- Chakraborty S, Ardern Z, Aliyu H, Kaster AK (2025) Deciphering the Proteome of Escherichia coli K-12: Integrating Transcriptomics and Machine Learning to Annotate Hypothetical Proteins. bioRxiv, https://doi.org/10.1101/2025.03.20.643886
- Sabel-Becker B, Jost NP, Kaster AK, Holtmann D (2025) A co-feeding strategy of formate and H2 for methanogens–Enhancing growth parameters and methane production. Journal of CO2 Utilization, https://doi.org/10.1016/j.jcou.2025.103049
- Ghosh D, Shi Y, Zimmermann I, Holzhauser K, von Bergen M, Kaster AK, Spielvogel S, Dippold M, Mueller JA, Jehmlich N (2025) Cover crop root channels promote bacterial adaptation to drought in the maize rhizosphere. bioRxiv, https://doi.org/10.1101/2025.05.05.651044
- El Khaled El Faraj R, Chakraborty S, Zhou M, Sobol M, Thiele D, Shatford-Adams M, Cassal M, Kaster AK, Dietrich S, Levkin P, Popava A (2025) Drug‐Induced Differential Gene Expression Analysis on Nanoliter Droplet Microarrays: Enabling Tool for Functional Precision Oncology. Advanced Healthcare Materials, https://doi.org/10.1002/adhm.202401820
- Pastor-López EJ, Casas ME, Hellman D, Müller JA, Matamoros V (2025) Impact of riverbed renaturalization on the attenuation of antibiotics and antimicrobial resistance in wastewater effluent-dominated streams. Environmental Research, https://doi.org/10.1016/j.envres.2025.120910
- Wang G, Haenelt S, Corrêa FB, da Rocha UN, Musat F, Zhang J, Müller JA, Musat N (2025) Riverine antibiotic resistome along an anthropogenic gradient. Frontiers in Microbiology. https://doi.org/10.3389/fmicb.2025.1516033
- Minden S, Grünberger A, Van der Schaaf U, Neumann A, Rösch C, Sauer J, Kaster AK (2024) Producing food from CO2 using microorganisms: Lots to do, little to lose!. Trends in Food Science & Technology. https://doi.org/10.1016/j.tifs.2024.104778
- Ghosh D, Shi Y, Zimmermann IM, Stürzebecher T, Holzhauser K, von Bergen M, Kaster AK, Spielvogel S, Dippold MA, Müller JA, Jehmlich N. (2024) Cover crop monocultures and mixtures enhance bacterial abundance and functionality in the maize root zone. ISME Communications. https://doi.org/10.1093/ismeco/ycae132
- L Petani, AM Jung, RR Frietsch Musulin, G Sturm, AK Kaster, C Pylatiuk (2024) Exploring the Antibacterial Effects of Ozonated Oils in Medicine: A Study on Escherichia coli Inhibition. Ozone: Science & Engineering. https://doi.org/10.1080/01919512.2023.2233746
- T Glockow, AK Kaster, KS Rabe, CM Niemeyer (2024) Sustainable agriculture: leveraging microorganisms for a circular economy Applied Microbiology and Biotechnology. https://doi.org/10.1007/s00253-024-13294-0
- Arslan M, Benally C, Müller JA, Usman M, Hanna J, Gamal El-Din M (2024) Empowering indigenous resilience with treatment wetlands. Cell Reports Sustainability. https://doi.org/10.1016/j.crsus.2024.100149
- Pastor-López EJ, Casas ME, Hellman D, Müller JA, Matamoros V (2024) Nature-based solutions for antibiotics and antimicrobial resistance removal in tertiary wastewater treatment: Microbiological composition and risk assessment. Water Research. https://doi.org/10.1016/j.watres.2024.122038
- Pastor-López EJ, Escolà M, Kisielius V, Arias CA, Carvalho PN, Gorito AM, Ramos S, Freitas V, Guimarães L, Almeida CMR, Müller JA, Küster E, Kilian RM, Diawara A, Ba S, Matamoros V (2024) Potential of nature-based solutions to reduce antibiotics, antimicrobial resistance, and pathogens in aquatic ecosystems. A critical review. Science of the Total Environment. https://doi.org/10.1016/j.scitotenv.2024.174273
- Afzal M, Arslan M, Younus S, Müller JA, Usman M, Yasin M, Mehmood MA, Mehdi T, Islam E, Tauseef M, Iqbal S (2024) A Nature-Based Closed-loop Wastewater Treatment System at Vehicle-Washing Facilities: From Linear to Circular Economy. iScience, https://doi.org/10.1016/j.isci.2024.109361
- Sewell HL, Criddle CS, Woo SG, Kim S, Müller JA, Kaster AK (2024) Pseudomonas stutzeri KC carries the pdt genes for carbon tetrachloride degradation on an integrative and conjugative element. Microbial Physiology. https://doi.org/10.1159/000538783
- Sobol M, Sturm G, Kaster AK (2024) Besser und günstiger: Volumenreduktion in der Einzelzellgenomik. BIOspektrum, https://doi.org/10.1007/s12268-024-2126-9
- Hembach N, Drechsel V, Sobol M, Kaster AK, Köhler HR, Triebskorn R, Schwartz T (2024) Effect of glyphosate, its metabolite AMPA, and the glyphosate formulation Roundup® on brown trout (Salmo trutta f. fario) gut microbiome diversity. Frontiers in Microbiology. https://doi.org/10.3389/fmicb.2023.1271983
- Metze F, Vollmers J, Lenk F, Kaster AK (2023) First shotgun metagenomics study of Juan de Fuca deep-sea sediments reveals distinct microbial communities above, within, between, and below sulfate methane transition zones. Frontiers in Microbiology, https://doi.org/10.3389/fmicb.2023.1241810
- Sturm G, Mojarrad M, Kaster AK (2023). Targeted cell labeling and sorting of Prokaryotes for cultivation and omics approaches. Microbial Physiology. https://doi.org/10.1159/000532088
- Lo HY, Wink K, Nitz H, Kästner M, Belder D, Müller JA, Kaster AK (2023). scMAR-Seq: a novel workflow for targeted single-cell genomics of microorganisms using radioactive labeling. mSystems. https://doi.org/10.1128/msystems.00998-23
- Glockow T, Velaz Martín M, Meisch L, Kapieske D, Meissner K, Correa Cassal M, Kaster AK, Rabe KS, Niemeyer CM (2023). A photobioreactor for production of algae biomass from gaseous emissions of an animal house. Applied Microbiology and Biotechnology. https://doi.org/10.1007/s00253-023-12815-7
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Zoheir AE, Sobol MS, Meisch L, Ordoñez-Rueda D, Kaster AK, Niemeyer CM, Rabe KS (2023). A three-colour stress biosensor reveals multimodal response in single cells and spatiotemporal dynamics of biofilms. npj biofilms and microbiomes. https://doi.org/10.1038/s41522-023-00424-1
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Wiegand S, Sobol MS, Schnepp-Pesch LK, Yan G, Iqbal S, Vollmers J, Müller JA, Kaster AK (2023). Taxonomic Re-Classification and Expansion of the Phylum Chloroflexota Based on over 5000 Genomes and Metagenome-Assembled Genomes. Microorganisms. https://doi.org/10.3390/microorganisms11102612
- Haenelt S, Richnow HH, Müller JA, Musat N (2023). Antibiotic resistance indicator genes in biofilm and planktonic microbial communities after wastewater discharge. Frontiers in Microbiology. https://doi.org/10.3389/fmicb.2023.1252870
- Arslan M, Siddique K, Müller JA, Tahseen R, Iqbal S, Islam E, Abbasi SA, Usman M, Gamal El-Din M, Afzal M (2023). Full-scale floating treatment wetlands in Pakistan: From performance evaluation to acceptance by local communities. ACS ES&T Water. https://doi.org/10.1021/acsestwater.3c00228
- Knecht CA, Hinkel M, Mäusezahl I, Kaster AK, Nivala J, Müller JA. Identification of Antibiotic Resistance Gene Hosts in Treatment Wetlands Using a Single-Cell Based High-Throughput Approach. Water. https://doi.org/10.3390/w15132432
- Münch JM, Sobol MS, Brors B, Kaster A-K (2023). Chapter One – Single-cell transcriptomics and data analyses for prokaryotes-Past, present and future concepts. Advances in Applied Microbiology. https://10.1016/bs.aambs.2023.04.002
- Haenelt S, Wang G, Kasmanas JC, Musat F, Richnow HH, da Rocha UN, Müller JA, Musat N (2023). The fate of sulfonamide resistance genes and anthropogenic pollution marker intI1 after discharge of wastewater into a pristine river stream. Frontiers in Microbiology. https://10.3389/fmicb.2023.1058350
- Vollmers J, Correa Cassal M, and Kaster AK (2023). Midi-metagenomics: A novel approach for cultivation independent microbial genome reconstruction from environmental samples. bioRxiv. https://doi.org/10.1101/2023.01.26.525644
- Ajayi-Odoko AO, Ayansina ADV, Ikhimiukor OO, Müller JA, Adelowo OO (2023). Low-level fluoroquinolone resistance mediated by qnrD3 carried on Col3M plasmids in Proteus mirabilis isolated from untreated hospital wastewater, Ibadan, South West Nigeria. Environmental Science and Pollution Research. https://doi.org/10.1007/s11356-023-25618-0
- Elucidating the functional roles of prokaryotic proteins using big data and artificial intelligence. FEMS Microbiology Reviews. https://doi.org/10.1093/femsre/fuad003
- Sobol MS, Kaster AK (2023). Back to Basics: A Simplified Improvement to Multiple Displacement Amplification for Microbial Single-Cell Genomics. International Journal of Molecular Sciences. https://doi.org/10.3390/ijms24054270
- Zoheir A, Meisch L, Velaz Martín M, Bickmann C, Kiselev A, Lenk F, Kaster AK, Rabe K, Niemeyer C. (2022). Macroporous Silicone Chips for Decoding Microbial Dark Matter in Environmental Microbiomes ACS Appl. Mater. Interfaces. https://doi.org/10.1021/acsami.2c15470
- Nguyen PM, Arslan M, Kappelmeyer U, Mäusezahl I, Wiessner A, Müller JA. (2022). Spatial characterization of microbial sulfur cycling in horizontal-flow constructed wetland models. Chemosphere. https://doi.org/10.1016/j.chemosphere.2022.136605
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Knecht CA, Krüger M, Kellmann S, Mäusezahl I, Möder M, Adelowo OO, Vollmers J, Kaster AK, Nivala J, Müller JA. (2022). Cellular stress affects the fate of microbial resistance to folate inhibitors in treatment wetlands. Science of the Total Environment. https://doi.org/10.1016/j.scitotenv.2022.157318
- Weber N, Hofmeister M, Wunsch N, Kohler A, Kaster AK, Vollmers J, Kachel B, Mack M, Lamparter T. (2022). Natural Transformation, ProteinExpression, and Cryoconservation of the Filamentous Cyanobacterium Phormidium lacuna. JoVE. https://doi.org/10.3791/63470
- Lo HY, Martínez-Lavanchy P, Goris T, Heider J, Boll M, Kaster AK, Müller JA. (2022). IncP-type plasmids carrying genes for antibiotic resistance or for aromatic compound degradation are prevalent in sequenced Aromatoleum and Thauera strains. Environmental Microbiology. https://doi.org/10.1111/1462-2920.16262
- Murphy R, Benndorf R, Wilhelm de Beer, Vollmers J, Kaster AK, Beemelmanns C, Poulsen M. (2021). Comparative Genomics Reveals Prophylactic and Catabolic Capabilities of Actinobacteria within the Fungus-Farming Termite Symbiosis. mSphere http://doi.org/10.1128/mSphere.01233-20
- Wiegand S, Jogler M, Boedeker C, Heuer A, Rast P, Peeters S, Jetten M, Kaster AK, Rohde M, Kallscheuer N, Jogler C. (2020). Additions to the genus Gimesia: description of Gimesia alba sp. nov., Gimesia algae sp. nov., Gimesia aquarii sp. nov., Gimesia aquatilis sp. nov., Gimesia fumaroli sp. nov. and Gimesia panareensis sp. nov., isolated from aquatic habitats of the Northern Hemisphere. Antonie van Leeuwenhoek http://doi.org/10.1007/s10482-020-01489-0
- Wiegand S, Jogler M, Boedeker C, Heuer A, Peeters S, Kallscheuer N, Jetten M, Kaster AK, Rohde M, Jogler C. (2020). Updates to the recently introduced family Lacipirellulaceae in the phylum Planctomycetes: isolation of strains belonging to the novel genera Aeoliella, Botrimarina, Pirellulimonas and Pseudobythopirellula and the novel species Bythopirellula polymerisocia and Posidoniimonas corsicana. Antonie van Leeuwenhoek http://doi.org/10.1007/s10482-020-01486-3
- Benndorf R, Martin K, Küfner M, de Beer W, Vollmers J, Kaster AK, Beemelmanns C. (2020). Actinomadura rubteroloni sp. nov. and Actinomadura macrotermitis sp. nov., isolated from the gut of the fungus growing-termite Macrotermes natalensis. International journal of systematic and evolutionary microbiology http://doi.org/10.1099/ijsem.0.004403
- Benndorf R, Schwitalla J,Martin K, de Beer W, Vollmers J, Kaster AK ,Poulsen M, Beemelmanns C. (2020). Nocardia macrotermitis sp. nov. and Nocardia aurantia sp. nov., isolated from the gut of the fungus-growing termite Macrotermes natalensis. International journal of systematic and evolutionary microbiology. http://doi.org/10.1099/ijsem.0.004398
- Schwitalla J, Benndorf R, Martin K, Vollmers J, Kaster AK, de Beer W, Poulsen M, Beemelmanns C. (2020). Streptomyces smaragdinus sp. nov., isolated from the gut of the fungus growing-termite Macrotermes natalensis. International Journal of Systematic and Evolutionary Microbiology. https://doi.org/10.1099/ijsem.0.004478
- Lee S, Schalk F, Schwitalla J, Benndorf R, Vollmers J, Kaster AK, de Beer W, Park M, Ahn M, Hee Jung W, Beemelmanns C, Kim K. (2020). Polyhalogenation of Isoflavonoids by the Termite-Associated Actinomadura sp. RB99. Journal of Natural Products http://doi.org/10.1021/acs.jnatprod.0c00676
- Kaster AK, Sobol M. (2020). Microbial Single-Cell Omics: The Crux of the Matter. Applied Microbiology and Biotechnology http://doi.org/0.1007/s00253-020-10844-0
- Benndorf R, Martin K, Küfner M, de Beer ZW, Vollmers J, Kaster AK, Beemelmanns C. (2020). Actinomadura rubteroloni sp. nov. and Actinomadura macrotermitis sp. nov., isolated from the gut of fungus growing-termite Macrotermes natalensis. International Journal of Systematic and Evolutionary Microbiology
- Dam H, Vollmers J, Sobol M, Cabezas A, Kaster AK. (2020). Targeted Cell Sorting Combined with Single Cell Genomics reveals Microbial Dark Matter overlooked by Metagenomics. Frontiers in Microbiology
- Kohn T, Rast P, Kallscheuer N, Wiegand S, Boedeker C, Jetten M, Jeske O, Vollmers J, Kaster AK, Rohde M, Jogler M, Jogler C. (2020). The microbiome of Posidonia oceanica seagrass leaves can be dominated by Planctomycetes. Frontiers in Microbiology http://doi.org/10.3389%2Ffmicb.2020.01458
- Geesink P, Wegner C, Probst A, Herrmann M, Dam H, Kaster AK, Küsel K. (2020) Genome‐inferred spatio‐temporal resolution of an uncultivated Roizmanbacterium reveals its ecological preferences in groundwater. Environmental Microbiology http://doi.org/10.1111/1462-2920.14865
- Kaster AK, Vollmers J. (2020). Genetischer Globetrotter: Ein marines Plasmid hilft beim Verständnis des horizontalen Gentransfers. Biologie in unserer Zeit http://doi.org/10.1002/biuz.202070109
- Adelowo OO, Ikhimiukor OO, Knecht C, Vollmers J, Bhatia M, Kaster AK, Müller JA. (2020). A survey of extended-spectrum beta-lactamase-producing Enterobacteriaceae in urban wetlands in southwestern Nigeria as a step towards generating prevalence maps of antimicrobial resistance. Plos one http://doi.org/10.1371/journal.pone.0229451
- Wiegand S, Jogler M, Boedeker C, Pinto D, Vollmers J, Rivas-Marín E, Kohn T, Peeters S, Heuer A, Rast P, Oberbeckmann S, Bunk B, Jeske O, Meyerdierks A, Storesund J, Kallscheuer N, Lücker S, Lage O, Pohl T, Merkel B, Hornburger P, Müller R, Brümmer F, Labrenz M, Spormann A, Op den Camp H, Overmann J. (2019). Cultivation and functional characterization of 79 planctomycetes uncovers their unique biology. Nature microbiology http://doi.org/10.1038/s41564-019-0588-1
- Rischer M, Lee SR, Eom HJ, Park HJ, Vollmers J, Kaster AK, Shin JY, Oh DC, Kim KH, Beemelmanns C. (2019). Spirocyclic cladosporicin A and cladosporiumins I and J from a Hydractinia-associated Cladosporium sphaerospermum SW67. Organic Chemistry Frontiers http://doi.org/10.1039/C8QO01104D
- Jameson E, Stephenson J, Jones H, Millard A, Kaster AK, Purdy KJ, Airs R, Murrell JC, Chen Y. (2019). Deltaproteobacteria (Pelobacter) and Methanococcoides are responsible for choline-dependent methanogenesis in a coastal saltmarsh sediment. The ISME journal http://doi.org/10.1038/s41396-018-0269-8
- Taubert M, Grob C, Crombie A, Howat A.M, Burns OJ, Weber M, Lott C, Kaster AK, Vollmers J, Jehmlich N, von Bergen M, Chen Y, Murrell JC. (2019). Communal metabolism by Methylococcaceae and Methylophilaceae is driving rapid aerobic methane oxidation in sediments of a shallow seep near Elba, Italy. Environmental microbiology http://doi.org/10.1111/1462-2920.14728
- Petersen J, Vollmers J, Ringel V, Brinkmann H, Ellebrandt-Sperling C, Spröer C, Howat AM, Murrell JC, Kaster AK (2019). A marine plasmid hitchhiking vast phylogenetic and geographic distances. Proceedings of the National Academy of Sciences http://doi.org/10.1073/pnas.1905878116
- Howat AM, Vollmers J, Taubert M, Gro, C, Dixon JL, Todd JD, Chen J, Kaster AK, Murrell JC. (2018). Comparative Genomics and Mutational Analysis Reveals a Novel XoxF-Utilizing Methylotroph in the Roseobacter Group Isolated From the Marine Environment. Frontiers in microbiology http://doi.org/10.3389/fmicb.2018.00766
- Adelowo O, Vollmers J, Mäusezahl I, Kaster AK, Müller JA. (2018). Detection of the carbapenemase gene bla VIM-5 in members of the Pseudomonas putida group isolated from polluted Nigerian wetlands. Scientific reports http://doi.org/10.1038/s41598-018-33535-3
- Pratscher J, Vollmers J, Wiegand S, Dumont MG, Kaster AK. (2018). Unravelling the identity, metabolic potential, and global biogeography of the atmospheric methane-oxidising Upland Soil Cluster ∝. Enviromental Microbiology http://doi.org/10.1111/1462-2920.14036
- Dam HT, Vollmers J, Kaster AK, Häggblom MM. (2017). Reconstructed genomes of novel Dehalococcoides mccartyi strains from 1,2,3,4-tetrachlorodibenzo-p-dioxin-dechlorinating enrichment cultures reveal divergent reductive dehalogenase gene profiles. FEMS Microbiology Ecology. https://doi.org/10.1093/femsec/fix151
- Sewell HL, Kaster AK, Spormann AM. (2017). Homoacetogenesis in Deep-Sea Chloroflexi, as Inferred by Single-Cell Genomics, Provides a Link to Reductive Dehalogenation in Terrestrial Dehalococcoidetes. mBio.asm.org. https://doi.org/10.1128/mbio.02022-17
- Guo H, Benndorf R, Leichnitz D, Klassen JL, Vollmers J, Görls H, Steinacker M, Weigel C, Dahse HM, Kaster AK, de Beer ZW, Poulsen M, Beemelmanns C. (2017). Isolation, Biosynthesis and Chemical Modifications of Rubterolones A-F, Rare Tropolone Alkaloids from Actinomadura sp. 5-2. Chem. Eur. J.. Accepted Author Manuscript. PubMed. https://doi.org/10.1002/chem.201701005
- Vollmers, J., Wiegand, S., Kaster, A.-K. (2017) Comparing and Evaluating Metagenome Assembly Tools from a Microbiologist’s Perspective – Not Only Size Matters!. PLOS ONE. https://doi.org/10.1371/journal.pone.0169662
- Vollmers J, Frentrup M, Rast P, Jogler C, Kaster, AK. (2017). Untangling Genomes of Novel Planctomycetal and Verrucomicrobial Species from Monterey Bay Kelp Forest Metagenomes by Refined Binning. Front. Microbiol. https://doi.org/10.3389/fmicb.2017.00472
- Kohn, T., Heuer, A., Jogler, M., Vollmers, J., Boedeker, C., Bunk, B., Rast, P., Borchert, D., Glöckner, I., Freese, H.M., Klenk, H., Overmann, J., Kaster, A.-K., Wiegand, S., Rohde, M. and Jogler, C. (2016). Fuerstia marisgermanicae gen. nov., sp. nov., an unusual member of the phylum Planctomycetes from the German Wadden Sea. Front. Microbiol. 7:2079. DOI 10.3389/fmicb.2016.02079
- Song, Y., Kaster, A.-K., Vollmers, J., Song, Y., Davison, P.A., Frentrup, M., Preston, G.M., Thompson, I.P., Murrell, J.C., Yin, H., Hunter, C.N., Huang, W.E. (2016). Single-cell genomics based on Raman sorting reveals novel carotenoid-containing bacteria in the Red Sea. Microbial Biotechnology DOI 10.1111/1751-7915.12420
- Flood, B.E., Fliss, P., Jones, D.S., Dick, G.J., Jain, S., Kaster, A.-K., Winkel, M., Mußmann, M. and Bailey, J. (2016). Single-Cell (Meta-)Genomics of a Dimorphic Candidatus Thiomargarita nelsonii Reveals Genomic Plasticity. Front. Microbiol. 7:603. DOI 10.3389/fmicb.2016.0060
- Kaster, A.-K., Meyer-Blackwell, K., Passarelli, B., Spormann, A., (2014). Single cell genomic study of Dehalococcoidites species in deep-sea sediments of the Peruvian Margin, The ISME Journal, DOI 10.1038/ismej.2014.24
- Poehlein, A., Schmidt, S., Kaster, A.-K., Goenrich, M., Vollmers, J., Thürmer, A., Bertsch, J., Voigt, B., Hecker, M., Daniel, R., Thauer, R.K., Gottschalk, G. and Müller, M. (2012) An ancient pathway combining carbon dioxide fixation with the generation and utilization of a sodium ion gradient for ATP synthesis; PLoS One 2012; 7, e33439
- Kaster, A.-K., Moll, J., Parey, K. and Thauer, R.K. (2011) Coupling of ferredoxin and heterodisulfide reduction via electron bifurcation in hydrogenotrophic methanogenic archaea; Proceedings of the National Academy of Sciences USA 2011; 108:2981-2986
- Kaster, A.-K., Goenrich, M., Seedorf, H., Liesegang, H., Wollher, A., Gottschalk, G. and Thauer, R.K. (2011) More than 200 genes required for methane formation from H2 and CO2 and energy conservation in Methanothermobacter marburgensis and M. thermautotrophicus; Archaea 2011; 973848
- Liesegang, H.*, Kaster, A.-K.*, Wiezer, A., Goenrich. M., Wollher, A., Seedorf, H., Gottschalk, G., and Thauer, R.K. (2010) Complete Genome Sequence of Methanothermobacter marburgensis, a methanoarchaeon model organism; Journal of Bacteriology 2010; 192:5850-5851
- Thauer, R.K., Kaster, A.-K., Goenrich, M., Schick, M., Hiromoto, T. and Shima, S. (2010) Hydrogenases from methanogenic archaea, nickel, a novel cofactor, and H2 storage; Annual Reviews of Biochemistry 2010; 79:507-536
- Thauer, R.K., Kaster, A.-K., Seedorf, H., Buckel, W. and Hedderich, R. (2008) Methanogenic archaea: ecologically relevant differences in energy conservation; Nature Reviews Microbiology 2008; 6:579–591
- Grundl, M.A., Kaster, A.-K., Beaulieu, E.D. and Trauner, D. (2006) Development of a Friedel-Crafts Triflation; Organic Letters 2006; 8:5429-5432