BMC Microbiol 2009, 9:50.PubMedCrossRef 34. Tindall BJ, Rosselló-Móra R, Busse HJ, Ludwig W, Kämpfer P: Notes on the characterization of prokaryote

strains for taxonomic purposes. Int J Syst Evol Microbiol 2010,60(Pt 1):249–66.PubMedCrossRef 35. Rosselló-Mora R, Amann R: The species concept for prokaryotes. FEMS Microbiol Rev 2001, 25:39–67.PubMedCrossRef 36. Chain PSG, Carniel E, Larimer FW, Lamerdin J, Stoutland PO, Regala WM, Georgescu AM, Vergez LM, Land ML, Motin VL, Brubaker RR, Fowler J, Hinnebusch J, Marceau M, Medigue C, Simonet M, Chenal-Francisque V, Souza B, Dacheux D, Elliott JM, Derbise A, Hauser LJ, Garcia E: Insights into the evolution of Yersinia pestis through whole-genome comparison with Yersinia pseudotuberculosis. AZD3965 mw Proc Natl Acad Sci USA 2004,101(38):13826–31.PubMedCrossRef 37. Kersey P, Bower L, Morris L, Horne A, Petryszak R,

Kanz C, Kanapin A, Das U, Michoud K, Phan I, Gattiker A, Kulikova T, Faruque N, Duggan K, Mclaren P, Reimholz B, Duret L, Penel S, Reuter I, Apweiler R: Integrted and Genome Reviews: integrated views of complete genomes and proteomes. Nucleic Acids Res 2005, (33 Database):D297–302. 38. Tatusov RL, Koonin EV, Lipman DJ: A genomic perspective on protein families. Science 1997,278(5338):631–637.PubMedCrossRef 39. Tatusov RL, Galperin MY, Natale DA, Koonin EV: The COG PLX-4720 solubility dmso database: a tool for genome-scale analysis of protein functions and

evolution. Nucleic Acids Res 2000, 28:33–36.PubMedCrossRef 40. Tatusov RL, Natale DA, Garkavtsev IV, Tatusova TA, Shankavaram UT, Rao BS, Kiryutin B, Galperin MY, Fedorova ND, Koonin EV: The COG database: new developments in phylogenetic classification of proteins from complete genomes. Nucleic Acids Res 2001, 29:22–28.PubMedCrossRef 41. Tatusov RL, Fedorova ND, Jackson JD, Jacobs AR, Kiryutin B, Koonin EV, Krylov DM, Mazumder R, Mekhedov SL, Nikolskaya AN, Rao BS, Smirnov S, Sverdlov AV, Vasudevan S, Wolf YI, Yin JJ, Natale DA: The COG database: an updated version includes eukaryotes. BMC Bioinformatics 2003, 4:41.PubMedCrossRef 42. Fulton DL, Li YY, Laird MR, Horsman BG, Roche FM, Brinkman FS: Improving the Ribose-5-phosphate isomerase specificity of high-throughput ortholog prediction. BMC Bioinformatics 2006, 7:270.PubMedCrossRef 43. Chiu JC, Lee EK, Egan MG, Sarkar IN, Coruzzi GM, DeSalle R: OrthologID: automation of genome-scale ortholog identification within a parsimony framework. Bioinformatics 2006,22(6):699–707.PubMedCrossRef 44. Zmasek CM, Eddy SR: RIO: analyzing BMS345541 proteomes by automated phylogenomics using resampled inference of orthologs. BMC Bioinformatics 2002, 3:14.PubMedCrossRef 45. Storm CEV, Sonnhammer ELL: Automated ortholog inference from phylogenetic trees and calculation of orthology reliability. Bioinformatics 2002, 18:92–99.PubMedCrossRef 46.