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Automated Nanoflow Two-Dimensional Reversed-Phase Liquid Chromatography System Enables In-Depth Proteome and Phosphoproteome Profiling of Nanoscale Samples.

Dou M, Tsai CF, Piehowski PD, Wang Y, Fillmore TL, Zhao R, Moore RJ, Zhang P, Qian WJ, Smith RD, Liu T, Kelly RT, Shi T, Zhu Y.

Anal Chem. 2019 Jul 9. doi: 10.1021/acs.analchem.9b01248. [Epub ahead of print]


Genomics of the Pathogenic Clostridia.

Moore RJ, Lacey JA.

Microbiol Spectr. 2019 May;7(3). doi: 10.1128/microbiolspec.GPP3-0033-2018.


Impact of the Food Additive Titanium Dioxide (E171) on Gut Microbiota-Host Interaction.

Pinget G, Tan J, Janac B, Kaakoush NO, Angelatos AS, O'Sullivan J, Koay YC, Sierro F, Davis J, Divakarla SK, Khanal D, Moore RJ, Stanley D, Chrzanowski W, Macia L.

Front Nutr. 2019 May 14;6:57. doi: 10.3389/fnut.2019.00057. eCollection 2019.


We need mandatory training on birth trauma.

Moore RJ.

BMJ. 2019 May 24;365:l2286. doi: 10.1136/bmj.l2286. No abstract available.


Proteogenomic Analysis of Human Colon Cancer Reveals New Therapeutic Opportunities.

Vasaikar S, Huang C, Wang X, Petyuk VA, Savage SR, Wen B, Dou Y, Zhang Y, Shi Z, Arshad OA, Gritsenko MA, Zimmerman LJ, McDermott JE, Clauss TR, Moore RJ, Zhao R, Monroe ME, Wang YT, Chambers MC, Slebos RJC, Lau KS, Mo Q, Ding L, Ellis M, Thiagarajan M, Kinsinger CR, Rodriguez H, Smith RD, Rodland KD, Liebler DC, Liu T, Zhang B; Clinical Proteomic Tumor Analysis Consortium.

Cell. 2019 May 2;177(4):1035-1049.e19. doi: 10.1016/j.cell.2019.03.030. Epub 2019 Apr 25.


Feed supplementation with biochar may reduce poultry pathogens, including Campylobacter hepaticus, the causative agent of Spotty Liver Disease.

Willson NL, Van TTH, Bhattarai SP, Courtice JM, McIntyre JR, Prasai TP, Moore RJ, Walsh K, Stanley D.

PLoS One. 2019 Apr 3;14(4):e0214471. doi: 10.1371/journal.pone.0214471. eCollection 2019.


Spotlight on avian pathology: Campylobacter hepaticus, the cause of Spotty Liver Disease in layers.

Moore RJ, Scott PC, Van TTH.

Avian Pathol. 2019 Aug;48(4):285-287. doi: 10.1080/03079457.2019.1602247. Epub 2019 Apr 12.


Survival Mechanisms of Campylobacter hepaticus Identified by Genomic Analysis and Comparative Transcriptomic Analysis of in vivo and in vitro Derived Bacteria.

Van TTH, Lacey JA, Vezina B, Phung C, Anwar A, Scott PC, Moore RJ.

Front Microbiol. 2019 Feb 5;10:107. doi: 10.3389/fmicb.2019.00107. eCollection 2019.


Development of a Luminex xTAG Assay for the Rapid Detection of Five Aminoglycoside Resistance Genes Both in Staphylococci and Enterococci.

Xu F, Chen J, Xiao C, Cong F, Ma L, Moore RJ, Huang R, Guo P.

Microb Drug Resist. 2019 Jul/Aug;25(6):874-879. doi: 10.1089/mdr.2018.0297. Epub 2019 Feb 20.


In silico Identification of Novel Toxin Homologs and Associated Mobile Genetic Elements in Clostridium perfringens.

Lacey JA, Johanesen PA, Lyras D, Moore RJ.

Pathogens. 2019 Jan 29;8(1). pii: E16. doi: 10.3390/pathogens8010016.


Improving mitochondrial function with SS-31 reverses age-related redox stress and improves exercise tolerance in aged mice.

Campbell MD, Duan J, Samuelson AT, Gaffrey MJ, Merrihew GE, Egertson JD, Wang L, Bammler TK, Moore RJ, White CC, Kavanagh TJ, Voss JG, Szeto HH, Rabinovitch PS, MacCoss MJ, Qian WJ, Marcinek DJ.

Free Radic Biol Med. 2019 Apr;134:268-281. doi: 10.1016/j.freeradbiomed.2018.12.031. Epub 2018 Dec 28.


Ultrastructure of the gastro intestinal tract of healthy Japanese quail (Coturnix japonica) using light and scanning electron microscopy.

Wilkinson N, Dinev I, Aspden WJ, Hughes RJ, Christiansen I, Chapman J, Gangadoo S, Moore RJ, Stanley D.

Anim Nutr. 2018 Dec;4(4):378-387. doi: 10.1016/j.aninu.2018.06.006. Epub 2018 Aug 7.


Rapidly Assessing the Quality of Targeted Proteomics Experiments through Monitoring Stable-Isotope Labeled Standards.

Gibbons BC, Fillmore TL, Gao Y, Moore RJ, Liu T, Nakayasu ES, Metz TO, Payne SH.

J Proteome Res. 2019 Feb 1;18(2):694-699. doi: 10.1021/acs.jproteome.8b00688. Epub 2018 Dec 19.


Clostridium perfringens-mediated necrotic enteritis is not influenced by the pre-existing microbiota but is promoted by large changes in the post-challenge microbiota.

Lacey JA, Stanley D, Keyburn AL, Ford M, Chen H, Johanesen P, Lyras D, Moore RJ.

Vet Microbiol. 2018 Dec;227:119-126. doi: 10.1016/j.vetmic.2018.10.022. Epub 2018 Nov 1.


An intermittent hypercaloric diet alters gut microbiota, prefrontal cortical gene expression and social behaviours in rats.

Reichelt AC, Loughman A, Bernard A, Raipuria M, Abbott KN, Dachtler J, Van TTH, Moore RJ.

Nutr Neurosci. 2018 Nov 22:1-15. doi: 10.1080/1028415X.2018.1537169. [Epub ahead of print]


Benchtop-compatible sample processing workflow for proteome profiling of < 100 mammalian cells.

Xu K, Liang Y, Piehowski PD, Dou M, Schwarz KC, Zhao R, Sontag RL, Moore RJ, Zhu Y, Kelly RT.

Anal Bioanal Chem. 2019 Jul;411(19):4587-4596. doi: 10.1007/s00216-018-1493-9. Epub 2018 Nov 20.


Overexpressing ovotransferrin and avian β-defensin-3 improves antimicrobial capacity of chickens and poultry products.

Cooper CA, Tizard ML, Stanborough T, Moore SC, Chandry PS, Jenkins KA, Wise TG, O'Neil TE, Layton DS, Morris KR, Moore RJ, Fegan N, Doran TJ.

Transgenic Res. 2019 Feb;28(1):51-76. doi: 10.1007/s11248-018-0101-2. Epub 2018 Oct 29.


Proteome Profiling of 1 to 5 Spiked Circulating Tumor Cells Isolated from Whole Blood Using Immunodensity Enrichment, Laser Capture Microdissection, Nanodroplet Sample Processing, and Ultrasensitive nanoLC-MS.

Zhu Y, Podolak J, Zhao R, Shukla AK, Moore RJ, Thomas GV, Kelly RT.

Anal Chem. 2018 Oct 16;90(20):11756-11759. doi: 10.1021/acs.analchem.8b03268. Epub 2018 Oct 5.


Increasing the Separation Capacity of Intact Histone Proteoforms Chromatography Coupling Online Weak Cation Exchange-HILIC to Reversed Phase LC UVPD-HRMS.

Gargano AFG, Shaw JB, Zhou M, Wilkins CS, Fillmore TL, Moore RJ, Somsen GW, Paša-Tolić L.

J Proteome Res. 2018 Nov 2;17(11):3791-3800. doi: 10.1021/acs.jproteome.8b00458. Epub 2018 Oct 8.


Nanowell-mediated two-dimensional liquid chromatography enables deep proteome profiling of <1000 mammalian cells.

Dou M, Zhu Y, Liyu A, Liang Y, Chen J, Piehowski PD, Xu K, Zhao R, Moore RJ, Atkinson MA, Mathews CE, Qian WJ, Kelly RT.

Chem Sci. 2018 Jul 18;9(34):6944-6951. doi: 10.1039/c8sc02680g. eCollection 2018 Sep 14.


Development of a reverse transcription recombinase polymerase amplification assay for rapid detection of Theiler's murine encephalomyelitis virus.

Ma L, Cong F, Zhu Y, Wu M, Xu F, Huang R, Moore RJ, Guo P.

Mol Cell Probes. 2018 Oct;41:27-31. doi: 10.1016/j.mcp.2018.08.006. Epub 2018 Aug 26.


Correlations between intestinal innate immune genes and cecal microbiota highlight potential for probiotic development for immune modulation in poultry.

Willson NL, Nattrass GS, Hughes RJ, Moore RJ, Stanley D, Hynd PI, Forder REA.

Appl Microbiol Biotechnol. 2018 Nov;102(21):9317-9329. doi: 10.1007/s00253-018-9281-1. Epub 2018 Aug 27.


A Cobalamin Activity-Based Probe Enables Microbial Cell Growth and Finds New Cobalamin-Protein Interactions across Domains.

Rosnow JJ, Hwang S, Killinger BJ, Kim YM, Moore RJ, Lindemann SR, Maupin-Furlow JA, Wright AT.

Appl Environ Microbiol. 2018 Aug 31;84(18). pii: e00955-18. doi: 10.1128/AEM.00955-18. Print 2018 Sep 15.


Reproducible workflow for multiplexed deep-scale proteome and phosphoproteome analysis of tumor tissues by liquid chromatography-mass spectrometry.

Mertins P, Tang LC, Krug K, Clark DJ, Gritsenko MA, Chen L, Clauser KR, Clauss TR, Shah P, Gillette MA, Petyuk VA, Thomas SN, Mani DR, Mundt F, Moore RJ, Hu Y, Zhao R, Schnaubelt M, Keshishian H, Monroe ME, Zhang Z, Udeshi ND, Mani D, Davies SR, Townsend RR, Chan DW, Smith RD, Zhang H, Liu T, Carr SA.

Nat Protoc. 2018 Jul;13(7):1632-1661. doi: 10.1038/s41596-018-0006-9.


Spatially Resolved Proteome Mapping of Laser Capture Microdissected Tissue with Automated Sample Transfer to Nanodroplets.

Zhu Y, Dou M, Piehowski PD, Liang Y, Wang F, Chu RK, Chrisler WB, Smith JN, Schwarz KC, Shen Y, Shukla AK, Moore RJ, Smith RD, Qian WJ, Kelly RT.

Mol Cell Proteomics. 2018 Sep;17(9):1864-1874. doi: 10.1074/mcp.TIR118.000686. Epub 2018 Jun 24.


Author Correction: Informed-Proteomics: open-source software package for top-down proteomics.

Park J, Piehowski PD, Wilkins C, Zhou M, Mendoza J, Fujimoto GM, Gibbons BC, Shaw JB, Shen Y, Shukla AK, Moore RJ, Liu T, Petyuk VA, Tolić N, Paša-Tolić L, Smith RD, Payne SH, Kim S.

Nat Methods. 2018 Jul;15(7):554. doi: 10.1038/s41592-018-0040-0.


Invariant Natural Killer T Cells Shape the Gut Microbiota and Regulate Neutrophil Recruitment and Function During Intestinal Inflammation.

Shen S, Prame Kumar K, Stanley D, Moore RJ, Van TTH, Wen SW, Hickey MJ, Wong CHY.

Front Immunol. 2018 May 7;9:999. doi: 10.3389/fimmu.2018.00999. eCollection 2018.


Expansion of the Clostridium perfringens toxin-based typing scheme.

Rood JI, Adams V, Lacey J, Lyras D, McClane BA, Melville SB, Moore RJ, Popoff MR, Sarker MR, Songer JG, Uzal FA, Van Immerseel F.

Anaerobe. 2018 Oct;53:5-10. doi: 10.1016/j.anaerobe.2018.04.011. Epub 2018 Apr 20. Review.


Proteomic Analysis of Single Mammalian Cells Enabled by Microfluidic Nanodroplet Sample Preparation and Ultrasensitive NanoLC-MS.

Zhu Y, Clair G, Chrisler WB, Shen Y, Zhao R, Shukla AK, Moore RJ, Misra RS, Pryhuber GS, Smith RD, Ansong C, Kelly RT.

Angew Chem Int Ed Engl. 2018 Sep 17;57(38):12370-12374. doi: 10.1002/anie.201802843. Epub 2018 Jun 14.


Whole genome analysis reveals the diversity and evolutionary relationships between necrotic enteritis-causing strains of Clostridium perfringens.

Lacey JA, Allnutt TR, Vezina B, Van TTH, Stent T, Han X, Rood JI, Wade B, Keyburn AL, Seemann T, Chen H, Haring V, Johanesen PA, Lyras D, Moore RJ.

BMC Genomics. 2018 May 22;19(1):379. doi: 10.1186/s12864-018-4771-1.


Quality Control Analysis in Real-time (QC-ART): A Tool for Real-time Quality Control Assessment of Mass Spectrometry-based Proteomics Data.

Stanfill BA, Nakayasu ES, Bramer LM, Thompson AM, Ansong CK, Clauss TR, Gritsenko MA, Monroe ME, Moore RJ, Orton DJ, Piehowski PD, Schepmoes AA, Smith RD, Webb-Robertson BM, Metz TO; TEDDY Study Group.

Mol Cell Proteomics. 2018 Sep;17(9):1824-1836. doi: 10.1074/mcp.RA118.000648. Epub 2018 Apr 17.


Subnanogram proteomics: impact of LC column selection, MS instrumentation and data analysis strategy on proteome coverage for trace samples.

Zhu Y, Zhao R, Piehowski PD, Moore RJ, Lim S, Orphan VJ, Paša-Tolić L, Qian WJ, Smith RD, Kelly RT.

Int J Mass Spectrom. 2018 Apr;427:4-10. doi: 10.1016/j.ijms.2017.08.016. Epub 2017 Sep 1.


At-hatch administration of probiotic to chickens can introduce beneficial changes in gut microbiota.

Baldwin S, Hughes RJ, Hao Van TT, Moore RJ, Stanley D.

PLoS One. 2018 Mar 23;13(3):e0194825. doi: 10.1371/journal.pone.0194825. eCollection 2018.


Time-resolved proteome profiling of normal lung development.

Moghieb A, Clair G, Mitchell HD, Kitzmiller J, Zink EM, Kim YM, Petyuk V, Shukla A, Moore RJ, Metz TO, Carson J, McDermott JE, Corley RA, Whitsett JA, Ansong C.

Am J Physiol Lung Cell Mol Physiol. 2018 Jul 1;315(1):L11-L24. doi: 10.1152/ajplung.00316.2017. Epub 2018 Mar 8.


Salmonella enterica subsp. salamae serovar Sofia, a prevalent serovar in Australian broiler chickens, is also capable of transient colonisation in layers.

Cooper C, Moore SC, Moore RJ, Chandry PS, Fegan N.

Br Poult Sci. 2018 Jun;59(3):270-277. doi: 10.1080/00071668.2018.1447083. Epub 2018 Mar 14.


Nanodroplet processing platform for deep and quantitative proteome profiling of 10-100 mammalian cells.

Zhu Y, Piehowski PD, Zhao R, Chen J, Shen Y, Moore RJ, Shukla AK, Petyuk VA, Campbell-Thompson M, Mathews CE, Smith RD, Qian WJ, Kelly RT.

Nat Commun. 2018 Feb 28;9(1):882. doi: 10.1038/s41467-018-03367-w.


Rapid and Specific Methods to Differentiate Foodborne Pathogens, Campylobacter jejuni, Campylobacter coli, and the New Species Causing Spotty Liver Disease in Chickens, Campylobacter hepaticus.

Van TTH, Anwar A, Scott PC, Moore RJ.

Foodborne Pathog Dis. 2018 Aug;15(8):526-530. doi: 10.1089/fpd.2017.2367. Epub 2018 Jan 22.


An insight into intestinal mucosal microbiota disruption after stroke.

Stanley D, Moore RJ, Wong CHY.

Sci Rep. 2018 Jan 12;8(1):568. doi: 10.1038/s41598-017-18904-8.


SPE-IMS-MS: An automated platform for sub-sixty second surveillance of endogenous metabolites and xenobiotics in biofluids.

Zhang X, Romm M, Zheng X, Zink EM, Kim YM, Burnum-Johnson KE, Orton DJ, Apffel A, Ibrahim YM, Monroe ME, Moore RJ, Smith JN, Ma J, Renslow RS, Thomas DG, Blackwell AE, Swinford G, Sausen J, Kurulugama RT, Eno N, Darland E, Stafford G, Fjeldsted J, Metz TO, Teeguarden JG, Smith RD, Baker ES.

Clin Mass Spectrom. 2016 Dec;2:1-10. doi: 10.1016/j.clinms.2016.11.002. Epub 2016 Dec 29.


Selenium nanoparticles in poultry feed modify gut microbiota and increase abundance of Faecalibacterium prausnitzii.

Gangadoo S, Dinev I, Chapman J, Hughes RJ, Van TTH, Moore RJ, Stanley D.

Appl Microbiol Biotechnol. 2018 Feb;102(3):1455-1466. doi: 10.1007/s00253-017-8688-4. Epub 2017 Dec 17.


A Customizable Flow Injection System for Automated, High Throughput, and Time Sensitive Ion Mobility Spectrometry and Mass Spectrometry Measurements.

Orton DJ, Tfaily MM, Moore RJ, LaMarche BL, Zheng X, Fillmore TL, Chu RK, Weitz KK, Monroe ME, Kelly RT, Smith RD, Baker ES.

Anal Chem. 2018 Jan 2;90(1):737-744. doi: 10.1021/acs.analchem.7b02986. Epub 2017 Dec 13.


Erratum: Gut microbial metabolites limit the frequency of autoimmune T cells and protect against type 1 diabetes.

Mariño E, Richards JL, McLeod KH, Stanley D, Yap YA, Knight J, McKenzie C, Kranich J, Oliveira AC, Rossello FJ, Krishnamurthy B, Nefzger CM, Macia L, Thorburn A, Baxter AG, Morahan G, Wong LH, Polo JM, Moore RJ, Lockett TJ, Clarke JM, Topping DL, Harrison LC, Mackay CR.

Nat Immunol. 2017 Oct 18;18(11):1271. doi: 10.1038/ni1117-1271c.


Conjugation-Mediated Horizontal Gene Transfer of Clostridium perfringens Plasmids in the Chicken Gastrointestinal Tract Results in the Formation of New Virulent Strains.

Lacey JA, Keyburn AL, Ford ME, Portela RW, Johanesen PA, Lyras D, Moore RJ.

Appl Environ Microbiol. 2017 Dec 1;83(24). pii: e01814-17. doi: 10.1128/AEM.01814-17. Print 2017 Dec 15.


Draft Genome Sequence of Lactobacillus plantarum Strain A6, a Strong Acid Producer Isolated from a Vietnamese Fermented Sausage (Nem Chua).

Golneshin A, Gor MC, Van TTH, May B, Moore RJ, Smith AT.

Genome Announc. 2017 Oct 12;5(41). pii: e00987-17. doi: 10.1128/genomeA.00987-17.


Quantitative Proteomic Analysis of Mass Limited Tissue Samples for Spatially Resolved Tissue Profiling.

Piehowski PD, Zhao R, Moore RJ, Clair G, Ansong C.

Methods Mol Biol. 2018;1788:269-277. doi: 10.1007/7651_2017_78.


A Qualitative Study of Motivating Factors for Pharmacy Student Leadership.

Moore RJ, Ginsburg DB.

Am J Pharm Educ. 2017 Aug;81(6):114. doi: 10.5688/ajpe816114.


Active molecular iodine photochemistry in the Arctic.

Raso ARW, Custard KD, May NW, Tanner D, Newburn MK, Walker L, Moore RJ, Huey LG, Alexander L, Shepson PB, Pratt KA.

Proc Natl Acad Sci U S A. 2017 Sep 19;114(38):10053-10058. doi: 10.1073/pnas.1702803114. Epub 2017 Sep 5.


Beneficial microbial signals from alternative feed ingredients: a way to improve sustainability of broiler production?

Van Immerseel F, Eeckhaut V, Moore RJ, Choct M, Ducatelle R.

Microb Biotechnol. 2017 Sep;10(5):1008-1011. doi: 10.1111/1751-7915.12794. Epub 2017 Aug 25.


Informed-Proteomics: open-source software package for top-down proteomics.

Park J, Piehowski PD, Wilkins C, Zhou M, Mendoza J, Fujimoto GM, Gibbons BC, Shaw JB, Shen Y, Shukla AK, Moore RJ, Liu T, Petyuk VA, Tolić N, Paša-Tolić L, Smith RD, Payne SH, Kim S.

Nat Methods. 2017 Sep;14(9):909-914. doi: 10.1038/nmeth.4388. Epub 2017 Aug 7. Erratum in: Nat Methods. 2018 Jul;15(7):554.


Campylobacter hepaticus, the cause of spotty liver disease in chickens, is present throughout the small intestine and caeca of infected birds.

Van TTH, Gor MC, Anwar A, Scott PC, Moore RJ.

Vet Microbiol. 2017 Aug;207:226-230. doi: 10.1016/j.vetmic.2017.06.022. Epub 2017 Jun 29.


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