Genome Res 2001,11(6):946–958.PubMedCrossRef 29. Panina EM, Mironov AA, Gel’fand MS: Statistical analysis of complete bacterial genomes: palindromes and systems of restriction-modification. Mol Biol (Mosk) 2000,34(2):246–252.CrossRef 30. Gelfand MS, Koonin EV: Avoidance of palindromic words in bacterial and archaeal genomes: a close connection with restriction enzymes. Nucleic Acids Res 1997,25(12):2430–2439.PubMedCrossRef

31. Levine SM, Lin EA, Emara W, Kang J, DiBenedetto M, Ando T, Falush #BTSA1 mw randurls[1|1|,|CHEM1|]# D, Blaser MJ: Plastic cells and populations: DNA substrate characteristics in Helicobacter pylori transformation define a flexible but conservative system for genomic variation. Faseb J 2007,21(13):3458–3467.PubMedCrossRef 32. Zhang XS, Cilengitide manufacturer Blaser MJ: Natural transformation of an engineered Helicobacter pylori strain deficient in type II restriction endonucleases. J Bacteriol 2012,194(13):3407–3416.PubMedCrossRef 33. Pride DT, Blaser M: Identification of horizontally acquired genetic elements in Helicobacter pylori and other prokaryotes using oligonucleotide difference analysis. Genome Letters 2002,1(1):2–15.CrossRef 34. Schroeder C, Jurkschat H, Meisel A, Reich JG, Kruger D: Unusual occurrence of EcoP1 and EcoP15 recognition sites and counter-selection of type II methylation and restriction sequences in bacteriophage T7 DNA. Gene 1986,45(1):77–86.PubMedCrossRef

35. Boyer HW: DNA restriction and modification mechanisms in bacteria. Annu Rev Microbiol 1971, 25:153–176.PubMedCrossRef 36. Revel HR, Luria SE: DNA-glucosylation in T-even phage: genetic determination and role in phage-host interaction. Annu Rev Genet 1970, 4:177–192.PubMedCrossRef 37. Price C, Bickle TA: A possible role for DNA restriction in bacterial evolution. Microbiol Sci 1986,3(10):296–299.PubMed 38. Karlin S, Burge C, Campbell AM: Statistical analyses of counts and distributions of restriction sites in DNA sequences. Nucleic Acids Res 1992,20(6):1363–1370.PubMedCrossRef 39. Burge C, Campbell AM, Karlin S: Over- and under-representation of

short oligonucleotides in DNA sequences. Proc Natl Acad Sci USA 1992,89(4):1358–1362.PubMedCrossRef 40. Wang aminophylline MX, Church GM: A whole genome approach to in vivo DNA-protein interactions in E. coli. Nature 1992,360(6404):606–610.PubMedCrossRef 41. Campbell JL, Kleckner N: E. coli oriC and the dnaA gene promoter are sequestered from dam methyltransferase following the passage of the chromosomal replication fork. Cell 1990,62(5):967–979.PubMedCrossRef 42. Takata T, Aras R, Tavakoli D, Ando T, Olivares AZ, Blaser MJ: Phenotypic and genotypic variation in methylases involved in type II restriction-modification systems in Helicobacter pylori . Nucleic Acids Res 2002,30(11):2444–2452.PubMedCrossRef 43. Vale FF, Vitor JM: Genomic methylation: a tool for typing Helicobacter pylori isolates. Appl Environ Microbiol 2007,73(13):4243–4249.