Publications

• Mammalian hydroxylation of microbiome-derived obesogen, delta-valerobetaine, to homocarnitine, a 5-carbon carnitine analog.
  J Biol Chem Volume: 301 Page(s): 108074
  01/01/2025 Authors: Weinberg J; Liu KH; Lee C-M; Crandall WJ; Cuevas AR; Druzak SA; Morgan ET; Jarrell ZR; Ortlund EA; Martin GS
• Pyrimidine Biosynthesis in Branching Morphogenesis Defects Induced by Prenatal Heavy Metal Exposure.
  Am J Respir Cell Mol Biol Volume: 71 Page(s): 372 - 375
  09/01/2024 Authors: Wongtrakool C; Ma J; Jarrell ZR; Liu KH; Orr M; Tran V; Gauthier TW; Marsit CJ; Jones DP; Go Y-M
• Characterizing substrate utilization during the fasted state using plasma high-resolution metabolomics.
  Nutrition Volume: 116 Page(s): 112160
  12/01/2023 Authors: Taibl KR; Bellissimo MP; Smith MR; Liu KH; Tran VT; Jones DP; Ziegler TR; Alvarez JA
• Fecal microbiota transplantation promotes reduction of antimicrobial resistance by strain replacement.
  Sci Transl Med Volume: 15 Page(s): eabo2750
  11/01/2023 Authors: Woodworth MH; Conrad RE; Haldopoulos M; Pouch SM; Babiker A; Mehta AK; Sitchenko KL; Wang CH; Strudwick A; Ingersoll JM
• Discovery of phytochelatins in human urine: Evidence for function in selenium disposition and protection against cadmium.
  FASEB Bioadv Volume: 5 Page(s): 367 - 375
  09/01/2023 Authors: Jarrell ZR; Liu KH; Dennis KK; Hu X; Martin GS; Jones DP; Go Y-M
• Antagonistic Interactions in Mitochondria ROS Signaling Responses to Manganese.
  Antioxidants (Basel) Volume: 12
  03/25/2023 Authors: Fernandes J; Uppal K; Liu KH; Hu X; Orr M; Tran V; Go Y-M; Jones DP
• Metabolome Microbiome Changes Associated with a Diet-Induced Reduction in Hepatic Fat among Adolescent Boys.
  Metabolites Volume: 13
  03/08/2023 Authors: Cohen CC; Huneault H; Accardi CJ; Jones DP; Liu K; Maner-Smith KM; Song M; Welsh JA; Ugalde-Nicalo PA; Schwimmer JB
• Environmental chemicals and endogenous metabolites in bile of USA and Norway patients with primary sclerosing cholangitis.
  Exposome Volume: 3 Page(s): osac011
  01/01/2023 Authors: Grant CW; Juran BD; Ali AH; Schlicht EM; Bianchi JK; Hu X; Liang Y; Jarrell Z; Liu KH; Go Y-M
• Neutrophil trafficking to the site of infection requires Cpt1a-dependent fatty acid -oxidation.
  Commun Biol Volume: 5 Page(s): 1366
  12/13/2022 Authors: Pham L; Komalavilas P; Eddie AM; Thayer TE; Greenwood DL; Liu KH; Weinberg J; Patterson A; Fessel JP; Boyd KL
• Oxidative stress mediates end-organ damage in a novel model of acetaminophen-toxicity in Drosophila.
  Sci Rep Volume: 12 Page(s): 19309
  11/11/2022 Authors: Saeedi BJ; Hunter-Chang S; Luo L; Li K; Liu KH; Robinson BS
• High-Throughput Production of Diverse Xenobiotic Metabolites with Cytochrome P450-Transduced Huh7 Hepatoma Cell Lines.
  Drug Metab Dispos Volume: 50 Page(s): 1182 - 1189
  09/01/2022 Authors: Lee C-M; Liu KH; Singer G; Miller GW; Li S; Jones DP; Morgan ET
• Plasma Metabolomics Analysis of Aspirin Treatment and Risk of Colorectal Adenomas.
  Cancer Prev Res (Phila) Volume: 15 Page(s): 521 - 531
  08/01/2022 Authors: Barry EL; Fedirko V; Jin Y; Liu K; Mott LA; Peacock JL; Passarelli MN; Baron JA; Jones DP
• Mitochondrial H2S Regulates BCAA Catabolism in Heart Failure.
  Circ Res Volume: 131 Page(s): 222 - 235
  07/22/2022 Authors: Li Z; Xia H; Sharp TE; LaPenna KB; Elrod JW; Casin KM; Liu K; Calvert JW; Chau VQ; Salloum FN
• Evaluation of the Use of Saliva Metabolome as a Surrogate of Blood Metabolome in Assessing Internal Exposures to Traffic-Related Air Pollution.
  Environ Sci Technol Volume: 56 Page(s): 6525 - 6536
  05/17/2022 Authors: Li Z; Sarnat JA; Liu KH; Hood RB; Chang C-J; Hu X; Tran V; Greenwald R; Chang HH; Russell A
• Gut-derived bacterial toxins impair memory CD4+ T cell mitochondrial function in HIV-1 infection.
  J Clin Invest Volume: 132
  05/02/2022 Authors: Ferrari B; Da Silva AC; Liu KH; Saidakova EV; Korolevskaya LB; Shmagel KV; Shive C; Pacheco Sanchez G; Retuerto M; Sharma AA
• Low Dose Heavy Metal Exposure Disrupts Glutamine Catabolism in Airway Branching in Fetal Lung Development
  Volume: 205
  05/01/2022 Authors: Hu X; Liu KH; Ma J; Jarrell ZR; Orr ML; Tran V; Go Y; Marsit CJ; Jones DP; Wongtrakool C
• Integrative interactomics applied to bovine fescue toxicosis.
  Sci Rep Volume: 12 Page(s): 4899
  03/22/2022 Authors: Mote RS; Hill NS; Skarlupka JH; Carpenter JM; Lourenco JM; Callaway TR; Tran VT; Liu K; Smith MR; Jones DP
• Per- and polyfluoroalkyl substance (PFAS) exposure, maternal metabolomic perturbation, and fetal growth in African American women: A meet-in-the-middle approach.
  Environ Int Volume: 158 Page(s): 106964
  01/01/2022 Authors: Chang C-J; Barr DB; Ryan PB; Panuwet P; Smarr MM; Liu K; Kannan K; Yakimavets V; Tan Y; Ly V
• Microbial metabolite delta-valerobetaine is a diet-dependent obesogen.
  Nat Metab Volume: 3 Page(s): 1694 - 1705
  12/01/2021 Authors: Liu KH; Owens JA; Saeedi B; Cohen CE; Bellissimo MP; Naudin C; Darby T; Druzak S; Maner-Smith K; Orr M
• Lung metabolome of 1,3-butadiene exposed Collaborative Cross mice reflects metabolic phenotype of human lung cancer.
  Toxicology Volume: 463 Page(s): 152987
  11/01/2021 Authors: Nellis M; Caperton CO; Liu K; Tran V; Go Y-M; Hallberg LM; Ameredes BT; Jones DP; Boysen G
• Erratum for Quinn et al., "Bridging the Gap between Analytical and Microbial Sciences in Microbiome Research".
  mSystems Volume: 6 Page(s): e0117121
  10/26/2021 Authors: Quinn RA; Hagiwara KA; Liu K; Goudarzi M; Pathmasiri W; Sumner LW; Metz TO
• Bridging the Gap between Analytical and Microbial Sciences in Microbiome Research.
  mSystems Volume: 6 Page(s): e0058521
  10/26/2021 Authors: Quinn RA; Hagiwara KA; Liu K; Goudarzi M; Pathmasiri W; Sumner LW; Metz TO
• Large scale enzyme based xenobiotic identification for exposomics.
  Nat Commun Volume: 12 Page(s): 5418
  09/14/2021 Authors: Liu KH; Lee CM; Singer G; Bais P; Castellanos F; Woodworth MH; Ziegler TR; Kraft CS; Miller GW; Li S
• TCA cycle remodeling drives proinflammatory signaling in humans with pulmonary tuberculosis.
  PLoS Pathog Volume: 17 Page(s): e1009941
  09/01/2021 Authors: Collins JM; Jones DP; Sharma A; Khadka M; Liu KH; Kempker RR; Prideaux B; Maner-Smith K; Tukvadze N; Shah NS
• Low Dose Heavy Metals Disrupt Metabolome and Inhibits Branching Morphogenesis in Fetal Lung Development
  Volume: 203
  05/01/2021 Authors: Hu X; Liu KH; Ma J; Orr ML; Tran V; Go Y; Jones DP; Marsit CJ; Wongtrakool C
• Distribution of phytochelatins, metal-binding compounds, in plant foods: A survey of commonly consumed fruits, vegetables, grains and legumes.
  Food Chem Volume: 339 Page(s): 128051
  03/01/2021 Authors: Dennis KK; Liu KH; Uppal K; Go Y-M; Jones DP
• Metabolome-wide association study of flavorant vanillin exposure in bronchial epithelial cells reveals disease-related perturbations in metabolism.
  Environ Int Volume: 147 Page(s): 106323
  02/01/2021 Authors: Smith MR; Jarrell ZR; Orr M; Liu KH; Go Y-M; Jones DP
• Plasma high-resolution metabolomics identifies linoleic acid and linked metabolic pathways associated with bone mineral density.
  Clin Nutr Volume: 40 Page(s): 467 - 475
  02/01/2021 Authors: Bellissimo MP; Ziegler TR; Jones DP; Liu KH; Fernandes J; Roberts JL; Weitzmann MN; Pacifici R; Alvarez JA
• A metabolomic study of cervical dystonia.
  Parkinsonism Relat Disord Volume: 82 Page(s): 98 - 103
  01/01/2021 Authors: Liu C; Scorr L; Kilic-Berkmen G; Cotton A; Factor SA; Freeman A; Tran V; Liu K; Uppal K; Jones D
• Cruciferous vegetables (Brassica oleracea) confer cytoprotective effects in Drosophila intestines.
  Gut Microbes Volume: 13 Page(s): 1 - 6
  01/01/2021 Authors: Lyles JT; Luo L; Liu K; Jones DP; Jones RM; Quave CL
• Metabolomic Associations with Serum Bone Turnover Markers.
  Nutrients Volume: 12
  10/16/2020 Authors: Bellissimo MP; Roberts JL; Jones DP; Liu KH; Taibl KR; Uppal K; Weitzmann MN; Pacifici R; Drissi H; Ziegler TR
• Metabolomics Analysis of Aspirin's Effects in Human Colon Tissue and Associations with Adenoma Risk.
  Cancer Prev Res (Phila) Volume: 13 Page(s): 863 - 876
  10/01/2020 Authors: Barry EL; Fedirko V; Uppal K; Ma C; Liu K; Mott LA; Peacock JL; Passarelli MN; Baron JA; Jones DP
• Reference Standardization for Quantification and Harmonization of Large-Scale Metabolomics.
  Anal Chem Volume: 92 Page(s): 8836 - 8844
  07/07/2020 Authors: Liu KH; Nellis M; Uppal K; Ma C; Tran V; Liang Y; Walker DI; Jones DP
• Hepatic fat is a stronger correlate of key clinical and molecular abnormalities than visceral and abdominal subcutaneous fat in youth.
  BMJ Open Diabetes Res Care Volume: 8
  07/01/2020 Authors: Cioffi CE; Narayan KMV; Liu K; Uppal K; Jones DP; Tran V; Yu T; Alvarez JA; Bellissimo MP; Maner-Smith KM
• Plasma acylcarnitine levels increase with healthy aging.
  Aging (Albany NY) Volume: 12 Page(s): 13555 - 13570
  06/16/2020 Authors: Jarrell ZR; Smith MR; Hu X; Orr M; Liu KH; Quyyumi AA; Jones DP; Go Y-M
• Tryptophan catabolism reflects disease activity in human tuberculosis.
  JCI Insight Volume: 5
  05/21/2020 Authors: Collins JM; Siddiqa A; Jones DP; Liu K; Kempker RR; Nizam A; Shah NS; Ismail N; Ouma SG; Tukvadze N
• Gut-Resident Lactobacilli Activate Hepatic Nrf2 and Protect Against Oxidative Liver Injury.
  Cell Metab Volume: 31 Page(s): 956 - 968.e5
  05/05/2020 Authors: Saeedi BJ; Liu KH; Owens JA; Hunter-Chang S; Camacho MC; Eboka RU; Chandrasekharan B; Baker NF; Darby TM; Robinson BS
• Plasma High-Resolution Metabolomics Differentiates Adults with Normal Weight Obesity from Lean Individuals.
  Obesity (Silver Spring) Volume: 27 Page(s): 1729 - 1737
  11/01/2019 Authors: Bellissimo MP; Cai Q; Ziegler TR; Liu KH; Tran PH; Vos MB; Martin GS; Jones DP; Yu T; Alvarez JA
• A non-lethal malarial infection results in reduced drug metabolizing enzyme expression and drug clearance in mice.
  Malar J Volume: 18 Page(s): 234
  07/12/2019 Authors: Mimche SM; Lee C-M; Liu KH; Mimche PN; Harvey RD; Murphy TJ; Nyagode BA; Jones DP; Lamb TJ; Morgan ET
• Phytochelatin Characterization in Commonly Consumed Plant Foods Using Mass Spectrometry-based Metabolomics (P18-122-19).
  Curr Dev Nutr Volume: 3
  06/01/2019 Authors: Dennis K; Liu K; Tran V; Liang B; Go Y-M; Jones D
• Metabolomic assessment of exposure to near-highway ultrafine particles.
  J Expo Sci Environ Epidemiol Volume: 29 Page(s): 469 - 483
  06/01/2019 Authors: Walker DI; Lane KJ; Liu K; Uppal K; Patton AP; Durant JL; Jones DP; Brugge D; Pennell KD
• Metabolomic Responses to Manganese Dose in SH-SY5Y Human Neuroblastoma Cells.
  Toxicol Sci Volume: 169 Page(s): 84 - 94
  05/01/2019 Authors: Fernandes J; Chandler JD; Liu KH; Uppal K; Hao L; Hu X; Go Y-M; Jones DP
• Low-dose cadmium disrupts mitochondrial citric acid cycle and lipid metabolism in mouse lung.
  Free Radic Biol Med Volume: 131 Page(s): 209 - 217
  02/01/2019 Authors: Hu X; Chandler JD; Park S; Liu K; Fernandes J; Orr M; Smith MR; Ma C; Kang S-M; Uppal K
• Phytochelatin database: a resource for phytochelatin complexes of nutritional and environmental metals.
  Database (Oxford) Volume: 2019
  01/01/2019 Authors: Dennis KK; Uppal K; Liu KH; Ma C; Liang B; Go Y-M; Jones DP
• Low-dose cadmium disrupts mitochondrial citric acid cycle and lipid metabolism in mouse lung
  Volume: 128 Page(s): S86 - S86
  11/20/2018 Authors: Hu X; Chandler J; Park S; Liu KH; Fernandes J; Orr M; Smith MR; Ma C; Kang S-M; Uppal K
• The Carnitine Shuttle Pathway is Altered in Patients With Neovascular Age-Related Macular Degeneration.
  Invest Ophthalmol Vis Sci Volume: 59 Page(s): 4978 - 4985
  10/01/2018 Authors: Mitchell SL; Uppal K; Williamson SM; Liu K; Burgess LG; Tran V; Umfress AC; Jarrell KL; Cooke Bailey JN; Agarwal A
• Regulation of Oxidative Liver Injury by the Probiotic Lactobacillus rhamnosus GG
  Volume: 188 Page(s): 2425 - 2425
  10/01/2018 Authors: Saeedi BJ; Liu K; Owens J; Robinson BS; Eboka R; Jones R; Jones DP; Neish AS
• Myeloperoxidase oxidation of methionine associates with early cystic fibrosis lung disease.
  Eur Respir J Volume: 52
  10/01/2018 Authors: Chandler JD; Margaroli C; Horati H; Kilgore MB; Veltman M; Liu HK; Taurone AJ; Peng L; Guglani L; Uppal K
• METHIONINE OXIDATION BY MYELOPEROXIDASE IS ASSOCIATED WITH EARLY CYSTIC FIBROSIS LUNG DISEASE
  Volume: 53 Page(s): 262 - 262
  09/01/2018 Authors: Chandler JD; Margaroli C; Horati H; Kilgore MB; Veltman M; Liu HK; Taurone AJ; Peng L; Guglani L; Uppal K
• Integrative metabolomics and transcriptomics signatures of clinical tolerance to Plasmodium vivax reveal activation of innate cell immunity and T cell signaling.
  Redox Biol Volume: 17 Page(s): 158 - 170
  07/01/2018 Authors: Gardinassi LG; Arvalo-Herrera M; Herrera S; Cordy RJ; Tran V; Smith MR; Johnson MS; Chacko B; Liu KH; Darley-Usmar VM
• Putrescine as indicator of manganese neurotoxicity: Dose-response study in human SH-SY5Y cells.
  Food Chem Toxicol Volume: 116 Page(s): 272 - 280
  06/01/2018 Authors: Fernandes J; Chandler JD; Liu KH; Uppal K; Go Y-M; Jones DP
• Selenium Supplementation Alters Hepatic Energy and Fatty Acid Metabolism in Mice.
  J Nutr Volume: 148 Page(s): 675 - 684
  05/01/2018 Authors: Hu X; Chandler JD; Orr ML; Hao L; Liu K; Uppal K; Go Y-M; Jones DP
• High-resolution plasma metabolomics analysis to detect Mycobacterium tuberculosis-associated metabolites that distinguish active pulmonary tuberculosis in humans.
  PLoS One Volume: 13 Page(s): e0205398
  01/01/2018 Authors: Collins JM; Walker DI; Jones DP; Tukvadze N; Liu KH; Tran VT; Uppal K; Frediani JK; Easley KA; Shenvi N
• Commensal Propionibacterium strain UF1 mitigates intestinal inflammation via Th17 cell regulation.
  J Clin Invest Volume: 127 Page(s): 3970 - 3986
  11/01/2017 Authors: Colliou N; Ge Y; Sahay B; Gong M; Zadeh M; Owen JL; Neu J; Farmerie WG; Alonzo F; Liu K
• Metabolic Phenotypes of Response to Vaccination in Humans.
  Cell Volume: 169 Page(s): 862 - 877.e17
  05/18/2017 Authors: Li S; Sullivan NL; Rouphael N; Yu T; Banton S; Maddur MS; McCausland M; Chiu C; Canniff J; Dubey S
• Plasma metabolomics reveals membrane lipids, aspartate/asparagine and nucleotide metabolism pathway differences associated with chloroquine resistance in Plasmodium vivax malaria.
  PLoS One Volume: 12 Page(s): e0182819
  01/01/2017 Authors: Uppal K; Salinas JL; Monteiro WM; Val F; Cordy RJ; Liu K; Melo GC; Siqueira AM; Magalhaes B; Galinski MR
• Computational Metabolomics: A Framework for the Million Metabolome.
  Chem Res Toxicol Volume: 29 Page(s): 1956 - 1975
  12/19/2016 Authors: Uppal K; Walker DI; Liu K; Li S; Go Y-M; Jones DP
• High-Resolution Metabolomics Assessment of Military Personnel: Evaluating Analytical Strategies for Chemical Detection.
  J Occup Environ Med Volume: 58 Page(s): S53 - S61
  08/01/2016 Authors: Liu KH; Walker DI; Uppal K; Tran V; Rohrbeck P; Mallon TM; Jones DP
• Plasma Metabolomics of Common Marmosets (Callithrix jacchus) to Evaluate Diet and Feeding Husbandry.
  J Am Assoc Lab Anim Sci Volume: 55 Page(s): 137 - 146
  03/01/2016 Authors: Banton SA; Soltow QA; Liu KH; Uppal K; Promislow DEL; Power ML; Tardif SD; Wachtman LM; Jones DP