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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

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

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

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

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

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

Strecker J, Ladha A, Gardner Z, Schmid-Burgk JL, Makarova KS, Koonin EV, Zhang F

RNA-guided DNA insertion with CRISPR-associated transposases.
Science. 2019;365(6448):48-53 - PMID: 31171706 - PMCID: PMC6659118 - DOI: 10.1126/science.aax9181

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

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

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

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

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

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

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

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 - PMCID: PMC10077840 - DOI: 10.1053/j.ajkd.2019.03.417

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

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

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

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

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

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

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

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
Total: 2489