Publications in peer reviewed journals- Pester M, Rattei T, Flechl S, Gröngröft A, Richter A, Overmann J, Reinhold-Hurek B, Loy A, Wagner M. 2012. amoA-based consensus phylogeny of ammonia-oxidizing archaea and deep sequencing of amoA genes from soils of four different geographic regions. Environ. Microbiol. , in press.
- Berry D, Ben Mahfoudh K, Wagner M, Loy A. 2011. Barcoded primers used in multiplex amplicon pyrosequencing bias amplification. Appl. Environ. Microbiol. 77: 7846-7849.
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Supplementary material [PDF]
- Steger D, Berry D, Haider S, Horn M, Wagner M, Stocker R, Loy A. 2011. Systematic spatial bias in DNA microarray hybridization is caused by probe spot position-dependent variability in lateral diffusion. PloS One 6: e23727.
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- Gruber-Vodicka HR, Dirks U, Leisch N, Baranyi C, Stoecker K, Bulgheresi S, Heindl NR, Horn M, Lott C, Loy A, Wagner M, Ott J. 2011. Paracatenula, an ancient symbiosis between thiotrophic Alphaproteobacteria and catenulid flatworms. Proc. Natl. Acad. Sci. USA 108: 12078-12083.
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- Steger D, Wentrup C, Braunegger C, Deevong P, Hofer M, Richter A,
Baranyi C, Pester M, Wagner M, Loy A. 2011. Microorganisms with novel dissimilatory (bi)sulfite reductase genes are widespread and part of the core microbiota in low-sulfate peatlands. Appl .Environ. Microbiol. 77: 1231-1242.
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Supplementary material [PDF]
- Pester M, Bittner N, Deevong P, Wagner M, Loy A. 2010. A 'rare biosphere' microorganism contributes to sulfate reduction in a peatland. ISME J. 12: 1591-1602.
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Supplementary information [PDF]
- Hubert C, Arnosti C, Brüchert V, Loy A, Vandieken V, Jørgensen BB. 2010. Thermophilic anaerobes in Arctic marine sediments induced to mineralize complex organic matter at high temperature. Environ. Microbiol. 12: 1089-1104.
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- Hubert C, Loy A, Nickel M, Arnosti C, Baranyi C, Brüchert V, Ferdelman T, Finster K, Christensen FM, Rosa de Rezende J, Vandieken V, Jørgensen BB. 2009. A constant flux of diverse thermophilic bacteria into the cold Arctic seabed. Science 325: 1541-1544.
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- Hesselsøe M, Füreder S, Schloter M, Bodrossy L, Iversen N, Roslev P, Nielsen PH, Wagner M, Loy A. 2009. Isotope array analysis of Rhodocyclales uncovers functional redundancy and versatility in an activated sludge. ISME J. 3: 1349-1364.
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- Rinke C, Schmitz-Esser S, Loy A, Horn M, Wagner M, Bright M. 2009. High genetic similarity between two geographically distinct strains of the sulfur-oxidizing symbiont 'Candidatus Thiobios zoothamnicoli' FEMS Microbiol. Ecol. 67: 229-41.
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- Loy A, Duller S, Baranyi C, Mußmann M, Ott J, Sharon I, Béjà O, Le Paslier D, Dahl C, Wagner M. 2009. Reverse dissimilatory sulfite reductase as phylogenetic marker for a subgroup of sulfur-oxidizing prokaryotes. Environ. Microbiol. 11: 289-299.
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Supplementary figure 1
Supplementary table 1
DsrAB database for ARB
- Schönmann S, Loy A, Wimmersberger C, Sobek J, Rehrauer H, Frey B, Vandamme P, Eberl L. 2009. 16S rRNA gene-based phylogenetic microarray for simultaneous identification of members of the genus Burkholderia. Environ. Microbiol. 11: 779-800.
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- Loy A, Arnold R, Tischler P, Rattei T, Wagner M, Horn M. 2008. probeCheck - a central resource for evaluating oligonucleotide probe coverage and specificity. Environ. Microbiol. 10: 2894-2896.
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- Ruehland C, Blazejak A, Lott C, Loy A, Erseus C, Dubilier N. 2008. Multiple bacterial symbionts in two species of co-occurring gutless oligochaete worms from Mediterranean sea grass sediments. Environ Microbiol. 10: 3404-3416.
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- Miletto M, Loy A, Antheunisse AM, Loeb R, Bodelier PLE, Laanbroek HJ. 2008. Biogeography of sulfate-reducing prokaryotes in river floodplains. FEMS Microbiol. Ecol. 64: 395-406.
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- Wagner M, Smidt H, Loy A, Zhou J. 2007. Unravelling microbial communities with DNA-microarrays: challenges and future directions. Microb. Ecol. 53: 498-506.
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- Lücker S, Steger D, Kjeldsen KU, MacGregor BJ, Wagner M, Loy A. 2007. Improved 16S rRNA-targeted oligonucleotide probe set for analysis of sulfate-reducing bacteria by fluorescence in situ hybridization. J. Microbiol. Methods. 69: 523-528.
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Supplementary online material
- Kjeldsen KU, Loy A, Thomsen TR, Jakobsen TF, Wagner M, and Ingvorsen K. 2007. Diversity of sulfate-reducing bacteria from an extreme hypersaline sediment in Great Salt Lake (Utah, USA). FEMS Microbiol. Ecol. 60: 287-298.
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- Loy A, Maixner F, Wagner M, Horn M. 2007. probeBase - an online resource for rRNA-targeted oligonucleotide probes: new features 2007. Nucleic Acids Res. 35: D800-D804.
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- Leloup J, Loy A, Knab NJ, Borowski C, Wagner M, Jørgensen BB. 2007. Diversity and abundance of sulfate-reducing microorganisms in the sulfate and methane zones of a marine sediment, Black Sea. Environ. Microbiol. 9: 131-142.
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- Imachi H, Sekiguchi Y, Kamagata Y, Loy A, Qiu YL, Hugenholtz P, Kimura N, Wagner M, Ohashi A, Harada H. 2006. Non-sulfate-reducing, syntrophic bacteria affiliated with the Desulfotomaculum cluster I are widely distributed in methanogenic environments. Appl. Environ. Microbiol. 72: 2080-2091.
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- Wagner M, Nielsen PH, Loy A, Nielsen JL, Daims H. 2006. Linking microbial community structure with function: fluorescence in situ hybridization-microautoradiography and isotope arrays. Curr. Opin. Biotechnol. 17: 1-9.
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- Loy A, Bodrossy L. 2006. Highly parallel microbial diagnostics using oligonucleotide microarrays. Clinica Chimica Acta 363: 106-119.
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- Sabehi G, Loy A, Jung KH, Partha R, Spudich JL, Isaacson T, Hirschberg J, Wagner M, Beja O. 2005. New insights into metabolic properties of marine bacteria encoding proteorhodopsins. PLoS Biol. 3: e273.
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- Lehner A, Loy A, Behr T, Gaenge H, Ludwig W, Wagner M, Schleifer KH. 2005. Oligonucleotide microarray for identification of Enterococcus species. FEMS Microbiol. Lett. 246: 133-142.
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- Wagner M, Loy A, Klein M, Lee N,Ramsing NB, Stahl DA, Friedrich MW. 2005. Functional marker genes for identification of sulphate-reducing prokaryotes. Methods Enzymol. 397: 469-489.
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- Loy A, Beisker W, Meier H. 2005. Diversity of bacteria growing in a natural mineral water after bottling. Appl. Environ. Microbiol. 71: 3624-3632.
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- Zverlov V, Klein M, Lücker S, Friedrich MW, Kellermann J, Stahl DA, Loy A, Wagner M. 2005. Lateral gene transfer of dissimilatory (bi)sulfite reductase revisited. J. Bacteriol. 187: 2203-2208.
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- Loy A, Schulz C, Lücker S, Schöpfer-Wendels A, Stoecker K, Baranyi C, Lehner A, Wagner M. 2005. 16S rRNA gene-based oligonucleotide microarray for environmental monitoring of the betaproteobacterial order Rhodocyclales. Appl. Environ. Microbiol. 71: 1373-1386.
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- Loy A, Küsel K, Lehner A, Drake HL, Wagner M. 2004. Microarray and functional gene analyses of sulfate-reducing prokaryotes in low sulfate, acidic fens reveal co-occurrence of recognized
genera and novel lineages. Appl. Environ. Microbiol. 70: 6998-7009.
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- Loy A, Horn M, Wagner M.. 2003. probeBase - an online resource for rRNA-targeted oligonucleotide probes. Nucleic Acids Res. 31: 514-516.
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- Loy A, Lehner A, Lee N, Adamczyk J, Meier H, Ernst J, Schleifer KH, Wagner M. 2002. Oligonucleotide microarray for 16S rRNA gene-based detection of all recognized lineages of sulfate-reducing prokaryotes in the environment. Appl. Environ. Microbiol. 68: 5064-5081.
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- Wagner M, Loy A, Nogueira R, Purkhold U, Lee N, Daims H. 2002. Microbial community composition and function in wastewater treatment plants. Antonie van Leeuwenhoek 81: 665-680 .
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- Wagner M, Loy A. 2002. Bacterial community composition and function in sewage treatment systems. Curr. Opin. Biotechnol. 13: 218-227.
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- Juretschko S, Loy A, Lehner A, Wagner M. 2002. The microbial community composition of a nitrifying-denitrifying activated sludge from an industrial sewage treatment plant analyzed by the full-cycle rRNA approach. Syst. Appl. Microbiol. 25: 84-99.
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Book chapters and other publications- Loy A, Pester M, Steger D. 2011. Phylogenetic microarrays for cultivation-independent identification and metabolic characterization of microorganisms in complex samples. In PCR mutation detection protocols. Methods in Molecular Biolology (Vol. 688), pp. 187-206. (Theophilus BDM and Rapley R, ed.). Springer, Dordrecht Heidelberg London, New York.
- Loy A, Pester M. 2010. Probing identity and physiology of uncultured microorganisms with isotope labeling techniques. In Geomicrobiology: Molecular and Environmental Perspective, pp. 127-146. (Barton LL, Mandl M, Loy A, ed.). Springer, Dordrecht, Heidelberg, London, New York.
- Taylor MW, Loy A, and Wagner M. 2010. Microarrays for studying the composition and function of microbial communities. In The microbiology of activated sludge, pp. 397-411. (Seviour RJ, Nielsen PH, ed.). IWA Publishing, London, UK.
- Loy A, Duller S, and Wagner M.. 2008. Evolution and ecology of microbes dissimilating sulfur compounds: Insights from siroheme sulfite reductases. In Microbial Sulfur Metabolism, pp. 46-59. (Friedrich C, Dahl C, ed.). Springer, New York.
- Stahl DA, Loy A, Wagner M. 2007. Molecular strategies for studies of natural populations of sulphate-reducing microorganisms. In Sulfate-reducing bacteria: Environmental and engineered systems, pp. 39-117. (Barton LL, Hamilton WA, ed.). Cambridge University Press, Cambridge, UK.
- Loy A, Taylor MW, Bodrossy L, Wagner M. 2006. Applications of nucleic acid microarrays in soil microbial ecology. In Molecular approaches to soil, rhizosphere and plant microorganism analysis, pp. 18-41. (Cooper JE, Rao JR, ed.). CABI Publishing, Wallingford, Oxfordshire, UK.
- Bodrossy L, Loy A. 2005. Oligonucleotide microarrays in microbial diagnostics. In Encyclopedia of medical genomics and proteomics, pp. 1-8. (Fuchs J, Podda M, ed.). Marcel Dekker Inc., New York, USA.
- Loy A, Wagner M. 2004. Analyse komplexer mikrobieller Lebensgemeinschaften mit phylogenetischen Mikroarrays. BioSpektrum 6: 745-747.
- Loy A, Daims H, Wagner M. 2002. Activated Sludge: Molecular techniques for determining community composition. In The Encyclopedia of Environmental Microbiology, pp. 26-43. (Bitton G, ed.). Wiley, New York .
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