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Items: 1 to 50 of 365

1.

The Role of tRNA in Establishing New Genetic Codes.

Thyer R, Ellington AD.

Biochemistry. 2018 Nov 14. doi: 10.1021/acs.biochem.8b00834. [Epub ahead of print]

PMID:
30387992
2.

A highly parallel strategy for storage of digital information in living cells.

Akhmetov A, Ellington AD, Marcotte EM.

BMC Biotechnol. 2018 Oct 17;18(1):64. doi: 10.1186/s12896-018-0476-4.

3.

Retroelement-Based Genome Editing and Evolution.

Simon AJ, Morrow BR, Ellington AD.

ACS Synth Biol. 2018 Nov 16;7(11):2600-2611. doi: 10.1021/acssynbio.8b00273. Epub 2018 Oct 26.

PMID:
30256621
4.

Predicting Evolution of the Transcription Regulatory Network in a Bacteriophage.

Garry DJ, Meyer AJ, Ellefson JW, Bull JJ, Ellington AD.

Genome Biol Evol. 2018 Oct 1;10(10):2614-2628. doi: 10.1093/gbe/evy191.

5.

Direct nucleic acid analysis of mosquitoes for high fidelity species identification and detection of Wolbachia using a cellphone.

Bhadra S, Riedel TE, SaldaƱa MA, Hegde S, Pederson N, Hughes GL, Ellington AD.

PLoS Negl Trop Dis. 2018 Aug 30;12(8):e0006671. doi: 10.1371/journal.pntd.0006671. eCollection 2018 Aug.

6.

Cellular reagents for diagnostics and synthetic biology.

Bhadra S, Pothukuchy A, Shroff R, Cole AW, Byrom M, Ellefson JW, Gollihar JD, Ellington AD.

PLoS One. 2018 Aug 15;13(8):e0201681. doi: 10.1371/journal.pone.0201681. eCollection 2018.

7.

Compartmentalized Self-Replication for Evolution of a DNA Polymerase.

Abil Z, Ellington AD.

Curr Protoc Chem Biol. 2018 Mar;10(1):1-17. doi: 10.1002/cpch.34.

PMID:
30040233
8.

In Vitro Transcription Networks Based on Hairpin Promoter Switches.

Kar S, Ellington AD.

ACS Synth Biol. 2018 Aug 17;7(8):1937-1945. doi: 10.1021/acssynbio.8b00172. Epub 2018 Aug 1.

PMID:
30021064
9.

Phosphorothioated Primers Lead to Loop-Mediated Isothermal Amplification at Low Temperatures.

Cai S, Jung C, Bhadra S, Ellington AD.

Anal Chem. 2018 Jul 17;90(14):8290-8294. doi: 10.1021/acs.analchem.8b02062. Epub 2018 Jul 5.

PMID:
29968462
10.

Viral attenuation by engineered protein fragmentation.

Garry DJ, Ellington AD, Molineux IJ, Bull JJ.

Virus Evol. 2018 Jun 19;4(1):vey017. doi: 10.1093/ve/vey017. eCollection 2018 Jan.

11.

Custom selenoprotein production enabled by laboratory evolution of recoded bacterial strains.

Thyer R, Shroff R, Klein DR, d'Oelsnitz S, Cotham VC, Byrom M, Brodbelt JS, Ellington AD.

Nat Biotechnol. 2018 Aug;36(7):624-631. doi: 10.1038/nbt.4154. Epub 2018 Jun 4.

12.

Single-step Precision Genome Editing in Yeast Using CRISPR-Cas9.

Akhmetov A, Laurent JM, Gollihar J, Gardner EC, Garge RK, Ellington AD, Kachroo AH, Marcotte EM.

Bio Protoc. 2018 Mar 20;8(6). pii: e2765. doi: 10.21769/BioProtoc.2765.

13.

Directed Evolution of Heterologous tRNAs Leads to Reduced Dependence on Post-transcriptional Modifications.

Baldridge KC, Jora M, Maranhao AC, Quick MM, Addepalli B, Brodbelt JS, Ellington AD, Limbach PA, Contreras LM.

ACS Synth Biol. 2018 May 18;7(5):1315-1327. doi: 10.1021/acssynbio.7b00421. Epub 2018 Apr 25.

PMID:
29694026
14.

Strand Displacement Probes Combined with Isothermal Nucleic Acid Amplification for Instrument-Free Detection from Complex Samples.

Phillips EA, Moehling TJ, Bhadra S, Ellington AD, Linnes JC.

Anal Chem. 2018 Jun 5;90(11):6580-6586. doi: 10.1021/acs.analchem.8b00269. Epub 2018 May 8.

15.

Microbiota and Metatranscriptome Changes Accompanying the Onset of Gingivitis.

Nowicki EM, Shroff R, Singleton JA, Renaud DE, Wallace D, Drury J, Zirnheld J, Colleti B, Ellington AD, Lamont RJ, Scott DA, Whiteley M.

MBio. 2018 Apr 17;9(2). pii: e00575-18. doi: 10.1128/mBio.00575-18.

16.

Fingerprinting Non-Terran Biosignatures.

Johnson SS, Anslyn EV, Graham HV, Mahaffy PR, Ellington AD.

Astrobiology. 2018 Jul;18(7):915-922. doi: 10.1089/ast.2017.1712. Epub 2018 Mar 8.

17.

Evolution of a Thermophilic Strand-Displacing Polymerase Using High-Temperature Isothermal Compartmentalized Self-Replication.

Milligan JN, Shroff R, Garry DJ, Ellington AD.

Biochemistry. 2018 Aug 7;57(31):4607-4619. doi: 10.1021/acs.biochem.8b00200. Epub 2018 Apr 18.

PMID:
29629759
18.

Genetic Engineering of Bee Gut Microbiome Bacteria with a Toolkit for Modular Assembly of Broad-Host-Range Plasmids.

Leonard SP, Perutka J, Powell JE, Geng P, Richhart DD, Byrom M, Kar S, Davies BW, Ellington AD, Moran NA, Barrick JE.

ACS Synth Biol. 2018 May 18;7(5):1279-1290. doi: 10.1021/acssynbio.7b00399. Epub 2018 Apr 13.

19.

Construction of synthetic T7 RNA polymerase expression systems.

Kar S, Ellington AD.

Methods. 2018 Jul 1;143:110-120. doi: 10.1016/j.ymeth.2018.02.022. Epub 2018 Mar 5.

PMID:
29518499
20.

Directed evolution of a synthetic phylogeny of programmable Trp repressors.

Ellefson JW, Ledbetter MP, Ellington AD.

Nat Chem Biol. 2018 Apr;14(4):361-367. doi: 10.1038/s41589-018-0006-7. Epub 2018 Feb 26.

PMID:
29483643
21.

Evolving Bacterial Fitness with an Expanded Genetic Code.

Tack DS, Cole AC, Shroff R, Morrow BR, Ellington AD.

Sci Rep. 2018 Feb 19;8(1):3288. doi: 10.1038/s41598-018-21549-w.

22.

Functional interrogation and mining of natively paired human VH:VL antibody repertoires.

Wang B, DeKosky BJ, Timm MR, Lee J, Normandin E, Misasi J, Kong R, McDaniel JR, Delidakis G, Leigh KE, Niezold T, Choi CW, Viox EG, Fahad A, Cagigi A, Ploquin A, Leung K, Yang ES, Kong WP, Voss WN, Schmidt AG, Moody MA, Ambrozak DR, Henry AR, Laboune F, Ledgerwood JE, Graham BS, Connors M, Douek DC, Sullivan NJ, Ellington AD, Mascola JR, Georgiou G.

Nat Biotechnol. 2018 Feb;36(2):152-155. doi: 10.1038/nbt.4052. Epub 2018 Jan 8.

23.

Portable platform for rapid in-field identification of human fecal pollution in water.

Jiang YS, Riedel TE, Popoola JA, Morrow BR, Cai S, Ellington AD, Bhadra S.

Water Res. 2018 Mar 15;131:186-195. doi: 10.1016/j.watres.2017.12.023. Epub 2017 Dec 13.

PMID:
29278789
24.

Differential array sensing for cancer cell classification and novelty detection.

Gade AM, Meadows MK, Ellington AD, Anslyn EV.

Org Biomol Chem. 2017 Nov 29;15(46):9866-9874. doi: 10.1039/c7ob02174g.

PMID:
29139514
25.

Compartmentalized partnered replication for the directed evolution of genetic parts and circuits.

Abil Z, Ellefson JW, Gollihar JD, Watkins E, Ellington AD.

Nat Protoc. 2017 Dec;12(12):2493-2512. doi: 10.1038/nprot.2017.119. Epub 2017 Nov 9. Review.

26.
27.

Charge Shielding Prevents Aggregation of Supercharged GFP Variants at High Protein Concentration.

Laber JR, Dear BJ, Martins ML, Jackson DE, DiVenere A, Gollihar JD, Ellington AD, Truskett TM, Johnston KP, Maynard JA.

Mol Pharm. 2017 Oct 2;14(10):3269-3280. doi: 10.1021/acs.molpharmaceut.7b00322. Epub 2017 Sep 18.

28.

De novo design of antibody complementarity determining regions binding a FLAG tetra-peptide.

Entzminger KC, Hyun JM, Pantazes RJ, Patterson-Orazem AC, Qerqez AN, Frye ZP, Hughes RA, Ellington AD, Lieberman RL, Maranas CD, Maynard JA.

Sci Rep. 2017 Aug 31;7(1):10295. doi: 10.1038/s41598-017-10737-9.

29.

A Simple, Cleated DNA Walker That Hangs on to Surfaces.

Jung C, Allen PB, Ellington AD.

ACS Nano. 2017 Aug 22;11(8):8047-8054. doi: 10.1021/acsnano.7b02693. Epub 2017 Jul 18.

PMID:
28719175
30.

Massively Parallel Biophysical Analysis of CRISPR-Cas Complexes on Next Generation Sequencing Chips.

Jung C, Hawkins JA, Jones SK Jr, Xiao Y, Rybarski JR, Dillard KE, Hussmann J, Saifuddin FA, Savran CA, Ellington AD, Ke A, Press WH, Finkelstein IJ.

Cell. 2017 Jun 29;170(1):35-47.e13. doi: 10.1016/j.cell.2017.05.044.

31.

Amplicon Competition Enables End-Point Quantitation of Nucleic Acids Following Isothermal Amplification.

Jiang YS, Stacy A, Whiteley M, Ellington AD, Bhadra S.

Chembiochem. 2017 Sep 5;18(17):1692-1695. doi: 10.1002/cbic.201700317. Epub 2017 Jul 17.

32.

Purification of single-stranded DNA by co-polymerization with acrylamide and electrophoresis.

Damase TR, Ellington AD, Allen PB.

Biotechniques. 2017 Jun 1;62(6):275-282. doi: 10.2144/000114557.

33.

Synthetic DNA Synthesis and Assembly: Putting the Synthetic in Synthetic Biology.

Hughes RA, Ellington AD.

Cold Spring Harb Perspect Biol. 2017 Jan 3;9(1). pii: a023812. doi: 10.1101/cshperspect.a023812. Review.

PMID:
28049645
34.

Coupling Sensitive Nucleic Acid Amplification with Commercial Pregnancy Test Strips.

Du Y, Pothukuchy A, Gollihar JD, Nourani A, Li B, Ellington AD.

Angew Chem Int Ed Engl. 2017 Jan 19;56(4):992-996. doi: 10.1002/anie.201609108. Epub 2016 Dec 19.

35.

Molecular-level analysis of the serum antibody repertoire in young adults before and after seasonal influenza vaccination.

Lee J, Boutz DR, Chromikova V, Joyce MG, Vollmers C, Leung K, Horton AP, DeKosky BJ, Lee CH, Lavinder JJ, Murrin EM, Chrysostomou C, Hoi KH, Tsybovsky Y, Thomas PV, Druz A, Zhang B, Zhang Y, Wang L, Kong WP, Park D, Popova LI, Dekker CL, Davis MM, Carter CE, Ross TM, Ellington AD, Wilson PC, Marcotte EM, Mascola JR, Ippolito GC, Krammer F, Quake SR, Kwong PD, Georgiou G.

Nat Med. 2016 Dec;22(12):1456-1464. doi: 10.1038/nm.4224. Epub 2016 Nov 7.

36.
37.

Design and engineering of a transmissible antiviral defense.

Paff ML, Nuismer SL, Ellington AD, Molineux IJ, May RH, Bull JJ.

J Biol Eng. 2016 Oct 12;10:12. eCollection 2016.

38.

Recent advances in synthetic biosafety.

Simon AJ, Ellington AD.

F1000Res. 2016 Aug 31;5. pii: F1000 Faculty Rev-2118. doi: 10.12688/f1000research.8365.1. eCollection 2016. Review.

39.

Evolving Orthogonal Suppressor tRNAs To Incorporate Modified Amino Acids.

Maranhao AC, Ellington AD.

ACS Synth Biol. 2017 Jan 20;6(1):108-119. doi: 10.1021/acssynbio.6b00145. Epub 2016 Sep 21.

PMID:
27600875
40.

Corrigendum to "An amino acid depleted cell-free protein synthesis system for the incorporation of non-canonical amino acid analogs into proteins" [J. Biotechnol. 178 (2014) 12-22].

Singh-Blom A, Hughes RA, Ellington AD.

J Biotechnol. 2016 Aug 10;231:296. doi: 10.1016/j.jbiotec.2016.06.031. Epub 2016 Jul 16. No abstract available.

PMID:
27470576
41.

Synthesis of alanyl nucleobase amino acids and their incorporation into proteins.

Talukder P, Dedkova LM, Ellington AD, Yakovchuk P, Lim J, Anslyn EV, Hecht SM.

Bioorg Med Chem. 2016 Sep 15;24(18):4177-4187. doi: 10.1016/j.bmc.2016.07.008. Epub 2016 Jul 6.

42.

Synthetic evolutionary origin of a proofreading reverse transcriptase.

Ellefson JW, Gollihar J, Shroff R, Shivram H, Iyer VR, Ellington AD.

Science. 2016 Jun 24;352(6293):1590-3. doi: 10.1126/science.aaf5409.

PMID:
27339990
43.

Corrigendum: Facile Discovery of a Diverse Panel of Anti-Ebola Virus Antibodies by Immune Repertoire Mining.

Wang B, Kluwe CA, Lungu OI, DeKosky BJ, Kerr SA, Johnson EL, Tanno H, Lee CH, Jung J, Rezigh AB, Carroll SM, Reyes AN, Bentz JR, Villanueva I, Altman AL, Davey RA, Ellington AD, Georgiou G.

Sci Rep. 2016 Jun 10;6:27229. doi: 10.1038/srep27229. No abstract available.

44.

Discovery of high affinity anti-ricin antibodies by B cell receptor sequencing and by yeast display of combinatorial VH:VL libraries from immunized animals.

Wang B, Lee CH, Johnson EL, Kluwe CA, Cunningham JC, Tanno H, Crooks RM, Georgiou G, Ellington AD.

MAbs. 2016 Aug-Sep;8(6):1035-44. doi: 10.1080/19420862.2016.1190059. Epub 2016 May 25.

45.

Expanded Genetic Codes Create New Mutational Routes to Rifampicin Resistance in Escherichia coli.

Hammerling MJ, Gollihar J, Mortensen C, Alnahhas RN, Ellington AD, Barrick JE.

Mol Biol Evol. 2016 Aug;33(8):2054-63. doi: 10.1093/molbev/msw094. Epub 2016 May 9.

PMID:
27189550
46.

Large-scale sequence and structural comparisons of human naive and antigen-experienced antibody repertoires.

DeKosky BJ, Lungu OI, Park D, Johnson EL, Charab W, Chrysostomou C, Kuroda D, Ellington AD, Ippolito GC, Gray JJ, Georgiou G.

Proc Natl Acad Sci U S A. 2016 May 10;113(19):E2636-45. doi: 10.1073/pnas.1525510113. Epub 2016 Apr 25.

47.

A primerless molecular diagnostic: phosphorothioated-terminal hairpin formation and self-priming extension (PS-THSP).

Jung C, Ellington AD.

Anal Bioanal Chem. 2016 Dec;408(30):8583-8591. Epub 2016 Mar 31.

48.

An in vitro selection for small molecule induced switching RNA molecules.

Martini L, Ellington AD, Mansy SS.

Methods. 2016 Aug 15;106:51-7. doi: 10.1016/j.ymeth.2016.02.010. Epub 2016 Feb 17. Review.

PMID:
26899430
49.

Ultra-high-throughput sequencing of the immune receptor repertoire from millions of lymphocytes.

McDaniel JR, DeKosky BJ, Tanno H, Ellington AD, Georgiou G.

Nat Protoc. 2016 Mar;11(3):429-42. doi: 10.1038/nprot.2016.024. Epub 2016 Feb 4.

PMID:
26844430
50.

Addicting diverse bacteria to a noncanonical amino acid.

Tack DS, Ellefson JW, Thyer R, Wang B, Gollihar J, Forster MT, Ellington AD.

Nat Chem Biol. 2016 Mar;12(3):138-40. doi: 10.1038/nchembio.2002. Epub 2016 Jan 18.

PMID:
26780407

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