix strix. J. Eukaryot. Microbiol., 51 , 291-300. (PDF)

Slamovits, C. H., Fast, N. M., Law, J. S. & Keeling, P. J. 2004. Genome compaction and stability in microsporidian intracellular parasites. Curr. Biol., 14 , 891-896. (PDF)

Leander, B. S. & Keeling, P. J. 2004. Early evolution of dinoflagellates and apicomplexans inferred from HSP90 and actin phylogeny. J. Phycol., 40 , 341-250. (PDF)

Keeling, P. J. 2004. Polymorphic insertions and deletions in parabasalian enolase genes. J. Mol. Evol., 58 , 550-556. (PDF)

Archibald, J. M. & Keeling, P. J. 2004. The evolutionary history of plastids: a molecular phylogenetic perspective. In. Organelles, Genomes and Eukaryote Evolution. Hirt, R. P. & Horner, D. (eds.), Taylor & Francis, London. Pp. 55-74.

Keeling, P. J. 2004. Reduction and compaction in the genome of the apicomplexan parasite, Cryptosporidium parvum. Develop. Cell, 6 , 614-616. (PDF)

Gerbod, D., Sanders, E., Moriya, S., Noël, C. Takasu, H., Fast, N. M., Delgado-Viscogliosi, P., Ohkuma, M. Judo, T., Capron, M., Palmer, J. D., Keeling, P. J. & Viscogliosi, E. 2004. Molecular phylogenies of Parabasalia inferred from four protein genes and comparison with rRNA trees. Mol. Phyl. Evol., 31 , 572,580. (PDF)

Archibald, J. M. & Keeling, P. J. 2004. Actin and ubiquitin protein sequences support a cercozoan/foraminieran ancestryfor the plasmodiophorid plant pathogens. J. Eukaryot. Microbiol. 51 , 113-118. (PDF)

Saldarriaga, J. F., Taylor, F. J. R., Cavalier-Smith, T., Menden-Deuer, S., & Keeling, P. J. 2004. Molecular data and the evolutionary history of dinoflagellates. Europ. J. Protistol., 40 , 85-111. (PDF)

Slamovits, C. S., Williams, B. A. P., and Keeling, P. J. 2004. Transfer of Nosema locustae (Microsporidia) to Antonospora locustae n. com. based on molecular and ultrastructural data. J. Eukaryot. Microbiol. 51 , 207-213. (PDF)

Keeling, P. J. 2004. A brief history of plastids and their hosts. Protist. 155 , 3-7. (PDF)

Leander, B. S., Harper, J. T. & Keeling, P. J. 2004. Molecular phylogeny and surface morphology of marine aseptate gregarines (Apicomplexa): Selenidium and Lecudina. J. Parasitol., 89 , 1191-1205. (PDF)


2003


Leander, B. S., Kuvardine, O. N., Aleshin, V. V., Myl'nikov, A. P., & Keeling, P. J. 2003 . Molecular phylogeny and surface morphology of Colpodella edax (Alveolata): insights into the phagotrophic ancestry of apicomplexans. J. Eukaryot. Microbiol. 50 , 334- 340. (PDF)

Fast, N. M., Law, J. S., Williams, B. A. P. & Keeling, P. J. 2003. A bacterial gene for catalase in the microsporidian Nosema locustae: implications for microsporidian metabolism and genome evolution. Eukaryot. Cell, 2 , 1069-1075. (PDF)

Longet, D., Archibald, J. M., Keeling, P. J. & Pawlowski, J. 2003. Foraminifera and Cercozoa share a common origin according to RNA polymerase II phylogenies. Int. J. Syst. Evol. Microbiol. 53 , 1735 - 1739. (PDF)

Harper, J. T. & Keeling, P. J. 2003. Nucleus-encoded, plastid-targeted glyceraldehyde-3-phosphate dehydrogenase (GAPDH) indicates a single origin for chromalveolate plastids. Mol. Biol. Evol. 20 , 1730-1735. (PDF)

Archibald, J. M., Rogers, M. B., Toop, M., Ishida, K.-I. & Keeling, P. J. 2003. Lateral gene transfer and the evolution of plastid-targeted proteins in the secondary plastid-containing alga, Bigelowiella natans. Proc. Natl. Acad. Sci. USA. 100 , 7678-7683. (PDF) (Commentary)

Waller, R. F., Keeling, P. J., van Dooren, G. & McFadden, G. I. 2003. The origin of the apicomplexan plastid: a response from the red corner. Science, 301 , 49A. (PDF)

Williams, B. A. P. & Keeling, P. J. 2003. Cryptic organelles in parasitic protists and fungi. Adv. Parasitol., 54 , 9-67. (PDF)

Leander, B. S. & Keeling, P. J. 2003. Morphostasis in alveolate evolution. Trends Ecol. Evol., 18, 395-402. (PDF)

Ryall, K. Harper, J. T. & Keeling, P. J. 2003. Plastid-derived Type II fatty acid biosynthetic enzymes in chromists. Gene 313 , 139-148. (PDF)

Archibald, J. M., Teh, E. M. & Keeling, P. J. 2003. Novel ubiquitin fusion proteins: ribosomal protein P1 and actin. J. Mol. Biol., 328 , 771-778. (PDF)

Keeling, P. J. 2003. Congruent evidence from alpha-tubulin and beta-tubulin gene phylogenies for a zygomycete origin of microsporidia. Fung. Genet. Biol., 38 , 298-309. (PDF)


2002


Saldarriaga, J. F., Leander, B. S., Taylor, F. J. R., & Keeling, P. J. 2002. Lessardia elongata gen. et sp. nov. (Dinoflagellata, Peridiniales, Podolampaceae) and the taxonomic position of the genus Roscoffia. J. Phycol. 39 , 368-379. (PDF)

Keeling, P. J. & Leander, B. S. 2003. Characterisation of a non-canonical genetic code in the oxymonad Streblomastix strix. J. Mol. Biol., 326 , 1337-1349. (PDF)

Archibald, J. M., Longet, D., Pawlowski, J. & Keeling, P. J. 2002. A novel polyubiquitin structure in Cercozoa and Foraminifera: evidence for a new eukaryotic supergroup. Mol. Biol. Evol. 20 , 62-66. (PDF)

Archibald, J. M & Keeling, P. J. 2002. Plant genomes: cyanobacterial genes revealed. Heredity 90 , 2-3. (PDF)

Kuvardina, O. N., Leander, B. S., Aleshin, V. V., Myl'nikov, A. P., Keeling, P. J., and Simdyanov, T. G. 2002. Phylogeny of colpodellids (Alveolata) as inferred from small subunit rRNA gene sequences. J. Eukaryot. Microbiol., 49 , 498-504. (PDF)

Saldarriaga, J. F., McEwan, M. L., Fast, N. M., Taylor, F. J. R., & Keeling, P. J. 2002. Multiple protein phylogenies show that Oxyhrris marina and Perkinsus marinus are early branches of the dinoflagellate lineage. Int. J. Sys. Evol. Microbiol., 53 , 355-365. (PDF)

Leander, B. S., Clopton, R. E. & Keeling, P. J. 2002. Phylogeny of gregarines (Apicomplexa) as Inferred from SSU rDNA and ß-Tubulin. Int. J. System. Evol. Microbiol, 53 , 345-354. (PDF)

Leander, B. S., Saldarriaga, J. F., & Keeling, P. J. 2002. Surface morphology of the marine parasite Haplozoon axiothellae Siebert (Dinoflagellata). Eur. J. Protistol. 38 , 287-298. (cover) (PDF)

Keeling, P. J. 2002. Molecular phylogenetic position of Trichomitopsis termopsidis (Parabasalia) and evidence for the Trichomitopsiinae. Eur. J. Protistol., 38 , 279-286. (PDF)

Archibald, J. M. & Keeling, P. J. 2002. Recycled plastids: a "green movement" in eukaryotic evolution. Trends Genet., 18 , 577-584. (PDF)

Brinkman,F.S.L., Blanchard, J.L., Cherkasov, A., Av-Gay, Y., Brunham, R.C., Fernandez, R.C., Finlay, B.B., Otto, S.P., Ouellette, B.F.F., Keeling, P. J., Rose, A.M., Hancock, R.E.W. and Jones, S.J.M. 2002. Evidence that plant-like genes in Chlamydia species reflect an ancestral relationship between Chlamydiaceae, cyanobacteria and the chloroplast. Genome Research. 12, 1-9. (PDF)

Keeling, P. J. & Fast, N. M. 2002. Microsporidia: Biology and evolution of highly reduced intracellular parasites. Ann. Rev. Microbiol. 56 , 93-116. (PDF)


2001


Keeling, P. J. 2001. Parasites go the Full Monty. Nature 414 , 401-402. (PDF)

Fast, N. M., Xue, L., Bingham, S. & Keeling, P. J. 2001. Re-examining Alveolate Phylogeny Using Multiple Protein Molecular Phylogenies . J. Eukaryot. Microbiol. 49, 30-37. (PDF)

Fast, N. M. & Keeling, P. J. 2001. Alpha and beta subunits of pyruvate dehydrogenase E1 from the microsporidian Nosema locustae: Mitochondrion-derived carbon metabolism in microsporidia. Mol. Biochem. Parasitol. 117 , 201-209. (PDF)

Keeling, P. J. & Palmer, J. D. 2001. Lateral transfer at the gene and subgenic levels in the evolution of eukaryotic enolase. Proc. Natl. Acad. Sci. USA 98 , 10745-10750. (PDF).

Saldarriaga, J. F., Taylor, F. J. R., Keeling, P. J. & Cavalier-Smith, T. 2001. Dinoflagellate 18S rRNA phylogeny suggests multiple plastid losses and replacements. J. Mol. Evol. 53 , 204-213. (PDF)

Qian, Q. & Keeling, P. J. 2001, Diplonemid glyceraldehyde-3phosphate dehydrogenase (GAPDH) and prokaryote-to-eukaryote lateral gene transfer. Protist 152 , 193-201. (PDF)

Fast, N. M., & Keeling, P. J. 2001. A common origin for alveolate and heterokont plastids. (translated to Japanese by K. Ishida) Jpn. J. Phycol. 49 , 137-140.

Keeling, P. J. 2001. Foraminifera and Cercozoa are related in actin phylogeny: Two orphans find a home? Mol. Biol. Evol. 18 , 1551-1557. (PDF)

Fast, N. M., Kissinger, J. C., Roos, D. S., & Keeling, P. J. 2001. Nuclear-encoded, plastid-targeted genes suggest a single common origin for apicomplexan and dinoflagellate plastids. Mol. Biol. Evol., 18 , 418-426. (PDF)

Frankel, J. Williams, N. E., Nelsen, E. M. & Keeling, P. J. 2001. An evaluation of Hsp90 as a mediator of cortical patterning in Tetrahymena. J. Eukaryot. Microbiol. 48 ,147-168. (PDF)


2000


de Koning, A. P., Brinkman, F., Jones, S. & Keeling, P. J. 2000. Lateral gene transfer and metabolic adaptation in the human parasite Trichomonas vaginalis. Mol. Biol. Evol. 17 , 1769-1773. (Citation) (PDF)

Stibitz, T. A., Keeling, P. J., & Bhattacharya, D. 2000. Symbiotic origin of a novel actin gene in the cryptophyte Pyrenomonas helgolandii. Mol. Biol. Evol. 17 , 1731-1738. (Abstract) (PDF)

Keeling, P. J. & Palmer, J. D. 2000. Parabasalian flagellates are ancient eukaryotes. Nature 405 , 635-63. (Citation) (PDF)

Keeling, P. J., Luker, M. A. & Palmer, J. D. 2000. Evidence from beta-tubulin that microsporidia evolved from fungi. Mol. Biol. Evol. 17 , 1-9. (Abstract) (PDF)


1999


Keeling, P. J., Palmer, J. D., Donald, R. G. K., Roos, D. S., Waller, R. F., & McFadden, G. I. 1999. Shikimate in Apicomplexa. Nature 397 , 219-220. (Citation) (PDF)

Keeling, P. J., Deane, J. A., Hink-Schauer, C., Douglas, S., Maier, U.-G. & McFadden, G.I. 1999. The secondary symbiont of the cryptomonad Guillardia theta contains alpha, beta, and gamma-tubulins. Mol. Biol. Evol. 16 , 1308-1313. (Abstract) (PDF)


1998


P. J., Poulson, N. & McFadden, G.I. 1998. Phylogenetic diversity of parabasalian symbionts from dry-wood and damp-wood termites, and the phylogentic place of Pseudotrypanosoma giganteum and Trichonympha magna. J. Eukaryot. Microbiol. 45 , 643-650. (Abstract)

Keeling, P. J. & McFadden, G. I. 1998. Origins of microsporidia. Trends Microbiol. 6 , 19-23. (Citation) (PDF)

Waller, R. F., Keeling, P. J., Donald, R. G. K., Striepen, B., Handman, E., Lang- Unnasch, N., Cowman, A. F., Besra, G. S., Roos, D. S. & McFadden, G. I. 1998. Nuclear-encoded proteins target to the plastid in Toxoplasma gondii and Plasmodium falciparum. Proc. Natl. Acad. Sci. USA 95 , 12352-12357. (Abstract) (PDF)

Keeling, P. J., Fast, N. M. & McFadden, G. I. 1998. Evolutionary relationship between translation initiation factor eIF-2 gamma and selenocysteine- specific elongation factor SELB: Change of function in translation factors. J. Mol. Evol. 47 , 649-655. (Abstract) (PDF)

Keeling, P. J., Deane, J. A. & McFadden, G.I. 1998. The phylogenetic position of alpha- and beta-tubulins from the Chlorarachnion host and Cercomonas (Cercozoa).J. Eukaryot. Microbiol. 45 , 561-570. (Abstract)

Keeling, P. J. 1998. A Kingdom's progress: Archezoa and the origin of eukaryotes. BioEssays 20 , 87-95. (PDF)

Keeling, P. J., Klenk, H.-P., Singh, R. K., Schenk, M. E., Sensen, C. W., Zillig, W. & Doolittle, W. F. 1998. Sulfolobus islandicus plasmids pRN1 and pRN2 share distant but common evolutionary ancestry. Extremophiles 2 , 391-393. (Abstract) (PDF)


1997


Keeling, P. J. & Doolittle, W. F. 1997. Evidence that eukaryotic triosephosphate isomerase is of alpha-proteobacterial origin. Proc. Natl. Acad. Sci. USA 94 , 1270-1275. (Abstract) (PDF)

Keeling, P. J. & Doolittle, W. F. 1997. Widespread and ancient distribution of a noncanonical genetic code in diplomonads. Mol. Biol. Evol. 14 , 895-901. (Abstract) (PDF)

Keeling, P. J. 1997. Why TAR for glutamine? J. Mol. Evol. 45 , 207-208. (PDF)


1996


Keeling, P. J. & Doolittle, W. F. 1996. A non-canonical genetic code in an early- diverging eukaryotic lineage. EMBO J. 15 , 2285-2290. (Abstract) (PDF)

Keeling, P. J. & Doolittle, W. F. 1996. Alpha-tubulins from early-diverging lineages: The divergence and evolution of the tubulin family. Mol. Biol. Evol. 13 , 318-326. (Abstract) (PDF)

Keeling, P. J., Doherty-Kirby, A. L., Teh, E. M. & Doolittle, W. F. 1996. Linked genes for calmodulin and E2 ubiquitin-conjugating enzyme in Trichomonas vaginalis. J. Eukaryot. Microbiol. 43 , 468-474. (Abstract)

Keeling, P. J., Baldauf, S. L., Doolittle, W. F., Zillig, W. & Klenk, H.-P. 1996. An infB-homologue in Sulfolobus acidocaldarius. System. App. Microbiol. 19 , 312-321.

Keeling. P. J. & Logsdon, J. M. Jr. 1996. Highly-divergent Caenorhabditis and Saccharomyces tubulins evolved recently from gamma-tubulin genes. Trends Cell Biol. 6 , 375. (PDF)

Keeling, P. J., Klenk, H.-P., Singh, R. K., Feeley, O., Schleper, C., Zillig, W., Doolittle, W. F. & Sensen, C. W. 1996. Complete nucleotide sequence of the Sulfolobus islandicus multicopy plasmid pRN1. Plasmid 35 , 41-144. (Abstract) (PDF)

Keeling, P. J. & Doolittle, W. F. 1996. Methionine aminopeptidase-1: The MAP of the mitochondrion? Trends Biochem. Sci. 21 , 285-286. (Citation) (PDF)


1995


Keeling, P. J. & Doolittle, W. F. 1995. Archaea: Narrowing the gap between prokaryotes and eukaryotes. Proc. Natl. Acad. Sci. USA 92 , 5761-5764. (Citation) (PDF)

 Keeling, P. J. & Doolittle, W. F. 1995. Concerted evolution in protists: A polyubiquitin gene from Trichomonas vaginalis. J. Mol. Evol. 41 , 556- 562. (Abstract)

Keeling, P. J. & Roger, A. J. 1995. The selfish pursuit of sex. Nature 375 , 283. (Citation)

Keeling, P. J. & Doolittle, W. F. 1995. An archaebacterial eIF-1A: New grist for the mill. Mol. Microbiol. 17 , 399-400. (Citation)


1994


Keeling, P. J., Charlebois, R. L. & Doolittle, W. F. 1994. Archaebacterial genomes: Eubacterial form, eukaryotic content. Curr. Opin. Genet. Dev. 4 :816-822. (Citation)

Roger, A. J., Keeling, P. J. & Doolittle, W. F. 1994. Introns, the broken transposons. Soc. Gen. Physiol. Ser. 49 , 27-37. (Citation)