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Items: 34

1.

"Candidatus Paraporphyromonas polyenzymogenes" encodes multi-modular cellulases linked to the type IX secretion system.

Naas AE, Solden LM, Norbeck AD, Brewer H, Hagen LH, Heggenes IM, McHardy AC, Mackie RI, Paša-Tolić L, Arntzen MØ, Eijsink VGH, Koropatkin NM, Hess M, Wrighton KC, Pope PB.

Microbiome. 2018 Mar 1;6(1):44. doi: 10.1186/s40168-018-0421-8.

2.

A compendium of multi-omic sequence information from the Saanich Inlet water column.

Hawley AK, Torres-Beltrán M, Zaikova E, Walsh DA, Mueller A, Scofield M, Kheirandish S, Payne C, Pakhomova L, Bhatia M, Shevchuk O, Gies EA, Fairley D, Malfatti SA, Norbeck AD, Brewer HM, Pasa-Tolic L, Del Rio TG, Suttle CA, Tringe S, Hallam SJ.

Sci Data. 2017 Oct 31;4:170160. doi: 10.1038/sdata.2017.160.

3.

Diurnal cycling of rhizosphere bacterial communities is associated with shifts in carbon metabolism.

Staley C, Ferrieri AP, Tfaily MM, Cui Y, Chu RK, Wang P, Shaw JB, Ansong CK, Brewer H, Norbeck AD, Markillie M, do Amaral F, Tuleski T, Pellizzaro T, Agtuca B, Ferrieri R, Tringe SG, Paša-Tolić L, Stacey G, Sadowsky MJ.

Microbiome. 2017 Jun 24;5(1):65. doi: 10.1186/s40168-017-0287-1.

4.

Proteome Remodeling in Response to Sulfur Limitation in "Candidatus Pelagibacter ubique".

Smith DP, Nicora CD, Carini P, Lipton MS, Norbeck AD, Smith RD, Giovannoni SJ.

mSystems. 2016 Jul 12;1(4). pii: e00068-16. eCollection 2016 Jul-Aug.

5.

Subunit compositions of Arabidopsis RNA polymerases I and III reveal Pol I- and Pol III-specific forms of the AC40 subunit and alternative forms of the C53 subunit.

Ream TS, Haag JR, Pontvianne F, Nicora CD, Norbeck AD, Paša-Tolić L, Pikaard CS.

Nucleic Acids Res. 2015 Apr 30;43(8):4163-78. doi: 10.1093/nar/gkv247. Epub 2015 Mar 26.

6.

Functional diversification of maize RNA polymerase IV and V subtypes via alternative catalytic subunits.

Haag JR, Brower-Toland B, Krieger EK, Sidorenko L, Nicora CD, Norbeck AD, Irsigler A, LaRue H, Brzeski J, McGinnis K, Ivashuta S, Pasa-Tolic L, Chandler VL, Pikaard CS.

Cell Rep. 2014 Oct 9;9(1):378-390. doi: 10.1016/j.celrep.2014.08.067. Epub 2014 Oct 2.

7.

Metaproteomics reveals differential modes of metabolic coupling among ubiquitous oxygen minimum zone microbes.

Hawley AK, Brewer HM, Norbeck AD, Paša-Tolić L, Hallam SJ.

Proc Natl Acad Sci U S A. 2014 Aug 5;111(31):11395-400. doi: 10.1073/pnas.1322132111. Epub 2014 Jul 22.

8.

Evidence supporting dissimilatory and assimilatory lignin degradation in Enterobacter lignolyticus SCF1.

Deangelis KM, Sharma D, Varney R, Simmons B, Isern NG, Markilllie LM, Nicora C, Norbeck AD, Taylor RC, Aldrich JT, Robinson EW.

Front Microbiol. 2013 Sep 19;4:280. doi: 10.3389/fmicb.2013.00280. eCollection 2013.

9.

Molecular tools for investigating microbial community structure and function in oxygen-deficient marine waters.

Hawley AK, Kheirandish S, Mueller A, Leung HT, Norbeck AD, Brewer HM, Pasa-Tolic L, Hallam SJ.

Methods Enzymol. 2013;531:305-29. doi: 10.1016/B978-0-12-407863-5.00016-2.

PMID:
24060128
10.

Amino acid treatment enhances protein recovery from sediment and soils for metaproteomic studies.

Nicora CD, Anderson BJ, Callister SJ, Norbeck AD, Purvine SO, Jansson JK, Mason OU, David MM, Jurelevicius D, Smith RD, Lipton MS.

Proteomics. 2013 Oct;13(18-19):2776-85. doi: 10.1002/pmic.201300003. Epub 2013 Aug 16.

PMID:
23776032
11.

In vitro transcription activities of Pol IV, Pol V, and RDR2 reveal coupling of Pol IV and RDR2 for dsRNA synthesis in plant RNA silencing.

Haag JR, Ream TS, Marasco M, Nicora CD, Norbeck AD, Pasa-Tolic L, Pikaard CS.

Mol Cell. 2012 Dec 14;48(5):811-8. doi: 10.1016/j.molcel.2012.09.027. Epub 2012 Nov 8.

12.

Discovery of novel glucose-regulated proteins in isolated human pancreatic islets using LC-MS/MS-based proteomics.

Schrimpe-Rutledge AC, Fontès G, Gritsenko MA, Norbeck AD, Anderson DJ, Waters KM, Adkins JN, Smith RD, Poitout V, Metz TO.

J Proteome Res. 2012 Jul 6;11(7):3520-32. doi: 10.1021/pr3002996. Epub 2012 May 29.

13.

Global proteomic analysis of two tick-borne emerging zoonotic agents: anaplasma phagocytophilum and ehrlichia chaffeensis.

Lin M, Kikuchi T, Brewer HM, Norbeck AD, Rikihisa Y.

Front Microbiol. 2011 Feb 17;2:24. doi: 10.3389/fmicb.2011.00024. eCollection 2011.

14.

Molecular tools for investigating ANME community structure and function.

Hallam SJ, Pagé AP, Constan L, Song YC, Norbeck AD, Brewer H, Pasa-Tolic L.

Methods Enzymol. 2011;494:75-90. doi: 10.1016/B978-0-12-385112-3.00004-4.

PMID:
21402210
15.

Shotgun proteomics identifies proteins specific for acute renal transplant rejection.

Sigdel TK, Kaushal A, Gritsenko M, Norbeck AD, Qian WJ, Xiao W, Camp DG 2nd, Smith RD, Sarwal MM.

Proteomics Clin Appl. 2010 Jan;4(1):32-47. doi: 10.1002/prca.200900124.

16.

Transcriptional and translational regulatory responses to iron limitation in the globally distributed marine bacterium Candidatus pelagibacter ubique.

Smith DP, Kitner JB, Norbeck AD, Clauss TR, Lipton MS, Schwalbach MS, Steindler L, Nicora CD, Smith RD, Giovannoni SJ.

PLoS One. 2010 May 5;5(5):e10487. doi: 10.1371/journal.pone.0010487.

17.

Proteome of Salmonella Enterica Serotype Typhimurium Grown in a Low Mg/pH Medium.

Shi L, Ansong C, Smallwood H, Rommereim L, McDermott JE, Brewer HM, Norbeck AD, Taylor RC, Gustin JK, Heffron F, Smith RD, Adkins JN.

J Proteomics Bioinform. 2009;2:388-397.

18.

Mouse-specific tandem IgY7-SuperMix immunoaffinity separations for improved LC-MS/MS coverage of the plasma proteome.

Zhou JY, Petritis BO, Petritis K, Norbeck AD, Weitz KK, Moore RJ, Camp DG, Kulkarni RN, Smith RD, Qian WJ.

J Proteome Res. 2009 Nov;8(11):5387-95. doi: 10.1021/pr900564f.

19.

Proteomic investigation of the time course responses of RAW 264.7 macrophages to infection with Salmonella enterica.

Shi L, Chowdhury SM, Smallwood HS, Yoon H, Mottaz-Brewer HM, Norbeck AD, McDermott JE, Clauss TR, Heffron F, Smith RD, Adkins JN.

Infect Immun. 2009 Aug;77(8):3227-33. doi: 10.1128/IAI.00063-09. Epub 2009 Jun 15.

20.

Combined pulsed-Q dissociation and electron transfer dissociation for identification and quantification of iTRAQ-labeled phosphopeptides.

Yang F, Wu S, Stenoien DL, Zhao R, Monroe ME, Gritsenko MA, Purvine SO, Polpitiya AD, Tolić N, Zhang Q, Norbeck AD, Orton DJ, Moore RJ, Tang K, Anderson GA, Pasa-Tolić L, Camp DG 2nd, Smith RD.

Anal Chem. 2009 May 15;81(10):4137-43. doi: 10.1021/ac802605m.

21.

A method for investigating protein-protein interactions related to salmonella typhimurium pathogenesis.

Chowdhury SM, Shi L, Yoon H, Ansong C, Rommereim LM, Norbeck AD, Auberry KJ, Moore RJ, Adkins JN, Heffron F, Smith RD.

J Proteome Res. 2009 Mar;8(3):1504-14. doi: 10.1021/pr800865d.

22.

Optimization of proteomic sample preparation procedures for comprehensive protein characterization of pathogenic systems.

Mottaz-Brewer HM, Norbeck AD, Adkins JN, Manes NP, Ansong C, Shi L, Rikihisa Y, Kikuchi T, Wong SW, Estep RD, Heffron F, Pasa-Tolic L, Smith RD.

J Biomol Tech. 2008 Dec;19(5):285-95.

23.

Subunit compositions of the RNA-silencing enzymes Pol IV and Pol V reveal their origins as specialized forms of RNA polymerase II.

Ream TS, Haag JR, Wierzbicki AT, Nicora CD, Norbeck AD, Zhu JK, Hagen G, Guilfoyle TJ, Pasa-Tolić L, Pikaard CS.

Mol Cell. 2009 Jan 30;33(2):192-203. doi: 10.1016/j.molcel.2008.12.015. Epub 2008 Dec 24.

24.

Transport functions dominate the SAR11 metaproteome at low-nutrient extremes in the Sargasso Sea.

Sowell SM, Wilhelm LJ, Norbeck AD, Lipton MS, Nicora CD, Barofsky DF, Carlson CA, Smith RD, Giovanonni SJ.

ISME J. 2009 Jan;3(1):93-105. doi: 10.1038/ismej.2008.83. Epub 2008 Sep 4.

PMID:
18769456
25.

Proteomic analysis of stationary phase in the marine bacterium "Candidatus Pelagibacter ubique".

Sowell SM, Norbeck AD, Lipton MS, Nicora CD, Callister SJ, Smith RD, Barofsky DF, Giovannoni SJ.

Appl Environ Microbiol. 2008 Jul;74(13):4091-100. doi: 10.1128/AEM.00599-08. Epub 2008 May 9.

26.

Identification of mobile elements and pseudogenes in the Shewanella oneidensis MR-1 genome.

Romine MF, Carlson TS, Norbeck AD, McCue LA, Lipton MS.

Appl Environ Microbiol. 2008 May;74(10):3257-65. doi: 10.1128/AEM.02720-07. Epub 2008 Mar 31.

27.

Proteomics analysis of the causative agent of typhoid fever.

Ansong C, Yoon H, Norbeck AD, Gustin JK, McDermott JE, Mottaz HM, Rue J, Adkins JN, Heffron F, Smith RD.

J Proteome Res. 2008 Feb;7(2):546-57. doi: 10.1021/pr070434u. Epub 2008 Jan 1.

PMID:
18166006
28.

Targeted protein degradation by Salmonella under phagosome-mimicking culture conditions investigated using comparative peptidomics.

Manes NP, Gustin JK, Rue J, Mottaz HM, Purvine SO, Norbeck AD, Monroe ME, Zimmer JS, Metz TO, Adkins JN, Smith RD, Heffron F.

Mol Cell Proteomics. 2007 Apr;6(4):717-27. Epub 2007 Jan 16.

29.

Proteomic approaches to bacterial differentiation.

Norbeck AD, Callister SJ, Monroe ME, Jaitly N, Elias DA, Lipton MS, Smith RD.

J Microbiol Methods. 2006 Dec;67(3):473-86. Epub 2006 Aug 17.

PMID:
16919344
30.

Proteomic analysis of Salmonella enterica serovar typhimurium isolated from RAW 264.7 macrophages: identification of a novel protein that contributes to the replication of serovar typhimurium inside macrophages.

Shi L, Adkins JN, Coleman JR, Schepmoes AA, Dohnkova A, Mottaz HM, Norbeck AD, Purvine SO, Manes NP, Smallwood HS, Wang H, Forbes J, Gros P, Uzzau S, Rodland KD, Heffron F, Smith RD, Squier TC.

J Biol Chem. 2006 Sep 29;281(39):29131-40. Epub 2006 Aug 7.

31.

Evaluation of multiprotein immunoaffinity subtraction for plasma proteomics and candidate biomarker discovery using mass spectrometry.

Liu T, Qian WJ, Mottaz HM, Gritsenko MA, Norbeck AD, Moore RJ, Purvine SO, Camp DG 2nd, Smith RD.

Mol Cell Proteomics. 2006 Nov;5(11):2167-74. Epub 2006 Jul 19.

32.

Analysis of the Salmonella typhimurium proteome through environmental response toward infectious conditions.

Adkins JN, Mottaz HM, Norbeck AD, Gustin JK, Rue J, Clauss TR, Purvine SO, Rodland KD, Heffron F, Smith RD.

Mol Cell Proteomics. 2006 Aug;5(8):1450-61. Epub 2006 May 8.

33.

The utility of accurate mass and LC elution time information in the analysis of complex proteomes.

Norbeck AD, Monroe ME, Adkins JN, Anderson KK, Daly DS, Smith RD.

J Am Soc Mass Spectrom. 2005 Aug;16(8):1239-49.

34.

Proteomic analysis of native metabotropic glutamate receptor 5 protein complexes reveals novel molecular constituents.

Farr CD, Gafken PR, Norbeck AD, Doneanu CE, Stapels MD, Barofsky DF, Minami M, Saugstad JA.

J Neurochem. 2004 Oct;91(2):438-50.

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