Bioinformatics 2008, 24:i7–13 PubMedCrossRef 33 Meyer F, Paarman

Bioinformatics 2008, 24:i7–13.PubMedCrossRef 33. Meyer F, Paarmann D, D’Souza M, Olson R, Glass EM, Kubal M, Paczian

T, Rodriguez A, Stevens R, Wilke A, Wilkening J, Edwards RA: The Metagenomics RAST server – A public resource for the automatic phylogenetic and functional analysis of metagenomes. BMC Bioinformatics 2008, 9:386.PubMedCrossRef 34. Cole JR, Chai B, Farris RJ, Wang Q, Kulam-Syed-Mohidee AS, McGarrell DM, Bandela AM, Cardenas E, Garrity GM, Tiedje JM: The ribosomal database project (RDP-II): introducing myRDP space and quality controlled public data. Nucleic Acids Res 2007, 35:169–172.CrossRef 35. Pruess E, Mocetinostat manufacturer Quast C, Knittel K, Fuchs B, Ludwig W, Peplies J, Glöckner FO: SILVA: a comprehensive mTOR inhibitor online resource for quality checked and aligned ribosomal

RNA sequence data compatible with ARB. Nuc Acids Res 2007, 35:7188–7196.CrossRef 36. DeSantis TZ, Hugenholtz P, Larsen N, Rojas M, Brodie EL, Keller K, Huber T, Dalevi D, Hu P, Andersen GL: Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB. Appl Environ Microbiol 2006, 72:5069–5072.PubMedCrossRef 37. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ: Basic local alignment search tool. J Mol Biol 1990, 215:403–410.PubMed 38. Kristiansson E, Hugenholtz P, Dalevi D: ShotgunFunctionalizeR: An R-package for functional analysis of metagenomic data. Bioinformatics 2009, 25:2737–2738.PubMedCrossRef 39. Parks DH, Beiko RG: Identifying biologically relevant differences between metagenomic Sclareol communities. Bioinformatics 2010, 26:715–721.PubMedCrossRef 40. Schloss PD, Westcott SL, Ryabin T, Hall JR, Hartmann M, Hollister EB, Lesniewski RA, Oakley BB, Parks DH, Robinson CJ, Sahl JW, Stres B, Thallinger

GG, Van Horn DJ, Weber CF: Introducing mothur: open source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol 2009, 75:7537–41.PubMedCrossRef 41. Overbeek R, Begley T, Butler RM, Choudhuri JV, Chuang HY, Cohoon M, de Crécy-Lagard V, Diaz N, Disz T, Edward R, Fonstein M, Frank ED, Gerdes S, Glass EM, Goesmann A, Hanson A, Iwata-Reuyl D, Jensen R, Jamshidi N, Krause L, Kubal M, Larsen N, Linke B, McHardy AC, Meyer F, Neuweger H, Olsen G, Olson R, Osterman A, Portnoy V, Pusch GD, Rodionov DA, Rückert C, Steiner J, Stevens R, Thiele I, Vassieva O, Ye Y, Zagnitko O, Vonstein V: The subsystems approach to Nutlin-3 nmr genome annotation and its use in the project to annotate 1000 genomes. Nucleic Acids Res 2005, 33:5691–702.PubMedCrossRef 42. Clarke KR, Gorley RN: PRIMER-E. PRIMER-E Ltd, Plymout, UK; 2001. Authors’ contributions RL carried out sample collection, sample processing, bioinformatic analyses, and manuscript preparation. JSD conceived of the study, and participated in its design and coordination and helped to draft the manuscript. SG participated in bioinformatic and statistical analyses.

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