Resources

Singh V, Yeoh BS, Chassaing B, Xiao X, Saha P, Olvera RA, Lapek JD, Zhang L, Wang W, Hao S, Flythe MD, Gonzalez DJ, Cani PD, Conejo-Garcia JR, Xiong N, Kennett MJ, Joe B, Patterson AD, Gewirtz AT, Vijay-Kumar M. Dysregulated Microbial Fermentation of Soluble Fiber Induces Cholestatic Liver Cancer. Cell. 2018 Oct 18;175(3):679-694.

Al-Bassam M, Kim J, Zaramela L, Kellman B, Zuniga C, Wozniak JM, Gonzalez DJ, Zengler K. Optimization of Carbon and Energy Utilization Through Differential Translational Efficiency. Nature communications. 2018 Oct 26;9(1):4474.

Breuer M, Earnest TM, Merryman C, Wise KS, Sun L, Lynott MR, Hutchison III CA, Smith HO, Lapek JD, Gonzalez DJ, Lagard VC, Haas D, Hanson AD, Labhsetwar P, Glass JI, and Luthey-Schulten Z. Essential Metabolism for a Minimal Cell. eLife. 2019;8:e36842 doi: 10.7554/eLife.36842.

Mills RH, Vázquez-Baeza Y, Zhu Q, Jiang L, Gaffney J, Humphrey G, Smarr L, Knight R+, Gonzalez DJ+. Evaluating Metagenomic Prediction of the Metaproteome in a 4.5-Year Study of a Patient with Crohn’s Disease. mSystems. 2019; 4(1). + denotes co-corresponding authors

Quinn RA, Adem S, Mills RH, Comstock W, DeRight Goldasich L, Humphrey G, Aksenov AA, Melnik AV, da Silva R, Ackermann G, Bandeira N, Gonzalez DJ, Conrad D, O’Donoghue AJ, Knight R, Dorrestein PC. Neutrophilic proteolysis in the cystic fibrosis lung correlates with a pathogenic microbiome. Microbiome. 2019; 7(1):23.

Tran HQ, RH Mills, Peters NV, Holder MK, de Vries GJ, Knight R, Chassaing B, Gonzalez DJ+, Gewirtz AT+. Associations of the Fecal Microbial Proteome Composition and Proneness to Diet-induced Obesity. Mol Cell Proteomics. 2019 Sep;18(9):1864-1879. + denotes co-corresponding authors [selected as cover article]

O’Neill A, Nakatsuji T, Mills RH, Gonzalez DJ, Gallo R. Identification of a human skin commensal bacterium that selectively kills Cutibacterium acnes. Journal of Investigative Dermatology. 2020 Aug;140(8):1619-1628.

Mills RH, Wozniak JM, Vrbanac A, Campeau A, Chassaing B, Gewirtz A, Knight R, Gonzalez DJ. Organ level protein networks as a reference for the host effects of the microbiome. Genome Res. 2020 Feb;30(2):276-286.

O’Neill AM, Worthing K, Kulkarni N, Li F, Nakatsuji T, McGrosso D, Mills RH, Cheng J, Hata T, Gonzalez DJ and Gallo RL. Antimicrobials from a feline skin commensal bacterium inhibit drug-resistant S. pseudintermedius skin colonization and infection. Elife 2021 Oct 19;10:e66793.

Mills RH, Dulai PS, Vázquez-Baeza Y, Sauceda C, Daniel N, Gerner RR, Batachari LE, Malfavon M, Zhu Q, Weldon K, Humphrey G, Carrillo-Terrazas M, Goldasich LD, Bryant M, Raffatellu M, Quinn RA, Gewirtz AT, Chassaing B, Chu H, Sandborn WJ, Dorrestein PC, Knight R*, Gonzalez DJ*. Multi-omics analyses of the Ulcerative Colitis gut microbiome link Bacteroides vulgatus proteases with disease severity. Nature Microbiology. 2022 Feb;7(2):262-276. *denotes co-corresponding authors

Campeau A, Mills RH, Blanchette M, Bajc K, Malfavon M, Munji RN, Deng L, Hancock B, Patras KA, Olson J, Nizet V, Daneman R, Doran K, Gonzalez DJ. Multidimensional Proteome Profiling of Blood-Brain Barrier Perturbation by Group B Streptococcus. mSystems. 2020 Aug 25;5(4):e00368-20.

Wozniak JM, Mills RH, Olson J, Caldera JR, Poore GD, Carrillo-Terrazas M, Tsai CM, Vargas F, Knight R, Dorrestein PC, Liu G, Nizet V, Sakoulas G, Rose W, Gonzalez DJ. Mortality Risk Profiling of Staphylococcus aureus Bacteremia by Multi-omic Serum Analysis Reveals Early Predictive and Pathogenic Molecular Signatures. Cell. 2020 Sep 3;182(5):1311-1327. Commentaries: x-mol.com, genengnews.com, news-medical.net, health.ucsd.edu.

Campeau A, Uchiyama S, Sanchez C, Sauceda C, Nizet V, Gonzalez DJ. The S protein of group B Streptococcus is a critical virulence determinant that impacts the cell surface virulome. Front Microbiol. 2021 Oct 14;12:729308.

Wu ZY*, Campeau A*, Liu CH, Gonzalez DJ, Yamaguchi M, Kawabata S, Lu CH, Lai CY, Chiu HC, Chang YC. Unique virulence role of post-translocational chaperone PrsA in shaping Streptococcus pyogenes secretome.
Virulence 2021 Dec;12(1):2633-2647. *denotes co-first authors

Pollak AJ, Haghighi K, Kunduri S, Arvanitis DA, Bidwell PA, Liu GS, Singh VP, Gonzalez DJ, Sanoudou D, Wiley SE, Dixon JE, Kranias EG. Phosphorylation of serine96 of histidine-rich calcium-binding protein by the Fam20C kinase functions to prevent cardiac arrhythmia. Proc Natl Acad Sci U S A. 2017 Aug 22;114(34):9098-9103
 
Wang H, Lapek JD, Fujimura K, Strnadel J, Liu B, Gonzalez DJ, Zhang W, Watson F, Yu V, Liu C, Muccilo CM, Miller YY, Elliott KC, Cheresh DA, Klemke RL. “Pseudopodium-enriched atypical kinase 1 mediates angiogenesis by modulating GATA2-dependent VEGFR2 transcription”. Cell Discovery.  2018 May 29;4:26.
 
Lina Y, Wozniak JM, Grimseya NJ, Giradaa S, Patwardhana A, Molinar-Inglisa O, Smith TH, Lapek JD, Gonzalez DJ, Trejo J. Phospho-proteomic analysis of protease-activated receptor-1biasedsignaling reveals novel modulators of endothelial barrier function. Proc Natl Acad Sci U S A. 2020 Mar 3;117(9):5039-5048.
 
Wozniak JM, Silva TA, Thomas D, Siqueira-Neto JL, McKerrow JH, Gonzalez DJ+, Calvet CM+. Molecular Dissection of Chagas Induced Cardiomyopathy Reveals Central Disease Associated and Druggable Signaling Pathways. PLoS Negl Trop Dis. 2020 May; 14(5). +denotes co-corresponding authors
 
Molinar-Inglis O, Wozniak JM, Grimsey N,  Orduña-Castillo L, Cheng N, Lin Y, Gonzalez Ramirez ML, Birch C, Lapek JD, Gonzalez DJ, Trejo J. Phosphoproteomic analysis of thrombin- and p38 MAPK-regulated signaling networks in endothelial cells. J Biol Chem. 2022 Mar 4;101801.