Bioinformatics 2001,17(9):847–848.PubMed 83. Gardy JL, Laird MR, Chen F, Rey S, Walsh CJ, Ester M, CAL-101 mw Brinkman FS: PSORTb

v. 2.0: expanded prediction of bacterial protein subcellular localization and insights gained from comparative proteome analysis. Bioinformatics 2005,21(5):617–623.PubMed 84. Yu NY, Wagner JR, Laird MR, Melli G, Rey S, Lo R, Dao P, Sahinalp SC, Ester M, Foster LJ, et al.: PSORTb 3.0: improved protein subcellular localization prediction with refined localization subcategories and predictive capabilities for all prokaryotes. Bioinformatics 2010,26(13):1608–1615.PubMed 85. Gasteiger E, Gattiker A, Hoogland C, Ivanyi https://www.selleckchem.com/products/ly3039478.html I, Appel RD, Bairoch A: ExPASy: The proteomics server for in-depth protein knowledge and analysis. Nucleic Acids Res 2003,31(13):3784–3788.PubMed 86. Saier MH, Tran CV, Barabote RD: TCDB: the Transporter Classification Database for membrane transport protein analyses and information. Nucleic Acids Res 2006,34((Database issue)):D181–186.PubMed 87. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ: Basic local alignment search tool. J Mol Biol 1990,215(3):403–410.PubMed 88. Price AL, Jones NC, Pevzner PA: De novo identification of repeat families in large genomes. Bioinformatics 2005,21(Suppl 1):i351–358.PubMed 89. Stothard P, Wishart DS: Circular genome visualization and exploration using CGView. Bioinformatics 2005,21(4):537–539.PubMed 90. Varani AM, Siguier P, Gourbeyre E,

see more Charneau V, Chandler M: ISsaga is an ensemble of web-based methods for high throughput identification and semi-automatic annotation of insertion sequences in prokaryotic genomes. Genome Biol 2011,12(3):R30.PubMed 91. Darling AC, Mau B, Blattner FR, Perna NT: Mauve: multiple alignment of conserved genomic sequence with rearrangements. Genome Res 2004,14(7):1394–1403.PubMed 92. Darling AE, Mau B, Perna NT: progressiveMauve: multiple genome alignment with gene gain, loss and rearrangement.

PLoS One 2010,5(6):e11147.PubMed 93. Bland C, Ramsey TL, Sabree F, Lowe M, Brown K, Kyrpides NC, Hugenholtz P: CRISPR recognition tool (CRT): a tool for automatic detection of clustered Etomidate regularly interspaced palindromic repeats. BMC Bioinforma 2007, 8:209. 94. Tettelin H, Masignani V, Cieslewicz MJ, Donati C, Medini D, Ward NL, Angiuoli SV, Crabtree J, Jones AL, Durkin AS, et al.: Genome analysis of multiple pathogenic isolates of Streptococcus agalactiae: implications for the microbial “pan-genome”. Proc Natl Acad Sci U S A 2005,102(39):13950–13955.PubMed 95. Tettelin H, Riley D, Cattuto C, Medini D: Comparative genomics: the bacterial pan-genome. Curr Opin Microbiol 2008,11(5):472–477.PubMed 96. Li L, Stoeckert CJ, Roos DS: OrthoMCL: identification of ortholog groups for eukaryotic genomes. Genome Res 2003,13(9):2178–2189.PubMed 97. Suzuki H, Lefebure T, Hubisz MJ, Pavinski Bitar P, Lang P, Siepel A, Stanhope MJ: Comparative genomic analysis of the Streptococcus dysgalactiae species group: gene content, molecular adaptation, and promoter evolution.