64
A. Meyerdierks and F.O. Glöckner
DeLong EF, Preston CM, Mincer T et al (2006) Community genomics among stratified microbial
assemblages in the ocean’s interior. Science 311:496–503
Dean FB, Hosono S, Fang LH et al (2002) Comprehensive human genome amplification using
multiple displacement amplification. Proc Natl Acad Sci U S A 99:5261–5266
Dean FB, Nelson JR, Giesler TL et al (2001) Rapid amplification of plasmid and phage DNA
using phi29 DNA polymerase and multiply-primed rolling circle amplification. Genome Res
11:1095–1099
Delcher AL, Bratke KA, Powers EC et al (2007) Identifying bacterial genes and endosymbiont
DNA with Glimmer. Bioinformatics 23:673–679
Dinsdale EA, Edwards RA, Hall D et al (2008) Functional metagenomic profiling of nine biomes.
Nature 452:629–U632
Drews G (2000) The roots of microbiology and the influence of Ferdinand Cohn on microbiology
of the 19th century. FEMS Microbiol Rev 24:225–249
Dumont MG, Murrell JC (2005) Stable isotope probing – linking microbial identity to function.
Nat Rev Microbiol 3:499–504
Dumont MG, Radajewski SM, Miguez CB et al (2006) Identification of a complete methane
monooxygenase operon from soil by combining stable isotope probing and metagenomic
analysis. Environ Microbiol 8:1240–1250
Eckert KA, Kunkel TA (1990) High fidelity DNA-synthesis by the Thermus aquaticus DNApolymerase. Nucleic Acids Res 18:3739–3744
Edwards RA, Rodriguez-Brito B, Wegley L et al (2006) Using pyrosequencing to shed light on
deep mine microbial ecology. BMC Genomics 7:57
Edwards RA, Rohwer F (2005) Viral metagenomics. Nat Rev Microbiol 3:504–510
Entcheva P, Liebl W, Johann A et al (2001) Direct cloning from enrichment cultures, a reliable
strategy for isolation of complete operons and genes from microbial consortia. Appl Environ
Microbiol 67:89–99
Epicentre Biotechnologies (2007) CopyControl TM Fosmid Library Production Kit
Erkel C, Kube M, Reinhardt R et al (2006) Genome of Rice Cluster I archaea – the key methane
producers in the rice rhizosphere. Science 313:370–372
Esteban JA, Salas M, Blanco L (1993) Fidelity of phi-29 DNA-polymerase – comparison between
protein-primed initiation and DNA polymerization. J Biol Chem 268:2719–2726
Field D, Garrity G, Gray T et al (2007) eGenomics: cataloguing our complete genome collection
III. Comp Funct Genom 2007:1–7
Field D, Garrity G, Selengut J et al (2008) Towards a richer description of our complete collection
of genomes and metagenomes: the “Minimum Information about a Genome Sequence” (MIGS)
specification. Nat Biotechnol 26:541–547
Fire A, Xu SQ (1995) Rolling replication of short DNA circles. Proc Natl Acad Sci U S A 92:
4641–4645
Frias-Lopez J, Shi Y, Tyson GW et al (2008) Microbial community gene expression in ocean
surface waters. Proc Natl Acad Sci U S A 105:3805–3810
Frishman D, Albermann K, Hani J et al (2001) Functional and structural genomics using PEDANT.
Bioinformatics 17:44–57
Gaasterland T, Sensen CW (1996) MAGPIE: automated genome interpretation. Trends Genet
12:76–78
Gans JD, Wolinsky M (2007) Genomorama: genome visualization and analysis. BMC
Bioinformatics 8:204
Gianoulis TA et al (2009) Quantifying environmental adaptation of metabolic pathways in
metagenomics. Proc Natl Acad Sci U S A 106:1374–1379
Giovannoni SJ, Britschgi TB, Moyer CL et al (1990) Genetic diversity in Sargasso Sea bacterioplankton. Nature 345:60–63
Glöckner FO, Kube M, Bauer M et al (2003) Complete genome sequence of the marine
planctomycete Pirellula sp. strain 1. Proc Natl Acad Sci U S A 100:8298–8303
A. Meyerdierks and F.O. Glöckner
DeLong EF, Preston CM, Mincer T et al (2006) Community genomics among stratified microbial
assemblages in the ocean’s interior. Science 311:496–503
Dean FB, Hosono S, Fang LH et al (2002) Comprehensive human genome amplification using
multiple displacement amplification. Proc Natl Acad Sci U S A 99:5261–5266
Dean FB, Nelson JR, Giesler TL et al (2001) Rapid amplification of plasmid and phage DNA
using phi29 DNA polymerase and multiply-primed rolling circle amplification. Genome Res
11:1095–1099
Delcher AL, Bratke KA, Powers EC et al (2007) Identifying bacterial genes and endosymbiont
DNA with Glimmer. Bioinformatics 23:673–679
Dinsdale EA, Edwards RA, Hall D et al (2008) Functional metagenomic profiling of nine biomes.
Nature 452:629–U632
Drews G (2000) The roots of microbiology and the influence of Ferdinand Cohn on microbiology
of the 19th century. FEMS Microbiol Rev 24:225–249
Dumont MG, Murrell JC (2005) Stable isotope probing – linking microbial identity to function.
Nat Rev Microbiol 3:499–504
Dumont MG, Radajewski SM, Miguez CB et al (2006) Identification of a complete methane
monooxygenase operon from soil by combining stable isotope probing and metagenomic
analysis. Environ Microbiol 8:1240–1250
Eckert KA, Kunkel TA (1990) High fidelity DNA-synthesis by the Thermus aquaticus DNApolymerase. Nucleic Acids Res 18:3739–3744
Edwards RA, Rodriguez-Brito B, Wegley L et al (2006) Using pyrosequencing to shed light on
deep mine microbial ecology. BMC Genomics 7:57
Edwards RA, Rohwer F (2005) Viral metagenomics. Nat Rev Microbiol 3:504–510
Entcheva P, Liebl W, Johann A et al (2001) Direct cloning from enrichment cultures, a reliable
strategy for isolation of complete operons and genes from microbial consortia. Appl Environ
Microbiol 67:89–99
Epicentre Biotechnologies (2007) CopyControl TM Fosmid Library Production Kit
Erkel C, Kube M, Reinhardt R et al (2006) Genome of Rice Cluster I archaea – the key methane
producers in the rice rhizosphere. Science 313:370–372
Esteban JA, Salas M, Blanco L (1993) Fidelity of phi-29 DNA-polymerase – comparison between
protein-primed initiation and DNA polymerization. J Biol Chem 268:2719–2726
Field D, Garrity G, Gray T et al (2007) eGenomics: cataloguing our complete genome collection
III. Comp Funct Genom 2007:1–7
Field D, Garrity G, Selengut J et al (2008) Towards a richer description of our complete collection
of genomes and metagenomes: the “Minimum Information about a Genome Sequence” (MIGS)
specification. Nat Biotechnol 26:541–547
Fire A, Xu SQ (1995) Rolling replication of short DNA circles. Proc Natl Acad Sci U S A 92:
4641–4645
Frias-Lopez J, Shi Y, Tyson GW et al (2008) Microbial community gene expression in ocean
surface waters. Proc Natl Acad Sci U S A 105:3805–3810
Frishman D, Albermann K, Hani J et al (2001) Functional and structural genomics using PEDANT.
Bioinformatics 17:44–57
Gaasterland T, Sensen CW (1996) MAGPIE: automated genome interpretation. Trends Genet
12:76–78
Gans JD, Wolinsky M (2007) Genomorama: genome visualization and analysis. BMC
Bioinformatics 8:204
Gianoulis TA et al (2009) Quantifying environmental adaptation of metabolic pathways in
metagenomics. Proc Natl Acad Sci U S A 106:1374–1379
Giovannoni SJ, Britschgi TB, Moyer CL et al (1990) Genetic diversity in Sargasso Sea bacterioplankton. Nature 345:60–63
Glöckner FO, Kube M, Bauer M et al (2003) Complete genome sequence of the marine
planctomycete Pirellula sp. strain 1. Proc Natl Acad Sci U S A 100:8298–8303