81. Hiessl S, Schuldes J, Thürmer A, Halbsguth T, Bröker D, Angelov A, Liebl W, Daniel R, Steinbüchel A (2012) Involvement of two latex clearing proteins during rubber degradation and insights into the further degradation pathway revealed by the genome sequence of Gordonia polyisoprenivorans strain VH2 Appl Environ Microbiol (doi: 10.1128/AEM.07969-11).

80. Fender AC, Pfeiffer B, Gansert D, Leuschner C, Daniel R, Jungkunst HF (2012) The inhibiting effect of nitrate fertilisation on methane uptake of a temperate forest soil is influenced by labile carbon. Biology and Fertility of Soils (doi: 10.1007/s00374-011-0660-3).

79. Nacke H, Engelhaupt M, Brady S, Fischer C, Tautzt J, Daniel R (2012) Identification and characterization of novel cellulolytic and hemicellulolytic genes and enzymes derived from German grassland soil metagenomes. Biotechnol Lett (doi: 10.1007/s10529-011-0830-2).

78. Brinkhoff T, Fischer D, Vollmers J, Voget S, Beardsley C, Thole S, Mussmann M, Kunze B, Wagner-Döbler I, Daniel R, Simon M (2011) Biogeography and phylogenetic diversity of a cluster of exclusively marine myxobacteria. ISME J. (doi 10.1038/ismej.2011.190.)

77. Michael GB, Kadlec K, Sweeney MT, Brzuszkiewicz E, Liesegang H, Daniel R, Murray RW, Watts JL, Schwarz S (2012) ICEPmu1, an integrative conjugative element (ICE) of Pasteurella multocida: analysis of the regions that comprise 12 antimicrobial resistance genes. J Antimicrob Chemother 67(1): 84-90.

76. Michael GB, Kadlec K, Sweeney MT, Brzuszkiewicz E, Liesegang H, Daniel R, Murray RW, Watts JL, Schwarz S (2012) ICEPmu1, an integrative conjugative element (ICE) of Pasteurella multocida: structure and transfer. J Antimicrob Chemother 67(1): 91-100 (abstract).

75. Gounder K, Brzuszkiewicz E, Liesegang H, Wolherr A, Daniel R, Gottschalk G, Reva O, Kumwenda B, Srivastava M, Bricio C, Berenguer J, van Heerden E, Litthauer D (2011) Sequence of the hyperplastic genome of the naturally competent Thermus scotoductus SA-01. BMC Genomics 12(1):577.

74. Bletz S, Schuldes J, Brzuszkiewicz E, Daniel R, Gottschalk G, Karch H, Mellmann A (2011) Evolutionary events in Enterohemorrhagic Escherichia coli (EHEC) O26:H11. International Journal of Medical Microbiology 301(Supplement 47): 115.

73. Bijtenhoorn P, Mayerhofer H, Müller-Dieckmann J, Utpatel C, Schipper C, Hornung C, Szesny M, Grond S, Thürmer A, Brzuszkiewicz E, Daniel R, Dierking K, Schulenburg H, Streit WR (2011) A novel metagenomic short-chain dehydrogenase/reductase attenuates Pseudomonas aeruginosa biofilm formation and virulence on Caenorhabditis elegans. PLoS ONE 6(10): e26278.

72. Gardebrecht A, Markert S, Sievert SM, Felbeck H, Thürmer A, Albrecht D, Wollherr A, Kabisch J, Le Bris N, Lehmann R, Daniel R, Liesegang H, Hecker M, Schweder T (2011) Physiological homogeneity among the endosymbionts of Riftia pachyptila and Tevnia jerichonana revealed by proteogenomics. ISME Journal: doi: 10.1038/ismej.2011.137.

71. Djukic M, Poehlein A, Thürmer A, Daniel R (2011) Genome sequence of Brevibacillus laterosporus LMG 15441, a pathogen of invertebrates. J. Bacteriol. 193(19):5535-5536.

70. Daniel R (2011) Soil-based metagenomics. In: Handbook of Molecular Microbial Ecology II: Metagenomics in Different Habitats. F. J. de Bruijn (ed.), pp. 83-92. John Wiley & Sons, Inc.

69. Volland S, Rachinger M, Strittmatter A, Daniel R, Gottschalk G, Meyer O (2011) Complete genome sequences of the chemolithoautotrophic strains Oligotropha carboxidovorans OM4 and OM5. J. Bacteriol. 193:5043.

68. Poehlein A, Kusian B, Friedrich B, Daniel R, Bowien B (2011) Complete genome sequence of the type strain Cupriavidus necator N-1. J. Bacteriol. 193:5017.

67. Wrede C, Brady S, Rockstroh S, Dreier A, Kokoschka S, Heinzelmann SM, Heller C, Reitner J, Taviani M, Daniel R, Hoppert M (2011) Aerobic and anaerobic methane oxidation in terrestrial mud volcanoes in the Northern Apennines. Sedimentary Geology doi: 10.1016/j.sedgeo.2011.06.004

66. Brzuszkiewicz E, Weiner J, Wollherr A, Thürmer A, Hüpeden J, Lomholt HB, Kilian M, Gottschalk G, Daniel R, Mollenkopf H-J, Meyer TF, Brüggemann H (2011) Comparative Genomics and Transcriptomics of Propionibacterium acnes. PLoS ONE 6:e21581.

65. Kalhoefer D, Thole S, Voget S, Lehmann R, Liesegang H, Wollher A, Daniel R, Simon M, Brinkhoff T (2011) Comparative genome analysis and genome-guided physiological analysis of Roseobacter litoralis. BMC Genomics 12:324.

64. Brzuszkiewicz E, Thürmer A, Schuldes J, Leimbach A, Liesegang H, Meyer FD, Boelter J, Petersen H, Gottschalk G, Daniel R (2011) Genome sequence analyses of two isolates from the recent Escherichia coli outbreak in Germany reveal the emergence of a new pathotype: Entero-Aggregative-Haemorrhagic Escherichia coli (EAHEC). Arch Microbiol 193(12):883-891.

63. Markert S, Gardebrecht A, Felbeck H, Sievert SM, Klose J, Becher D, Albrecht D, Thürmer A, Daniel R, Kleiner M, Hecker M, Schweder T (2011) Status quo in physiological proteomics of the uncultured Riftia pachyptila endosymbiont. Proteomics 11:3106-3117.

62. Becker K, Mutter W, Daniel R, Rudack C, Peschel A, Pieper DH (2011) Bakterielle Untermieter in der menschlichen Nase. GENOMXPRESS 1.11:8-10.

61. Hoff KH, Tech M, Lingner T, Daniel R, Morgenstern B, Meinicke P (2011) Gene prediction in metagenomic fragments with Orphelia: a large scale machine learning approach. In: Handbook of Molecular Microbial Ecology I: Metagenomics and Complementary Approaches, pp. 359-368. F. J. de Bruijn (ed.), John Wiley & Sons, Inc.

60. Voget S, Klippel B, Daniel R, Antranikian G (2011) Complete Genome Sequence of Carnobacterium sp. 17-4. J. Bacteriol. 193:3403-3404.

59. Kadlec K, Brenner Michael G, Sweeney MT, Brzuszkiewicz E, Liesegang H, Daniel R, Watts JL, Schwarz S (2011) Molecular basis of macrolide, triamilide and lincosamide resistance in Pasteurella multocida from bovine respiratory disease. Antimicrobial Agents Chemotherapy 55:2475-2477.

58. Nacke H, Will C, Herzog S, Nowka B, Engelhaupt M, Daniel R (2011) Identification of novel lipolytic genes and gene families by screening of metagenomic libraries derived from soil samples of the German Biodiversity Exploratories. FEMS Microbiol. Ecol. 78:188-201.

57. Nacke H, Thürmer A, Wollherr A, Will C, Hodac L, Herold N, Schöning I, Schrumpf M, Daniel R (2011) Pyrosequencing-based assessment of bacterial community structure along different management types in german forest and grassland soils. PLoS ONE 6(2):e17000. doi:10.1371/journal.pone.0017000.

56. Simon C, Daniel R (2011) Metagenome analyses: past and future trends. Applied and Environmental Microbiology 77(4):1153–1161.

55. Rechnitzer H, Brzuszkiewicz E, Strittmatter A, Liesegang H, Lysnyansky I, Daniel R, Gottschalk G, and Rottem S (2011) Genomic features and insights into the biology of Mycoplasma fermentans. Microbiology (157):760-773.

54. Leimbach A, Brzuszkiewicz E, Thürmer A, Daniel R, Gottschalk G, Dobrindt U (2010) Elucidation of the complete genome sequence of Escherichia coli acute bovine mastitis isolate 1303: implications for host-pathogen interactions. Reproduction in Domestic Animals 45 (Supplement 1): 29.

53. Streit RW, Daniel R (2010) Metagenomics: Methods and Protocols (Methods in Molecular Biology, Vol. 668), W. Streit, R. Daniel (eds.), Humana Press, Springer Verlag.

52. Simon C, Daniel R (2010) Construction of small-insert and large-insert metagenomic libraries. In: Metagenomics: Methods and Protocols (Methods in Molecular Biology, Vol. 668), W. Streit, R. Daniel (eds.), pp. 39-50, Humana Press, Springer Verlag.

51. Angelov A, Liebl S, Ballschmiter M, Bömeke M, Lehmann R, Liesegang H, Daniel R, Liebl W (2010) Genome sequence of the polysaccharide-degrading, thermophilic anaerobe Spirochaeta thermophila DSM 6192. J. Bacteriol. 192:6492 - 6493.

50. Kuenne C, Voget S, Pischimarov J, Oehm S, Goesmann A, Daniel R, Hain T, Chakraborty T (2010) Comparative analysis of plasmids in the genus Listeria. PLoS ONE 5(9):e12511.

49. Will C, Thürmer A, Wollherr A, Nacke H, Herold N, Schrumpf M, Gutknecht J, Wubet T, Buscot F, Daniel R (2010) Horizon-specific bacterial community composition of German grassland soils as revealed by pyrosequencing-based analysis of 16S rRNA genes. Appl. Environ. Microbiol. 76:6751-6759.

48. Zdziarski J, Brzuszkiewicz E, Wullt B, Liesegang H, Biran D, Voigt B, Grönberg-Hernandez J, Hecker M, Ron E, Daniel R, Gottschalk G, Hacker J, Svanborg C, Dobrindt U (2010) Host imprints on bacterial genomes - rapid, divergent evolution in individual patients. PLoS Pathogens 6(8):e1001078.

47. Simon C, Daniel R (2010) Construction of small-insert and large-insert metagenomic libraries. In: Metagenomics: Methods and Protocols (Methods in Molecular Biology), W. Streit, R. Daniel (eds.), Humana Press, Springer Verlag.

46. Wagenknecht M, Dib JR, Thürmer A, Daniel R, Farias ME, Meinhardt F (2010) Structural peculiarities of the micrococcal linear megaplasmid pLMA1 interfere with pyrosequencing reads assembly. Biotechnology Letters 32(12):1853-1862.

45. Farnbacher M, Jahns T, Willrodt D, Daniel R, Haas R, Goesmann R, Kurtz S, Rieder G (2010) Sequencing, annotation, and comparative genome analysis of the gerbil-adapted Helicobacter pylori strain HPB8. BMC Genomics 11:335.

44. Will C, Nacke H, Thürmer A, Daniel R (2010) Charakterisierung und Nutzung der bakteriellen Diversität in Bodenmetagenomen. GenomXpress 1.10:9-11.

43. Schreiber F, Gumrich P, Daniel R, Meinicke P (2010) Treephyler: fast taxonomic profiling of metagenomes. Bioinformatics 26:960-961.

42. Wagner-Döbler I, Baumgart B, Brinkhoff T, Buchholz I, Bunk B, Cypionka H, Daniel R, Drepper T, Gerdts G, Hahnke S, Han C, Jahn D, Kalhoefer D, Kiss H, Klenk HP, Kyrpides N, Liebl W, Liesegang H, Meincke L, Petersen J, Piekarski T, Pommerenke C, Pradella S, Pukall R, Rabus R, Stackebrandt E, Thole S, Thompson S, Tielen P, Tomasch J, von Jan M, Wanphrut N, Wichels A, Zech H, Simon M (2010) The complete genome sequence of the algal symbiont Dinoroseobacter shibae - a hitchhiker`s guide to life in the sea. ISME Journal 4:61-77.

41. Simon C, Daniel R (2009) Achievements and knew knowledge unraveled by metagenomic approaches. Applied Microbiology and Biotechnology 85:265-276.

40. Simon C, Wiezer A, Strittmatter A, Daniel R (2009) Phylogenetic diversity and metabolic potential revealed in a glacier ice metagenome. Applied and Environmental Microbiology 75:7519-7526.

39. Simon C, Herath J, Rockstroh S, Daniel R (2009) Rapid identification of genes encoding DNA polymerases by function-based screening of metagenomic libraries derived from glacial ice. Applied and Environmental Microbiology 75:2964-2968.

38. Waschkowitz T, Rockstroh S, Daniel R (2009) Isolation and characterization of metalloproteases with a novel domain structure by construction and screening of metagenomic libraries. Applied and Environmental Microbiology 75:2506-2516.

37. Simon C, Daniel R (2009) Leben im Eis: Funktionelle und phylogenetische Charakterisierung des Gletschereis-Metagenoms. GenomXpress 1.09:4-6.

36. Steele HL, Jaeger K-E, Daniel R, Streit WR (2009) Advances in recovery of novel biocatalysts from metagenomes. Journal of Molecular Microbiology and Biotechnology 16:25-37.

35. Hoff KJ, Tech M, Lingner T, Daniel R, Morgenstern B, Meinicke P (2008) Gene prediction on metagenomic fragments: a large scale machine learning approach. BMC Bioinformatics 9:217.

34. Petersen M, Daniel R (2006) Purification and characterization of an extracellular lipase from Clostridium tetanomorphum. World Journal of Microbiology and Biotechnology 22:431-435.

33. Schwarz S, Waschkowitz T, Daniel R (2006) Enhancement of gene detection frequencies by combining DNA-based stable-isotope probing with the construction of metagenomic DNA libraries. World Journal of Microbiology and Biotechnology 22:363-368.

32. Daniel R (2005) The metagenomics of soil. Nature Reviews Microbiology 3:470-478.

31. Streit W, Jaeger K-E, Daniel R (2005) Umweltgenomik (Metagenomik) als nahezu unerschöpfliche Quelle für neue Biokatalysatoren, Stoffwechselwege und Wirkstoffe. GenomXpress September 2005:32-33.

30. Hoster F, Schmitz JE, Daniel R (2005) Enrichment of chitinolytic microorganisms: isolation and characterization of a chitinase exhibiting antifungal activity against phytopathogenic fungi from a novel Streptomyces strain. Applied Microbiology and Biotechnology 66:434-442.

29. Andres S, Wiezer A, Bendfeldt H, Waschkowitz T, Toeche-Mittler C, Daniel R (2004) Insights into the genome of the enteric bacterium Escherichia blattae: cobalamin (B12) biosynthesis, B12-dependent reactions, and inactivation of the gene region encoding B12-dependent glycerol dehydratase by a new Mu-like prophage. Journal of Molecular Microbiology and Biotechnology 8:150-168.

28. Daniel R, Streit W (2004) Metagenomik, mehr als nur die Suche nach neuen Biokatalysatoren und Wirkstoffen. Biospektrum 10:39-41.

27. Sun J, Daniel R, Wagner-Döbler I., Zeng A-P (2004) Is autoinducer-2a universal signal for interspecies communication: a comparative genomic and phylogenetic analysis of the synthesis and signal transduction pathways. BMC Evolutionary Biology 4:36.

26. Streit WR, Daniel R, Jaeger K-E (2004) Prospecting for biocatalysts and drugs in the genomes of non-cultured microorganisms. Current Opinion in Biotechnology 15:285-290.

25. Daniel R (2004) The soil metagenome - a rich resource for the discovery of novel natural products. Current Opinion in Biotechnology 15:199-204.

24. Knietsch A, Bowien S, Whited G, Gottschalk G, Daniel R (2003) Identification and characterization of genes encoding coenzyme B12-dependent glycerol and diol dehydratases from metagenomic DNA libraries derived from enrichment cultures. Applied and Environmental Microbiology 69:3048-3060.

23. Knietsch A, Waschkowitz T, Bowien S, Henne A, Daniel R (2003) Metagenomes of complex microbial consortia derived from different soils as sources for novel genes conferring formation of carbonyls from short-chain polyols on Escherichia coli. Journal of Molecular Microbiology and Biotechnology 5:46-56.

22. Knietsch A , Waschkowitz T, Bowien S, Henne A, Daniel R (2003) Construction and screening of metagenomic libraries derived from enrichment cultures: generation of a gene bank for genes conferring alcohol oxidoreductase activity on Escherichia coli. Applied and Environmental Microbiology 69:1408-1416.

21. Daniel R (2003) Die mikrobielle Diversität als Quelle für neuartige Biokatalysatoren: Konstruktion und Durchmusterung von Metagenombanken. Biospektrum 9:605-606.

20. Daniel R, Schmitz RA, Streit W (2002) Aus Wattenmeer und Wüstensand - Mikrobielle Diversität als Quelle für neuartige Biokatalysatoren und Wirkstoffe. Georgia Augusta 1:111-115.

19. Daniel R (2002) Construction of environmental libraries for functional screening of enzyme acitivity. In: Directed molecular evolution of proteins. K Johnson, S Brakmann (eds.), pp. 63-78. Wiley-VCH Verlag, Weinheim.

18. Majernik A, Gottschalk G, Daniel R (2001) Screening of environmental DNA libraries for the presence of genes conferring Na+ (Li+)/H+ antiporter activity on Escherichia coli: characterization of the recovered genes and the corresponding gene products. Journal of Bacteriology 183:6645-6653.

17. Hoster F, Daniel R, Gottschalk G (2001) Isolation of a new Thermoanaerobacterium thermosaccharolyticum strain (FH1) producing a thermostable dextranase. Journal of General and Applied Microbiology 47:187-192.

16. Seifert C, Bowien S, Gottschalk G, Daniel R (2001) Identification and expression of the genes and purification and characterization of the gene products involved in reactivation of coenzyme B12-dependent glycerol dehydratase of Citrobacter freundii. European Journal of Biochemistry 268:2369-2378.

15. Schmitz RA, Daniel R, Deppenmeier U, Gottschalk G (2001) The anaerobic way of life. In: The Prokaryotes, third edition, B Balows, HG Trüper, M Dworkin, W Harder, KH Schleifer (eds.), Springer Verlag, New York.

14. Henne A, Schmitz RA., Bömeke M, Gottschalk G, Daniel R (2000) Screening of environmental DNA libraries for the presence of genes lipolytic activity on Escherichia coli. Applied and Environmetal Microbiology 66:3113-3116.

13. Daniel R, Warnecke F, Potekhina JS, Gottschalk G (1999) Identification of the syntrophic partners in a coculture coupling anaerobic methanol oxidation to Fe(III) reduction. FEMS Microbiology Letters 180:197-203.

12. Henne A, Daniel R, Schmitz RA, Gottschalk G (1999) Construction of environmental DNA libraries in Escherichia coli and screening for the presence of genes conferring utilization of 4-hydroxybutyrate. Applied and Environmental Microbiology 65:3901-3907.

11. Daniel R, Bobik TA, Gottschalk G (1998) Biochemistry of coenzyme B12-dependent glycerol and diol dehydratases and organization of the encoding genes. FEMS Microbiology Reviews 22:553-566.

10. Macis L, Daniel R, Gottschalk G (1998) Properties and sequence of the coenzyme B12-dependent glycerol dehydratase of Clostridium pasteurianum. FEMS Microbiology Letters 164:21-28.

9. Luers F, Seyfried M, Daniel R, Gottschalk G (1997) Glycerol conversion to 1,3-propanediol by Clostridium pasteurianum: cloning and expression of the gene encoding 1,3-propanediol dehydrogenase. FEMS Microbiology Letters 154:337-345.

8. Seyfried M, Daniel R, Gottschalk G (1996) Cloning, sequencing and overexpression of the genes encoding coenzyme B12-dependent glycerol dehydratase of Citrobacter freundii. Journal of Bacteriology 178:5793-5796.

7. Daniel R, Seyfried M, Gottschalk G (1995/1996) Cloning, sequencing and overexpression of the genes encoding coenzyme B12-dependent glycerol dehydratase of Citrobacter freundii. BioFactors 5:207.

6. Daniel R, Stuertz K, Gottschalk G (1995) Biochemical and molecular characterization of the oxidative branch of glycerol utilization by Citrobacter freundii. Journal of Bacteriology 177:4392-4401.

5. Daniel R, Boenigk R, Gottschalk G (1995) Purification of 1,3-propanediol dehydrogenase from Citrobacter freundii and cloning, sequencing and overexpression of the corresponding gene in Escherichia coli. Journal of Bacteriology 177:2151-2156.

4. Forster A, Daniel R, Müller V (1995) The Na+ translocating ATPase of Acetobacterium woodii. is a F1FO-type enzyme as deduced from the primary structure of its γ, β and ε subunits. Biochimica Biophysica Acta 1229:393-397.

3. Daniel R (1994) Glycerinvergärung durch Citrobacter freundii: Sequenzierung und Charakterisierung des dha Regulons. Cuvillier Verlag, Göttingen, Germany.

2. Daniel R, Gottschalk G (1994) Physiology and genetics of the anaerobes. Proceedings of the 6th European Congress on Biotechnology Part 1:333-335.

1. Daniel R, Gottschalk G (1992) Growth temperature-dependent activity of glycerol dehydratase in Escherichia coli expressing the Citrobacter freundii dha regulon. FEMS Microbiology Letters 100:281-286.