Publications for All Faculty

Sort by:
Reset
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
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
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
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, 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
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
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
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
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
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
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
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
Clement K, Rees H, Canver MC, Gehrke JM, Farouni R, Hsu JY, Cole MA, Liu DR, Joung JK, Bauer DE, Pinello L

CRISPResso2 provides accurate and rapid genome editing sequence analysis.

Nat Biotechnol. 2019;37(3):224-226 - PMID: 30809026 - PMCID: PMC6533916 - DOI: 10.1038/s41587-019-0032-3
Mao K, Ji F, Breen P, Sewell A, Han M, Sadreyev R, Ruvkun G

Mitochondrial Dysfunction in C. elegans Activates Mitochondrial Relocalization and Nuclear Hormone Receptor-Dependent Detoxification Genes.

Cell Metab. 2019;29(5):1182-1191.e4 - PMID: 30799287 - PMCID: PMC6506380 - DOI: 10.1016/j.cmet.2019.01.022
Kleinstiver BP, Sousa AA, Walton RT, Tak YE, Hsu JY, Clement K, Welch MM, Horng JE, Malagon-Lopez J, Scarfò I, Maus MV, Pinello L, Aryee MJ, Joung JK

Engineered CRISPR-Cas12a variants with increased activities and improved targeting ranges for gene, epigenetic and base editing.

Nat Biotechnol. 2019;37(3):276-282 - PMID: 30742127 - PMCID: PMC6401248 - DOI: 10.1038/s41587-018-0011-0
Yudanin NA, Schmitz F, Flamar AL, Thome JJC, Tait Wojno E, Moeller JB, Schirmer M, Latorre IJ, Xavier RJ, Farber DL, Monticelli LA, Artis D

Spatial and Temporal Mapping of Human Innate Lymphoid Cells Reveals Elements of Tissue Specificity.

Immunity. 2019;50(2):505-519.e4 - PMID: 30770247 - PMCID: PMC6594374 - DOI: 10.1016/j.immuni.2019.01.012
Total: 2447