Herndl, G 2009, 'Enhanced viral production and infection of bacterioplankton during an iron-induced phytoplankton bloom in the Southern ocean.' Limnology and Oceanography, pp. 774-784.

Herndl, G 2009, 'Evidence for dependence of prokaryotic metabolism on suspended particulate organic matter in the dark waters of subtropical North Atlantic.' Limnology and Oceanography, pp. 182-193.

Calleja, ML, Duarte, CM, Prairie, YT, Agusti, S & Herndl, GJ 2009, 'Evidence for surface organic matter modulation of air-sea CO2 gas exchange' Biogeosciences, vol. 6, no. 6, pp. 1105-1114. DOI: 10.5194/bg-6-1105-2009, 10.5194/bg-6-1105-2009

Herndl, G 2009, 'Heterotrophic prokaryotic production in ultraligotrophic alpine karst aquifers and ecological implications.' FEMS microbiology ecology.

Wilhartitz, I, Kirschner, AKT, Stadler, H, Herndl, G, Dietzel, M, Latal, C, Mach, RL & Farnleitner, AH 2009, 'Heterotrophic prokaryotic production in ultraoligotrophic alpine karst aquifers and ecological implications' FEMS microbiology ecology, vol. 68, no. 287-299.

Herndl, G 2009, 'Mesosale variability modulates seasonal changes in the trophic structure of nano- and picoplankton communites across the NW Africa-Canary Islands transition zone.' Progress in Oceanography, pp. 180-188.

Baltar, F, Arístegui, J, Montero, MF, Espino, M, Gasol, JM & Herndl, G 2009, 'Mesoscale variability modulates seasonal changes in the trophic structure of nano- and picoplankton communities across the NW Africa-Canary Islands transition zone' Progress in Oceanography, vol. 83, no. 180-188.

Herndl, G 2009, 'Microbial oceanography of the dark ocean's pelagic realm.' Limnology and Oceanography, pp. 1501-1529.

Aristegui, J, Gasol, JM, Duarte, CM & Herndl, G 2009, 'Microbial oceanography of the dark ocean’s pelagic realm' Limnology and Oceanography, vol. 54, no. 1501-1529.

Herndl, G 2009, 'Prokaryotic extracellular enzymatic activity in relation to biomass production and respiration in the meso- and bathypelagic waters of the (sub)tropical Atlantic.' Environmental Microbiology, pp. 1998-2014.

Herndl, G 2009, 'Role of mesoscale cyclonic eddies in the distribution and activity of Archaea and Bacteria in the South China Sea.' Aquatic Microbial Ecology, vol. 56, pp. 65-79.

Winter, C, Weinbauer, M & Kerros, M-E 2009, 'Seasonal and depth-related dynamics of prokaryotes and viruses in surface and deep waters of the northwestern Mediterranean Sea.' Deep-Sea Research. Part 1: Oceanographic Research Papers, vol. 56, pp. 1972-1982.

Winter, C, Weinbauer, M & Kerros, M-E 2009, 'Seasonal changes of bacterial and archaeal communities in the dark ocean:Evidence from the Mediterranean Sea.' Limnology and Oceanography, vol. 54, no. 1, pp. 160-170.

Herndl, G 2009, 'Spatial distribution of Bacteria and Archaea and amo A gene copy numbers throughout the water column of the eastern Mediterranean Sea.' The ISME Journal: multidisciplinary journal of microbial ecology, vol. 3, no. 2, pp. 147-158.

De Corte, D, Yokokawa, T, Varela, MM, Agogué, H & Herndl, G 2009, 'Spatial distribution of Bacteria and Archaea and amoA gene copy numbers throughout the water column of the eastern Mediterranean Sea' The ISME Journal: multidisciplinary journal of microbial ecology, vol. 3, no. 147,158.

Herndl, G 2009, 'Viral and flagellate control of prokaryotic production and community structure in offshore Mediterranean waters.' Applied and Environmental Microbiology, vol. 75, no. 14, pp. 4801-4812. DOI: 10.1128/AEM.01376-08

Wangberg, S-A, Andreasson, KIM, Gustavson, K, Reinthaler, T & Henriksen, P 2008, 'UV-B effects on microplankton communities in Kongsfjord, Svalbard - A mesocosm experiment' Journal of Experimental Marine Biology and Ecology, vol. 365, no. 2, pp. 156-163. DOI: 10.1016/j.jembe.2008.08.010

Winter, C, Moeseneder, MM, Herndl, GJ & Weinbauer, MG 2008, 'Relationship of geographic distance, depth, temperature, and viruses with prokaryotic communities in the eastern tropical Atlantic Ocean' Microbial Ecology: an international journal, vol. 56, no. 2, pp. 383-389. DOI: 10.1007/s00248-007-9343-x