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Gut microbiota dependent anti-tumor immunity restricts melanoma growth in Rnf5-/- mice.

Li Y, Tinoco R, Elmén L, Segota I, Xian Y, Fujita Y, Sahu A, Zarecki R, Marie K, Feng Y, Khateb A, Frederick DT, Ashkenazi SK, Kim H, Perez EG, Day CP, Segura Muñoz RS, Schmaltz R, Yooseph S, Tam MA, Zhang T, Avitan-Hersh E, Tzur L, Roizman S, Boyango I, Bar-Sela G, Orian A, Kaufman RJ, Bosenberg M, Goding CR, Baaten B, Levesque MP, Dummer R, Brown K, Merlino G, Ruppin E, Flaherty K, Ramer-Tait A, Long T, Peterson SN, Bradley LM, Ronai ZA.

Nat Commun. 2019 Apr 2;10(1):1492. doi: 10.1038/s41467-019-09525-y.


16S rRNA gene profiling and genome reconstruction reveal community metabolic interactions and prebiotic potential of medicinal herbs used in neurodegenerative disease and as nootropics.

Peterson CT, Sharma V, Iablokov SN, Albayrak L, Khanipov K, Uchitel S, Chopra D, Mills PJ, Fofanov Y, Rodionov DA, Peterson SN.

PLoS One. 2019 Mar 19;14(3):e0213869. doi: 10.1371/journal.pone.0213869. eCollection 2019.


Mannose Alters Gut Microbiome, Prevents Diet-Induced Obesity, and Improves Host Metabolism.

Sharma V, Smolin J, Nayak J, Ayala JE, Scott DA, Peterson SN, Freeze HH.

Cell Rep. 2018 Sep 18;24(12):3087-3098. doi: 10.1016/j.celrep.2018.08.064.


Effects of Turmeric and Curcumin Dietary Supplementation on Human Gut Microbiota: A Double-Blind, Randomized, Placebo-Controlled Pilot Study.

Peterson CT, Vaughn AR, Sharma V, Chopra D, Mills PJ, Peterson SN, Sivamani RK.

J Evid Based Integr Med. 2018 Jan-Dec;23:2515690X18790725. doi: 10.1177/2515690X18790725.


Using a Modified Version of Pictionary to Help Students Review Course Material.

Peterson SN.

J Microbiol Biol Educ. 2017 Dec 1;18(3). pii: 18.3.63. doi: 10.1128/jmbe.v18i3.1375. eCollection 2017. No abstract available.


Prebiotic Potential of Herbal Medicines Used in Digestive Health and Disease.

Peterson CT, Sharma V, Uchitel S, Denniston K, Chopra D, Mills PJ, Peterson SN.

J Altern Complement Med. 2018 Jul;24(7):656-665. doi: 10.1089/acm.2017.0422. Epub 2018 Mar 22.


Metabolite and Microbiome Interplay in Cancer Immunotherapy.

Johnson CH, Spilker ME, Goetz L, Peterson SN, Siuzdak G.

Cancer Res. 2016 Nov 1;76(21):6146-6152. Epub 2016 Oct 11. Review.


Corrigendum: Identification of Altered Metabolomic Profiles Following a Panchakarma-based Ayurvedic Intervention in Healthy Subjects: The Self-Directed Biological Transformation Initiative (SBTI).

Peterson CT, Lucas J, John-Williams LS, Thompson JW, Moseley MA, Patel S, Peterson SN, Porter V, Schadt EE, Mills PJ, Tanzi RE, Doraiswamy PM, Chopra D.

Sci Rep. 2016 Oct 10;6:34678. doi: 10.1038/srep34678. No abstract available.


Identification of Altered Metabolomic Profiles Following a Panchakarma-based Ayurvedic Intervention in Healthy Subjects: The Self-Directed Biological Transformation Initiative (SBTI).

Peterson CT, Lucas J, John-Williams LS, Thompson JW, Moseley MA, Patel S, Peterson SN, Porter V, Schadt EE, Mills PJ, Tanzi RE, Doraiswamy PM, Chopra D.

Sci Rep. 2016 Sep 9;6:32609. doi: 10.1038/srep32609. Erratum in: Sci Rep. 2016 Oct 10;6:34678.


A comparison of younger and older men who have sex with men using data from Jamaica AIDS Support for Life: characteristics associated with HIV status.

Budhwani H, Hearld KR, Barrow G, Peterson SN, Walton-Levermore K.

Int J STD AIDS. 2016 Aug;27(9):769-75. doi: 10.1177/0956462415594752. Epub 2015 Jul 2.


Genomic and transcriptomic differences in community acquired methicillin resistant Staphylococcus aureus USA300 and USA400 strains.

Jones MB, Montgomery CP, Boyle-Vavra S, Shatzkes K, Maybank R, Frank BC, Peterson SN, Daum RS.

BMC Genomics. 2014 Dec 19;15:1145. doi: 10.1186/1471-2164-15-1145.


Microbiota organization is a distinct feature of proximal colorectal cancers.

Dejea CM, Wick EC, Hechenbleikner EM, White JR, Mark Welch JL, Rossetti BJ, Peterson SN, Snesrud EC, Borisy GG, Lazarev M, Stein E, Vadivelu J, Roslani AC, Malik AA, Wanyiri JW, Goh KL, Thevambiga I, Fu K, Wan F, Llosa N, Housseau F, Romans K, Wu X, McAllister FM, Wu S, Vogelstein B, Kinzler KW, Pardoll DM, Sears CL.

Proc Natl Acad Sci U S A. 2014 Dec 23;111(51):18321-6. doi: 10.1073/pnas.1406199111. Epub 2014 Dec 8.


Immune homeostasis, dysbiosis and therapeutic modulation of the gut microbiota.

Peterson CT, Sharma V, Elmén L, Peterson SN.

Clin Exp Immunol. 2015 Mar;179(3):363-77. doi: 10.1111/cei.12474. Review.


Functional expression of dental plaque microbiota.

Peterson SN, Meissner T, Su AI, Snesrud E, Ong AC, Schork NJ, Bretz WA.

Front Cell Infect Microbiol. 2014 Aug 14;4:108. doi: 10.3389/fcimb.2014.00108. eCollection 2014.


Expression and solubility testing in a high-throughput environment.

Kwon K, Peterson SN.

Methods Mol Biol. 2014;1140:75-88. doi: 10.1007/978-1-4939-0354-2_6.


High-throughput cloning for biophysical applications.

Kwon K, Peterson SN.

Methods Mol Biol. 2014;1140:61-74. doi: 10.1007/978-1-4939-0354-2_5.


LUD, a new protein domain associated with lactate utilization.

Hwang WC, Bakolitsa C, Punta M, Coggill PC, Bateman A, Axelrod HL, Rawlings ND, Sedova M, Peterson SN, Eberhardt RY, Aravind L, Pascual J, Godzik A.

BMC Bioinformatics. 2013 Nov 26;14:341. doi: 10.1186/1471-2105-14-341.


Evolution of high-level ethambutol-resistant tuberculosis through interacting mutations in decaprenylphosphoryl-β-D-arabinose biosynthetic and utilization pathway genes.

Safi H, Lingaraju S, Amin A, Kim S, Jones M, Holmes M, McNeil M, Peterson SN, Chatterjee D, Fleischmann R, Alland D.

Nat Genet. 2013 Oct;45(10):1190-7. doi: 10.1038/ng.2743. Epub 2013 Sep 1.


A Multi-Omic View of Host-Pathogen-Commensal Interplay in Salmonella-Mediated Intestinal Infection.

Deatherage Kaiser BL, Li J, Sanford JA, Kim YM, Kronewitter SR, Jones MB, Peterson CT, Peterson SN, Frank BC, Purvine SO, Brown JN, Metz TO, Smith RD, Heffron F, Adkins JN.

PLoS One. 2013 Jun 26;8(6):e67155. doi: 10.1371/journal.pone.0067155. Print 2013.


Salmonella modulates metabolism during growth under conditions that induce expression of virulence genes.

Kim YM, Schmidt BJ, Kidwai AS, Jones MB, Deatherage Kaiser BL, Brewer HM, Mitchell HD, Palsson BO, McDermott JE, Heffron F, Smith RD, Peterson SN, Ansong C, Hyduke DR, Metz TO, Adkins JN.

Mol Biosyst. 2013 Jun;9(6):1522-34. doi: 10.1039/c3mb25598k. Epub 2013 Apr 5.


The dental plaque microbiome in health and disease.

Peterson SN, Snesrud E, Liu J, Ong AC, Kilian M, Schork NJ, Bretz W.

PLoS One. 2013;8(3):e58487. doi: 10.1371/journal.pone.0058487. Epub 2013 Mar 8.


Molecular mechanism of quinone signaling mediated through S-quinonization of a YodB family repressor QsrR.

Ji Q, Zhang L, Jones MB, Sun F, Deng X, Liang H, Cho H, Brugarolas P, Gao YN, Peterson SN, Lan L, Bae T, He C.

Proc Natl Acad Sci U S A. 2013 Mar 26;110(13):5010-5. doi: 10.1073/pnas.1219446110. Epub 2013 Mar 11. Erratum in: Proc Natl Acad Sci U S A. 2013 May 28;110(22):9183.


Mutational activation of the AmgRS two-component system in aminoglycoside-resistant Pseudomonas aeruginosa.

Lau CH, Fraud S, Jones M, Peterson SN, Poole K.

Antimicrob Agents Chemother. 2013 May;57(5):2243-51. doi: 10.1128/AAC.00170-13. Epub 2013 Mar 4.


A multi-omic systems approach to elucidating Yersinia virulence mechanisms.

Ansong C, Schrimpe-Rutledge AC, Mitchell HD, Chauhan S, Jones MB, Kim YM, McAteer K, Deatherage Kaiser BL, Dubois JL, Brewer HM, Frank BC, McDermott JE, Metz TO, Peterson SN, Smith RD, Motin VL, Adkins JN.

Mol Biosyst. 2013 Jan 27;9(1):44-54. doi: 10.1039/c2mb25287b. Epub 2012 Nov 13.


Structural characterization and comparison of three acyl-carrier-protein synthases from pathogenic bacteria.

Halavaty AS, Kim Y, Minasov G, Shuvalova L, Dubrovska I, Winsor J, Zhou M, Onopriyenko O, Skarina T, Papazisi L, Kwon K, Peterson SN, Joachimiak A, Savchenko A, Anderson WF.

Acta Crystallogr D Biol Crystallogr. 2012 Oct;68(Pt 10):1359-70. Epub 2012 Sep 13.


Studying Salmonellae and Yersiniae host-pathogen interactions using integrated 'omics and modeling.

Ansong C, Deatherage BL, Hyduke D, Schmidt B, McDermott JE, Jones MB, Chauhan S, Charusanti P, Kim YM, Nakayasu ES, Li J, Kidwai A, Niemann G, Brown RN, Metz TO, McAteer K, Heffron F, Peterson SN, Motin V, Palsson BO, Smith RD, Adkins JN.

Curr Top Microbiol Immunol. 2013;363:21-41. doi: 10.1007/82_2012_247. Review.


The auxiliary protein complex SaePQ activates the phosphatase activity of sensor kinase SaeS in the SaeRS two-component system of Staphylococcus aureus.

Jeong DW, Cho H, Jones MB, Shatzkes K, Sun F, Ji Q, Liu Q, Peterson SN, He C, Bae T.

Mol Microbiol. 2012 Oct;86(2):331-48. doi: 10.1111/j.1365-2958.2012.08198.x. Epub 2012 Aug 27.


Reduced expression of the rplU-rpmA ribosomal protein operon in mexXY-expressing pan-aminoglycoside-resistant mutants of pseudomonas aeruginosa.

Lau CH, Fraud S, Jones M, Peterson SN, Poole K.

Antimicrob Agents Chemother. 2012 Oct;56(10):5171-9. doi: 10.1128/AAC.00846-12. Epub 2012 Jul 23.


Model-driven multi-omic data analysis elucidates metabolic immunomodulators of macrophage activation.

Bordbar A, Mo ML, Nakayasu ES, Schrimpe-Rutledge AC, Kim YM, Metz TO, Jones MB, Frank BC, Smith RD, Peterson SN, Hyduke DR, Adkins JN, Palsson BO.

Mol Syst Biol. 2012 Jun 26;8:558. doi: 10.1038/msb.2012.21.


Global gene expression of Listeria monocytogenes to salt stress.

Bae D, Liu C, Zhang T, Jones M, Peterson SN, Wang C.

J Food Prot. 2012 May;75(5):906-12. doi: 10.4315/0362-028X.JFP-11-282.


Development stage-specific proteomic profiling uncovers small, lineage specific proteins most abundant in the Aspergillus Fumigatus conidial proteome.

Suh MJ, Fedorova ND, Cagas SE, Hastings S, Fleischmann RD, Peterson SN, Perlin DS, Nierman WC, Pieper R, Momany M.

Proteome Sci. 2012 Apr 30;10(1):30. doi: 10.1186/1477-5956-10-30.


Comparative omics-driven genome annotation refinement: application across Yersiniae.

Schrimpe-Rutledge AC, Jones MB, Chauhan S, Purvine SO, Sanford JA, Monroe ME, Brewer HM, Payne SH, Ansong C, Frank BC, Smith RD, Peterson SN, Motin VL, Adkins JN.

PLoS One. 2012;7(3):e33903. doi: 10.1371/journal.pone.0033903. Epub 2012 Mar 27. Erratum in: PLoS One. 2012;7(8). doi: 10.1371/annotation/03110e8b-3e10-4334-9ff7-969c85ad25d8.


AirSR, a [2Fe-2S] cluster-containing two-component system, mediates global oxygen sensing and redox signaling in Staphylococcus aureus.

Sun F, Ji Q, Jones MB, Deng X, Liang H, Frank B, Telser J, Peterson SN, Bae T, He C.

J Am Chem Soc. 2012 Jan 11;134(1):305-14. doi: 10.1021/ja2071835. Epub 2011 Dec 9.


Characterizing the Escherichia coli O157:H7 proteome including protein associations with higher order assemblies.

Pieper R, Zhang Q, Clark DJ, Huang ST, Suh MJ, Braisted JC, Payne SH, Fleischmann RD, Peterson SN, Tzipori S.

PLoS One. 2011;6(11):e26554. doi: 10.1371/journal.pone.0026554. Epub 2011 Nov 7.


Dental caries pathogenicity: a genomic and metagenomic perspective.

Peterson SN, Snesrud E, Schork NJ, Bretz WA.

Int Dent J. 2011 Aug;61 Suppl 1:11-22. doi: 10.1111/j.1875-595X.2011.00025.x. Review.


Experimental annotation of post-translational features and translated coding regions in the pathogen Salmonella Typhimurium.

Ansong C, Tolić N, Purvine SO, Porwollik S, Jones M, Yoon H, Payne SH, Martin JL, Burnet MC, Monroe ME, Venepally P, Smith RD, Peterson SN, Heffron F, McClelland M, Adkins JN.

BMC Genomics. 2011 Aug 25;12:433. doi: 10.1186/1471-2164-12-433.


In vivo versus in vitro protein abundance analysis of Shigella dysenteriae type 1 reveals changes in the expression of proteins involved in virulence, stress and energy metabolism.

Kuntumalla S, Zhang Q, Braisted JC, Fleischmann RD, Peterson SN, Donohue-Rolfe A, Tzipori S, Pieper R.

BMC Microbiol. 2011 Jun 24;11:147. doi: 10.1186/1471-2180-11-147.


Recombinant expression and functional analysis of proteases from Streptococcus pneumoniae, Bacillus anthracis, and Yersinia pestis.

Kwon K, Hasseman J, Latham S, Grose C, Do Y, Fleischmann RD, Pieper R, Peterson SN.

BMC Biochem. 2011 May 5;12:17. doi: 10.1186/1471-2091-12-17.


Investigating the genome diversity of B. cereus and evolutionary aspects of B. anthracis emergence.

Papazisi L, Rasko DA, Ratnayake S, Bock GR, Remortel BG, Appalla L, Liu J, Dracheva T, Braisted JC, Shallom S, Jarrahi B, Snesrud E, Ahn S, Sun Q, Rilstone J, Okstad OA, Kolstø AB, Fleischmann RD, Peterson SN.

Genomics. 2011 Jul;98(1):26-39. doi: 10.1016/j.ygeno.2011.03.008. Epub 2011 Apr 5.


TLR signaling is required for Salmonella typhimurium virulence.

Arpaia N, Godec J, Lau L, Sivick KE, McLaughlin LM, Jones MB, Dracheva T, Peterson SN, Monack DM, Barton GM.

Cell. 2011 Mar 4;144(5):675-88. doi: 10.1016/j.cell.2011.01.031.


Comparative genome sequencing of an isogenic pair of USA800 clinical methicillin-resistant Staphylococcus aureus isolates obtained before and after daptomycin treatment failure.

Boyle-Vavra S, Jones M, Gourley BL, Holmes M, Ruf R, Balsam AR, Boulware DR, Kline S, Jawahir S, Devries A, Peterson SN, Daum RS.

Antimicrob Agents Chemother. 2011 May;55(5):2018-25. doi: 10.1128/AAC.01593-10. Epub 2011 Feb 22.


A conserved surface loop in type I dehydroquinate dehydratases positions an active site arginine and functions in substrate binding.

Light SH, Minasov G, Shuvalova L, Peterson SN, Caffrey M, Anderson WF, Lavie A.

Biochemistry. 2011 Mar 29;50(12):2357-63. doi: 10.1021/bi102020s. Epub 2011 Feb 21.


Monitoring the long-term molecular epidemiology of the pneumococcus and detection of potential 'vaccine escape' strains.

Pandya GA, McEllistrem MC, Venepally P, Holmes MH, Jarrahi B, Sanka R, Liu J, Karamycheva SA, Bai Y, Fleischmann RD, Peterson SN.

PLoS One. 2011 Jan 10;6(1):e15950. doi: 10.1371/journal.pone.0015950.


Role of luxS in Bacillus anthracis growth and virulence factor expression.

Jones MB, Peterson SN, Benn R, Braisted JC, Jarrahi B, Shatzkes K, Ren D, Wood TK, Blaser MJ.

Virulence. 2010 Mar-Apr;1(2):72-83. doi: 10.4161/viru.1.2.10752. Erratum in: Virulence. 2011 Mar-Apr;2(2):172.


A novel copper-responsive regulon in Mycobacterium tuberculosis.

Festa RA, Jones MB, Butler-Wu S, Sinsimer D, Gerads R, Bishai WR, Peterson SN, Darwin KH.

Mol Microbiol. 2011 Jan;79(1):133-48. doi: 10.1111/j.1365-2958.2010.07431.x. Epub 2010 Oct 29.


Tracing phylogenomic events leading to diversity of Haemophilus influenzae and the emergence of Brazilian Purpuric Fever (BPF)-associated clones.

Papazisi L, Ratnayake S, Remortel BG, Bock GR, Liang W, Saeed AI, Liu J, Fleischmann RD, Kilian M, Peterson SN.

Genomics. 2010 Nov;96(5):290-302. doi: 10.1016/j.ygeno.2010.07.005. Epub 2010 Jul 30.


Using chemical derivatization and mass spectrometric analysis to characterize the post-translationally modified Staphylococcus aureus surface protein G.

Suh MJ, Clark DJ, Parmer PP, Fleischmann RD, Peterson SN, Pieper R.

Biochim Biophys Acta. 2010 Jun;1804(6):1394-404. doi: 10.1016/j.bbapap.2010.02.006. Epub 2010 Feb 20.


Proteomic analysis of iron acquisition, metabolic and regulatory responses of Yersinia pestis to iron starvation.

Pieper R, Huang ST, Parmar PP, Clark DJ, Alami H, Fleischmann RD, Perry RD, Peterson SN.

BMC Microbiol. 2010 Jan 29;10:30. doi: 10.1186/1471-2180-10-30.


Assessing the utility of whole-genome amplified serum DNA for array-based high throughput genotyping.

Bucasas KL, Pandya GA, Pradhan S, Fleischmann RD, Peterson SN, Belmont JW.

BMC Genet. 2009 Dec 18;10:85. doi: 10.1186/1471-2156-10-85.


Allelic exchange and mutant selection demonstrate that common clinical embCAB gene mutations only modestly increase resistance to ethambutol in Mycobacterium tuberculosis.

Safi H, Fleischmann RD, Peterson SN, Jones MB, Jarrahi B, Alland D.

Antimicrob Agents Chemother. 2010 Jan;54(1):103-8. doi: 10.1128/AAC.01288-09. Epub 2009 Oct 12.

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