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On O, Chao L (2007) Understanding the evolutionary fate of finite populations: The dynamics of mutational effects. PLoS Biol 5(four):e94. 3. Sanju R, Moya A, Elena SF (2004) The distribution of fitness effects brought on by singlenucleotide substitutions in an RNA virus. Proc Natl Acad Sci USA 101(22):8396?401. 4. Domingo-Calap P, Cuevas JM, Sanju R (2009) The fitness effects of random mutations in single-stranded DNA and RNA bacteriophages. PLoS Genet five(11):e1000742. five. Lind PA, Berg OG, Andersson DI (2010) Mutational robustness of ribosomal protein genes. Science 330(6005):825?27. six. P C, Papp B, Lercher MJ (2006) An integrated view of protein evolution. Nat Rev Genet 7(five):337?48. 7. Dean AM, Thornton JW (2007) Mechanistic approaches for the study of evolution: The functional synthesis. Nat Rev Genet eight(9):675?88. eight. Li B, Leal SM (2008) Methods for detecting associations with rare variants for frequent ailments: Application to evaluation of sequence data. Am J Hum Genet 83(three):311?21. 9. Cirulli ET, Goldstein DB (2010) Uncovering the roles of rare variants in prevalent disease by means of whole-genome sequencing. Nat Rev Genet 11(six):415?25. 10. Grantham R (1974) Amino acid difference formula to help clarify protein evolution. Science 185(4154):862?64. 11. Deng Z, et al. (2012) Deep sequencing of systematic combinatorial libraries reveals -lactamase sequence constraints at higher resolution. J Mol Biol 424(3-4):150?67. 12. Adzhubei IA, et al. (2010) A strategy and server for predicting damaging missense mutations. Nat Approaches 7(four):248?49. 13. Kumar P, Henikoff S, Ng Pc (2009) Predicting the effects of coding non-synonymous variants on protein function utilizing the SIFT algorithm. Nat Protoc 4(7):1073?081. 14. Bloom JD, et al. (2005) Thermodynamic prediction of protein neutrality. Proc Natl Acad Sci USA 102(3):606?11. 15. DePristo MA, Weinreich DM, Hartl DL (2005) Missense meanderings in sequence space: A biophysical view of protein evolution. Nat Rev Genet six(9):678?87. 16. Wylie CS, Shakhnovich EI (2011) A biophysical protein folding model ANGPTL2/Angiopoietin-like 2, Human (Biotinylated, HEK293, His-Avi) accounts for most mutational fitness effects in viruses. Proc Natl Acad Sci USA 108(24):9916?921. 17. Soskine M, Tawfik DS (2010) Mutational effects as well as the evolution of new protein functions. Nat Rev Genet 11(eight):572?82. 18. Ramsey DC, Scherrer MP, Zhou T, Wilke CO (2011) The connection among relative solvent accessibility and evolutionary price in protein evolution. Genetics 188(two): 479?88. 19. Keseler IM, et al. (2009) EcoCyc: A comprehensive view of Escherichia coli biology. Nucleic Acids Res 37(Database challenge):D464 470. 20. Salverda ML, De Visser JA, Barlow M (2010) Organic evolution of TEM-1 -lactamase: Experimental reconstruction and clinical relevance. FEMS Microbiol Rev 34(six): 1015?036. 21. Wang X, Minasov G, Shoichet BK (2002) Evolution of an antibiotic resistance Sorcin/SRI Protein site enzyme constrained by stability and activity trade-offs. J Mol Biol 320(1):85?five.by IPTG (1 mM), and purified on anion-exchange column (Q Sepharose FF, GE Healthcare) followed by gel filtration (Superdex 75 column, GE Healthcare). Thermal Denaturation of Proteins. TEM-1 and its variants have been subjected to thermal denaturation (25?0 with 1.five /min ramping prices). Intrinsic fluorescence (ex = 295 nm; em = 340 nm) was followed using a FP-8300 Jasco fluorescence spectrophotometer. Enzyme Assays on Purified Enzymes. Initial velocity was measured spectrophotometrically at 486 nm working with the chromogenic substrate nitrocefin (32 M) inside the selection of 27 to 67 w.

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