Publications for All Faculty - 2019

  • Smillie CS, Biton M, Ordovas-Montanes J, Sullivan KM, Burgin G, Graham DB, Herbst RH, Rogel N, Slyper M, Waldman J, Sud M, Andrews E, Velonias G, Haber AL, Jagadeesh K, Vickovic S, Yao J, Stevens C, Dionne D, Nguyen LT, Villani AC, Hofree M, Creasey EA, Huang H, Rozenblatt-Rosen O, Garber JJ, Khalili H, Desch AN, Daly MJ, Ananthakrishnan AN, Shalek AK, Xavier RJ, Regev A Intra- and Inter-cellular Rewiring of the Human Colon during Ulcerative Colitis. Cell. 2019;178(3):714-730.e22 - PMID: 31348891 - PMCID: PMC6662628 - DOI: 10.1016/j.cell.2019.06.029

  • Ramon M, Dang TVT, Broeckx T, Hulsmans S, Crepin N, Sheen J, Rolland F Default Activation and Nuclear Translocation of the Plant Cellular Energy Sensor SnRK1 Regulate Metabolic Stress Responses and Development. Plant Cell. 2019;31(7):1614-1632 - PMID: 33590001 - DOI: 10.1105/tpc.18.00500

  • Wang A, Szostak JW Lipid constituents of model protocell membranes. Emerg Top Life Sci. 2019;3(5):537-542 - PMID: 33523161 - DOI: 10.1042/ETLS20190021

  • Xiaofang Jiang, A. Brantley Hall, Timothy D. Arthur, Damian R. Plichta, Christian T. Covington, Mathilde Poyet, Jessica Crothers, Peter L. Moses, Andrew C. Tolonen, Hera Vlamakis, Eric J. Alm, Ramnik J. Xavier Invertible promoters mediate bacterial phase variation, antibiotic resistance, and host adaptation in the gut. Science. 2019;363, Issue 6423:181-187 - PMID: 30630933 - PMCID: PMC6543533 - DOI: 10.1126/science.aau5238

  • Betin V, Penaranda C, Bandyopadhyay N, Yang R, Abitua A, Bhattacharyya RP, Fan A, Avraham R, Livny J, Shoresh N, Hung DT Hybridization-based capture of pathogen mRNA enables paired host-pathogen transcriptional analysis. Sci Rep. 2019;9(1):19244 - PMID: 31848386 - PMCID: PMC6917760 - DOI: 10.1038/s41598-019-55633-6

  • Jiang X, Hall AB, Xavier RJ, Alm EJ Comprehensive analysis of chromosomal mobile genetic elements in the gut microbiome reveals phylum-level niche-adaptive gene pools. PLoS One. 2019;14(12):e0223680 - PMID: 31830054 - PMCID: PMC6907783 - DOI: 10.1371/journal.pone.0223680

  • Dreckmann SC, Amini-Nik S, Tompkins RG, Vojvodic M, Jeschke MG Genome-wide comparisons of gene expression in adult versus elderly burn patients. PLoS One. 2019;14(12):e0226425 - PMID: 31834907 - PMCID: PMC6910697 - DOI: 10.1371/journal.pone.0226425

  • Vasquez-Rifo A, Veksler-Lublinsky I, Cheng Z, Ausubel FM, Ambros V The Pseudomonas aeruginosa accessory genome elements influence virulence towards Caenorhabditis elegans. Genome Biol. 2019;20(1):270 - PMID: 31823826 - PMCID: PMC6902481 - DOI: 10.1186/s13059-019-1890-1

  • Bhattacharyya RP, Bandyopadhyay N, Ma P, Son SS, Liu J, He LL, Wu L, Khafizov R, Boykin R, Cerqueira GC, Pironti A, Rudy RF, Patel MM, Yang R, Skerry J, Nazarian E, Musser KA, Taylor J, Pierce VM, Earl AM, Cosimi LA, Shoresh N, Beechem J, Livny J, Hung DT Simultaneous detection of genotype and phenotype enables rapid and accurate antibiotic susceptibility determination. Nat Med. 2019;25(12):1858-1864 - PMID: 31768064 - PMCID: PMC6930013 - DOI: 10.1038/s41591-019-0650-9

  • Zhou L, Kim S, Ho KH, O'Flaherty DK, Giurgiu C, Wright TH, Szostak JW Non-enzymatic primer extension with strand displacement. Elife. 2019;8:ePub - PMID: 31702557 - PMCID: PMC6872209 - DOI: 10.7554/eLife.51888

  • Ogura A, Tsurumi A, Que YA, Almpani M, Zheng H, Tompkins RG, Ryan CM, Rahme LG Associations between clinical characteristics and the development of multiple organ failure after severe burns in adult patients. Burns. 2019;45(8):1775-1782 - PMID: 31690472 - DOI: 10.1016/j.burns.2019.02.014

  • Maheshwari P, Du H, Sheen J, Assmann SM, Albert R Model-driven discovery of calcium-related protein-phosphatase inhibition in plant guard cell signaling. PLoS Comput Biol. 2019;15(10):e1007429 - PMID: 31658257 - PMCID: PMC6837631 - DOI: 10.1371/journal.pcbi.1007429

  • Wright TH, Giurgiu C, Zhang W, Radakovic A, O'Flaherty DK, Zhou L, Szostak JW Prebiotically Plausible 'Patching' of RNA Backbone Cleavage Through a 3'-5' Pyrophosphate Linkage. J Am Chem Soc. 2019;141(45):18104-18112 - PMID: 31651170 - PMCID: PMC7577263 - DOI: 10.1021/jacs.9b08237

  • Johnson EO, Hung DT A point of inflection and reflection on systems chemical biology. ACS Chem Biol. 2019;14(12):2497-2511 - PMID: 31613592 - DOI: 10.1021/acschembio.9b00714

  • Xu H, Ding J, Porter CBM, Wallrapp A, Tabaka M, Ma S, Fu S, Guo X, Riesenfeld SJ, Su C, Dionne D, Nguyen LT, Lefkovith A, Ashenberg O, Burkett PR, Shi HN, Rozenblatt-Rosen O, Graham DB, Kuchroo VK, Regev A, Xavier RJ Transcriptional Atlas of Intestinal Immune Cells Reveals that Neuropeptide α-CGRP Modulates Group 2 Innate Lymphoid Cell Responses. Immunity. 2019;51(4):696-708.e9 - PMID: 31618654 - PMCID: PMC6991097 - DOI: 10.1016/j.immuni.2019.09.004

  • Govindan JA, Jayamani E, Ruvkun G ROS-based lethality of Caenorhabditis elegans mitochondrial electron transport mutants grown on Escherichia coli siderophore iron release mutants. Proc Natl Acad Sci U S A. 2019;116(43):21651-21658 - PMID: 31591219 - PMCID: PMC6815122 - DOI: 10.1073/pnas.1912628116

  • Lelyveld VS, O'Flaherty DK, Zhou L, Izgu EC, Szostak JW DNA polymerase activity on synthetic N3'→P5' phosphoramidate DNA templates. Nucleic Acids Res. 2019;47(17):8941-8949 - PMID: 31428779 - PMCID: PMC6755091 - DOI: 10.1093/nar/gkz707

  • Plichta DR, Graham DB, Subramanian S, Xavier RJ Therapeutic Opportunities in Inflammatory Bowel Disease: Mechanistic Dissection of Host-Microbiome Relationships. Cell. 2019;178(5):1041-1056 - PMID: 31442399 - PMCID: PMC6778965 - DOI: 10.1016/j.cell.2019.07.045

  • Khor B, Conway KL, Omar AS, Biton M, Haber AL, Rogel N, Baxt LA, Begun J, Kuballa P, Gagnon JD, Lassen KG, Regev A, Xavier RJ Distinct Tissue-Specific Roles for the Disease-Associated Autophagy Genes ATG16L2 and ATG16L1. J Immunol. 2019;203(7):1820-1829 - PMID: 31451676 - PMCID: PMC6761021 - DOI: 10.4049/jimmunol.1800419

  • Goel G, Tye-Din JA, Qiao SW, Russell AK, Mayassi T, Ciszewski C, Sarna VK, Wang S, Goldstein KE, Dzuris JL, Williams LJ, Xavier RJ, Lundin KEA, Jabri B, Sollid LM, Anderson RP Cytokine release and gastrointestinal symptoms after gluten challenge in celiac disease. Sci Adv. 2019;5(8):eaaw7756 - PMID: 31457091 - PMCID: PMC6685723 - DOI: 10.1126/sciadv.aaw7756

  • Elmaleh DR, Farlow MR, Conti PS, Tompkins RG, Kundakovic L, Tanzi RE Developing Effective Alzheimer's Disease Therapies: Clinical Experience and Future Directions. J Alzheimers Dis. 2019;71(3):715-732 - PMID: 31476157 - PMCID: PMC6839593 - DOI: 10.3233/JAD-190507

  • Grünewald J, Zhou R, Iyer S, Lareau CA, Garcia SP, Aryee MJ, Joung JK CRISPR DNA base editors with reduced RNA off-target and self-editing activities. Nat Biotechnol. 2019;37(9):1041-1048 - PMID: 31477922 - PMCID: PMC6730565 - DOI: 10.1038/s41587-019-0236-6

  • Todd ZR, Szabla R, Szostak JW, Sasselov DD UV photostability of three 2-aminoazoles with key roles in prebiotic chemistry on the early earth. Chem Commun (Camb). 2019;55(70):10388-10391 - PMID: 31380533 - DOI: 10.1039/c9cc05265h

  • Kim W, Zou G, Hari TPA, Wilt IK, Zhu W, Galle N, Faizi HA, Hendricks GL, Tori K, Pan W, Huang X, Steele AD, Csatary EE, Dekarske MM, Rosen JL, Ribeiro NQ, Lee K, Port J, Fuchs BB, Vlahovska PM, Wuest WM, Gao H, Ausubel FM, Mylonakis E A selective membrane-targeting repurposed antibiotic with activity against persistent methicillin-resistant Staphylococcus aureus. Proc Natl Acad Sci U S A. 2019;116(33):16529-16534 - PMID: 31358625 - PMCID: PMC6697817 - DOI: 10.1073/pnas.1904700116

  • Smillie CS, Biton M, Ordovas-Montanes J, Sullivan KM, Burgin G, Graham DB, Herbst RH, Rogel N, Slyper M, Waldman J, Sud M, Andrews E, Velonias G, Haber AL, Jagadeesh K, Vickovic S, Yao J, Stevens C, Dionne D, Nguyen LT, Villani AC, Hofree M, Creasey EA, Huang H, Rozenblatt-Rosen O, Garber JJ, Khalili H, Desch AN, Daly MJ, Ananthakrishnan AN, Shalek AK, Xavier RJ, Regev A Intra- and Inter-cellular Rewiring of the Human Colon during Ulcerative Colitis. Cell. 2019;178(3):714-730.e22 - PMID: 31348891 - PMCID: PMC6662628 - DOI: 10.1016/j.cell.2019.06.029

  • Mallick H, Franzosa EA, Mclver LJ, Banerjee S, Sirota-Madi A, Kostic AD, Clish CB, Vlamakis H, Xavier RJ, Huttenhower C Predictive metabolomic profiling of microbial communities using amplicon or metagenomic sequences. Nat Commun. 2019;10(1):3136 - PMID: 31316056 - PMCID: PMC6637180 - DOI: 10.1038/s41467-019-10927-1

  • Michalska K, Gale J, Joachimiak G, Chang C, Hatzos-Skintges C, Nocek B, Johnston SE, Bigelow L, Bajrami B, Jedrzejczak RP, Wellington S, Hung DT, Nag PP, Fisher SL, Endres M, Joachimiak A Conservation of the structure and function of bacterial tryptophan synthases. IUCrJ. 2019;6(Pt 4):649-664 - PMID: 31316809 - PMCID: PMC6608616 - DOI: 10.1107/S2052252519005955

  • Freeman MW, Singh AK, Guidon AC, Arvikar SL, Goldstein RH, Clement NF Case 22-2019: A 65-Year-Old Woman with Weakness, Dark Urine, and Dysphagia. N Engl J Med. 2019;381(3):275-283 - PMID: 31314973 - DOI: 10.1056/NEJMcpc1900589

  • Halvorsen YD, Walford GA, Massaro J, Aftring RP, Freeman MW A 96-Week Multinational Randomized Double-Blind Parallel-Group Clinical Trial Evaluating the Safety and Effectiveness of Bexagliflozin as a Monotherapy for Adults with Type 2 Diabetes. Diabetes Obes Metab. 2019;21(11):2496-2504 - PMID: 31297965 - DOI: 10.1111/dom.13833

  • Zhang W, Pal A, Ricardo A, Szostak JW Template-directed Nonenzymatic Primer Extension Using 2-methylimidazole-activated Morpholino Derivatives of Guanosine and Cytidine. J Am Chem Soc. 2019;141(30):12159-12166 - PMID: 31298852 - PMCID: PMC7547883 - DOI: 10.1021/jacs.9b06453

  • György B, Nist-Lund C, Pan B, Asai Y, Karavitaki KD, Kleinstiver BP, Garcia SP, Zaborowski MP, Solanes P, Spataro S, Schneider BL, Joung JK, Géléoc GSG, Holt JR, Corey DP Allele-specific gene editing prevents deafness in a model of dominant progressive hearing loss. Nat Med. 2019;25(7):1123-1130 - PMID: 31270503 - PMCID: PMC6802276 - DOI: 10.1038/s41591-019-0500-9

  • Schirmer M, Garner A, Vlamakis H, Xavier RJ Microbial genes and pathways in inflammatory bowel disease. Nat Rev Microbiol. 2019;17(8):497-511 - PMID: 31249397 - PMCID: PMC6759048 - DOI: 10.1038/s41579-019-0213-6

  • Romano KP, Warrier T, Poulsen BE, Nguyen PH, Loftis AR, Saebi A, Pentelute BL, Hung DT Mutations in pmrB confer cross-resistance between the LptD inhibitor POL7080 and colistin in Pseudomonas aeruginosa. Antimicrob Agents Chemother. 2019;63(9):ePub - PMID: 31235628 - PMCID: PMC6709506 - DOI: 10.1128/AAC.00511-19

  • Ansaldo E, Slayden LC, Ching KL, Koch MA, Wolf NK, Plichta DR, Brown EM, Graham DB, Xavier RJ, Moon JJ, Barton GM Akkermansia muciniphila induces intestinal adaptive immune responses during homeostasis. Science. 2019;364(6446):1179-1184 - PMID: 31221858 - PMCID: PMC6645389 - DOI: 10.1126/science.aaw7479

  • Johnson EO, LaVerriere E, Office E, Stanley M, Meyer E, Kawate T, Gomez JE, Audette RE, Bandyopadhyay N, Betancourt N, Delano K, Da Silva I, Davis J, Gallo C, Gardner M, Golas AJ, Guinn KM, Kennedy S, Korn R, McConnell JA, Moss CE, Murphy KC, Nietupski RM, Papavinasasundaram KG, Pinkham JT, Pino PA, Proulx MK, Ruecker N, Song N, Thompson M, Trujillo C, Wakabayashi S, Wallach JB, Watson C, Ioerger TR, Lander ES, Hubbard BK, Serrano-Wu MH, Ehrt S, Fitzgerald M, Rubin EJ, Sassetti CM, Schnappinger D, Hung DT Large-scale chemical-genetics yields new M. tuberculosis inhibitor classes. Nature. 2019;571(7763):72-78 - PMID: 31217586 - DOI: 10.1038/s41586-019-1315-z

  • Mojarro A, Hachey J, Bailey R, Brown M, Doebler R, Ruvkun G, Zuber MT, Carr CE Nucleic Acid Extraction and Sequencing from Low-Biomass Synthetic Mars Analog Soils for In Situ Life Detection. Astrobiology. 2019;19(9):1139-1152 - PMID: 31204862 - PMCID: PMC6708270 - DOI: 10.1089/ast.2018.1929

  • Henke MT, Kenny DJ, Cassilly CD, Vlamakis H, Xavier RJ, Clardy J Ruminococcus gnavus, a member of the human gut microbiome associated with Crohn's disease, produces an inflammatory polysaccharide. Proc Natl Acad Sci U S A. 2019;116(26):12672-12677 - PMID: 31182571 - PMCID: PMC6601261 - DOI: 10.1073/pnas.1904099116

  • O'Flaherty DK, Zhou L, Szostak JW Nonenzymatic template-directed synthesis of mixed-sequence 3'-NP-DNA up to 25 nucleotides long inside model protocells. J Am Chem Soc. 2019;141(26):10481-10488 - PMID: 31180644 - PMCID: PMC7547854 - DOI: 10.1021/jacs.9b04858

  • Armakola M, Ruvkun G Regulation of Caenorhabditis elegans neuronal polarity by heterochronic genes. Proc Natl Acad Sci U S A. 2019;116(25):12327-12336 - PMID: 31164416 - PMCID: PMC6589651 - DOI: 10.1073/pnas.1820928116

  • Halvorsen YD, Lock JP, Zhou W, Zhu F, Freeman MW A 24-week, randomized, double-blind, active-controlled clinical trial comparing bexagliflozin to sitagliptin as an adjunct to metformin for the treatment of type 2 diabetes in adults. Diabetes Obes Metab. 2019;21(10):2248-2256 - PMID: 31161692 - DOI: 10.1111/dom.13801

  • Melia JMP, Lin R, Xavier RJ, Thompson RB, Fu D, Wan F, Sears CL, Donowitz M Induction of the metal transporter ZIP8 by interferon gamma in intestinal epithelial cells: Potential role of metal dyshomeostasis in Crohn's disease. Biochem Biophys Res Commun. 2019;515(2):325-331 - PMID: 31151823 - DOI: 10.1016/j.bbrc.2019.05.137

  • Lloyd-Price J, Arze C, Ananthakrishnan AN, Schirmer M, Avila-Pacheco J, Poon TW, Andrews E, Ajami NJ, Bonham KS, Brislawn CJ, Casero D, Courtney H, Gonzalez A, Graeber TG, Hall AB, Lake K, Landers CJ, Mallick H, Plichta DR, Prasad M, Rahnavard G, Sauk J, Shungin D, Vázquez-Baeza Y, White RA, IBDMDB Investigators, Braun J, Denson LA, Jansson JK, Knight R, Kugathasan S, McGovern DPB, Petrosino JF, Stappenbeck TS, Winter HS, Clish CB, Franzosa EA, Vlamakis H, Xavier RJ, Huttenhower C Multi-omics of the gut microbial ecosystem in inflammatory bowel diseases. Nature. 2019;569(7758):655-662 - PMID: 31142855 - PMCID: PMC6650278 - DOI: 10.1038/s41586-019-1237-9

  • Rivas MA, Avila BE, Koskela J, Huang H, Stevens C, Pirinen M, Haritunians T, Neale BM, Kurki M, Ganna A, Graham D, Glaser B, Peter I, Atzmon G, Barzilai N, Levine AP, Schiff E, Pontikos N, Weisburd B, Lek M, Karczewski KJ, Bloom J, Minikel EV, Petersen BS, Beaugerie L, Seksik P, Cosnes J, Schreiber S, Bokemeyer B, Bethge J, International IBD Genetics Consortium, NIDDK IBD Genetics Consortium, T2D-GENES Consortium, Heap G, Ahmad T, Plagnol V, Segal AW, Targan S, Turner D, Saavalainen P, Farkkila M, Kontula K, Palotie A, Brant SR, Duerr RH, Silverberg MS, Rioux JD, Weersma RK, Franke A, Jostins L, Anderson CA, Barrett JC, MacArthur DG, Jalas C, Sokol H, Xavier RJ, Pulver A, Cho JH, McGovern DPB, Daly MJ Correction: Insights into the genetic epidemiology of Crohn's and rare diseases in the Ashkenazi Jewish population. PLoS Genet. 2019;15(5):e1008190 - PMID: 31145742 - PMCID: PMC6542503 - DOI: 10.1371/journal.pgen.1008190

  • Ramon M, Dang TVT, Broeckx T, Hulsmans S, Crepin N, Sheen J, Rolland FA Default activation and nuclear translocation of the plant cellular energy sensor SnRK1 regulate metabolic stress responses and development. Plant Cell. 2019;31(7):1614-1632 - PMID: 31123051 - PMCID: PMC6635846 - DOI: 10.1105/tpc.18.00500

  • Allegretti AS, Zhang W, Zhou W, Thurber TK, Rigby SP, Bowman-Stroud C, Trescoli C, Serusclat P, Freeman MW, Halvorsen YC Safety and Effectiveness of Bexagliflozin in Patients With Type 2 Diabetes Mellitus and Stage 3a/3b CKD. Am J Kidney Dis. 2019;74(3):328-337 - PMID: 31101403 - DOI: 10.1053/j.ajkd.2019.03.417

  • Brown EM, Ke X, Hitchcock D, Jeanfavre S, Avila-Pacheco J, Nakata T, Arthur TD, Fornelos N, Heim C, Franzosa EA, Watson N, Huttenhower C, Haiser HJ, Dillow G, Graham DB, Finlay BB, Kostic AD, Porter JA, Vlamakis H, Clish CB, Xavier RJ Bacteroides-Derived Sphingolipids Are Critical for Maintaining Intestinal Homeostasis and Symbiosis. Cell Host Microbe. 2019;25(5):668-680.e7 - PMID: 31071294 - PMCID: PMC6544385 - DOI: 10.1016/j.chom.2019.04.002

  • Ferder IC, Fung L, Ohguchi Y, Zhang X, Lassen KG, Capen D, Brown D, Xavier RJ, Wang N Meiotic gatekeeper STRA8 suppresses autophagy by repressing Nr1d1 expression during spermatogenesis in mice. PLoS Genet. 2019;15(5):e1008084 - PMID: 31059511 - PMCID: PMC6502318 - DOI: 10.1371/journal.pgen.1008084

  • Poulsen BE, Yang R, Clatworthy AE, White T, Osmulski SJ, Li L, Penaranda C, Lander ES, Shoresh N, Hung DT Defining the core essential genome of Pseudomonas aeruginosa. Proc Natl Acad Sci U S A. 2019;116(20):10072-10080 - PMID: 31036669 - PMCID: PMC6525520 - DOI: 10.1073/pnas.1900570116

  • Balaban NQ, Helaine S, Lewis K, Ackermann M, Aldridge B, Andersson DI, Brynildsen MP, Bumann D, Camilli A, Collins JJ, Dehio C, Fortune S, Ghigo JM, Hardt WD, Harms A, Heinemann M, Hung DT, Jenal U, Levin BR, Michiels J, Storz G, Tan MW, Tenson T, Van Melderen L, Zinkernagel A Publisher Correction: Definitions and guidelines for research on antibiotic persistence. Nat Rev Microbiol. 2019;17(7):460 - PMID: 31036919 - PMCID: PMC7609342 - DOI: 10.1038/s41579-019-0207-4

  • Ast T, Meisel JD, Patra S, Wang H, Grange RMH, Kim SH, Calvo SE, Orefice LL, Nagashima F, Ichinose F, Zapol WM, Ruvkun G, Barondeau DP, Mootha VK Hypoxia Rescues Frataxin Loss by Restoring Iron Sulfur Cluster Biogenesis. Cell. 2019;177(6):1507-1521.e16 - PMID: 31031004 - PMCID: PMC6911770 - DOI: 10.1016/j.cell.2019.03.045

  • Brown EM, Kenny DJ, Xavier RJ Gut Microbiota Regulation of T Cells During Inflammation and Autoimmunity. Annu Rev Immunol. 2019;37:599-624 - PMID: 31026411 - DOI: 10.1146/annurev-immunol-042718-041841

  • Zhao S, Lieberman TD, Poyet M, Kauffman KM, Gibbons SM, Groussin M, Xavier RJ, Alm EJ Adaptive Evolution within Gut Microbiomes of Healthy People. Cell Host Microbe. 2019;25(5):656-667.e8 - PMID: 31028005 - PMCID: PMC6749991 - DOI: 10.1016/j.chom.2019.03.007

  • Tam JM, Reedy JL, Lukason DP, Kuna SG, Acharya M, Khan NS, Negoro PE, Xu S, Ward RA, Feldman MB, Dutko RA, Jeffery JB, Sokolovska A, Wivagg CN, Lassen KG, Le Naour F, Matzaraki V, Garner EC, Xavier RJ, Kumar V, van de Veerdonk FL, Netea MG, Miranti CK, Mansour MK, Vyas JM Tetraspanin CD82 Organizes Dectin-1 into Signaling Domains to Mediate Cellular Responses to Candida albicans. J Immunol. 2019;202(11):3256-3266 - PMID: 31010852 - PMCID: PMC6529278 - DOI: 10.4049/jimmunol.1801384

  • Lehrbach NJ, Breen PC, Ruvkun G Protein Sequence Editing of SKN-1A/Nrf1 by Peptide:N-Glycanase Controls Proteasome Gene Expression. Cell. 2019;177(3):737-750.e15 - PMID: 31002798 - PMCID: PMC6574124 - DOI: 10.1016/j.cell.2019.03.035

  • Grünewald J, Zhou R, Garcia SP, Iyer S, Lareau CA, Aryee MJ, Joung JK Transcriptome-wide off-target RNA editing induced by CRISPR-guided DNA base editors. Nature. 2019;569(7756):433-437 - PMID: 30995674 - PMCID: PMC6657343 - DOI: 10.1038/s41586-019-1161-z

  • Kurilshikov A, van den Munckhof IC, Chen L, Bonder MJ, Schraa K, Rutten J, Riksen NP, de Graaf J, Oosting M, Sanna S, Joosten LA, van der Graaf M, Brand T, Koonen DP, van Faassen MJ, Slagboom PE, Xavier RJ, Kuipers F, Hofker M, Wijmenga C, Netea MG, Zhernakova A, Fu J Gut Microbial Associations to Plasma Metabolites Linked to Cardiovascular Phenotypes and Risk: A Cross-Sectional Study. Circ Res. 2019;124(12):1808-1820 - PMID: 30971183 - DOI: 10.1161/CIRCRESAHA.118.314642

  • Franzosa EA, Sirota-Madi A, Avila-Pacheco J, Fornelos N, Haiser HJ, Reinker S, Vatanen T, Hall AB, Mallick H, McIver LJ, Sauk JS, Wilson RG, Stevens BW, Scott JM, Pierce K, Deik AA, Bullock K, Imhann F, Porter JA, Zhernakova A, Fu J, Weersma RK, Wijmenga C, Clish CB, Vlamakis H, Huttenhower C, Xavier RJ Author Correction: Gut microbiome structure and metabolic activity in inflammatory bowel disease. Nat Microbiol. 2019;4(5):898 - PMID: 30971771 - DOI: 10.1038/s41564-019-0442-5

  • Lehrbach NJ, Ruvkun G Endoplasmic reticulum-associated SKN-1A/Nrf1 mediates a cytoplasmic unfolded protein response and promotes longevity. Elife. 2019;8:ePub - PMID: 30973820 - PMCID: PMC6459674 - DOI: 10.7554/eLife.44425

  • Hyams JS, Davis Thomas S, Gotman N, Haberman Y, Karns R, Schirmer M, Mo A, Mack DR, Boyle B, Griffiths AM, LeLeiko NS, Sauer CG, Keljo DJ, Markowitz J, Baker SS, Rosh J, Baldassano RN, Patel A, Pfefferkorn M, Otley A, Heyman M, Noe J, Oliva-Hemker M, Rufo PA, Strople J, Ziring D, Guthery SL, Sudel B, Benkov K, Wali P, Moulton D, Evans J, Kappelman MD, Marquis MA, Sylvester FA, Collins MH, Venkateswaran S, Dubinsky M, Tangpricha V, Spada KL, Saul B, Wang J, Serrano J, Hommel K, Marigorta UM, Gibson G, Xavier RJ, Kugathasan S, Walters T, Denson LA Clinical and biological predictors of response to standardised paediatric colitis therapy (PROTECT): a multicentre inception cohort study. Lancet. 2019;393(10182):1708-1720 - PMID: 30935734 - PMCID: PMC6501846 - DOI: 10.1016/S0140-6736(18)32592-3

  • Warnhoff K, Ruvkun G Molybdenum cofactor transfer from bacteria to nematode mediates sulfite detoxification. Nat Chem Biol. 2019;15(5):480-488 - PMID: 30911177 - PMCID: PMC6470025 - DOI: 10.1038/s41589-019-0249-y

  • Walton T, Zhang W, Li L, Tam CP, Szostak JW The mechanism of nonenzymatic template copying with imidazole-activated nucleotides. Angew Chem Int Ed Engl. 2019;58(32):10812-10819 - PMID: 30908802 - DOI: 10.1002/anie.201902050

  • Bhattacharyya RP, Walker M, Boykin R, Son SS, Liu J, Hachey AC, Ma P, Wu L, Choi K, Cummins KC, Benson M, Skerry J, Ryu H, Wong SY, Goldberg MB, Han J, Pierce VM, Cosimi LA, Shoresh N, Livny J, Beechem J, Hung DT Rapid identification and phylogenetic classification of diverse bacterial pathogens in a multiplexed hybridization assay targeting ribosomal RNA. Sci Rep. 2019;9(1):4516 - PMID: 30872641 - PMCID: PMC6418090 - DOI: 10.1038/s41598-019-40792-3

  • Lander ES, Baylis F, Zhang F, Charpentier E, Berg P, Bourgain C, Friedrich B, Joung JK, Li J, Liu D, Naldini L, Nie JB, Qiu R, Schoene-Seifert B, Shao F, Terry S, Wei W, Winnacker EL Adopt a moratorium on heritable genome editing. Nature. 2019;567(7747):165-168 - PMID: 30867611 - DOI: 10.1038/d41586-019-00726-5

  • Strom KR, Szostak JW, Prywes N Transfer of Sequence Information and Replication of Diimine Duplexes. J Org Chem. 2019;84(7):3754-3761 - PMID: 30855962 - PMCID: PMC7547894 - DOI: 10.1021/acs.joc.9b00095

  • Wein MN, Foretz M, Fisher DE, Xavier RJ, Kronenberg HM Salt-Inducible Kinases: Physiology, Regulation by cAMP, and Therapeutic Potential: (Trends Endocrinol. Metab. 29, 723-735, 2018). Trends Endocrinol Metab. 2019;30(6):407 - PMID: 30837108 - DOI: 10.1016/j.tem.2019.01.009

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