Pretzer C, Druzhinina IS, Amaro C, Benediktsdóttir E, Hedenström I, Hervio-Heath D, Huhulescu S, Schets FM, Farnleitner AH, Kirschner AK (2016): High genetic diversity of Vibrio cholerae in the European lake Neusiedler See is associated with intensive recombination in the reed habitat and the long-distance transfer of strains. Environ Microbiol. 19(1): 328-344


Blaschke AP , Derx J , Zessner M, Kirnbauer R, Kavka G, Strelec H, Farnleitner AH, Pang, L (2016): Setback distances between small biological wastewater treatment systems and drinking water wells against virus contamination in alluvial aquifers. Science of the Total Environment 573, 278-289

Stadler P, Blöschl G, Vogl W, Koschelnik J, Epp M, Lackner M, Oismüller M, Kumpan M, Nemeth L, Strauss P, Sommer R, Ryzinska-Paier G, Farnleitner AH, Zessner M (2016): Real-time monitoring of beta-d-glucuronidase activity in sediment laden streams: A comparison of prototypes. Water Research 101, 2016, 252-261

Blöschl G, Blaschke AP, Farnleitner AH, et al. (2016): The Hydrological Open Air Laboratory (HOAL) in Petzenkirchen: A hypothesis-driven observatory.  Hydrology and Earth System Sciences 20: 227-255

Frick C, Zoufal W, Zoufal-Hruza C, Kirschner AKT, Seidl D, Derx J, Sommer R, Blaschke AP, Nadiotis-Tsaka T, Farnleitner AH (2016): The microbiological water quality of Vienna’s River Danube section and its associated water bodies. Österr. Wasser- und Abfallwirtschaft 10.1007/s00506-016-0349-9

Kittinger C, Lipp M, Folli B, Kirschner A, Baumert R, Galler H, Grisold AJ, Luxner J, Weissenbacher M, Farnleitner AH, Zarfel G (2016): Enterobacteriaceae Isolated from the River Danube: Antibiotic Resistances, with a Focus on the Presence of ESBL and Carbapenemases. PLoS One 11(11): e0165820

Blatchley ER, Oguma K, Sommer R (2016): Comment on ‘UV Disinfection Induces a VBNC State in Escherichia coli and Pseudomonas aeruginosa’. IUVA News 18 (3): 12-16

Stadler P, Blöschl G, Vogl W, Koschelnik J, Epp M, Lackner M, Oismüller M, Kumpan M, Nemeth L, Strauss P, Sommer R, Ryzinska-Paier G, Farnleitner AH, Zessner M (2016): Real-time monitoring of beta-D-glucuronidase activity in sediment laden streams: A comparison of prototypes. Water Research 101: 252-261

Guerrero-Latorre L, Gonzales-Gustavson E, Hundesa A, Sommer R, Girones R (2016): UV disinfection and flocculation-chlorination sachets to reduce hepatitis E virus in drinking water. International Journal of Hygiene and Environmental Health, doi:10.1016/j.ijheh.2016.04.002

Kittinger C, Lipp M, Baumert R, Folli B, Koraimann G, Toplitsch D, Liebmann A, Grisold AJ, Farnleitner AH, Kirschner AKT,  Zarfel G (2016): Antibiotic resistance patterns of Pseudomonas spp. isolated from the River Danube. Front. Microbiol. 7: 586

Dietersdorfer E, Cervero-Aragó S, Sommer R, Kirschner AKT, Walochnik J (2016): Optimized methods for L. pneumophila release from its Acanthamoeba hosts. BMC Microbiology, in press

Mayer R, Bofill-Mas S, Egle L, Reischer G, Schade M, Fernandez-Cassi X, Fuchs W, Mach R, Lindner G, Kirschner A, Gaisbauer M, Piringer H, Blaschke AP, Girones R, Zessner M, Sommer R, Farnleitner A (2016): Occurrence of human-associated Bacteroidetes genetic source tracking markers in raw and treated wastewater of municipal and domestic origin and comparison to standard and alternative indicators of faecal pollution. Water Research 90: 265–276

Derx J, Schijven J, Sommer R, Zoufal-Hruza CM, van Driezum IH, Reischer G, Ixenmaier S, Kirschner A, Frick C, de Roda Husman AM, Farnleitner AH, Blaschke AP (2016) QMRAcatch: Human-Associated Fecal Pollution and Infection Risk Modeling for a River/Floodplain Environment. J Environ Qual. 45(4): 1205-14. doi: 10.2134/jeq2015.11.0560.

Schijven J, Derx J, de Roda Husman AM, Blaschke AP, Farnleitner AH (2015) QMRAcatch: Microbial Quality Simulation of Water Resources including Infection Risk Assessment. J Environ Qual. 2015 44(5):1491-502. doi: 10.2134/jeq2015.01.0048.


Schmalwieser AW, Cabaj A, Hirschmann G, Sommer R (2015): Ten-year monitoring of an ultraviolet disinfection plant for drinking water. Journal of Environmental Engineering and Science 10(2), 34–39. dx.doi.org/10.1680/jees.14.00014

Stevenson ME, Sommer R, Lindner G, Farnleitner AH, Toze S, Kirschner AKT, Blaschke AP, Sidhu JPS (2015): Attachment and Detachment Behavior of Human Adenovirus and Surrogates in Fine Granular Limestone Aquifer Material. Journal of Environmental Quality (doi:10.2134/jeq2015.01.0052)

Mayer RE, Vierheilig J, Egle L, Reischer GH, Saracevic E, Mach RL, Kirschner AKT, Zessner M, Sommer R, Farnleitner AH (2015): Automated Sampling Procedures Supported by High Persistence of Bacterial Fecal Indicators and Bacteroidetes Genetic Microbial Source Tracking Markers in Municipal Wastewater during Short-Term Storage at 5°C. Applied and Environmental Microbiology 81(15): 5134-5143 (2015)

Kittinger C, Baumert R, Folli B, Lipp M, Liebmann A, Kirschner A, Farnleitner AH, Grisold AJ and Zarfel GE (2015): Preliminary Toxicological Evaluation of the River Danube Using in Vitro Bioassays. Water-SUI 7, 1959-1968

Savio D, Sinclair L, Ijaz U, Parajka J, Reischer G, Stadler P, Blaschke AP, Bloeschl G, Mach R, Kirschner A, Farnleitner AH, Eiler A (2015): Bacterial diversity along a 2600 km river continuum. Environmental Microbiology 17(12): 4994-5007

Schauer S, Jakwerth S, Bliem R, Baudart J, Lebaron P, Huhulescu S, Kundi M, Herzig A, Farnleitner AH, Sommer R, Kirschner A (2015): Dynamics of Vibrio cholerae abundance in Austrian saline lakes, assessed with quantitative solid-phase cytometry. Environmental Microbiology 17(11):4366-4378

Stevenson M, Blaschke B, Toze S, Sidhu J, Ahmed W, Van Driezum I, Sommer R, Kirschner A, Cervero-Aragó S, Farnleitner A, and Pang L (2015): Biotin- and Glycoprotein-Coated Microspheres as Surrogates for Studying Filtration Removal of Cryptosporidium parvum in Granular Limestone Aquifer Media. Applied and Environmental Microbiology 81 (13):4277-83

Bliem R, Schauer S, Plicka H, Obwaller A, Sommer R, Steinrigl A, Alam M, Reischer GH, Farnleitner AH, Kirschner A (2015): A Novel Triplex Quantitative PCR Strategy for Quantification of Toxigenic and Nontoxigenic Vibrio cholerae in Aquatic Environments. Appl Environ Microbiol 81(9): 3077-3085


Ryzinska-Paier G, T Lendenfeld, K Correa, P Stadler, AP Blaschke, RL Mach, H Stadler, AKT Kirschner, AH Farnleitner (2014):  A sensitive and robust method for automated on-line monitoring of enzymatic activities in water and water resources. Water Science & Technology 69: 1349-1358

Cervero-Aragó S, R Sommer, RM Araujo (2014): Effect of UV irradiation (253.7) on free Legionella and Legionella associated with its amoebae hosts. Water Res 30:299-309

Stevenson ME, AP Blaschke, S Schauer, M Zessner, R Sommer, AH Farnleitner and AKT Kirschner (2014):  Enumerating Microorganism Surrogates for Groundwater Transport Studies Using Solid-Phase Cytometry. Water, Air and Soil Pollution 225 (2): 1827


Anna Carratalà, Marta Rusiñol, Jesús Rodriguez-Manzano, Laura Guerrero-Latorre, Regina Sommer, Rosina Girones (2013): Environmental effectors on the inactivation of human adenoviruses in water. Food and Environmental Virology, 5 (4): 203-214

H. Schaar, R. Sommer, R. Schürhagl, P. Yillia and N. Kreuzinger (2013): Microorganism inactivation by an ozonation step optimized for micropollutant removal from tertiary effluent. Water Science and Technology 68 (2): 311-318

Derx, J., Blaschke, A.P, Farnleitner A.H., Pang, L., G. Blöschl and Schijven J.F. (2013): Effects of river level fluctuation on virus removal by bank filtration - a numerical analysis. Journal of Contaminant Hydrology, 147:34-44

Reischer, G.H, J.E. Ebdon, J.M. Haider, N. Schuster, W. Ahmed, J. Åström, AR. Blanch, G. Blöschl, D, Byamukama, T. Coakleyi, C. Ferguson, G. Goshu, G.P. Ko, A.M. de Roda Husman, D. Mushi, R. Poma, B. Pradhan, V. Rajal, M. Schade, R. Sommer, H. Taylor, E.M. Toth, V. Vrajmasu, S. Wuertz , R.L. Mach, and AH. Farnleitner (2013): Performance characteristics of qPCR assays targeting human- and ruminant-associated Bacteroidetes for microbial source tracking across sixteen countries on six continents. Environmental Science and Technology 47 (15):8548-8556

Vierheilig J, Frick C, Mayer R, Kirschner A, Reischer G, Derx J, Mach R, Sommer R, Farnleitner AH (2013): Clostridium perfringens is not Suitable for the Indication of Fecal Pollution from Ruminant Wildlife but is Associated with Excreta from Non-Herbivorous Animals and Human Sewage. Applied and Environmental Microbiology 79: 5089-5092

Wilhartitz IC, Kirschner AKT, Fischer UR, Wieltschnig C, Brussaard CPD, Stadler H, Farnleitner AH (2013): Dynamics of natural prokaryotes, viruses and heterotrophic nanoflagellates in alpine karstic groundwater. Microbiology Open 2: 633-43


Stadler, H., R. Sommer, Kirschner, A.K.T., Reischer, G.H., Mach R.L., & Farnleitner, A.H. (2012): Neue Erkenntnisse zur mikrobiologischen Qualitätsdynamik an ausgewählten Karstquellen der Nördlichen Kalkalpen mittels automatisierter und feldtauglicher Untersuchungsmethoden. Beiträge zur Hydrogeologie, 59:95-108

Schauer, S., R. Sommer, A.H. Farnleitner and A.K.T. Kirschner (2012): Rapid and Sensitive Quantification of Vibrio cholerae and Vibrio mimicus Cells in Water Samples by Use of Catalyzed Reporter Deposition Fluorescence In Situ Hybridization Combined with Solid-Phase Cytometry. Applied and Environmental Microbiology (78) 20: 7369-7375

Kirschner, A.K.T., M. Atteneder, A. Schmidhuber, S. Knetsch, A.H. Farnleitner, R. Sommer (2012): Holy springs and holy water: underestimated sources of illness? Journal of Water & Health 10.3: 349-357

Mushi Douglas, Byamukama Denis , Kirschner Alexander K.T. , Mach Robert L. , Farnleitner Andreas H. (2012): Sanitary inspection of wells using risk-of-contamination scoring indicates a high predictive ability for bacterial faecal pollution in the peri-urban tropical lowlands of Dar es Salaam, Tanzania. Journal of Water and Health 10: 236-243

Kirschner Alexander K.T., Rameder Alexandra, Schrammel Barbara, Indra Alexander, Farnleitner Andreas H., Sommer Regina (2012): Development of a new CARD-FISH protocol for quantification of Legionella pneumophila and its application in two hospital cooling towers. Journal of Applied Microbiology 112:1244-1256


Velimirov B, Milosevic N, Kavka GG, Farnleitner AH, Kirschner AKT (2011): Development of the Bacterial Compartment Along the Danube River: A Continuum Despite Local Influences. Microbial Ecology 61: 955-967

Ryzinska-Paier G, Sommer R, Haider JM, Knetsch S, Frick C, Kirschner AKT, Farnleitner AH (2011): Acid phosphatase test proves superior to standard phenotypic identification procedure for Clostridium perfringens strains isolated from water. Journal of Microbiological Methods 87: 189–194

Riepl M, Schauer S, Knetsch S, Holzhammer E, Farnleitner AH, Sommer R, Kirschner AKT (2011): Applicability of solid phase cytometry and epifluorescence microscopy for rapid assessment of the microbiological quality of dialysis water. Nephrology, Dialysis, Transplantation 26: 3640-3645

Reischer GH, Kollanur D, Vierheilig J, Wehrspaun C, Mach RL, Sommer R, Stadler H, Farnleitner AH (2011): Hypothesis-Driven Approach for the Identification of Fecal Pollution Sources in Water Resources. Environmental Science & Technology 45: 4038-4045

Kirschner AKT, Schauer S, Steinberger B, Wilhartitz I, Grim CJ, Huq A, Colwell RR, Herzig A, Sommer R (2011): Interaction of Vibrio cholerae non-O1/non-O139 with Copepods, Cladocerans and Competing Bacteria in the Large Alkaline Lake Neusiedler See, Austria. Microbial Ecology 61: 496-506

K. Ruzicka, M. Zessner, A. Blaschke, M. Clara, H. Kroiss (2011): Evaluating the success of sewer reconstruction by using carbamazepine as anthropogenic marker in groundwater. Water Science and Technology, 63, 4; S. 727 - 732


Goshu G, Byamukama D, Manafi M, Kirschner AKT, Farnleitner AH (2010): A pilot study on anthropogenic faecal pollution impact in Bahir Dar Gulf of Lake Tana, northern Ethiopia. Ecohydrology and Hydrobiology 10: 271-280

Farnleitner AH, Ryzinska-Paier G, Reischer GH, Burtscher MM, Knetsch S, Kirschner AKT, Dirnböck T, Kuschnig G, Mach RL, Sommer R (2010): Escherichia coli and enterococci are sensitive and reliable indicators for human, livestock and wildlife faecal pollution in alpine mountainous water resources. Journal of Applied Microbiology 109: 1599-1608

I.Baart, Ch. Gschöpf, A. Blaschke, St. Preiner, Th. Hein (2010): Prediction of potential macrophyte development in response to restoration measures in an urban riverine wetland. Aquatic Botany, 93, S. 153 - 162

Derx J., A.P. Blaschke, G. Blöschl (2010): Three dimensional flow patterns at the stream-aquifer interface – a case study at the Danube. Advances in Water Resources


Wilhartitz IC, Kirschner AKT, Stadler H, Herndl GJ, Dietzel M, Latal C, Mach RL, Farnleitner AH (2009): Heterotrophic prokaryotic production in ultraoligotrophic alpine karst aquifers and ecological implications. FEMS Microbiology Ecology 68: 287-299

Kirschner AKT, Kavka GG, Velimirov B, Mach RL, Sommer R, Farnleitner AH (2009): Microbiological water quality along the Danube River: Integrating data from two whole-river surveys and a transnational monitoring network. Water Research 43: 3673-3684

Gschöpf Ch. & A. P. Blaschke (2009): Unterstützung gekoppelter hydraulischer Modelle durch Fernerkundungsdaten. Österreichische Wasser und Abfallwirtschaft; Springer Verlag; Band 7-8/2009; 111 – 115

Blaschke A.P., R.Schmalfuß (2009): Die donaunahen Grundwasserverhältnisse östlich von Wien. Österreichische Ingenieur- und Architekten-Zeitschrift (ÖIAZ) 154, Heft 1-6/2009; 121 – 126


Stadler H, Skritek P, Sommer R, Mach RL, Zerobin W, Farnleitner AH (2008): Microbiological monitoring and automated event sampling at karst springs using LEO-satellites. Water Science and Technology 58: 899-909

Reischer GH, Haider JM, Sommer R, Stadler H, Keiblinger KM, Hornek R, Zerobin W, Mach RL, Farnleitner AH (2008): Quantitative microbial faecal source tracking with sampling guided by hydrological catchment dynamics. Environmental Microbiology 10: 2598-2608

Krammer M, Velimirov B, Fischer U, Farnleitner AH, Herzig A, Kirschner AKT (2008): Growth response of soda lake bacterial communities to simulated rainfall. Microbial Ecology 55: 194-211

Kirschner AKT, Schlesinger J, Farnleitner AH, Hornek R, Süß B, Golda B, Herzig A, Reitner B (2008): Rapid growth of planktonic Vibrio cholerae non-O1/non-O139 strains in a large alkaline lake in Austria: Dependence on temperature and dissolved organic carbon quality. Applied and Environmental Microbiology 74: 2004-2015

Zessner M., Blaschke A.P., Farnleitner A., Kirnbauer R., Schilling Ch., Strelec H., Kavka G., Hassler Ch., Tentschert E., Kroiss H. (2008): Entwicklung eines Leitfadens zur Beurteilung einer dezentralen Versickerung von gereinigtem Abwasser in Österreich“. Gewässerschutz-Wasser-Abwasser, Aachen. ISBN 978-3-938996-17-1


M. Zessner, A. Blaschke, A.H. Farnleitner, R. Fenz, G. Kavka, H. Kroiss (2007): Risks for groundwater contamination from domestic waste water: tracers, model applications and quality criteria. Water Science & Technology: Water Supply, 7, 3; 121 - 130

C. Schilling, M. Zessner, A. Blaschke, D. Gutknecht, H. Kroiss(2007): Groundwater protection and diffuse nitrogen emissions to surface waters - which catchment areas have to be considered? Water Science & Technology: Water Supply, 7, 3; S. 103 - 110


Hornek R, Pommerening-Röser A, Koops HP, Farnleitner AH, Kreuzinger N, Kirschner A, Mach RL (2006): Primers containing universal bases reduce multiple amoA gene specific DGGE band patterns when analysing the diversity of beta-ammonia oxidizers in the environment. Journal of Microbiological Methods 66: 147-155

Burtscher MM, Köllner KE, Sommer R, Keiblinger K, Farnleitner AH, Mach RL (2006): Development of a novel amplified fragment length polymorphism (AFLP) typing method for enterococci isolates from cattle faeces and evaluation of the single versus pooled faecal sampling approach. Journal of Microbiological Methods 67: 281-293


Zechmeister TC, Kirschner AKT, Fuchsberger M, Gruber SG, Süß B, Rosengarten R, Pittner F, Mach RL, Herzig A, Farnleitner AH (2005): Prevalence of Botulinum neurotoxin C1 and its corresponding gene in environmental samples from low and high risk avian botulism areas. ALTEX-Alternativen zu Tierexperimenten 22: 185-195

Farnleitner AH, Wilhartitz I, Ryzinska G, Kirschner AKT, Stadler H, Burtscher MM, Hornek R, Szewzyk U, Herndl G, Mach RL (2005): Bacterial dynamics in spring water of alpine karst aquifers indicates the presence of stable autochthonous microbial endokarst communities. Environmental Microbiology 7: 1248-1259

R. Fenz, A. Blaschke, M. Clara, H. Kroiss, D. Mascher, M. Zessner (2005): Monitoring of carbamazepine concentrations in wastewater and groundwater to quantify sewer leakage. Water Science and Technology, 52, 5; S. 205 - 213

R. Fenz, A. Blaschke, M. Clara, H. Kroiss, M. Zessner(2005): Quantification of sewer exfiltration using the anti-epileptic drug carbamazepine as marker species for wastewater. Water Science and Technology, 52, 9; S. 209 - 217

C. Schilling, H. Behrendt, A. Blaschke, S. Danielescu, G. Dimova, O. Gabriel, U. Heinecke, A. Kovacs, C. Lampert, C. Postolache, H. Schreiber, P. Strauss, M. Zessner (2005): Lessons learned from investigations on case study level for modelling of nutrient emissions in the Danube Basin. Water Science and Technology, 51, 11; S. 183 - 191


Kirschner AKT, Zechmeister TC, Kavka GG, Beiwl C, Herzig A, Mach RL, Farnleitner AH (2004): Integral strategy for evaluation of fecal indicator performance in bird-influenced saline inland waters. Applied and Environmental Microbiology 70: 7396-7403


Farnleitner AH, Kasimir GD, Kavka GG, Zechmeister TC, Mach RL, Kirschner AKT (2003): The choice of standardisation reveals a significant influence on the dynamics of bacterial abundance in newly deposited river sediments. International Review of Hydrobiology 88: 284-289

Eiler A., Farnleitner A. H., Zechmeister T. C., Herzig A., Hurban C., Wesner W., Krachler R., Velimirov B., Kirschner A. K. T. (2003): Factors controlling extremely productive heterotrophic bacterial communities in shallow soda pools. Microbial Ecology 46: 43-54

Blaschke, A.P., K.-H. Steiner, R. Schmalfuß, D. Gutknecht und D. Sengschmitt (2003): Clogging processes in hyporheic interstices of an impounded river, the Danube at Vienna, Austria. International Review of Hydrobiology, 88, 3-4, pp. 397-413


Zechmeister TC, Farnleitner AH, Rocke TE, Pittner F, Rosengarten R, Mach RL, Herzig A, Kirschner AK (2002): PCR and ELISA--in vitro alternatives to the mouse-bioassay for assessing the botulinum-neurotoxin-C1 production potential in environmental samples? ALTEX-Alternativen zu Tierexperimenten 19 Suppl 1: 49-54

Kirschner AKT, Eiler A, Zechmeister TC, Velimirov B, Herzig A, Mach R, Farnleitner AH (2002) Extremely productive microbial communities in shallow saline pools respond immediately to changing meteorological conditions. Environmental Microbiology 4: 546-555


Farnleitner AH, Hocke L, Beiwl C, Kavka GG, Zechmeister T, Kirschner AKT, Mach RL (2001) Rapid enzymatic detection of Escherichia coli contamination in polluted river water. Letters in Applied Microbiology 33: 246-250