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Groussin M, Poyet M, Sistiaga A, Kearney SM, Moniz K, Noel M, Hooker J, Gibbons SM, Segurel L, Froment A, Mohamed RS, Fezeu A, Juimo VA, Lafosse S, Tabe FE, Girard C, Iqaluk D, Nguyen LTT, Shapiro BJ, Lehtimäki J, Ruokolainen L, Kettunen PP, Vatanen T, Sigwazi S, Mabulla A, Domínguez-Rodrigo M, Nartey YA, Agyei-Nkansah A, Duah A, Awuku YA, Valles KA, Asibey SO, Afihene MY, Roberts LR, Plymoth A, Onyekwere CA, Summons RE, Xavier RJ, Alm EJ

Elevated rates of horizontal gene transfer in the industrialized human microbiome.
Cell. 2021;184(8):2053-2067.e18 - PMID: 33794144 - DOI: 10.1016/j.cell.2021.02.052

Duzdevich D, Carr CE, Ding D, Zhang SJ, Walton TS, Szostak JW

Competition between bridged dinucleotides and activated mononucleotides determines the error frequency of nonenzymatic RNA primer extension.
Nucleic Acids Res. 2021;49(7):3681-3691 - PMID: 33744957 - PMCID: PMC8053118 - DOI: 10.1093/nar/gkab173

Muus C, Luecken MD, Eraslan G, Sikkema L, Waghray A, Heimberg G, Kobayashi Y, Vaishnav ED, Subramanian A, Smillie C, Jagadeesh KA, Duong ET, Fiskin E, Triglia ET, Ansari M, Cai P, Lin B, Buchanan J, Chen S, Shu J, Haber AL, Chung H, Montoro DT, Adams T, Aliee H, Allon SJ, Andrusivova Z, Angelidis I, Ashenberg O, Bassler K, Bécavin C, Benhar I, Bergenstråhle J, Bergenstråhle L, Bolt L, Braun E, Bui LT, Callori S, Chaffin M, Chichelnitskiy E, Chiou J, Conlon TM, Cuoco MS, Cuomo ASE, Deprez M, Duclos G, Fine D, Fischer DS, Ghazanfar S, Gillich A, Giotti B, Gould J, Guo M, Gutierrez AJ, Habermann AC, Harvey T, He P, Hou X, Hu L, Hu Y, Jaiswal A, Ji L, Jiang P, Kapellos TS, Kuo CS, Larsson L, Leney-Greene MA, Lim K, Litviňuková M, Ludwig LS, Lukassen S, Luo W, Maatz H, Madissoon E, Mamanova L, Manakongtreecheep K, Leroy S, Mayr CH, Mbano IM, McAdams AM, Nabhan AN, Nyquist SK, Penland L, Poirion OB, Poli S, Qi C, Queen R, Reichart D, Rosas I, Schupp JC, Shea CV, Shi X, Sinha R, Sit RV, Slowikowski K, Slyper M, Smith NP, Sountoulidis A, Strunz M, Sullivan TB, Sun D, Talavera-López C, Tan P, Tantivit J, Travaglini KJ, Tucker NR, Vernon KA, Wadsworth MH, Waldman J, Wang X, Xu K, Yan W, Zhao W, Ziegler CGK, NHLBI LungMap Consortium, Human Cell Atlas Lung Biological Network

Single-cell meta-analysis of SARS-CoV-2 entry genes across tissues and demographics.
Nat Med. 2021;27(3):546-559 - PMID: 33654293 - PMCID: PMC9469728 - DOI: 10.1038/s41591-020-01227-z

Sullivan ZA, Khoury-Hanold W, Lim J, Smillie C, Biton M, Reis BS, Zwick RK, Pope SD, Israni-Winger K, Parsa R, Philip NH, Rashed S, Palm N, Wang A, Mucida D, Regev A, Medzhitov R

γδ T cells regulate the intestinal response to nutrient sensing.
Science. 2021;371(6535):ePub - PMID: 33737460 - PMCID: PMC11617329 - DOI: 10.1126/science.aba8310

Plichta DR, Somani J, Pichaud M, Wallace ZS, Fernandes AD, Perugino CA, Lähdesmäki H, Stone JH, Vlamakis H, Chung DC, Khanna D, Pillai S, Xavier RJ

Congruent microbiome signatures in fibrosis-prone autoimmune diseases: IgG4-related disease and systemic sclerosis.
Genome Med. 2021;13(1):35 - PMID: 33648559 - PMCID: PMC7919092 - DOI: 10.1186/s13073-021-00853-7

Kim SC, O'Flaherty DK, Giurgiu C, Zhou L, Szostak JW

The Emergence of RNA from the Heterogeneous Products of Prebiotic Nucleotide Synthesis.
J Am Chem Soc. 2021;143(9):3267-3279 - PMID: 33636080 - DOI: 10.1021/jacs.0c12955

Annas GJ, Beisel CL, Clement K, Crisanti A, Francis S, Galardini M, Galizi R, Grünewald J, Immobile G, Khalil AS, Müller R, Pattanayak V, Petri K, Paul L, Pinello L, Simoni A, Taxiarchi C, Joung JK

A Code of Ethics for Gene Drive Research.
CRISPR J. 2021;4(1):19-24 - PMID: 33571044 - PMCID: PMC7898401 - DOI: 10.1089/crispr.2020.0096

Mojarro A, Jin L, Szostak JW, Head JW, Zuber MT

In search of the RNA world on Mars.
Geobiology. 2021;19(3):307-321 - PMID: 33565260 - PMCID: PMC8248371 - DOI: 10.1111/gbi.12433

Radakovic A, Wright TH, Lelyveld VS, Szostak JW

A Potential Role for Aminoacylation in Primordial RNA Copying Chemistry.
Biochemistry. 2021;60(6):477-488 - PMID: 33523633 - PMCID: PMC9634692 - DOI: 10.1021/acs.biochem.0c00943

Todd ZR, Szostak JW, Sasselov DD

Shielding from UV Photodamage: Implications for Surficial Origins of Life Chemistry on the Early Earth.
ACS Earth Space Chem. 2021;5(2):239-246 - PMID: 36317066 - PMCID: PMC9616438 - DOI: 10.1021/acsearthspacechem.0c00270

You K, Wang L, Chou CH, Liu K, Nakata T, Jaiswal A, Yao J, Lefkovith A, Omar A, Perrigoue JG, Towne JE, Regev A, Graham DB, Xavier RJ

QRICH1 dictates the outcome of ER stress through transcriptional control of proteostasis.
Science. 2021;371(6524):ePub - PMID: 33384352 - PMCID: PMC8315080 - DOI: 10.1126/science.abb6896

Warnhoff K, Hercher TW, Mendel RR, Ruvkun G

Protein-bound molybdenum cofactor is bioavailable and rescues molybdenum cofactor-deficient C. elegans.
Genes Dev. 2021;35(3-4):212-217 - PMID: 33446569 - PMCID: PMC7849362 - DOI: 10.1101/gad.345579.120

Zabaleta N, Dai W, Bhatt U, Chichester JA, Estelien R, Sanmiguel J, Michalson KT, Diop C, Maciorowski D, Qi W, Hudspeth E, Cucalon A, Dyer CD, Pampena MB, Knox JJ, LaRocque RC, Charles RC, Li D, Kim M, Sheridan A, Storm N, Johnson RI, Feldman J, Hauser BM, Ryan A, Kobayashi DT, Chauhan R, McGlynn M, Ryan ET, Schmidt AG, Price B, Honko A, Griffiths A, Yaghmour S, Hodge R, Betts MR, Freeman MW, Wilson JM, Vandenberghe LH

Immunogenicity of an AAV-based, room-temperature stable, single dose COVID-19 vaccine in mice and non-human primates.
bioRxiv. 2021;:ePub - PMID: 33442684 - PMCID: PMC7805441 - DOI: 10.1101/2021.01.05.422952

Tanes C, Bittinger K, Gao Y, Friedman ES, Nessel L, Paladhi UR, Chau L, Panfen E, Fischbach MA, Braun J, Xavier RJ, Clish CB, Li H, Bushman FD, Lewis JD, Wu GD

Role of dietary fiber in the recovery of the human gut microbiome and its metabolome.
Cell Host Microbe. 2021;29(3):394-407.e5 - PMID: 33440171 - PMCID: PMC8022197 - DOI: 10.1016/j.chom.2020.12.012

Mao K, Breen P, Ruvkun G

Mitochondrial dysfunction induces RNA interference in C. elegans through a pathway homologous to the mammalian RIG-I antiviral response.
PLoS Biol. 2020;18(12):e3000996 - PMID: 33264285 - PMCID: PMC7735679 - DOI: 10.1371/journal.pbio.3000996

Dong X, Yang Y, Zou Z, Zhao Y, Ci B, Zhong L, Bhave M, Wang L, Kuo YC, Zang X, Zhong R, Aguilera ER, Richardson RB, Simonetti B, Schoggins JW, Pfeiffer JK, Yu L, Zhang X, Xie Y, Schmid SL, Xiao G, Gleeson PA, Ktistakis NT, Cullen PJ, Xavier RJ, Levine B

Sorting nexin 5 mediates virus-induced autophagy and immunity.
Nature. 2021;589(7842):456-461 - PMID: 33328639 - PMCID: PMC7856200 - DOI: 10.1038/s41586-020-03056-z

Zhang W, Kim SC, Tam CP, Lelyveld VS, Bala S, Chaput JC, Szostak JW

Structural interpretation of the effects of threo-nucleotides on nonenzymatic template-directed polymerization.
Nucleic Acids Res. 2021;49(2):646-656 - PMID: 33347562 - PMCID: PMC7826252 - DOI: 10.1093/nar/gkaa1215

Carey KL, Paulus GLC, Wang L, Balce DR, Luo JW, Bergman P, Ferder IC, Kong L, Renaud N, Singh S, Kost-Alimova M, Nyfeler B, Lassen KG, Virgin HW, Xavier RJ

TFEB Transcriptional Responses Reveal Negative Feedback by BHLHE40 and BHLHE41.
Cell Rep. 2020;33(6):108371 - PMID: 33176151 - PMCID: PMC7686957 - DOI: 10.1016/j.celrep.2020.108371

Filbin MR, Mehta A, Schneider AM, Kays KR, Guess JR, Gentili M, Fenyves BG, Charland NC, Gonye ALK, Gushterova I, Khanna HK, LaSalle TJ, Lavin-Parsons KM, Lilly BM, Lodenstein CL, Manakongtreecheep K, Margolin JD, McKaig BN, Rojas-Lopez M, Russo BC, Sharma N, Tantivit J, Thomas MF, Gerszten RE, Heimberg GS, Hoover PJ, Lieb DJ, Lin B, Ngo D, Pelka K, Reyes M, Smillie CS, Waghray A, Wood TE, Zajac AS, Jennings LL, Grundberg I, Bhattacharyya RP, Parry BA, Villani AC, Sade-Feldman M, Hacohen N, Goldberg MB

Plasma proteomics reveals tissue-specific cell death and mediators of cell-cell interactions in severe COVID-19 patients.
bioRxiv. 2020;:ePub - PMID: 33173871 - PMCID: PMC7654866 - DOI: 10.1101/2020.11.02.365536

Xie F, Dai S, Zhao Y, Huang P, Yu S, Ren B, Wang Q, Ji Z, Alterovitz G, Zhang Q, Zhang J, Chen X, Jiang L, Song F, Liu H, Ausubel FM, Liu X, Dai H, Zhang L

Generation of Fluorinated Amychelin Siderophores against Pseudomonas aeruginosa Infections by a Combination of Genome Mining and Mutasynthesis.
Cell Chem Biol. 2020;27(12):1532-1543.e6 - PMID: 33186541 - DOI: 10.1016/j.chembiol.2020.10.009

Carey KL, Paulus GLC, Wang L, Balce DR, Luo JW, Bergman P, Ferder IC, Kong L, Renaud N, Singh S, Kost-Alimova M, Nyfeler B, Lassen KG, Virgin HW, Xavier RJ

TFEB Transcriptional Responses Reveal Negative Feedback by BHLHE40 and BHLHE41.
Cell Rep. 2020;33(6):108371 - PMID: 33176151 - PMCID: PMC7686957 - DOI: 10.1016/j.celrep.2020.108371

Efron PA, Darden DB, Wang Z, Nacionales DC, Lopez MC, Hawkins RB, Cox MC, Rincon JC, Ungaro R, Dirain ML, Ghita GL, Chen T, Billiar TR, Delano MJ, Leeuwenburgh C, Bihorac A, Brakenridge SC, Moore FA, Mohr AM, Tompkins RG, Brumback BA, Baker HV, Upchurch GR, Moldawer LL

Transcriptomic responses from improved murine sepsis models can better mimic human surgical sepsis.
FASEB J. 2021;35(2):e21156 - PMID: 33140449 - PMCID: PMC7855423 - DOI: 10.1096/fj.202002150R

Nakata T, Creasey EA, Kadoki M, Lin H, Selig MK, Yao J, Lefkovith A, Daly MJ, Graham DB, Xavier RJ

A missense variant in SLC39A8 confers risk for Crohn's disease by disrupting manganese homeostasis and intestinal barrier integrity.
Proc Natl Acad Sci U S A. 2020;117(46):28930-28938 - PMID: 33139556 - PMCID: PMC7682327 - DOI: 10.1073/pnas.2014742117

Zhou L, Ding D, Szostak JW

The Virtual Circular Genome Model for Primordial RNA Replication.
RNA. 2021;27(1):1-11 - PMID: 33028653 - PMCID: PMC7749632 - DOI: 10.1261/rna.077693.120

Tsurumi A, Flaherty PJ, Que YA, Ryan CM, Mendoza AE, Almpani M, Bandyopadhaya A, Ogura A, Dhole YV, Goodfield LF, Tompkins RG, Rahme LG

Multi-biomarker Prediction Models for Multiple Infection Episodes Following Blunt Trauma.
iScience. 2020;23(11):101659 - PMID: 33047099 - PMCID: PMC7539926 - DOI: 10.1016/j.isci.2020.101659
Total: 2489