6. Publications

2018 Pedrós-Alió, C., Acinas, S.G., Logares, R., and Massana, R. The HTS contribution to marine microbial diversity. Chapter 3 In J.M. Gasol and D. Kirchman (eds.) Microbial Ecology of the Oceans, 3rd edition, in press.

2017 Brussaard, Corina P.D., Kay D. Bidle, Carlos Pedrós-Alió, and Catherine Legrand (2016) The interactive microbial ocean. Nature Microbiology, article 16255, DOI: 10.1038/nmicrobiol.2016.255 2: 1-2. Cobo-Simón, M., Tamames, J. (2017). Relating genomic characteristics to environmental preferences and ubiquity in different microbial taxa. BMC Genomics, 18 (1), art. no. 499.DOI: 10.1186/s12864-017-3888-y. Pedrós-Alió, Carlos (2017) Bajo la piel del océano. Plataforma Editorial, Barcelona. Royo-Llonch, Marta, Ferrera I, Cornejo-Castillo FM, Sánchez P, Salazar G, Stepanauskas R, González JM, Sieracki, ME, Speich, S, Stemmann, L, Pedrós-Alió C and Acinas SG. (2017) Exploring microdiversity in novel Kordia spp. (Bacteroidetes) with proteorhodopsin from the tropical Indian Ocean via single amplified genomes. Frontiers in Microbiology, 8: article 1317: 1-14. doi: 10.3389/fmicb.2017.01317.

2016 Aguirre de Cárcer, Daniel, Carlos Pedrós-Alió, David A.Pearce and Antonio Alcamí (2016) Composition and Interactions among Bacterial, Microeukaryotic, and T4-like Viral Assemblages in Lakes from Both Polar Zones. Frontiers in Microbiology doi: 10.3389/fmicb.2016.00337 7: 1-11. Barbosa, Andrés, Vanessa Balagué, Francisco Valera, Ana Martínez, Jesús Benzal, Miguel Motas, Julia I. Diaz, Alex Mira, Carlos Pedrós-Alió (2016) Age- Related Differences in the Gastrointestinal Microbiota of Chinstrap penguins (Pygoscelis antarctica). Plos one e0153215 1: 1-11. Crespo, Bibiana G., Philip J. Wallhead, Ramiro Logares, Carlos Pedrós-Alió (2016) Probing the Rare Biosphere of the North-West Mediterranean Sea: An Experiment with High Sequencing Effort. PLoS ONE e0159195 11: 1-16. Fuentes-Valdés, J.J., Plominsky, A.M., Allen, E.E., Tamames, J., Vásquez, M. (2016). Complete genome sequence of a cylindrospermopsin-producing cyanobacterium, Cylindrospermopsis raciborskii CS505, containing a circular chromosome and a single extrachromosomal element. Genome Announcements, 4 (4), art. no. e00823-16. DOI: 10.1128/genomeA.00823-16 Gasol, J.M., C. Cardelús, X.A.G. Morán, V. Balagué, I. Forn, C. Marrasé, R. Massana, C. Pedrós-Alió, M.M. Sala, R. Simó, D. Vaqué & M. Estrada (2016) Seasonal patterns in phytoplankton photosynthetic parameters and primary production in a coastal NW Mediterranean site. Sci. Mar. doi: 10.3989/scimar.04480.06E 80: 63- 77. Pedrós-Alió, Carlos, Susanna Manrubia (2016) The vast unknown microbial biosphere. Proc. Natl. Acad. Sci. USA, doi/10.1073/pnas.1606105113 113: 6585- 6587. Pinhassi, Jarone, Edward F. DeLong, Oded Béjà, José M. González, Carlos Pedrós-Alió (2016) Marine Bacterial and Archaeal Ion-Pumping Rhodopsins: Genetic Diversity, Physiology, and Ecology. Microbiology and Molecular Biology Reviews 80: 1-26. doi:10.1128/MMBR.00003-16. Retamosa, G., de Pedro, L., González, I., Tamames, J. (2016). Prefiltering model for homology detection algorithms on GPU. Evolutionary Bioinformatics, 12, pp. 313-322. DOI: 10.4137/EBO.S40877 Tamames, Javier, Pablo D. Sánchez, Pablo Iván Nikel, Carlos Pedrós-Alió (2016) Quantifying The Relative Importance Of Phylogeny And Environmental Preferences As Drivers Of Gene Content In Prokaryotic Microorganisms. Frontiers in Microbiology http://dx.doi.org/10.3389/fmicb.2016.00433 7: 1-11. Vaz-Moreira, I., Tamames, J., Martínez, J.L., Manaia, C.M. (2016). Draft genome sequences of two Ralstonia pickettii strains with different aminoglycoside resistance phenotypes. Genome Announcements, 4 (6), art. no. e01257-16. DOI: 10.1128/genomeA.01257-16 Yelton, Alexis P., Silvia G. Acinas, Shinichi Sunagawa, Peer Bork, Carlos Pedrós-Alió, Sallie Chisholm (2016) Global genetic capacity for mixotrophy in marine picocyanobacteria. The ISME journal doi:10.1038/ismej.2016.64 10: 2946-2957.

2015 Nguyen, D., R. Maranger, V. Balagué, M. Coll-Lladó, C. Lovejoy and C. Pedrós-Alió (2015) Winter diversity and expression of proteorhodopsin genes in a Polar Ocean. ISME Journal doi:10.1038/ismej.2015.1 9: 1835-1845. Pedrós-Alió, Carlos (2015) La vida en el hielo marino y en los lagos subglaciares. Drosophila 5: 25-26. Pedrós-Alió, Carlos, Marianne Potvin, Connie Lovejoy (2015) Diversity of planktonic microorganisms in the Arctic Ocean. Progress in Oceanography http://dx.doi.org/10.1016/j.pocean.2015.07.009 139: 233-243.

2014 Alonso-Sáez, Laura, Michael Zeder, Tommy Harding, Jakob Pernthaler, Connie Lovejoy, Stefan Bertilsson, Carlos Pedrós-Alió (2014) Winter awakening of a rare betaproteobacterium in the Arctic Ocean. Frontiers in Microbiology, 5: 1-9. doi: 10.3389/fmicb.2014.00425. Fernández-Gómez B., M. M. Sala, and C. Pedrós-Alió (2014) Seasonal changes in substrate utilization patterns by bacterioplankton in the Amundsen Gulf (western Arctic). Polar Biology 37: 1321-1329. Lekunberri, I., J.M. Gasol, S.G. Acinas, L. Gómez-Consarnau, B.G. Crespo, E.O. Casamayor, R. Massana, C. Pedrós-Alió & J. Pinhassi (2014) The phylogenetic and ecological context of cultured and whole-genome-sequenced marine bacteria in the coastal NW Mediterranean Sea. Syst. Appl. Microbiol. 37: 216-228. Palovaara, Joakim, Neelam Akram, Federico Baltar, Carina Bunse, Jeremy Forsberg, Carlos Pedrós-Alió, José M. González and Jarone Pinhassi (2014) Stimulation of growth by proteorhodopsin phototrophy involves regulation of central metabolic pathways in marine planktonic bacteria. Proceedings of the National Academy of Sciences USA 22: 3650-3658. Pascual-García, A., Tamames, J., Bastolla, U. (2014). Bacteria dialog with Santa Rosalia: Are aggregations of cosmopolitan bacteria mainly explained by habitat filtering or by ecological. BMC Microbiology, 14 (1), art. no. 284. DOI: 10.1186/s12866-014-0284-5 Retamosa, G., de Pedro, L., Gonzalez, I., Tamames, J. (2014). High performance genomic sequencing: A filtered approach. Advances in Intelligent Systems and Computing, 294 (AISC), pp. 129-136. DOI: 10.1007/978-3-319-07581- 5_16

2013 Crespo, Bibiana G., Thomas Pommier, Beatriz Fernández-Gómez, Carlos Pedrós-Alió (2013) Taxonomic composition of the particle attached and free-living bacterial assemblages in the Northwest Mediterranean Sea analyzed by pyrosequencing of the 16S rRNA. Microbioloy open, in press 2: 1-10. Escudero, L.V., E.O. Casamayor, G. Chong, C. Pedrós-Alió & C. Demergasso (2013) Distribution of microbial arsenic reduction, oxidation and extrusion genes along a wide range of environmental arsenic concentrations. PLOS one, e78890 8: 1- 14. Fernández-Gómez, Beatriz, Michael Richter, Margarete Schüler, Jarone Pinhassi, Silvia G Acinas, José M González and Carlos Pedrós-Alió (2013) Ecology of marine Bacteroidetes: a comparative genomics approach. The ISME Journal 7: 1026- 1037. Guazzaroni, M.-E., Herbst, F.-A., Lores, I., Tamames, J., Peláez, A.I., López- Cortés, N., Alcaide, M., Del Pozo, M.V., Vieites, J.M., Von Bergen, M., Gallego, J.L.R., Bargiela, R., López-López, A., Pieper, D.H., Rosselló-Móra, R., Sánchez, J., Seifert, J., Ferrer, M. (2013) Metaproteogenomic insights beyond bacterial response to naphthalene exposure and bio-stimulation. ISME Journal, 7 (1), pp. 122-136. DOI: 10.1038/ismej.2012.82 Higuera, C., Pajares, G., Tamames, J., Morán, F. (2013) Expert system for clustering prokaryotic species by their metabolic features. Expert Systems with Applications, 40 (15), pp. 6185-6194. DOI: 10.1016/j.eswa.2013.05.013 Jiménez, G., Blanch, A.R., Tamames, J., Rosselló-Mora, R. (2013) Complete genome sequence of Bacillus toyonensis BCT-7112T, the active ingredient of the feed additive preparation Toyocerin. Genome Announcements, 1 (6), art. no. e01080-13. DOI: 10.1128/genomeA.01080-13 Jiménez, G., Urdiain, M., Cifuentes, A., López-López, A., Blanch, A.R., Tamames, J., Kämpfer, P., Kolstø, A.-B., Ramón, D., Martínez, J.F., Codoñer, F.M., Rosselló-Móra, R. (2013) Description of Bacillus toyonensis sp. nov., a novel species of the Bacillus cereus group, and pairwise genome comparisons of the species of the group by means of ANI calculations. Systematic and Applied Microbiology, 36 (6), pp. 383-391. DOI: 10.1016/j.syapm.2013.04.008 López-López, A., Richter, M., Peña, A., Tamames, J., Rosselló-Móra, R. (2013) New insights into the archaeal diversity of a hypersaline microbial mat obtained by a metagenomic approach. Systematic and Applied Microbiology, 36 (3), pp. 205-214. DOI: 10.1016/j.syapm.2012.11.008 Mackenzie, Roy, Carlos Pedrós-Alió, Beatriz Díez (2013) Bacterial composition of microbial mats in hot springs in Northern Patagonia: variations with seasons and temperatura. Extremophiles 17: 123-136. Pedrós-Alió, C. & J.M. Gasol (2013) Els bacteris i els arqueus Atles d’Ecosistemes dels Països Catalans. Ed. Enciclopedia Catalana, pp. 126-127. Pedrós-Alió, Carlos (2013) La Vida al Límite CSIC - La Catarata, Madrid. Pedrós-Alió, Carlos (2013) Rare biosphere. Chapter 407 in Levin SA (ed.) Encyclopedia of Biodiversity, second edition vol. 6: 345-351, Waltham, MA: Academic Press Encyclopedia of Biodiversity, Academic Press Tamames, J., Durante-Rodríguez, G. (2013) Taxonomy becoming a driving force in genome sequencing projects. Systematic and Applied Microbiology, 36 (4), pp. 215-217. DOI: 10.1016/j.syapm.2013.01.002 Xavier JC, Barbosa A, Agustí S, Alonso-Sáez L, Duarte CM, Pedrós-Alió C, Vaqué D, et al (2013) Polar marine biology science in Portugal and Spain: Recent advances and future perspectives. Journal of Sea Research 83: 9-29.

2012 Alonso-Sáez, Laura, Alison S Waller, Daniel R Mende, Kevin Bakker, Hanna Farnelid, Patricia Yager, Connie Lovejoy, Jean-Éric Tremblay, Marianne Potvin, Friederike Heinrich, Marta Estrada, Lasse Riemann, Peer Bork, Carlos Pedrós-Alió, Stefan Bertilsson (2012) Role for urea in nitrification by polar marine Archaea. Proceedings of the National Academy of Sciences USA (doi 10.1073/pnas.1201914109) 109: 17989-17994. Díez, B., B. Bergman, C. Pedrós-Alió, M. Antó, P. Snoeijs (2012) High cyanobacterial nifH gene diversity in Arctic seawater and sea ice brine. Environmental Microbiology Reports 4: 360-366. Fernández-Gómez B.,Fernàndez-Guerra A., Casamayor EO., González JM., Pedrós-Alió C., and Silvia G. Acinas (2012) Patterns and Architecture of Genomic Islands in Marine Bacteria. BMC Genomics 13: 347-366. Gasol, J.M., R. Massana, R. Simó, C. Marrasé, S. G. Acinas, C. Pedrós-Alió, C. Pelejero, M. M. Sala, E. Calvo, D. Vaqué, & F. Peters (2012) Blanes Bay (site 55) pp. 138-141 in O’Brien, T. D., Li, W. K. W., and Morán, X. A. G. (Eds). 2012. ICES Phytoplankton and Microbial Plankton Status Report 2009/2010. ICES Cooperative Research Report No. 313. 196 pp. Ghiglione, Jean-François, Pierre E. Galand, Thomas Pommier, Carlos Pedrós- Alió, Elizabeth W Maas, Kevin Bakker, Stefan Bertilson, David L. Kirchman, Connie Lovejoy, Patricia L. Yager, Alison E. Murray (2012) Pole to pole biogeography of surface and deep marine bacterial communities. Proceedings of the National Academy of Sciences USA (doi 10.1073/pnas.1208160109). 109: 17633-17638. Lara, J., L. Escudero, M. Ferrero, G. Chong, C. Pedrós-Alió, C. Demergasso (2012) Enrichment of arsenic transforming and resistant heterotrophic bacteria from sediments of two salt lakes in Northern Chile. Extremophiles 16: 523-538. Pedrós-Alió, C., M. Felip, E.O. Casamayor, J. Catalan & J.M. Gasol (2012) Los amantes del frío: microorganismos en la criosfera. pp. 43-55. en E.O. Casamayor & J.M. Gasol (eds). Microbios en Acción: Biodiversidad invisible con efectos muy visibles. Ed. Los Libros de La Catarata/CSIC. Pedrós-Alió, Carlos (2012) The rare bacterial biosphere. Annual Reviews in Marine Science 4: 449-466. Silovic, Tina, Vanessa Balagué, Sandi Orlic, Carlos Pedrós-Alió (2012) Picoplankton seasonal variation and community structure in the northeast Adriatic coastal zone. FEMS Microbiology Ecology 82: 678-691. Silva-Rocha, R., Tamames, J., de Lorenzo, V. (2012) The Logic of Decision Making in Environmental Bacteria. Biomolecular Information Processing: From Logic Systems to Smart Sensors and Actuators, pp. 279-302. DOI: 10.1002/9783527645480.ch15 Tamames, J., de la Peña, S., de Lorenzo, V. (2012) COVER: A priori estimation of coverage for metagenomic sequencing. Environmental Microbiology Reports, 4 (3), pp. 335-341. DOI: 10.1111/j.1758-2229.2012.00338.x Tamames, J., Rosselló-Móra, R. (2012) On the fitness of microbial taxonomy. Trends in Microbiology, 20 (11), pp. 514-516. DOI: 10.1016/j.tim.2012.08.012

2011 Coll-Lladó, Montserrat, Silvia G. Acinas, Cristina Pujades and Carlos Pedrós- Alió (2011) Transcriptome Fingerprinting Analysis: an Approach to Explore Gene Expression Patterns in Marine Picoeukaryotic Communities PLOS one 6: 22950- 22959. Forest, Alexandre, Jean-Éric Tremblay, Dolors Vaqué, Cèlia Marrasé, Carlos Pedrós-Alió and others (2011) Biogenic carbon flows through the planktonic food web of the Amundsen Gulf (Arctic Ocean): A synthesis of field measurements and inverse modeling analyses Progress in Oceanography 91: 410-436. González, José M., Jarone Pinhassi, Beatriz Fernández-Gómez,Montserrat Coll-Lladó, Mónica González-Velázquez, Pere Puigbò, Sebastian Jaenicke, Laura Gómez-Consarnau, Antoni Fernàndez-Guerra, Alexander Goesmann, and Carlos Pedrós-Alió (2011) Genomics of the Proteorhodopsin-Containing Marine Flavobacterium Dokdonia sp. Strain MED134. Applied and Environmental Microbiology 77: 8676-8686. Pedrós-Alió, C (2011) L'expulsió del paradís: els pinsans de Hawaii i la biologia de la conservació Omnis Cellula 27: 10-16. Pedrós-Alió, C. (2011) Understanding the tsunami of sequences. Crystal Ball Envitonmental Microbiology Reports 3: 18-18. Silva-Rocha, R., de Jong, H., Tamames, J., de Lorenzo, V. (2011) The logic layout of the TOL network of Pseudomonas putida pWW0 plasmid stems from a metabolic amplifier motif (MAM) that optimizes biodegradation of m-xylene. BMC Systems Biology, 5, art. no. 191. DOI: 10.1186/1752-0509-5-191 Silva-Rocha, R., Tamames, J., dos Santos, V.M., de Lorenzo, V. (2011) The logicome of environmental bacteria: Merging catabolic and regulatory events with Boolean formalisms. Environmental Microbiology, 13 (9), pp. 2389-2402. DOI: 10.1111/j.1462-2920.2011.02455.x

2010 Alonso-Sáez, Laura, Pierre E. Galand, Emilio O. Casamayor, Carlos Pedrós- Alió, Stefan Bertilsson (2010) High bicarbonate assimilation in the dark by Arctic bacteria The ISME Journal 4: 1581-1590. Amaral-Zettler, Linda, Felipe Artigas, John Baross, Loka Bharathi, Antje Boetius, Dorairajasingam Chandramohan, Gerhard Herndl, Kazuhiro Kogure, Phillip Neal, Carlos Pedrós-Alió, and 6 other (2010) A global census of marine microbes Chapter 12 in McIntyre (ed) The International census of Marine Life Ferrera, I., R. Massana, V. Balagué, C. Pedrós-Alió, O. Sánchez and J. Mas. 2010. (2010) Evaluation of DNA extraction methods from complex phototrophic biofilms Biofouling 26: 349-357. Gasol, J.M., E.O. Casamayor & C. Pedrós-Alió (2010) Bacteris i arqueus al medi planctònic pp. 92. Història Natural dels Països Catalans. Fauna i Flora Suplement. Ed. Enciclopèdia Catalana. Gerardo, N.M., Altincicek, B., Anselme, C., Atamian, H., Barribeau, S.M., de Vos, M., Duncan, E.J., Evans, J.D., Gabaldón, T., Ghanim, M., Heddi, A., Kaloshian, I., Latorre, A., Moya, A., Nakabachi, A., Parker, B.J., Pérez-Brocal, V., Pignatelli, M., Rahbé, Y., Ramsey, J.S., Spragg, C.J., Tamames, J., Tamarit, D., Tamborindeguy, C., Vincent-Monegat, C., Vilcinskas, A. (2010) Immunity and other defenses in pea aphids, Acyrthosiphon pisum. Genome Biology, 11 (2), art. no. r21. DOI: 10.1186/gb- 2010-11-2-r21 Pedrós-Alió, C. (2010) La diversidá y la importancia ecolóxica de los procariotes pp. 11-35 en “La vida fonda, un océanu de diversidá”. III Día de les Ciencies Asturianes, Gobiernu del Principau d’Astúries, Xixón Pommier, Thomas , P. R. Neal, Josep M. Gasol, Montserrat Coll, Silvia G. Acinas, Carlos Pedrós-Alió (2010) Spatial patterns of bacterial richness and evenness in the NW Mediterranean Sea explored by pyrosequencing of the 16S rRNA Aquatic Microbial Ecology 61: 221-233. Richards, S., Gibbs, R.A., Gerardo, N.M., Moran, N., Nakabachi, A., Stern, D., Tagu, D., Wilson, A.C.C., Muzny, D., Kovar, C., Cree, A., Chacko, J., Chandrabose, M.N., Dao, M.D., Dinh, H.H., Gabisi, R.A., Hines, S., Hume, J., Jhangian, S.N., Joshi, V., Lewis, L.R., Liu, Y.-S., Lopez, J., Morgan, M.B., Nguyen, N.B., Okwuonu, G.O., Ruiz, S.J., Santibanez, J., Wright, R.A., Fowler, G.R., Hitchens, M.E., Lozado, R.J., Moen, C., Steffen, D., Warren, J.T., Zhang, J., Nazareth, L.V., Chavez, D., Davis, C., Lee, S.L., Patel, B.M., Pu, L.-L., Bell, S.N., Johnson, A.J., Vattathil, S., Williams Jr., R.L., Shigenobu, S., Dang, P.M., Morioka, M., Fukatsu, T., Kudo, T., Miyagishima, S.-Y., Jiang, H., Worley, K.C., Legeai, F., Gauthier, J.-P., Collin, O., Zhang, L., Chen, H.-C., Ermolaeva, O., Hlavina, W., Kapustin, Y., Kiryutin, B., Kitts, P., Maglott, D., Murphy, T., Pruitt, K., Sapojnikov, V., Souvorov, A., Thibaud-Nissen, F., Câmara, F., Guigó, R., Stanke, M., Solovyev, V., Kosarev, P., Gilbert, D., Gabaldón, T., Huerta- Cepas, J., Marcet-Houben, M., Pignatelli, M., Moya, A., Rispe, C., Ollivier, M., Quesneville, H., Permal, E., Llorens, C., Futami, R., Hedges, D., Robertson, H.M., Alioto, T., Mariotti, M., Nikoh, N., McCutcheon, J.P., Burke, G., Kamins, A., Latorre, A., Ashton, P., Calevro, F., Charles, H., Colella, S., Douglas, A.E., Jander, G., Jones, D.H., Febvay, G., Kamphuis, L.G., Kushlan, P.F., Macdonald, S., Ramsey, J., Schwartz, J., Seah, S., Thomas, G., Vellozo, A., Cass, B., Degnan, P., Hurwitz, B., Leonardo, T., Koga, R., Altincicek, B., Anselme, C., Atamian, H., Barribeau, S.M., De Vos, M., Duncan, E.J., Evans, J., Ghanim, M., Heddi, A., Kaloshian, I., Vincent- Monegat, C., Parker, B.J., Pérez-Brocal, V., Rahbé, Y., Spragg, C.J., Tamames, J., Tamarit, D., Tamborindeguy, C., Vilcinskas, A., Bickel, R.D., Brisson, J.A., Butts, T., Chang, C.-C., Christiaens, O., Davis, G.K., Duncan, E., Ferrier, D., Iga, M., Janssen, R., Lu, H.-L., McGregor, A., Miura, T., Smagghe, G., Smith, J., Van Der Zee, M., Velarde, R., Wilson, M., Dearden, P., Edwards, O.R., Gordon, K., Hilgarth, R.S., Rider Jr., S.D., Srinivasan, D., Walsh, T.K., Ishikawa, A., Jaubert-Possamai, S., Fenton, B., Huang, W., Rizk, G., Lavenier, D., Nicolas, J., Smadja, C., Zhou, J.-J., Vieira, F.G., He, X.-L., Liu, R., Rozas, J., Field, L.M., Campbell, P., Carolan, J.C., Fitzroy, C.I.J., Reardon, K.T., Reeck, G.R., Singh, K., Wilkinson, T.L., Huybrechts, J., Abdel-Latief, M., Robichon, A., Veenstra, J.A., Hauser, F., Cazzamali, G., Schneider, M., Williamson, M., Stafflinger, E., Hansen, K.K., Grimmelikhuijzen, C.J.P., Price, D.R.G., Caillaud, M., Van Fleet, E., Ren, Q., Gatehouse, J.A., Brault, V., Monsion, B., Diaz, J., Hunnicutt, L., Ju, H.-J., Pechuan, X., Aguilar, J., Cortés, T., Ortiz-Rivas, B., Martínez-Torres, D., Dombrovsky, A., Dale, R.P., Davies, T.G.E., Williamson, M.S., Jones, A., Sattelle, D., Williamson, S., Wolstenholme, A., Cottret, L., Sagot, M.F., Heckel, D.G., Hunter, W. (2010) Genome sequence of the pea aphid Acyrthosiphon pisum. PLoS Biology, 8 (2), art. no. e1000313, DOI: 10.1371/journal.pbio.1000313 Tamames, J., Abellán, J.J., Pignatelli, M., Camacho, A., Moya, A. (2010) Environmental distribution of prokaryotic taxa. BMC Microbiology, 10, art. no. 85. DOI: 10.1186/1471-2180-10-85 Tamames, J., de Lorenzo, V. (2010) EnvMine: A text-mining system for the automatic extraction of contextual information. BMC Bioinformatics, 11, art. no. 294. DOI: 10.1186/1471-2105-11-294

2009 López-Bueno, A., Tamames, J., Velázquez, D., Moya, A., Quesada, A., Alcamí, A. (2009) High diversity of the viral community from an Antarctic lake. Science, 326 (5954), pp. 858-861. DOI: 10.1126/science.1179287 Páez-Espino, D., Tamames, J., De Lorenzo, V., Cánovas, D. (2009) Microbial responses to environmental arsenic. BioMetals, 22 (1), pp. 117-130. DOI: 10.1007/s10534-008-9195-y Pignatelli, M., Moya, A., Tamames, J. (2009) EnvDB, a database for describing the environmental distribution of prokaryotic taxa. Environmental Microbiology Reports, 1 (3), pp. 191-197. DOI: 10.1111/j.1758-2229.2009.00030.x Pinhassi, J., M. J. Pujalte, J. Pascual, J. M. González, I. Lekunberri, C. Pedrós- Alió, and D. R. Arahal (2009) Bermanella marisrubri gen. nov., sp. nov., a genome- sequenced gammaproteobacterium from the Red Sea International Journal of Systematic and Evolutionary Microbiology 59: 373-377. Sánchez, O., J.M. Gasol, V. Balagué, R. Massana, J. Mas & C. Pedrós-Alió (2009) Influence of primer mismatch and microdiversity on DGGE results: A case study with SAR11. Aquatic Microbial Ecology 54: 211-216. Vaqué, D., O. Guadayol, F. Peters, J. Felipe, A. Malits & C. Pedrós-Alió (2009) Differential response of grazing and bacterial heterotrophic production to experimental warming in Antarctic waters. Aquatic Microbial Ecology 54: 101-112.

2008 Alonso-Sáez, L., O. Sánchez, V. Balagué, J.M. Gasol, C. Pedrós-Alió (2008) Winter-to-summer changes in the composition and heterotrophic activity of western coastal Arctic prokaryotic assemblages. Environ. Microbiol. 10: 2444-2454. Casamayor, E.O., J. García-Cantizano & C. Pedrós-Alió (2008) Carbon dioxide fixation in the dark by photosynthetic bacteria in sulfide-rich stratified lakes with oxic-anoxic interfaces Limnology and Oceanography 53: 1193-1203. Demergasso, C., L. Escudero, E. O. Casamayor, G. Chong, V. Balagué and C. Pedrós-Alió (2008) Novelty and spatio-temporal heterogeneity in the bacterial diversity of hypersaline Lake Tebenquiche (Salar de Atacama) Extremophiles 12: 491- 504. González J.M., B Fernández-Gómez, A Fernández-Guerra, L Gómez- Consarnau, O Sánchez, M Coll-Lladó, J del Campo, L Escudero, R Rodríguez- Martínez, L Alonso-Saez, M Latasa, I Paulsen, O Nedashkovskaya, I Lekunberri, J Pinhassi, and C Pedrós-Alió (2008) Genome analysis of the proteorhodopsin- containing marine bacterium Polaribacter sp. MED152 (Flavobacteria) Proceedings of the National Academy of Sciences of the USA 105: 8724-8729. González, J.M., C. Pedrós-Alió, J.M. Gasol (2008) Plancton bacteriano de los océanos Investigación y Ciencia 387: 76-84. Jickells, T.D., Liss, P.S., ..., R., Pedrós-Alió, C., Simó, R., et al. (2008) A Lagrangian Biogeochemical Study Of An Eddy In The Northeast Atlantic Progress in Oceanography 76: 366-398. Massana, R., C. Pedrós-Alió (2008) Unveiling new microbial eukaryotes in the surface ocean Current Opinion in Microbiology 11: 213-218. Pedrós-Alió, C., A. Ventosa (2008) Los procariotas: amigos invisibles. Capítulo 8, Proyecto Andalucía (F. Rodríguez Iglesias, dir.), Naturaleza, vol XXVIII Ecología I (X. Niell, dir.), Hercules Ediciones SA. Pignatelli, M., Aparicio, G., Blanquer, I., Hernández, V., Moya, A., Tamames, J. (2008) Metagenomics reveals our incomplete knowledge of global diversity. Bioinformatics, 24 (18), pp. 2124-2125. DOI: 10.1093/bioinformatics/btn355 Sala MM, Terrados R, Lovejoy C, Unrein F, Pedrós-Alió C (2008) Metabolic diversity of heterotrophic bacterioplankton over winter and spring in the Coastal Arctic Ocean Environmental Microbiology 10: 942-949. Tamames, J., Moya, A. (2008) Estimating the extent of horizontal gene transfer in metagenomic sequences. BMC Genomics, 9, art. no. 136, DOI: 10.1186/1471-2164- 9-136 Vaqué, D., O. Guadayol, F. Peters, J. Felipe, L. Angel-Ripoll, R. Terrado, C. Lovejoy, C. Pedrós-Alió (2008) Seasonal changes in planktonic bacterivory rate under the ice-covered coastal Arctic Ocean Limnology and Oceanography 53: 2427-2438. Vila-Costa, M, R. Simó, L. Alonso-Saez & C. Pedrós-Alió (2008) Number and phylogenetic affiliation of bacteria assimilating dimethylsulfoniopropionate and leucine in the ice-covered coastal Arctic Ocean. Journal of Marine Systems 74: 957- 963. Vincent, W. & C. Pedrós-Alió (2008) Sea Ice and Life in a River-Influenced Arctic Shelf Ecosystem Journal of Marine Systems 74: 739-740. Vincent, W., C. Pedrós-Alió, C. Suttle, C. Lovejoy, J. Deming, C. Osburn, L. Lesak, H. Xie, M. Babin, A. Wilmotte (2008) Microbial communities and carbon fluxes. Pp. 85-99, Chapter 5 in L. Fortier, D. Barber and J. Michaud (eds.) On Thin Ice. A synthesis of the Canadian Arctic Shelf Exchange Study (CASES). Aboriginal Issues Press, Winnipeg, Manitoba, Canada Chapter 5

2007 Alonso-Sáez, L., Balagué, V., Sà, E. L., Sánchez, O., González, J.M., Pinhassi, J., Massana, R., Pernthaler, J., Pedrós-Alió, C., Gasol, J.M. (2007) Seasonality in bacterial diversity in north-west Mediterranean coastal waters: assessment through clone libraries, fingerprinting and FISH. FEMS Microbiology Ecology 60: 98-112. Arahal, D.A., I. Lekunberri, J.M. González, J. Pascual, M.J. Pujalte, C. Pedrós- Alió & J. Pinhassi (2007) Neptuniibacter caesariensis gen. nov., sp. nov., a marine genome-sequenced Gammaproteobacteria International J. Systematic and Evolutionary Microbiology 57: 1000-1006. Demergasso, C.S., G. Chong, L. Escudero, J.J. Pueyo Mur & C. Pedrós-Alió (2007) Microbial precipitation of arsenic sulfides in Andean salt flats Geomicrobiol. J. 24: 111-123. Gómez-Consarnau, L., González, J.M., Coll-Lladó, M., Gordon, P., Pascher, T., Neutze, R., Pedrós-Alió, C., Pinhassi, J. (2007) Light stimulates growth of proteorhodopsin-containing marine Flavobacteria. Nature 445: 210-213. Kirchman, D. L., and C. Pedrós-Alió (2007) Predictions for the future of microbial oceanography Oceanography 20: 166-171. Lovejoy, C., Vincent, W.F., Bonilla, S., Roy, S., Martineau, M.J., Terrado, R., Potvin, M., Massana, R., Pedrós-Alió, C. (2007) Distribution, phylogeny, and growth of cold-adapted picoprasinophytes in Arctic Seas. Journal of Phycology 43: 78-89. Pedrós-Alió, C. (2007) Desert d'aigua La Magrana, Barcelona Pedrós-Alió, C. (2007) Dipping into the rare biosphere (perspective). Science 315: 192-193. Pinhassi, J., M.J. Pujalte, M.C. Macián, I. Lekunberri, J.M. González, C. Pedrós-Alió, and D.R. Arahal (2007) Reinekea blandensis sp. nov., a marine genome- sequenced gammaproteobacterium International J. Systematic and Evolutionary Microbiology, 57: 2370-375 57: 2370-2375. Sánchez, O., Gasol, J.M., Massana, R., Mas, J., Pedrós-Alió, C. (2007) Comparison of different Denaturing Gradient Gel Electrophoresis primer sets for the study of marine bacterioplankton communities Appl. Environ. Microbiol. 73: 5962- 5967. Tamames, J., Gil, R., Latorre, A., Peretó, J., Silva, F.J., Moya, A. (2007) The frontier between cell and organelle: Genome analysis of Candidatus Carsonella ruddii. BMC Evolutionary Biology, 7, art. no. 181, DOI: 10.1186/1471-2148-7-181 Tamames, J., Moya, A., Valencia, A. (2007) Modular organization in the reductive evolution of protein-protein interaction networks. Genome Biology, 8 (5), art. no. R94, DOI: 10.1186/gb-2007-8-5-r94

2006 Lovejoy, C., Massana, R., Pedrós-Alió, C. (2006) Diversity and distribution of marine microbial eukaryotes in the Arctic Ocean and adjacent seas. Applied and Environmental Microbiology 72: 3085-3095. Massana, R., Guillou, L., Terrado, R., Forn, I., Pedrós-Alió, C. (2006) Growth of uncultured heterotrophic flagellates in unamended seawater incubations. Aquatic Microbial Ecology 45: 171-180. Massana, R., Terrado, R., Forn, I., Lovejoy, C., Pedrós-Alió, C. (2006) Distribution and abundance of uncultured heterotrophic flagellates in the world oceans. Environmental Microbiology 8: 1515-1522. Morán, X.A.G., Sebastián, M., Pedrós-Alió, C., Estrada, M. (2006) Response of Southern Ocean phytoplankton and bacterioplankton production to short-term experimental warming. Limnology and Oceanography 51: 1791-1800. Pedrós-Alió, C. (2006) Genomics and marine microbial ecology. International Microbiology 9: 191-197. Pedrós-Alió, C. (2006) Marine microbial diversity: can it be determined? Trends in Microbiology 14: 257-263. Pinhassi, J., Bowman, J.P., Nedashkovskaya, O.I., Lekunberri, I., Gómez- Consarnau, L., Pedrós-Alió, C. (2006) Leeuwenhoekiella blandensis, sp. nov., a genome-sequenced novel marine member of the family Flavobacteriaceae. International Journal Systematic and Evolutionary 56: 1489-1493. Pinhassi, J., Gómez-Consarnau, L., Alonso-Sáez, L., Sala, MM., Vidal, M., Pedrós-Alió, C., Gasol, JM. (2006) Seasonal changes in bacterioplankton nutrient limitation and its effects on bacterial diversity in the NW Mediterranean Sea. Aquatic Microbial Ecology 44: 241-252. Tamames, J., Valencia, A. (2006) The success (or not) of HUGO nomenclature. Genome Biology, 7 (5), art. no. 402, DOI: 10.1186/gb-2006-7-5-402

2005 García-Cantizano, J., Casamayor, E.O., Gasol, J.M., Guerrero, R., Pedrós-Alió, C. (2005) Partitioning of CO2 Incorporation Among Planktonic Microbial Guilds and Estimation of In Situ Specific Growth Rates. Microbial Ecology 50: 230-241. Gasol, J.M., Massana,R., Pedrós-Alió, C. (2005) Xarxes invisibles, o l'art d'esbrinar quants microorganismes marins hi ha, qui són i què fan. Mètode. 46: 73-89. Hoffmann, R., Krallinger, M., Andres, E., Tamames, J., Blaschke, C., Valencia, A. (2005) Text mining for metabolic pathways, signaling cascades, and protein networks. Science's STKE : signal transduction knowledge environment, (283), pp. pe21. Not, F., Massana, R., Latasa, M., Marie, D., Colson, C., Eikrem, W., Pedrós- Alió, C., Vaulot, D., Simon, N. (2005) Late summer community composition and abundance of photosynthetic picoeukaryotes in Norwegian and Barents Seas. Limnology and Oceanography 50: 1677-1686. Pedrós-Alió, C. (2005) Això ho pot fer un nen. La necessitat de l'esforç per apreciar l'art i la ciència. In: Mètode, Estiu 2005: 29-32 Pedrós-Alió, C. (2005) Diversity of microbial communities: the case of solar salterns. In: N. Gunde-Cimerman, Ana Plemenitas and A. Oren (eds.) Cellular Origins, Life in Extreme Habitats and Astrobiology (COLE), edited by Joseph Seckbach, volume 9, pp. 71-90 Pedrós-Alió, C. (2005) Els ocells de la fi del món. In:L'Atzavara, 13: 59-70 Pinhassi, J., Simó, R., González, J.M., Vila, M., Alonso-Sáez, L., Kiene, R., Moran, M.A., Pedrós-Alió, C. (2005) Dimethylsulfoniopropionate turnover is linked to the composition and dynamics of the bacterioplankton assemblage during a microcosm phytoplankton bloom. 71: 7650-7660. Applied and Environmental Microbiology 71: 7650-7660. Sala, M.M., Balagué, V., Pedrós-Alió, C., Massana, R., Felipe, J., Arin, L., Illoul, H., Estrada, M. (2005) Phylogenetic and functional diversity of bacterioplankton during Alexandrium spp. blooms. FEMS Microbiology Ecology 54: 257-267. Tamames, J. (2005) Text detective: A rule-based system for gene annotation in biomedical texts. BMC Bioinformatics, 6 (SUPPL.1), art. no. S10, DOI: 10.1186/1471-2105-6-S1-S10

2004 Balagué V., Díez B., Malits A., Massana R., Marrasé C., Pedrós-Alió C. (2004) Growth and phylogenetic composition of the bacterial assemblage during a Lagrangian study in the Rhone river plume. Rapport Commission internationale Mer Méditerrannée 37: 264-264. Demergasso, C., Casamayor, E.O., Galleguillos, P., Escudero, L., Chong, G., Pedrós-Alió, C. (2004) Distribution of prokaryptic genetic diversity in athalassohaline lakes of the Atacama Desert, Northern Chile. FEMS Microbiology Ecology 48: 57-69. Díez, B., Massana, R., Estrada, M., Pedrós-Alió, C. (2004) Distribution of eukaryotic picoplankton assemblages across hydrographic fronts in the Southern Ocean, studied by denaturing gradient gel electrophoresis. Limnology and Oceanography 49: 1022-1034. Estrada, M., Henriksen, P., Gasol, J.M., Casamayor, E.O., Pedrós-Alió, C. (2004) Diversity of planktonic photoautotrophic microorganisms along a salinity gradient as depicted by microscopy, flow cytometry, pigment analysis and DNA-based methods. FEMS Microbiology Ecology 49: 281-293. Ferrera, I., Massana, R., Casamayor, E.O., Balagué, V., Sánchez, O., Pedrós- Alió, C., Mas, J. (2004) High-diversity biofilm for the oxidation of sulfide-containing effluents. Applied Microbiology and Biotechnology 64: 726-734. Gasol, J.M., Casamayor, E.O., Joint, I., Garde, K., Gustavson, K., Benlloch, S., Díez, B., Schauer, M., Massana, R., Pedrós-Alió, C. (2004) Control of heterotrophic prokaryotic abundance and growth rate in hypersaline planktonic environments. Aquatic Microbial Ecology 34: 193-206. Gasol, J.M., L. Alonso, V. Balagué, C. Cardelús, J. Pinhassi, M.M. Sala, F. Unrein, E. Vázquez-Domínguez, M. Vila, R. Massana, R. Simó, C. Pedrós-Alió (2004) Changes in carbon and sulfur cycling associated to the unusual summer dominance by an Alteromonas macleodii-like bacterium in the coastal mediterranean bay of Blanes. Geophysical Research Abstracts 6: 6277-6278. Guillou, L., Eikrem, W., Chrétiennot-Dinet, M.-J., Le Gall, F., Massana, R., Romari, K., Pedros-Alió, C., Vaulot, D. (2004) Diversity of picoplanktonic Prasinophytes assessed by direct nuclear SSU rDNA sequencing of environmental samples and novel isolates retrieved from oceanic and coastal marine ecosystems. Protist 155: 193-214. Massana, R., Balagué, V., Guillou, L., Pedrós-Alió, C. (2004) Picoeukaryotic diversity in an oligotrophic coastal site studied by molecular and culturing approaches. FEMS Microbiology Ecology 50: 231-243. Massana, R., Castresana, J., Balagué, V., Guillou, L., Romari, K., Groisillier, A., Valentin, K., Pedrós-Alió, C. (2004) Phylogenetic and ecological analysis of novel marine stramenopiles. Applied and Environmental Microbiology 70: 3528-3534. Mingorance, J., Tamames, J., Vicente, M. (2004) Genomic channeling in bacterial cell división. Journal of Molecular Recognition, 17 (5), pp. 481-487. DOI: 10.1002/jmr.718 Pedrós-Alió, C. (2004) Ártico. Atrapado en el congelador de la tierra. In: El Cultural, 20 de mayo del 2004, pp: 54-56 Pedrós-Alió, C. (2004) Picasso y el ADN. In: El Cultural, 18 de marzo del 2004, pp: 56-57 Pedrós-Alió, C. (2004) Trophic Ecology of Solar Salterns. In:Halophilic Microorganisms. A. Ventosa (ed.) Springer-Verlag, Berlin, pp. 34-48 Vila, M., Simó, R., Kiene, R., Pinhassi, J., González, J.M., Morán, M.A., Pedrós-Alió, C. (2004) Use of microautoradiography combined with fluorescence in situ hybridization to determine Dimethylsulfoniopropionate incorporation by marine bacterioplankton taxa. Applied and Environmental Microbiology 70: 4648-4657.

2003 Iliopoulos, I., Tsoka, S., Andrade, M.A., Enright, A.J., Carroll, M., Poullet, P., Promponas, V., Liakopoulos, T., Palaios, G., Pasquier, C., Hamodrakas, S., Tamames, J., Yagnik, A.T., Tramontano, A., Devos, D., Blaschke, C., Valencia, A., Brett, D., Martin, D., Leroy, C., Rigoutsos, I., Sander, C., Ouzounis, C.A. (2003) Evaluation of annotation strategies using an entire genome sequence. Bioinformatics, 19 (6), pp. 717-726. DOI: 10.1093/bioinformatics/btg077 Pedrós-Alió, C., Massana, R., Linke, K., Petz, W. (2003) 2. Prokaryota: Archaea, Bacteria und Cyanobacteria (In German). In: Das Mittelmeer. Fauna, Flora, Ökologie, band II/1. Robert Hofrichter (ed.) Spektrum Akademischer Verlag, Heidelberg (Germany), pp. 54-64 Schauer, M., Balagué, V., Pedrós-Alió, C., Massana, R. (2003) Seasonal changes in the taxonomic composition of bacterioplankton in a coastal oligotrophic system. Aquatic Microbial Ecology 31: 163-174. Van Ham, R.C.H.J., Kamerbeek, J., Palacios, C., Rausell, C., Abascal, F., Bastolla, U., Fernández, J.M., Jiménez, L., Postigo, M., Silva, F.J., Tamames, J., Viguera, E., Latorre, A., Valencia, A., Morán, F., Moya, A. (2003) Reductive genome evolution in Buchnera aphidicola. Proceedings of the National Academy of Sciences of the United States of America, 100 (2), pp. 581-586. DOI: 10.1073/pnas.0235981100

2002 Benlloch S., López-López, A., Casamayor, E.O., Øvreås, L.,Goddard, V., Daae, F.L., Smerdon, G., Massana, R., Join, I., Thingstad, T.F., Pedrós-Alió, C., Rodríguez-Valera, F. (2002) Prokaryotic genetic diversity throughout the salinity gradient of a coastal solar saltern Environmental Microbiology 4: 349-360. Casamayor E.O., Massana, R., Benlloch, S., Øvreås, L., Díez, B., Goddard, V., Gasol, J.M., Join, I., Rodríguez-Valera, F., Pedrós-Alió, C. (2002) Changes in archaeal, bacterial and eukaryal assemblages along a salinity gradient by comparison of genetic fingerprinting methods in a multipond solar saltern Environmental Microbiology 4: 338-348. Casamayor, E.O, Pedrós-Alió, C., Muyzer, G., Amann, R. (2002) Microheterogeneity in 16S rDNA-defined bacterial populations from a stratified planktonic environment is related to temporal changes and to ecological adaptations. Applied and Environmental Microbiology 68: 1706-1714. Gasol, J.M., Pedrós-Alió, C., Vaqué, D. (2002) Regulation of bacterial assemblages in oligotrophic plankton systems: results from experimental and empirical approaches. Ant. van Leeuwenhoek 81: 435-452. Guixa-Boixereu, N., Vaqué, D., Gasol, J.M., Sánchez-Cámara, J., Pedrós-Alió, C. (2002) Viral distribution and activity in Antarctic waters. Deep-Sea Research II 49: 827-845. Jensen, L.J., Gupta, R., Blom, N., Devos, D., Tamames, J., Kesmir, C., Nielsen, H., Stærfeldt, H.H., Rapacki, K., Workman, C., Andersen, C.A.F., Knudsen, S., Krogh, A., Valencia, A., Brunak, S. (2002) Prediction of human protein function from post-translational modifications and localization features. Journal of Molecular Biology, 319 (5), pp. 1257-1265. DOI: 10.1016/S0022-2836(02)00379-0 Massana, R, L. Guillou, B. Díez, C. Pedrós-Alió (2002) Unveiling the Organisms behind Novel Eukaryotic Ribosomal DNA Sequences from the Ocean. Applied and Environmental Microbiology 68: 4554-4558. Morán, X.A.G., Estrada, M., Gasol, J.M., Pedrós-Alió, C. (2002) Dissolved primary production and the strength of phytoplankton-bacterioplankton coupling in contrasting marine regions. Microbial Ecology 44: 217-223. Morán, X.A.G., Gasol, J.M., Pedrós-Alió, C., Estrada, M. (2002) Partitioning of phytoplanktonic organic carbon production and bacterial production along a coastal-offshore gradient in the NE Atlantic during different hydrographic regimes. Aquatic Microbial Ecology 29: 239-252. Pedrós-Alió C., Vaqué, D., Guixa-Boixereu, N., Gasol, J.M. (2002) Prokaryotic plankton biomass and heterotrophic production in western Antarctic waters during the 1995-1996 austral summer. Deep-Sea Research II 49: 805-825. Pedrós-Alió, C., Simó, R. (2002) Studying marine microorganisms from space. International Microbiology 5: 231-236. Sala, M.M., Peters, F., Gasol, J.M., Pedros-Alio, C., Marrasé, C., Vaqué, D. (2002) Seasonal and spatial variations in the nutrient limitation of bacterioplankton growth in the northwestern Mediterranean. Aquatic Microbial Ecology 27: 47-56. Simó, R., Archer, S.D., Pedrós-Alió, C., Gilpin, L., Stelfox-Widdicombe, C.E. (2002) Coupled dynamics of dimethylsulfoniopropionate and dimethylsulfide cycling and the microbial food web in surface waters of the North Atlantic. Limnology and Oceanography 47: 53-61. Tamames, J., Clark, D., Herrero, J., Dopazo, J., Blaschke, C., Fernández, J.M., Oliveros, J.C., Valencia, A. (2002) Bioinformatics methods for the analysis of expression arrays: Data clustering and information extraction. Journal of Biotechnology, 98 (2-3), pp. 269-283. DOI: 10.1016/S0168-1656(02)00137-2 Vaqué, D., Calderón-Paz, J.I., Guixa-Boixereu, N., Pedrós-Alió, C. (2002) Spatial distribution of microbial biomass and activity (bacterivory and bacterial production) in the northern Weddell Sea during the austral summer (January 1994). Aquatic Microbial Ecology 29: 107-121. Vaqué, D., Guixa-Boixereu, N., Gasol, J.M., Pedrós-Alió, C. (2002) Distribution of microbial biomass and importance of protists in regulating prokaryotic assemblages in three areas close to the Antarctic Peninsula in spring and summer 1995/1996. Deep-Sea Research II 49: 847-867.

2001 Casamayor, E.O, Muyzer, G., Pedrós-Alió, C. (2001) Composition and temporal dynamics of planktonic archaeal assemblages from anaerobic sulfurous environments studied by 16S rDNA denaturing gradient gel electrophoresis and sequencing. Aquatic Microbial Ecology 25: 237-246. Casamayor, E.O., García-Cantizano, J., Mas, J., Pedrós-Alió, C. (2001) Primary production in estuarine oxic/anoxic interfaces: contribution of microbial dark CO2 fixation in the Ebro River Salt Wedge Estuary. Marine Ecology Progress Series 215: 49-51. Casamayor, E.O., Mas, J., Pedrós-Alió, C. (2001) In situ assessment on the physiological state of purple and green sulfur bacteria through the analyses of pigment and 5S rRNA content. Microbial Ecology 42: 427-437. Díez, B., Pedrós-Alió, C., Marsh, T.L., Massana, R. (2001) Application of denaturing gradient gel electrophoresis (DGGE) to study the diversity of marine picoeukaryotic assemblages and comparison of DGGE with other molecular techniques. Applied and Environmental Microbiology 67: 2942-2951. Díez, B., Pedrós-Alió, C., Massana, R. (2001) Study of genetic diversity of eukaryotic picoplankton in different oceanic regions by small-subunit rRNA gene cloning and sequencing. Applied and Environmental Microbiology 67: 2932-2941. Doval, M.D., Álvarez-Salgado, X.A., Gasol, J.M., Martínez, L., Mirón, I., Figueiras, F.G., Pedrós-Alió, C. (2001) Dissolved and suspended organic carbon in the Atlantic sector of the Southern Ocean. Stock dynamics in upper ocean waters. Marine Ecology Progress Series 223: 27-38. Dumestre, J.F., Casamayor, E. O., Massana, R. Pedrós-Alió, C. (2001) Changes in bacterial and archaeal assemblages in an equatorial river induced by the water eutrophication of Petit Saut dam reservoir (French Guiana). Aquatic Microbial Ecology 26: 209-221. Gili, J.M., Alfonso, I., Gasol, J.M., Isla, E., López-González, P., Orejas, C., Pedrós-Alió, C., Rossi, S., Sabater, F., Pagès, F., Piraino, S., Teixidó, N., Gerdes, D., Arntz, W.E. (2001) Pelagobenthic coupling and the role of benthic suspension feeders. Berichte zur Polar- und Meeresforschung 402: 10-56. Krüger, O., Pedrós-Alió, C. (2001) Bird observations during the cruise. Berichte zur Polar- und Meeresforschung 402: 121-123. López-García, P., Rodríguez-Valera, F., Pedrós-Alió, C., Moreira, D. (2001) Unexpected diversity of small eukaryotes in deep-sea Antarctic plankton. Nature 409: 603-607. Massana, R., Pedrós-Alió, C., Casamayor, E.O., Gasol, J.M. (2001) Changes in marine bacterioplankton phylogenetic composition during incubations designed to measure biogeochemically significant parameters. Limnology and Oceanography 46: 1181-1188. Morán, X.A.G., Gasol, J.M., Pedrós-Alió, C., Estrada, M. (2001) Dissolved and particulate primary production and bacterial production in offshore Antarctic waters during austral summer: Coupled or uncoupled? Marine Ecology Progress Series 222: 25-39. Pedrós-Alió, C. (2001) Un nuevo paisaje marino. El Cultural, 28 marzo-3 abril 2001, pp.56-57 Pedrós-Alió, C., Gasol, J.M. (2001) Pelagic microbial biodiversity. Berichte zur Polar- und Meeresforschung 402: 119-121. Tamames, J. (2001) Evolution of gene order conservation in prokaryotes. Genome Biology, 2 (6), pp. RESEARCH0020. Tamames, J., González-Moreno, M., Mingorance, J., Valencia, A., Vicente, M. (2001) Bringing gene order into bacterial shape. Trends in Genetics, 17 (3), pp. 124- 126. DOI: 10.1016/S0168-9525(00)02212-5

2000 Casamayor, E. O., Calderón-Paz, J.I., Pedrós-Alió, C. (2000) 5S rRNA fingerprints of marine bacteria, halophilic archaea and natural prokaryotic assemblages along a salinity gradient. FEMS Microbiology Ecology 34: 113-119. Casamayor, E.O., Núñez-Cardona, M.T., Calderón-Paz, J.I., Mas, J., Pedrós- Alió, C. (2000) Comparison of pure cultures and natural assemblages of planktonic photosynthetic sulfur bacteria by low molecular mass RNA fingerprinting. FEMS Microbiology Ecology 32: 25-34. Casamayor, E.O., Schäfer, H., Bañeras, L., Pedrós-Alió, C., Muyzer, G. (2000) Identification of and spatio-temporal differences between microbial assemblages from two neighboring sulfurous lakes: comparison by microscopy and denaturing gradient gel electrophoresis. Applied and Environmental Microbiology 66: 499-508. Díez, B., Antón, J., Guixa-Boixereu, N., Pedrós-Alió, C., Rodríguez-Valera, F. (2000) Pulsed-field gel electrophoresis analysis of virus assemblages present in a hypersaline environment. International Microbiology 3: 159-164. Gasol, J.M., Pedrós-Alió, C. (2000) Los colores del agua Investigación y Ciencia. 200, 40-41 González, J.M., Simó, R., Massana, R., Covert, J.S., Casamayor, E.O., Pedrós- Alió, C., Moran, M.A. (2000) Bacterial community structure associated with a dimethylsulfonioproprionate-producing North Atlantic algal bloom. Applied and Environmental Microbiology 66: 4237-4246. Massana, R., DeLong, E.F., Pedrós-Alió, C. (2000) A few cosmopolitan phylotypes dominate planktonic archaeal assemblages in widely different oceanic provinces. Applied and Environmental Microbiology 66: 1777-1787. Pedrós-Alió, C. (2000) Avances científicos del siglo XX: Los microorganismos El Cultural, 30 enero - 5 febrero 2000, pp. 80-81 Pedrós-Alió, C. (2000) Diversity of microorganisms. In: Seminar on Biodiversity and Biological Conservation. Institut d'Estudis Catalans, Sèrie Jornades Científiques 10, Barcelona. pp. 339-353 Pedrós-Alió, C., Calderón-Paz, J.I., Gasol, J.M. (2000) Comparative analysis shows that bacterivory, not viral lysis, controls de abundance of heterotrophic prokaryotic plankton. FEMS Microbiology Ecology 32: 157-165. Pedrós-Alió, C., Calderón-Paz, J.I., MacLean, M.H., Medina, G., Marrasé, C., Gasol, J.M., Guixa-Boixereu, N. (2000) The microbial food web along salinity gradients. FEMS Microbiology Ecology 32: 143-155. Schauer, M., Massana, R., Pedrós-Alió, C. (2000) Spatial differences in bacterioplankton composition along the Catalan coast (NW Mediterranean) assessed by molecular fingerprinting. FEMS Microbiology Ecology 33: 51-59. Simó, R., Pedrós-Alió, C., Malin, G., Grimalt, J.O. (2000) Biological turnover of DMS, DMSP and DMSO in contrasting open-sea waters Marine Ecology Progress Series 203: 1-11. Tamames, J., Tramontano, A. (2000) DANTE: A workbench for sequence analysis. Trends in Biochemical Sciences, 25 (8), pp. 402-403. DOI: 10.1016/S0968- 0004(00)01616-9 Tamames, J., Tramontano, A. (2000) Erratum: Computer Corner (Trends in Biochemical Sciences 25). Trends in Biochemical Sciences, 25 (9), 457.

1999 Andrade, M.A., Brown, N.P., Leroy, C., Hoersch, S., De Daruvar, A., Reich, C., Franchini, A., Tamames, J., Valencia, A., Ouzounis, C., Sander, C. (1999) Automated genome sequence analysis and annotation. Bioinformatics, 15 (5), pp. 391- 412. DOI: 10.1093/bioinformatics/15.5.391 Andrade, M.A., Ouzounis, C., Sander, C., Tamames, J., Valencia, A. (1999) Functional classes in the three domains of life. Journal of Molecular Evolution, 49 (5), pp. 551-557. Guixa-Boixareu, N., Lysnes, K., Pedrós-Alió, C. (1999) Viral lysis and bacterivory during a phytoplankton bloom in a coastal water microcosm. Applied and Environmental Microbiology 65: 1949-1958. Guixa-Boixereu, N., Vaqué, D., Gasol, J.M., Pedrós-Alió, C. (1999) Distribution of viruses and their potential effect on bacterioplankton in an oligotrophic marine system. Aquatic Microbial Ecology 19: 205-213. Pedrós-Alió, C., Calderón-Paz, J.I., Guixa-Boixereu, N., Estrada, M., Gasol, J.M. (1999) Bacterioplankton and phytoplankton biomass and production during summer stratification in the northwestern Mediterranean Sea. Deep-Sea Research I 46: 985-1019. Simó, R., Pedrós-Alió, C. (1999) Role of vertical mixing in controlling the oceanic production of dimethyl sulphide. Nature 402: 396-399. Simó, R., Pedrós-Alió, C. (1999) Short-term variability in the open ocean cycle of dimethylsulfide. Global Biogeochemical Cycles 13: 1173-1181.

1998 Casamayor, E.O., Calderón-Paz, J.I., Mas, J., Pedrós-Alió, C. (1998) Identification of phototrophic sulfur bacteria through the analysis of lmwRNA band patterns. Archives of Microbiology 170: 269-278. Gasol, J.M., Doval, M.D., Pinhassi, J., Calderón-Paz, J.I., Guixa-Boixereu, N., Vaqué, D., Pedrós-Alió, C. (1998) Diel variations in bacterial heterotrophic activity and growth in the NW Mediterranean Sea. Marine Ecology Progress Series 164: 107- 124. Tamames, J., Ouzounis, C., Casari, G., Sander, C., Valencia, A. (1998) EUCLID: Automatic classification of proteins in functional classes by their database annotations. Bioinformatics, 14 (6), pp. 542-543. DOI: 10.1093/bioinformatics/14.6.542

1997 Acinas, S., Rodríguez-Valera, F., Pedrós-Alió, C. (1997) Spatial and temporal variation in marine bacterioplankton diversity as shown by RFLP fingerprinting of PCR amplified 16S rDNA. FEMS Microbiology Ecology 24: 27-40. Andrade, M., Casari, G., De Daruvar, A., Sander, C., Schneider, R., Tamames, J., Valencia, A., Ouzounis, C. (1997) Sequence analysis of the Methanococcus jannaschii genome and the prediction of protein function. Computer Applications in the Biosciences, 13 (4), pp. 481-483. Gasol, J.M., Massana, R., Pedrós-Alió, C. (1997) Bacterial size structure as a method to analyze communities. In: Progress in Microbial Ecology. Martins, M.T., Zanoli, M.I., Tiedje, J.M., Norton, L.C., Döbereiner, J. and Sanchez, P. (eds.). Sociedade Brasileira de Microbiologia/ICOME, Sao Paulo, Brazil. pp. 155-160 Massana R., Gasol, J.M., Bjørnsen, P.K., Blackburn, N., Hagström, A., Hietanen, S., Hygum, B., Kuparinen, J., Pedrós-Alió, C. (1997) Measurement of bacterial size via image analysis of epifluorescence preparations: description of an inexpensive system and solutions to some of the most common problems Scientia Marina 61: 397-407. Tamames, J., Casari, G., Ouzounis, C., Valencia, A. (1997) Conserved clusters of functionally related genes in two bacterial genomes. Journal of Molecular Evolution, 44 (1), pp. 66-73. DOI: 10.1007/PL00006122

1996 Guixa-Boixareu, N., Calderón-Paz, J.I., Heldal, M., Bratbak, G., Pedrós-Alió, C. (1996) Viral lysis and bacterivory as prokaryotic loss factors along a salinity gradient. Aquatic Microbial Ecology 11: 215-227. Massana, R., García-Cantizano, J., Pedrós-Alió, C. (1996) Components, structure and fluxes of the microbial food web in a small, stratified lake. Aquatic Microbial Ecology 11: 279-288. Ouzounis, C., Casari, G., Sander, C., Tamames, J., Valencia, A. (1996) Computational comparisons of model genomes. Trends in Biotechnology, 14 (8), pp. 280-285. DOI: 10.1016/0167-7799(96)10043-3 Pedrós-Alió, C. (1996) Marine Rocky Shores and Community Ecology: An Experimentalist's Perspective by Robert T. Paine 1994, Ecology Institute. Oldendorf/Luhe, Germany ISSN 0932-2205. Book review. Hydrobiologia 337: 193- 193. Pedrós-Alió, C., Calderón-Paz, J.I., Guixa-Boixereu, N., Navarrete, A., Vaqué, D. (1996) Microbial plankton across Drake Passage. Polar Biology 16: 613-622. Tamames, J., Ouzounis, C., Sander, C., Valencia, A. (1996) Genomes with distinct function composition. FEBS Letters, 389 (1), pp. 96-101. DOI: 10.1016/0014- 5793(96)00527-3

1995 Casari, G., Andrade, M.A., Bork, P., Boyle, J., Daruvar, A., Ouzounis, C., Schneider, R., Tamames, J., Valencia, A., Sander, C. (1995) Challenging times for bioinformatics. Nature, 376 (6542), pp. 647-648. DOI: 10.1038/376647a0 Estrada, M., Pedrós-Alió, C. (1995) Biodiversidad marina. Política Científica, 44: 47-53 Gasol, J.M., Jürgens, K., Massana, R., Calderón-Paz, J.I., Pedrós-Alió, C. (1995) Mass development of Daphnia pulex in a sulfide-rich pond (Lake Cisó) Archives of Hydrobiology 132: 279-296. Ouzounis, C., Valencia, A., Tamames, J., Bork, P., Sander, C. (1995) The functional composition of living machines as a design principle for artificial organisms. Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), 929, pp. 843-851. DOI: 10.1007/3-540-59496-5_347 Pedrós-Alió, C. (1995) Microbial Ecology of Lake Plußsee by J. Overbeck and R. Chróst (eds.). Book review. Limnology and Oceanography 40: 841-842. Pedrós-Alió, C., Massana, R., Latasa, M., García-Cantizano, J., Gasol, J.M. (1995) Predation by ciliates on a metalimnetic Cryptomonas population: feeding rates, impact, and effects of vertical migration. Journal of Plankton Research 17: 2131-2154. Simó, R., Grimalt, J.O., Pedrós-Alió, C., Albaigés, J. (1995) Occurrence and transformation of dissolved dimethyl sulfur species in stratified seawater (western Mediterranean sea). Marine Ecology Progress Series 127: 291-299. Voss, H., Tamames, J., Teodoru, C., Valencia, A., Sensen, C., Wiemann, S., Schwager, C., Zimmermann, J., Sander, C., Ansorge, W. (1995) Nucleotide sequence and analysis of the centromeric region of yeast chromosome IX. Yeast, 11 (1), pp. 61- 78. DOI: 10.1002/yea.320110109

1994 García -Cantizano, J., Calderón-Paz, J.I., Pedrós-Alió, C. (1994) Thymidine incorporation in Lake Cisó: Problems in estimating bacterial secondary production across oxic-anoxic interfaces. FEMS Microbiology Ecology 14: 53-64. Jürgens, K., Gasol, J.M., Massana, R., Pedrós-Alió, C. (1994) Control of heterotrophic bacteria and protozoans by Daphnia pulex in the epilimnion of Lake Cisó. Archives of Hydrobiology 131: 55-78. Massana, R., Gasol, J.M., Jürgens, K., Pedrós-Alió, C. (1994) Impact of Daphnia pulex on a metalimnetic microbial community. Journal of Plankton Research 16: 1379-1399. Massana, R., Gasol, J.M., Pedrós-Alió, C. (1994) Interrupted succession of ciliate communities in sharply stratified metalimnia. Marine Microbial Food Webs 8: 189-200. Massana, R., Pedrós-Alió, C. (1994) A method to determine integrated predation in stratified waters. Limnology and Oceanography 39: 248-262. Massana, R., Pedrós-Alió, C. (1994) Role of anaerobic ciliates in planktonic food webs: abundance, feeding, and impact on bacteria in the field. Applied and Environmental Microbiology 60: 1325-1334. Massana, R., Stumm, C.K., Pedrós-Alió, C. (1994) Effects of temperature, sulfide, and food abundance on growth and feeding of anaerobic ciliates. Applied and Environmental Microbiology 60: 1317-1324. Pedrós-Alió, C. (1994) The problem of species aggregation in food webs. Microbial Ecology 28: 201-203. Pedrós-Alió, C., Guerrero, R. (1994) Prokaryotology for the limnologist. In: Limnology now, a paradigm of planetary problems. Margalef, R. (ed.). Instituto Agronómico Mediterráneo, CSIC, Zaragoza pp. 37-57

1993 Calderón-Paz, J.I., Garcia-Cantizano, J., Vaqué, D., Pedrós-Alió, C. (1993) Heterotrophic bacterial production in systems of the Northern Spanish Mediterranean region. Verhandlungen Internationale Vereinigung Limnologie 25: 739-742. Gasol, J.M., Garcia-Cantizano, J., Massana, R., Guerrero, R., Pedrós-Alió, C. (1993) Physiological ecology of a metalimnetic Cryptomonas population: relationship to light, sulfide and nutrients. Journal of Plankton Research 15: 255-275. Guerrero, R., Pedrós-Alió, C. (1993) Trends in Microbial Ecology. Guerrero, R. & C. Pedrós-Alió (eds.). Spanish Society for Microbiology, Barcelona Pedrós-Alió, C. (1993) Diversity of bacterioplankton. Trends in Ecology and Evolution 8: 86-90. Pedrós-Alió, C., García Cantizano, J., Calderón, J.I. (1993) Bacterial production in anaerobic water columns. In: Current Methods in Aquatic Microbial Ecology. Kemp, P.F., Sherr, B.F., Sherr, E.B. and Cole, J.J. (eds.). Lewis Publishers, Boca Raton, Florida. pp. 519-530 Pedrós-Alió, C., Guerrero, R. (1993) Microbial ecology in Lake Cisó. Advances in Microbial Ecology 13: 155-209. Pedrós-Alió, C., Mas, J. (1993) Bacterial sinking losses. In: Current Methods in Aquatic Microbial Ecology. Kemp, P.F., Sherr, B.F., Sherr, E.B. and Cole, J.J. (eds.). Lewis Publishers, Boca Raton, Florida. pp. 677-684

1992 Gasol, J.M., Guerrero, R., Pedrós-Alió, C. (1992) Spatial and temporal dynamics of a metalimnetic Cryptomonas peak. Journal of Plankton Research 14: 1565-1579. Gasol, J.M., Peters, F., Guerrero, R., Pedrós-Alió, C. (1992) Community structure in Lake Cisó: Biomass allocation to trophic groups and differing patterns of seasonal succession in the meta- and epilimnion. Archives of Hydrobiology 123: 275- 303. Guerrero, R., Pedrós-Alió, C. (1992) The microbial component in Spanish aquatic ecosystems. Limnetica 8: 175-184. Miracle, M.R., Vicente, E., Pedrós-Alió, C. (1992) Biological studies of Spanish meromictic and stratified karstic lakes. Limnetica 8: 59-77.

1991 Gasol, J.M., García-Cantizano, J., Massana, R., Peters, F., Guerrero, R., Pedrós-Alió, C. (1991) Diel changes in the microstratification of the metalimnetic community in Lake Cisó. Hydrobiologia 211: 227-240. Gasol, J.M., Guerrero, R., Pedrós-Alió, C. (1991) Seasonal variations in size structure and prokaryotic dominance in an aquatic ecosystem. Limnology and Oceanography 36: 860-872. Gasol, J.M., Pedrós-Alió, C. (1991) On the origin of deep algal maxima: The case of Lake Cisó. Verhandlungen Internationale Vereinigung Limnologie 24: 1024- 1028. Pedrós-Alió, C., Guerrero, R. (1991) Abundance and activity of bacterioplankton in warm lakes. Verhandlungen Internationale Vereinigung Limnologie 24: 1212-1219.

1990 Eriksson, C., Pedrós-Alió, C. (1990) Selenium as a nutrient for freshwater bacterioplankton and its interactions with phosphorus. Canadian Journal of Microbiology 36: 475-483. Gasol, J.M., Mas, J., Pedrós-Alió, C., Guerrero, R. (1990) Ecología microbiana y limnología en la laguna Cisó: 1976-1989. Scientia Gerundensis 16: 155-178. Mas, J., Pedrós-Alió, C., Guerrero, R. (1990) In situ specific loss and growth rates of purple sulfur bacteria in Lake Cisó. FEMS Microbiology Ecology 73: 271- 281. Pedrós-Alió, C., Mas-Castellà, J., Mas, J., Guerrero, R. (1990) Polyhydroxyalkanoate accumulation in planktonic and anaerobic environments. In: Novel biodegradable microbial polymers. Dawes, E.A. (ed.). Kluwer Academic Publishers, The Netherlands. pp. 263-274 Pedrós-Alió, C., Sala, M.M. (1990) Microdistribution and diel vertical migration of flagellated vs gas-vacuolated purple sulfur bacteria in a stratified water body. Limnology and Oceanography 35: 1637-1644.

1989 Gaju, N., Guerrero, R., Pedrós-Alió, C. (1989) Measurement of cell volume of phototrophic bacteria in pure cultures and natural samples: Phase contrast, epifluorescence and particle sizing. FEMS Microbiology Ecology 62: 295-302. Guerrero, R., Pedrós-Alió, C., Mas, J. (1989) Els llacs càrstics: Les comunitats bacterianes i El model de l'estanyol de can Sisó. In: Història Natural dels Països Catalans, vol. 14 "Sistemes naturals". Fundació Enciclopèdia Catalana, Barcelona. pp. 408-411 Mas, J., Pedrós-Alió, C., Guerrero, R. (1989) Variations in cell size and buoyant density of Escherichia coli K-12 during glycogen accumulation. FEMS Microbiology Letters 57: 231-236. Pedrós-Alió, C. (1989) Hibridación de ácidos nucleicos en ecología microbiana. In: Microbiología-89, vol. 1. Sociedad Española de Microbiología. pp. 115-116 Pedrós-Alió, C. (1989) Toward an autecology of bacterioplankton. Chapter 8, In: Plankton Ecology:Succession in Plankton Communities. Sommer, U. (ed.). Science Tech./Springer Verlag, pp. 297-335 Pedrós-Alió, C., Mas, J., Gasol, J.M., Guerrero, R. (1989) Sinking speeds of free-living phototrophic bacteria determined with covered and uncovered traps. Journal of Plankton Research 11: 887-905. Pedrós-Alió, C., Newell, S.Y. (1989) Microautoradiographic study of thymidine uptake in brackish waters around Sapelo Island, Georgia. Marine Ecology Progress Series 55: 83-94. Sherr, B.F., Sherr, E.B., Pedrós-Alió, C. (1989) Simultaneous measurement of bacterioplankton production and protozoan bacterivory in estuarine water. Marine Ecology Progress Series 54: 209-219.

1987 García Cantizano, J., Gasol, J.M., Pedrós-Alió, C. (1987) Producción primaria por fototrofia y por quimiolitotrofia en la Laguna de Cisó. In: Actas del IV Congreso Español de Limnologia, Sevilla, 5-8 de Mayo 1987. Dpto de Ecología, Universidad de Sevilla. pp. 75-84 Guerrero, R., I. Esteve, C. Pedrós-Alió, N. Gaju (1987) Predatory bacteria in prokaryotic communities. The earliest trophic relationships Annals of the New York Academy of Sciences, 503: 238-250 503: 238-250. Guerrero, R., Pedrós-Alió, C., Esteve, I., Mas, J. (1987) Communities of phototrophic sulfur bacteria in lakes of the Spanish Mediterranean region Acta Academiae Aboensis 47: 121-151. Pedrós-Alió, C., Gasol, J.M., Guerrero, R. (1987) On the ecology of a Cryptomonas phaseolus population forming a metalimnetic bloom in Lake Cisó, Spain: Annual distribution and loss factors. Limnology and Oceanography 32: 285- 298.

1986 Dyer, B.D., Gaju, N., Pedrós-Alió, C., Esteve, I., Guerrero, R. (1986) Ciliates from a freshwater sulfuretum BioSystems 19: 127-135. Guerrero, R., Pedrós-Alió, C., Esteve, I., Mas, J., Chase, D., Margulis, L. (1986) Predatory prokaryotes: Predation and primary consumption evolved in bacteria Proceedings of the National Academy of Sciences of the USA 83: 2138-2142. Pedrós-Alió, C., Gasol, J.M., Guerrero, R. (1986) Microbial ecology of sulfurous Lake Cisó. In: F. Megusar and M. Gantar (eds.) Perspectives in Microbial Ecology. Proc. Fourth Internat. Symp. Microb. Ecol., Slovenian Soc. Microbiol., Ljubljana, Slovenia. pp: 638-643.

1985 Guerrero, R., Montesinos, E., Pedrós-Alió, C., Esteve, I., Mas, J., Van Gemerden, H., Hofman, P.A.G. Bakker, J.F. (1985) Phototrophic sulfur bacteria in two Spanish lakes: Vertical distribution and limiting factors Limnology and Oceanography 30: 919-931. Guerrero, R., Pedrós-Alió, C., Schmidt, T.M., Mas, J. (1985) A survey of buoyant density of microorganisms in pure cultures and natural samples Microbiología-SEM 1: 53-65. Mas, J., Pedrós-Alió, C., R. Guerrero, R. (1985) Mathematical model for determining the effects of intracytoplasmic inclusions on volume and density of microorganisms Journal of Bacteriology 164: 749-756. Pedrós-Alió, C., Brock, T.D. (1985) Zooplankton dynamics in Lake Mendota: short-term versus long-term changes Freshwater Biology 15: 89-94. Pedrós-Alió, C., Mas, J., Guerrero, R. (1985) The influence of poly-ß- hydroxybutyrate accumulation on cell volume and buoyant density in Alcaligenes eutrophus Archives of Microbiology 143: 178-184. Pedrós-Alió, C., Woolsey, E., Brock, T.D. (1985) Zooplankton dynamics in Lake Mendota: abundance and biomass of the metazooplankton from 1976 to 1980 Transactions of the Wisconsin Academy of Sciences, Arts and Letters 73: 167-185.

1984 Guerrero, R., Mas, J., Pedrós-Alió, C. (1984) Buoyant density changes due to intracellular content of sulfur in Chromatium warmingii and Chromatium vinosum Archives of Microbiology 137: 350-356. Pedrós-Alió, C., Abellà, C., R. Guerrero, R. (1984) Influence of solar radiation, water flux and competition on biomass of photosynthetic bacteria in Lake Cisó, Spain Verhandlungen Internationale Vereinigung Limnologie 22: 1097-1101.

1983 Guerrero, R., Mas, J., C. Pedrós-Alió, C. (1983) Variaciones en la densidad de Chromatium vinosum debidas a inclusiones intracitoplasmáticas En A. Rodríguez- Torres (ed.) Microbiología-83 1: 23-24. Pedrós-Alió, C., Brock, T.D. (1983) Papel de las bacterias heterótrofas en las aguas dulces En A. Rodríguez-Torres (ed.) Microbiología-83 2: 723-729. Pedrós-Alió, C., Brock, T.D. (1983) The impact of zooplankton feeding on the epilimnetic bacteria of a eutrophic lake. Freshwater Biology 13: 227-239. Pedrós-Alió, C., Brock, T.D. (1983) The importance of attachment to particles for planktonic bacteria Archiv für Hydrobiologie 98: 354-379. Pedrós-Alió, C., E. Montesinos, E., Guerrero, R. (1983) Factors determining annual changes in bacterial photosynthetic pigments in holomictic Lake Cisó, Spain Applied and Environmental Microbiology 46: 999-1006.

1982 Pedrós-Alió, C., T.D. Brock, T.D. (1982) Assessing the biomass and production of bacteria in eutrophic Lake Mendota Applied and Environmental Microbiology 44: 203-218.

1981 Pedrós-Alió, C. (1981) Relación entre zooplankton y bacterias en un lago eutrófico (Mendota, Wisconsin, EE.UU.) En N. Prat (ed.) Actas Primer Congreso Español Limnología, Barcelona 1: 153-158.