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Items: 1 to 50 of 74

1.

Pathogenic Nocardia cyriacigeorgica and Nocardia nova Evolve To Resist Trimethoprim-Sulfamethoxazole by both Expected and Unexpected Pathways.

Mehta H, Weng J, Prater A, Elworth RAL, Han X, Shamoo Y.

Antimicrob Agents Chemother. 2018 Jun 26;62(7). pii: e00364-18. doi: 10.1128/AAC.00364-18. Print 2018 Jul.

PMID:
29686152
2.

Using cellular fitness to map the structure and function of a major facilitator superfamily effluxer.

Perez AM, Gomez MM, Kalvapalle P, O'Brien-Gilbert E, Bennett MR, Shamoo Y.

Mol Syst Biol. 2017 Dec 22;13(12):964. doi: 10.15252/msb.20177635.

3.

Enantioselective Total Synthesis of Antibiotic CJ-16,264, Synthesis and Biological Evaluation of Designed Analogues, and Discovery of Highly Potent and Simpler Antibacterial Agents.

Nicolaou KC, Pulukuri KK, Rigol S, Buchman M, Shah AA, Cen N, McCurry MD, Beabout K, Shamoo Y.

J Am Chem Soc. 2017 Nov 8;139(44):15868-15877. doi: 10.1021/jacs.7b08749. Epub 2017 Oct 24.

PMID:
29064688
4.

Experimental Evolution of Diverse Strains as a Method for the Determination of Biochemical Mechanisms of Action for Novel Pyrrolizidinone Antibiotics.

Beabout K, McCurry MD, Mehta H, Shah AA, Pulukuri KK, Rigol S, Wang Y, Nicolaou KC, Shamoo Y.

ACS Infect Dis. 2017 Nov 10;3(11):854-865. doi: 10.1021/acsinfecdis.7b00135. Epub 2017 Sep 27.

PMID:
28942642
5.

Using experimental evolution to identify druggable targets that could inhibit the evolution of antimicrobial resistance.

Mehta HH, Prater AG, Shamoo Y.

J Antibiot (Tokyo). 2018 Feb;71(2):279-286. doi: 10.1038/ja.2017.108. Epub 2017 Sep 20.

6.

Asymmetric Alkylation of Anthrones, Enantioselective Total Synthesis of (-)- and (+)-Viridicatumtoxins B and Analogues Thereof: Absolute Configuration and Potent Antibacterial Agents.

Nicolaou KC, Liu G, Beabout K, McCurry MD, Shamoo Y.

J Am Chem Soc. 2017 Mar 15;139(10):3736-3746. doi: 10.1021/jacs.6b12654. Epub 2017 Mar 3.

7.

A Novel Phosphodiesterase of the GdpP Family Modulates Cyclic di-AMP Levels in Response to Cell Membrane Stress in Daptomycin-Resistant Enterococci.

Wang X, Davlieva M, Reyes J, Panesso D, Arias CA, Shamoo Y.

Antimicrob Agents Chemother. 2017 Feb 23;61(3). pii: e01422-16. doi: 10.1128/AAC.01422-16. Print 2017 Mar.

8.

Differential Penicillin-Binding Protein 5 (PBP5) Levels in the Enterococcus faecium Clades with Different Levels of Ampicillin Resistance.

Montealegre MC, Roh JH, Rae M, Davlieva MG, Singh KV, Shamoo Y, Murray BE.

Antimicrob Agents Chemother. 2016 Dec 27;61(1). pii: e02034-16. doi: 10.1128/AAC.02034-16. Print 2017 Jan.

9.

An Adaptive Mutation in Enterococcus faecium LiaR Associated with Antimicrobial Peptide Resistance Mimics Phosphorylation and Stabilizes LiaR in an Activated State.

Davlieva M, Tovar-Yanez A, DeBruler K, Leonard PG, Zianni MR, Arias CA, Shamoo Y.

J Mol Biol. 2016 Nov 6;428(22):4503-4519. doi: 10.1016/j.jmb.2016.09.016. Epub 2016 Sep 23.

10.

Targeting cell membrane adaptation as a novel antimicrobial strategy.

Tran TT, Miller WR, Shamoo Y, Arias CA.

Curr Opin Microbiol. 2016 Oct;33:91-96. doi: 10.1016/j.mib.2016.07.002. Epub 2016 Jul 25. Review.

11.

Data publication with the structural biology data grid supports live analysis.

Meyer PA, Socias S, Key J, Ransey E, Tjon EC, Buschiazzo A, Lei M, Botka C, Withrow J, Neau D, Rajashankar K, Anderson KS, Baxter RH, Blacklow SC, Boggon TJ, Bonvin AM, Borek D, Brett TJ, Caflisch A, Chang CI, Chazin WJ, Corbett KD, Cosgrove MS, Crosson S, Dhe-Paganon S, Di Cera E, Drennan CL, Eck MJ, Eichman BF, Fan QR, Ferré-D'Amaré AR, Fromme JC, Garcia KC, Gaudet R, Gong P, Harrison SC, Heldwein EE, Jia Z, Keenan RJ, Kruse AC, Kvansakul M, McLellan JS, Modis Y, Nam Y, Otwinowski Z, Pai EF, Pereira PJ, Petosa C, Raman CS, Rapoport TA, Roll-Mecak A, Rosen MK, Rudenko G, Schlessinger J, Schwartz TU, Shamoo Y, Sondermann H, Tao YJ, Tolia NH, Tsodikov OV, Westover KD, Wu H, Foster I, Fraser JS, Maia FR, Gonen T, Kirchhausen T, Diederichs K, Crosas M, Sliz P.

Nat Commun. 2016 Mar 7;7:10882. doi: 10.1038/ncomms10882.

12.

Acinetobacter baumannii Repeatedly Evolves a Hypermutator Phenotype in Response to Tigecycline That Effectively Surveys Evolutionary Trajectories to Resistance.

Hammerstrom TG, Beabout K, Clements TP, Saxer G, Shamoo Y.

PLoS One. 2015 Oct 21;10(10):e0140489. doi: 10.1371/journal.pone.0140489. eCollection 2015.

13.

Deletion of liaR Reverses Daptomycin Resistance in Enterococcus faecium Independent of the Genetic Background.

Panesso D, Reyes J, Gaston EP, Deal M, Londoño A, Nigo M, Munita JM, Miller WR, Shamoo Y, Tran TT, Arias CA.

Antimicrob Agents Chemother. 2015 Dec;59(12):7327-34. doi: 10.1128/AAC.01073-15. Epub 2015 Sep 14.

14.

The ribosomal S10 protein is a general target for decreased tigecycline susceptibility.

Beabout K, Hammerstrom TG, Perez AM, Magalhães BF, Prater AG, Clements TP, Arias CA, Saxer G, Shamoo Y.

Antimicrob Agents Chemother. 2015 Sep;59(9):5561-6. doi: 10.1128/AAC.00547-15. Epub 2015 Jun 29.

15.

Rampant Parasexuality Evolves in a Hospital Pathogen during Antibiotic Selection.

Beabout K, Hammerstrom TG, Wang TT, Bhatty M, Christie PJ, Saxer G, Shamoo Y.

Mol Biol Evol. 2015 Oct;32(10):2585-97. doi: 10.1093/molbev/msv133. Epub 2015 Jun 9.

16.

A variable DNA recognition site organization establishes the LiaR-mediated cell envelope stress response of enterococci to daptomycin.

Davlieva M, Shi Y, Leonard PG, Johnson TA, Zianni MR, Arias CA, Ladbury JE, Shamoo Y.

Nucleic Acids Res. 2015 May 19;43(9):4758-73. doi: 10.1093/nar/gkv321. Epub 2015 Apr 19.

17.

Mutations in global regulators lead to metabolic selection during adaptation to complex environments.

Saxer G, Krepps MD, Merkley ED, Ansong C, Deatherage Kaiser BL, Valovska MT, Ristic N, Yeh PT, Prakash VP, Leiser OP, Nakhleh L, Gibbons HS, Kreuzer HW, Shamoo Y.

PLoS Genet. 2014 Dec 11;10(12):e1004872. doi: 10.1371/journal.pgen.1004872. eCollection 2014 Dec.

18.

A liaR deletion restores susceptibility to daptomycin and antimicrobial peptides in multidrug-resistant Enterococcus faecalis.

Reyes J, Panesso D, Tran TT, Mishra NN, Cruz MR, Munita JM, Singh KV, Yeaman MR, Murray BE, Shamoo Y, Garsin D, Bayer AS, Arias CA.

J Infect Dis. 2015 Apr 15;211(8):1317-25. doi: 10.1093/infdis/jiu602. Epub 2014 Oct 31.

19.

Total synthesis of viridicatumtoxin B and analogues thereof: strategy evolution, structural revision, and biological evaluation.

Nicolaou KC, Hale CR, Nilewski C, Ioannidou HA, ElMarrouni A, Nilewski LG, Beabout K, Wang TT, Shamoo Y.

J Am Chem Soc. 2014 Aug 27;136(34):12137-60. doi: 10.1021/ja506472u. Epub 2014 Aug 15.

20.

Structure analysis of free and bound states of an RNA aptamer against ribosomal protein S8 from Bacillus anthracis.

Davlieva M, Donarski J, Wang J, Shamoo Y, Nikonowicz EP.

Nucleic Acids Res. 2014;42(16):10795-808. doi: 10.1093/nar/gku743. Epub 2014 Aug 19.

21.

Whole-genome analyses of Enterococcus faecium isolates with diverse daptomycin MICs.

Diaz L, Tran TT, Munita JM, Miller WR, Rincon S, Carvajal LP, Wollam A, Reyes J, Panesso D, Rojas NL, Shamoo Y, Murray BE, Weinstock GM, Arias CA.

Antimicrob Agents Chemother. 2014 Aug;58(8):4527-34. doi: 10.1128/AAC.02686-14. Epub 2014 May 27.

22.

Adaptation of Enterococcus faecalis to daptomycin reveals an ordered progression to resistance.

Miller C, Kong J, Tran TT, Arias CA, Saxer G, Shamoo Y.

Antimicrob Agents Chemother. 2013 Nov;57(11):5373-83. doi: 10.1128/AAC.01473-13. Epub 2013 Aug 19. Erratum in: Antimicrob Agents Chemother. 2014 Jan;58(1):631.

23.

Daptomycin-resistant Enterococcus faecalis diverts the antibiotic molecule from the division septum and remodels cell membrane phospholipids.

Tran TT, Panesso D, Mishra NN, Mileykovskaya E, Guan Z, Munita JM, Reyes J, Diaz L, Weinstock GM, Murray BE, Shamoo Y, Dowhan W, Bayer AS, Arias CA.

MBio. 2013 Jul 23;4(4). pii: e00281-13. doi: 10.1128/mBio.00281-13.

24.

Dynamic self-stiffening in liquid crystal elastomers.

Agrawal A, Chipara AC, Shamoo Y, Patra PK, Carey BJ, Ajayan PM, Chapman WG, Verduzco R.

Nat Commun. 2013;4:1739. doi: 10.1038/ncomms2772.

25.

Small changes in enzyme function can lead to surprisingly large fitness effects during adaptive evolution of antibiotic resistance.

Walkiewicz K, Benitez Cardenas AS, Sun C, Bacorn C, Saxer G, Shamoo Y.

Proc Natl Acad Sci U S A. 2012 Dec 26;109(52):21408-13. doi: 10.1073/pnas.1209335110. Epub 2012 Dec 10.

26.

Biochemical characterization of cardiolipin synthase mutations associated with daptomycin resistance in enterococci.

Davlieva M, Zhang W, Arias CA, Shamoo Y.

Antimicrob Agents Chemother. 2013 Jan;57(1):289-96. doi: 10.1128/AAC.01743-12. Epub 2012 Oct 31.

27.

Whole-genome analysis of a daptomycin-susceptible enterococcus faecium strain and its daptomycin-resistant variant arising during therapy.

Tran TT, Panesso D, Gao H, Roh JH, Munita JM, Reyes J, Diaz L, Lobos EA, Shamoo Y, Mishra NN, Bayer AS, Murray BE, Weinstock GM, Arias CA.

Antimicrob Agents Chemother. 2013 Jan;57(1):261-8. doi: 10.1128/AAC.01454-12. Epub 2012 Oct 31.

28.

Daptomycin resistance in enterococci is associated with distinct alterations of cell membrane phospholipid content.

Mishra NN, Bayer AS, Tran TT, Shamoo Y, Mileykovskaya E, Dowhan W, Guan Z, Arias CA.

PLoS One. 2012;7(8):e43958. doi: 10.1371/journal.pone.0043958. Epub 2012 Aug 27.

29.

Genetic basis for in vivo daptomycin resistance in enterococci.

Arias CA, Panesso D, McGrath DM, Qin X, Mojica MF, Miller C, Diaz L, Tran TT, Rincon S, Barbu EM, Reyes J, Roh JH, Lobos E, Sodergren E, Pasqualini R, Arap W, Quinn JP, Shamoo Y, Murray BE, Weinstock GM.

N Engl J Med. 2011 Sep 8;365(10):892-900. doi: 10.1056/NEJMoa1011138.

30.

Crystal structure of Bacteroides thetaiotaomicron TetX2: a tetracycline degrading monooxygenase at 2.8 Å resolution.

Walkiewicz K, Davlieva M, Wu G, Shamoo Y.

Proteins. 2011 Jul;79(7):2335-40. doi: 10.1002/prot.23052. Epub 2011 May 16. No abstract available.

31.

Experimental evolution of adenylate kinase reveals contrasting strategies toward protein thermostability.

Miller C, Davlieva M, Wilson C, White KI, Couñago R, Wu G, Myers JC, Wittung-Stafshede P, Shamoo Y.

Biophys J. 2010 Aug 4;99(3):887-96. doi: 10.1016/j.bpj.2010.04.076.

32.

Evolutionary fates within a microbial population highlight an essential role for protein folding during natural selection.

Peña MI, Davlieva M, Bennett MR, Olson JS, Shamoo Y.

Mol Syst Biol. 2010 Jul 13;6:387. doi: 10.1038/msb.2010.43.

33.

Evolution of a single gene highlights the complexity underlying molecular descriptions of fitness.

Peña MI, Van Itallie E, Bennett MR, Shamoo Y.

Chaos. 2010 Jun;20(2):026107. doi: 10.1063/1.3453623.

35.

Structure and biochemical characterization of an adenylate kinase originating from the psychrophilic organism Marinibacillus marinus.

Davlieva M, Shamoo Y.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2009 Aug 1;65(Pt 8):751-6. doi: 10.1107/S1744309109024348. Epub 2009 Jul 21.

36.

Pseudosymmetry, high copy number and twinning complicate the structure determination of Desulfovibrio desulfuricans (ATCC 29577) flavodoxin.

Guelker M, Stagg L, Wittung-Stafshede P, Shamoo Y.

Acta Crystallogr D Biol Crystallogr. 2009 Jun;65(Pt 6):523-34. doi: 10.1107/S0907444909010075. Epub 2009 May 15.

37.

An adaptive mutation in adenylate kinase that increases organismal fitness is linked to stability-activity trade-offs.

Couñago R, Wilson CJ, Peña MI, Wittung-Stafshede P, Shamoo Y.

Protein Eng Des Sel. 2008 Jan;21(1):19-27. Epub 2007 Dec 19.

PMID:
18093993
38.

Mutation of E1-CONJUGATING ENZYME-RELATED1 decreases RELATED TO UBIQUITIN conjugation and alters auxin response and development.

Woodward AW, Ratzel SE, Woodward EE, Shamoo Y, Bartel B.

Plant Physiol. 2007 Jun;144(2):976-87. Epub 2007 Apr 20.

39.

Complex of calmodulin with a ryanodine receptor target reveals a novel, flexible binding mode.

Maximciuc AA, Putkey JA, Shamoo Y, Mackenzie KR.

Structure. 2006 Oct;14(10):1547-56.

40.

Protein-RNA interactions: exploring binding patterns with a three-dimensional superposition analysis of high resolution structures.

Morozova N, Allers J, Myers J, Shamoo Y.

Bioinformatics. 2006 Nov 15;22(22):2746-52. Epub 2006 Sep 11.

PMID:
16966360
41.

A 60-kilodalton protein component of the counting factor complex regulates group size in Dictyostelium discoideum.

Brock DA, van Egmond WN, Shamoo Y, Hatton RD, Gomer RH.

Eukaryot Cell. 2006 Sep;5(9):1532-8.

43.

In vivo molecular evolution reveals biophysical origins of organismal fitness.

Couñago R, Chen S, Shamoo Y.

Mol Cell. 2006 May 19;22(4):441-9.

46.
48.

Structural insights into BRCA2 function.

Shamoo Y.

Curr Opin Struct Biol. 2003 Apr;13(2):206-11. Review.

PMID:
12727514
49.
50.

Structure-based analysis of protein-RNA interactions using the program ENTANGLE.

Allers J, Shamoo Y.

J Mol Biol. 2001 Aug 3;311(1):75-86.

PMID:
11469858

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