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Selection and Plasmid Transfer Underlie Adaptive Mutation in Escherichia coli.

Maisnier-Patin S, Roth JR.

Genetics. 2018 Nov;210(3):821-841. doi: 10.1534/genetics.118.301347. Epub 2018 Sep 7.


Selection-Enhanced Mutagenesis of lac Genes Is Due to Their Coamplification with dinB Encoding an Error-Prone DNA Polymerase.

Yamayoshi I, Maisnier-Patin S, Roth JR.

Genetics. 2018 Mar;208(3):1009-1021. doi: 10.1534/genetics.117.300409. Epub 2018 Jan 4.


The Promiscuous sumA Missense Suppressor from Salmonella enterica Has an Intriguing Mechanism of Action.

Cole AE, Hani FM, Altman R, Meservy M, Roth JR, Altman E.

Genetics. 2017 Feb;205(2):577-588. doi: 10.1534/genetics.116.196550. Epub 2016 Dec 14.


The Origin of Mutants Under Selection: How Natural Selection Mimics Mutagenesis (Adaptive Mutation).

Maisnier-Patin S, Roth JR.

Cold Spring Harb Perspect Biol. 2015 Jul 1;7(7):a018176. doi: 10.1101/cshperspect.a018176. Review.


Mechanisms of gene duplication and amplification.

Reams AB, Roth JR.

Cold Spring Harb Perspect Biol. 2015 Feb 2;7(2):a016592. doi: 10.1101/cshperspect.a016592. Review.


Plasmid copy number underlies adaptive mutability in bacteria.

Sano E, Maisnier-Patin S, Aboubechara JP, Quiñones-Soto S, Roth JR.

Genetics. 2014 Nov;198(3):919-33. doi: 10.1534/genetics.114.170068. Epub 2014 Aug 29.


Recombination and annealing pathways compete for substrates in making rrn duplications in Salmonella enterica.

Reams AB, Kofoid E, Duleba N, Roth JR.

Genetics. 2014 Jan;196(1):119-35. doi: 10.1534/genetics.113.158519. Epub 2013 Nov 8.


Evidence that a metabolic microcompartment contains and recycles private cofactor pools.

Huseby DL, Roth JR.

J Bacteriol. 2013 Jun;195(12):2864-79. doi: 10.1128/JB.02179-12. Epub 2013 Apr 12.


Real-time evolution of new genes by innovation, amplification, and divergence.

Näsvall J, Sun L, Roth JR, Andersson DI.

Science. 2012 Oct 19;338(6105):384-7. doi: 10.1126/science.1226521.


Poxvirus use a "gene accordion" to tune out host defenses.

Roth JR, Andersson DI.

Cell. 2012 Aug 17;150(4):671-2. doi: 10.1016/j.cell.2012.07.026.


Pathways of genetic adaptation: multistep origin of mutants under selection without induced mutagenesis in Salmonella enterica.

Quiñones-Soto S, Reams AB, Roth JR.

Genetics. 2012 Nov;192(3):987-99. doi: 10.1534/genetics.112.142158. Epub 2012 Aug 10.


Multiple pathways of duplication formation with and without recombination (RecA) in Salmonella enterica.

Reams AB, Kofoid E, Kugelberg E, Roth JR.

Genetics. 2012 Oct;192(2):397-415. doi: 10.1534/genetics.112.142570. Epub 2012 Aug 3.


The Origin of Mutants under Selection: Interactions of Mutation, Growth, and Selection.

Andersson DI, Hughes D, Roth JR.

EcoSal Plus. 2011 Dec;4(2). doi: 10.1128/ecosalplus.5.6.6.


Intestinal inflammation allows Salmonella to use ethanolamine to compete with the microbiota.

Thiennimitr P, Winter SE, Winter MG, Xavier MN, Tolstikov V, Huseby DL, Sterzenbach T, Tsolis RM, Roth JR, Bäumler AJ.

Proc Natl Acad Sci U S A. 2011 Oct 18;108(42):17480-5. doi: 10.1073/pnas.1107857108. Epub 2011 Oct 3.


Effect of growth under selection on appearance of chromosomal mutations in Salmonella enterica.

Quiñones-Soto S, Roth JR.

Genetics. 2011 Sep;189(1):37-53. doi: 10.1534/genetics.111.130187. Epub 2011 Jul 29.


Addressing barriers to care: 10 years of meeting community needs.

Loftus RT, Roth JR.

J Calif Dent Assoc. 2011 Feb;39(2):107-10.


The joys and terrors of fast adaptation: new findings elucidate antibiotic resistance and natural selection.

Roth JR.

Mol Microbiol. 2011 Jan;79(2):279-82. doi: 10.1111/j.1365-2958.2010.07459.x. Epub 2010 Nov 21.


Gut inflammation provides a respiratory electron acceptor for Salmonella.

Winter SE, Thiennimitr P, Winter MG, Butler BP, Huseby DL, Crawford RW, Russell JM, Bevins CL, Adams LG, Tsolis RM, Roth JR, Bäumler AJ.

Nature. 2010 Sep 23;467(7314):426-9. doi: 10.1038/nature09415.


Presenting evidence-based perinatal oral health guidelines for practitioners.

Roth JR.

J Calif Dent Assoc. 2010 Jun;38(6):389. No abstract available.


The tandem inversion duplication in Salmonella enterica: selection drives unstable precursors to final mutation types.

Kugelberg E, Kofoid E, Andersson DI, Lu Y, Mellor J, Roth FP, Roth JR.

Genetics. 2010 May;185(1):65-80. doi: 10.1534/genetics.110.114074. Epub 2010 Mar 9.


Genetic adaptation: a new piece for a very old puzzle.

Roth JR.

Curr Biol. 2010 Jan 12;20(1):R15-7. doi: 10.1016/j.cub.2009.11.043.


Duplication frequency in a population of Salmonella enterica rapidly approaches steady state with or without recombination.

Reams AB, Kofoid E, Savageau M, Roth JR.

Genetics. 2010 Apr;184(4):1077-94. doi: 10.1534/genetics.109.111963. Epub 2010 Jan 18.


Contribution of gene amplification to evolution of increased antibiotic resistance in Salmonella typhimurium.

Sun S, Berg OG, Roth JR, Andersson DI.

Genetics. 2009 Aug;182(4):1183-95. doi: 10.1534/genetics.109.103028. Epub 2009 May 27.


Accumulation of mutants in "aging" bacterial colonies is due to growth under selection, not stress-induced mutagenesis.

Wrande M, Roth JR, Hughes D.

Proc Natl Acad Sci U S A. 2008 Aug 19;105(33):11863-8. doi: 10.1073/pnas.0804739105. Epub 2008 Aug 13.


Rebonding of orthodontic brackets. Part II, an XPS and SEM study.

Montasser MA, Drummond JL, Roth JR, Al-Turki L, Evans CA.

Angle Orthod. 2008 May;78(3):537-44. doi: 10.2319/022707-102.1.


Caries management by risk assessment: implementation guidelines.

Young DA, Featherstone JD, Roth JR, Anderson M, Autio-Gold J, Christensen GJ, Fontana M, Kutsch VK, Peters MC, Simonsen RJ, Wolff MS.

J Calif Dent Assoc. 2007 Nov;35(11):799-805.


Curing the silent epidemic: caries management in the 21st century and beyond.

Young DA, Featherstone JD, Roth JR.

J Calif Dent Assoc. 2007 Oct;35(10):681-5.


One pathway can incorporate either adenine or dimethylbenzimidazole as an alpha-axial ligand of B12 cofactors in Salmonella enterica.

Anderson PJ, Lango J, Carkeet C, Britten A, Kräutler B, Hammock BD, Roth JR.

J Bacteriol. 2008 Feb;190(4):1160-71. Epub 2007 Nov 2.


Ohno's dilemma: evolution of new genes under continuous selection.

Bergthorsson U, Andersson DI, Roth JR.

Proc Natl Acad Sci U S A. 2007 Oct 23;104(43):17004-9. Epub 2007 Oct 17.


Inactivation of foodborne pathogens using a one atmosphere uniform glow discharge plasma.

Kayes MM, Critzer FJ, Kelly-Wintenberg K, Roth JR, Montie TC, Golden DA.

Foodborne Pathog Dis. 2007 Spring;4(1):50-9.


Clinicopathologic features of osteosarcoma in patients with Rothmund-Thomson syndrome.

Hicks MJ, Roth JR, Kozinetz CA, Wang LL.

J Clin Oncol. 2007 Feb 1;25(4):370-5.


Multiple pathways of selected gene amplification during adaptive mutation.

Kugelberg E, Kofoid E, Reams AB, Andersson DI, Roth JR.

Proc Natl Acad Sci U S A. 2006 Nov 14;103(46):17319-24. Epub 2006 Nov 2.


Origin of mutations under selection: the adaptive mutation controversy.

Roth JR, Kugelberg E, Reams AB, Kofoid E, Andersson DI.

Annu Rev Microbiol. 2006;60:477-501. Review.


Evidence that feedback inhibition of NAD kinase controls responses to oxidative stress.

Grose JH, Joss L, Velick SF, Roth JR.

Proc Natl Acad Sci U S A. 2006 May 16;103(20):7601-6. Epub 2006 May 8.


Human vitamin B12 absorption measurement by accelerator mass spectrometry using specifically labeled (14)C-cobalamin.

Carkeet C, Dueker SR, Lango J, Buchholz BA, Miller JW, Green R, Hammock BD, Roth JR, Anderson PJ.

Proc Natl Acad Sci U S A. 2006 Apr 11;103(15):5694-9. Epub 2006 Apr 3. Erratum in: Proc Natl Acad Sci U S A. 2006 Jul 5;103(27):10526. Proc Natl Acad Sci U S A. 2006 Jul 5;103(27):10526.


Sinorhizobium meliloti bluB is necessary for production of 5,6-dimethylbenzimidazole, the lower ligand of B12.

Campbell GR, Taga ME, Mistry K, Lloret J, Anderson PJ, Roth JR, Walker GC.

Proc Natl Acad Sci U S A. 2006 Mar 21;103(12):4634-9. Epub 2006 Mar 1.


Lethal mutations in the isoprenoid pathway of Salmonella enterica.

Cornish RM, Roth JR, Poulter CD.

J Bacteriol. 2006 Feb;188(4):1444-50.


Genomic buffering mitigates the effects of deleterious mutations in bacteria.

Maisnier-Patin S, Roth JR, Fredriksson A, Nyström T, Berg OG, Andersson DI.

Nat Genet. 2005 Dec;37(12):1376-9. Epub 2005 Nov 6.


Assimilation of nicotinamide mononucleotide requires periplasmic AphA phosphatase in Salmonella enterica.

Grose JH, Bergthorsson U, Xu Y, Sterneckert J, Khodaverdian B, Roth JR.

J Bacteriol. 2005 Jul;187(13):4521-30.


Polyphosphate kinase protects Salmonella enterica from weak organic acid stress.

Price-Carter M, Fazzio TG, Vallbona EI, Roth JR.

J Bacteriol. 2005 May;187(9):3088-99.


Regulation of NAD synthesis by the trifunctional NadR protein of Salmonella enterica.

Grose JH, Bergthorsson U, Roth JR.

J Bacteriol. 2005 Apr;187(8):2774-82.


An open letter to Elias Zerhouni.

Altman S, Bassler BL, Beckwith J, Belfort M, Berg HC, Bloom B, Brenchley JE, Campbell A, Collier RJ, Connell N, Cozzarelli NR, Craig NL, Darst S, Ebright RH, Elledge SJ, Falkow S, Galan JE, Gottesman M, Gourse R, Grindley ND, Gross CA, Grossman A, Hochschild A, Howe M, Hurwitz J, Isberg RR, Kaplan S, Kornberg A, Kustu SG, Landick RC, Landy A, Levy SB, Losick R, Long SR, Maloy SR, Mekalanos JJ, Neidhardt FC, Pace NR, Ptashne M, Roberts JW, Roth JR, Rothman-Denes LB, Salyers A, Schaechter M, Shapiro L, Silhavy TJ, Simon MI, Walker G, Yanofsky C, Zinder N.

Science. 2005 Mar 4;307(5714):1409-10. No abstract available.


Evidence that a B12-adenosyl transferase is encoded within the ethanolamine operon of Salmonella enterica.

Sheppard DE, Penrod JT, Bobik T, Kofoid E, Roth JR.

J Bacteriol. 2004 Nov;186(22):7635-44.


The amplification model for adaptive mutation: simulations and analysis.

Pettersson ME, Andersson DI, Roth JR, Berg OG.

Genetics. 2005 Feb;169(2):1105-15. Epub 2004 Oct 16.


Adaptive mutation: how growth under selection stimulates Lac(+) reversion by increasing target copy number.

Roth JR, Andersson DI.

J Bacteriol. 2004 Aug;186(15):4855-60. No abstract available.


Rebuttal: adaptive mutation in Escherichia coli (Foster).

Roth JR, Andersson DI.

J Bacteriol. 2004 Aug;186(15):4854. No abstract available.

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