Format
Sort by
Items per page

Send to

Choose Destination

Search results

Items: 1 to 50 of 70

1.

Massively Parallel Fitness Profiling Reveals Multiple Novel Enzymes in Pseudomonas putida Lysine Metabolism.

Thompson MG, Blake-Hedges JM, Cruz-Morales P, Barajas JF, Curran SC, Eiben CB, Harris NC, Benites VT, Gin JW, Sharpless WA, Twigg FF, Skyrud W, Krishna RN, Pereira JH, Baidoo EEK, Petzold CJ, Adams PD, Arkin AP, Deutschbauer AM, Keasling JD.

MBio. 2019 May 7;10(3). pii: e02577-18. doi: 10.1128/mBio.02577-18.

2.

Correction: Filling gaps in bacterial amino acid biosynthesis pathways with high-throughput genetics.

Price MN, Zane GM, Kuehl JV, Melnyk RA, Wall JD, Deutschbauer AM, Arkin AP.

PLoS Genet. 2019 Apr 3;15(4):e1008106. doi: 10.1371/journal.pgen.1008106. eCollection 2019 Apr.

3.

Oxidative Pathways of Deoxyribose and Deoxyribonate Catabolism.

Price MN, Ray J, Iavarone AT, Carlson HK, Ryan EM, Malmstrom RR, Arkin AP, Deutschbauer AM.

mSystems. 2019 Feb 5;4(1). pii: e00297-18. doi: 10.1128/mSystems.00297-18. eCollection 2019 Jan-Feb.

4.

Dual-barcoded shotgun expression library sequencing for high-throughput characterization of functional traits in bacteria.

Mutalik VK, Novichkov PS, Price MN, Owens TK, Callaghan M, Carim S, Deutschbauer AM, Arkin AP.

Nat Commun. 2019 Jan 18;10(1):308. doi: 10.1038/s41467-018-08177-8.

5.

Genetic analysis reveals functions of atypical polyubiquitin chains.

Meza Gutierrez F, Simsek D, Mizrak A, Deutschbauer A, Braberg H, Johnson J, Xu J, Shales M, Nguyen M, Tamse-Kuehn R, Palm C, Steinmetz LM, Krogan NJ, Toczyski DP.

Elife. 2018 Dec 14;7. pii: e42955. doi: 10.7554/eLife.42955.

6.

The selective pressures on the microbial community in a metal-contaminated aquifer.

Carlson HK, Price MN, Callaghan M, Aaring A, Chakraborty R, Liu H, Kuehl JV, Arkin AP, Deutschbauer AM.

ISME J. 2019 Apr;13(4):937-949. doi: 10.1038/s41396-018-0328-1. Epub 2018 Dec 6.

PMID:
30523276
7.

Dissimilatory Sulfate Reduction Under High Pressure by Desulfovibrio alaskensis G20.

Williamson AJ, Carlson HK, Kuehl JV, Huang LL, Iavarone AT, Deutschbauer A, Coates JD.

Front Microbiol. 2018 Jul 9;9:1465. doi: 10.3389/fmicb.2018.01465. eCollection 2018.

8.

Principles of Systems Biology, No. 30.

Garcia HG, Benzinger D, Rullan M, Milias-Argeitis A, Khammash M, Deutschbauer AM, Langdon EM, Gladfelter AS.

Cell Syst. 2018 Jul 25;7(1):1-2. doi: 10.1016/j.cels.2018.07.002.

9.

Mutant phenotypes for thousands of bacterial genes of unknown function.

Price MN, Wetmore KM, Waters RJ, Callaghan M, Ray J, Liu H, Kuehl JV, Melnyk RA, Lamson JS, Suh Y, Carlson HK, Esquivel Z, Sadeeshkumar H, Chakraborty R, Zane GM, Rubin BE, Wall JD, Visel A, Bristow J, Blow MJ, Arkin AP, Deutschbauer AM.

Nature. 2018 May;557(7706):503-509. doi: 10.1038/s41586-018-0124-0. Epub 2018 May 16.

10.

Magic Pools: Parallel Assessment of Transposon Delivery Vectors in Bacteria.

Liu H, Price MN, Waters RJ, Ray J, Carlson HK, Lamson JS, Chakraborty R, Arkin AP, Deutschbauer AM.

mSystems. 2018 Jan 16;3(1). pii: e00143-17. doi: 10.1128/mSystems.00143-17. eCollection 2018 Jan-Feb.

11.

Filling gaps in bacterial amino acid biosynthesis pathways with high-throughput genetics.

Price MN, Zane GM, Kuehl JV, Melnyk RA, Wall JD, Deutschbauer AM, Arkin AP.

PLoS Genet. 2018 Jan 11;14(1):e1007147. doi: 10.1371/journal.pgen.1007147. eCollection 2018 Jan. Erratum in: PLoS Genet. 2019 Apr 3;15(4):e1008106.

12.

Rapidly moving new bacteria to model-organism status.

Liu H, Deutschbauer AM.

Curr Opin Biotechnol. 2018 Jun;51:116-122. doi: 10.1016/j.copbio.2017.12.006. Epub 2018 Jan 6. Review.

PMID:
29316481
13.

Genetic Plasticity and Ethylmalonyl Coenzyme A Pathway during Acetate Assimilation in Rhodospirillum rubrum S1H under Photoheterotrophic Conditions.

De Meur Q, Deutschbauer A, Koch M, Wattiez R, Leroy B.

Appl Environ Microbiol. 2018 Jan 17;84(3). pii: e02038-17. doi: 10.1128/AEM.02038-17. Print 2018 Feb 1.

14.

A metabolic pathway for catabolizing levulinic acid in bacteria.

Rand JM, Pisithkul T, Clark RL, Thiede JM, Mehrer CR, Agnew DE, Campbell CE, Markley AL, Price MN, Ray J, Wetmore KM, Suh Y, Arkin AP, Deutschbauer AM, Amador-Noguez D, Pfleger BF.

Nat Microbiol. 2017 Dec;2(12):1624-1634. doi: 10.1038/s41564-017-0028-z. Epub 2017 Sep 25.

15.

Genome-wide identification of bacterial plant colonization genes.

Cole BJ, Feltcher ME, Waters RJ, Wetmore KM, Mucyn TS, Ryan EM, Wang G, Ul-Hasan S, McDonald M, Yoshikuni Y, Malmstrom RR, Deutschbauer AM, Dangl JL, Visel A.

PLoS Biol. 2017 Sep 22;15(9):e2002860. doi: 10.1371/journal.pbio.2002860. eCollection 2017 Sep.

16.

Mechanisms of Chromium and Uranium Toxicity in Pseudomonas stutzeri RCH2 Grown under Anaerobic Nitrate-Reducing Conditions.

Thorgersen MP, Lancaster WA, Ge X, Zane GM, Wetmore KM, Vaccaro BJ, Poole FL 2nd, Younkin AD, Deutschbauer AM, Arkin AP, Wall JD, Adams MWW.

Front Microbiol. 2017 Aug 10;8:1529. doi: 10.3389/fmicb.2017.01529. eCollection 2017.

17.

Microbial metal resistance and metabolism across dynamic landscapes: high-throughput environmental microbiology.

Carlson H, Deutschbauer A, Coates J.

F1000Res. 2017 Jun 29;6:1026. doi: 10.12688/f1000research.10986.1. eCollection 2017. Review.

18.

Draft Genome Sequences of Two Janthinobacteriumlividum Strains, Isolated from Pristine Groundwater Collected from the Oak Ridge Field Research Center.

Wu X, Deutschbauer AM, Kazakov AE, Wetmore KM, Cwick BA, Walker RM, Novichkov PS, Arkin AP, Chakraborty R.

Genome Announc. 2017 Jun 29;5(26). pii: e00582-17. doi: 10.1128/genomeA.00582-17.

19.

Validating regulatory predictions from diverse bacteria with mutant fitness data.

Sagawa S, Price MN, Deutschbauer AM, Arkin AP.

PLoS One. 2017 May 24;12(5):e0178258. doi: 10.1371/journal.pone.0178258. eCollection 2017.

20.

Genetic interaction mapping with microfluidic-based single cell sequencing.

Haliburton JR, Shao W, Deutschbauer A, Arkin A, Abate AR.

PLoS One. 2017 Feb 7;12(2):e0171302. doi: 10.1371/journal.pone.0171302. eCollection 2017.

21.

System-Wide Adaptations of Desulfovibrio alaskensis G20 to Phosphate-Limited Conditions.

Bosak T, Schubotz F, de Santiago-Torio A, Kuehl JV, Carlson HK, Watson N, Daye M, Summons RE, Arkin AP, Deutschbauer AM.

PLoS One. 2016 Dec 28;11(12):e0168719. doi: 10.1371/journal.pone.0168719. eCollection 2016.

22.

A Comparison of the Costs and Benefits of Bacterial Gene Expression.

Price MN, Wetmore KM, Deutschbauer AM, Arkin AP.

PLoS One. 2016 Oct 6;11(10):e0164314. doi: 10.1371/journal.pone.0164314. eCollection 2016.

23.

Novel Metal Cation Resistance Systems from Mutant Fitness Analysis of Denitrifying Pseudomonas stutzeri.

Vaccaro BJ, Lancaster WA, Thorgersen MP, Zane GM, Younkin AD, Kazakov AE, Wetmore KM, Deutschbauer A, Arkin AP, Novichkov PS, Wall JD, Adams MW.

Appl Environ Microbiol. 2016 Sep 16;82(19):6046-56. doi: 10.1128/AEM.01845-16. Print 2016 Oct 1.

24.

Lateral Gene Transfer in a Heavy Metal-Contaminated-Groundwater Microbial Community.

Hemme CL, Green SJ, Rishishwar L, Prakash O, Pettenato A, Chakraborty R, Deutschbauer AM, Van Nostrand JD, Wu L, He Z, Jordan IK, Hazen TC, Arkin AP, Kostka JE, Zhou J.

MBio. 2016 Apr 5;7(2):e02234-15. doi: 10.1128/mBio.02234-15.

25.

Exometabolomics Assisted Design and Validation of Synthetic Obligate Mutualism.

Kosina SM, Danielewicz MA, Mohammed M, Ray J, Suh Y, Yilmaz S, Singh AK, Arkin AP, Deutschbauer AM, Northen TR.

ACS Synth Biol. 2016 Jul 15;5(7):569-76. doi: 10.1021/acssynbio.5b00236. Epub 2016 Feb 17.

26.

The Epigenomic Landscape of Prokaryotes.

Blow MJ, Clark TA, Daum CG, Deutschbauer AM, Fomenkov A, Fries R, Froula J, Kang DD, Malmstrom RR, Morgan RD, Posfai J, Singh K, Visel A, Wetmore K, Zhao Z, Rubin EM, Korlach J, Pennacchio LA, Roberts RJ.

PLoS Genet. 2016 Feb 12;12(2):e1005854. doi: 10.1371/journal.pgen.1005854. eCollection 2016 Feb. Erratum in: PLoS Genet. 2016 May;12(5):e1006064.

27.

The essential gene set of a photosynthetic organism.

Rubin BE, Wetmore KM, Price MN, Diamond S, Shultzaberger RK, Lowe LC, Curtin G, Arkin AP, Deutschbauer A, Golden SS.

Proc Natl Acad Sci U S A. 2015 Dec 1;112(48):E6634-43. doi: 10.1073/pnas.1519220112. Epub 2015 Oct 27.

28.

Determining Roles of Accessory Genes in Denitrification by Mutant Fitness Analyses.

Vaccaro BJ, Thorgersen MP, Lancaster WA, Price MN, Wetmore KM, Poole FL 2nd, Deutschbauer A, Arkin AP, Adams MW.

Appl Environ Microbiol. 2015 Oct 9;82(1):51-61. doi: 10.1128/AEM.02602-15. Print 2016 Jan 1.

29.

Genetic dissection of chlorate respiration in Pseudomonas stutzeri PDA reveals syntrophic (per)chlorate reduction.

Clark IC, Youngblut M, Jacobsen G, Wetmore KM, Deutschbauer A, Lucas L, Coates JD.

Environ Microbiol. 2016 Oct;18(10):3342-3354. doi: 10.1111/1462-2920.13068. Epub 2015 Dec 10.

PMID:
26411776
30.

Molybdenum Availability Is Key to Nitrate Removal in Contaminated Groundwater Environments.

Thorgersen MP, Lancaster WA, Vaccaro BJ, Poole FL, Rocha AM, Mehlhorn T, Pettenato A, Ray J, Waters RJ, Melnyk RA, Chakraborty R, Hazen TC, Deutschbauer AM, Arkin AP, Adams MW.

Appl Environ Microbiol. 2015 Aug;81(15):4976-83. doi: 10.1128/AEM.00917-15. Epub 2015 May 15.

31.

Complete Genome Sequence of Cupriavidus basilensis 4G11, Isolated from the Oak Ridge Field Research Center Site.

Ray J, Waters RJ, Skerker JM, Kuehl JV, Price MN, Huang J, Chakraborty R, Arkin AP, Deutschbauer A.

Genome Announc. 2015 May 14;3(3). pii: e00322-15. doi: 10.1128/genomeA.00322-15.

32.

Rapid quantification of mutant fitness in diverse bacteria by sequencing randomly bar-coded transposons.

Wetmore KM, Price MN, Waters RJ, Lamson JS, He J, Hoover CA, Blow MJ, Bristow J, Butland G, Arkin AP, Deutschbauer A.

MBio. 2015 May 12;6(3):e00306-15. doi: 10.1128/mBio.00306-15.

33.

Novel mechanism for scavenging of hypochlorite involving a periplasmic methionine-rich Peptide and methionine sulfoxide reductase.

Melnyk RA, Youngblut MD, Clark IC, Carlson HK, Wetmore KM, Price MN, Iavarone AT, Deutschbauer AM, Arkin AP, Coates JD.

MBio. 2015 May 12;6(3):e00233-15. doi: 10.1128/mBio.00233-15.

34.

Monofluorophosphate is a selective inhibitor of respiratory sulfate-reducing microorganisms.

Carlson HK, Stoeva MK, Justice NB, Sczesnak A, Mullan MR, Mosqueda LA, Kuehl JV, Deutschbauer AM, Arkin AP, Coates JD.

Environ Sci Technol. 2015 Mar 17;49(6):3727-36. doi: 10.1021/es505843z. Epub 2015 Mar 4.

PMID:
25698072
35.

Mechanisms of direct inhibition of the respiratory sulfate-reduction pathway by (per)chlorate and nitrate.

Carlson HK, Kuehl JV, Hazra AB, Justice NB, Stoeva MK, Sczesnak A, Mullan MR, Iavarone AT, Engelbrektson A, Price MN, Deutschbauer AM, Arkin AP, Coates JD.

ISME J. 2015 Jun;9(6):1295-305. doi: 10.1038/ismej.2014.216. Epub 2014 Nov 18.

36.

The genetic basis of energy conservation in the sulfate-reducing bacterium Desulfovibrio alaskensis G20.

Price MN, Ray J, Wetmore KM, Kuehl JV, Bauer S, Deutschbauer AM, Arkin AP.

Front Microbiol. 2014 Oct 31;5:577. doi: 10.3389/fmicb.2014.00577. eCollection 2014.

37.

Towards an informative mutant phenotype for every bacterial gene.

Deutschbauer A, Price MN, Wetmore KM, Tarjan DR, Xu Z, Shao W, Leon D, Arkin AP, Skerker JM.

J Bacteriol. 2014 Oct;196(20):3643-55. doi: 10.1128/JB.01836-14. Epub 2014 Aug 11.

38.

Conservation of transcription start sites within genes across a bacterial genus.

Shao W, Price MN, Deutschbauer AM, Romine MF, Arkin AP.

MBio. 2014 Jul 1;5(4):e01398-14. doi: 10.1128/mBio.01398-14.

39.

Interactive XCMS Online: simplifying advanced metabolomic data processing and subsequent statistical analyses.

Gowda H, Ivanisevic J, Johnson CH, Kurczy ME, Benton HP, Rinehart D, Nguyen T, Ray J, Kuehl J, Arevalo B, Westenskow PD, Wang J, Arkin AP, Deutschbauer AM, Patti GJ, Siuzdak G.

Anal Chem. 2014 Jul 15;86(14):6931-9. doi: 10.1021/ac500734c. Epub 2014 Jun 25.

40.

Metabolomic data streaming for biology-dependent data acquisition.

Rinehart D, Johnson CH, Nguyen T, Ivanisevic J, Benton HP, Lloyd J, Arkin AP, Deutschbauer AM, Patti GJ, Siuzdak G.

Nat Biotechnol. 2014 Jun;32(6):524-7. doi: 10.1038/nbt.2927. No abstract available.

41.

Functional genomics with a comprehensive library of transposon mutants for the sulfate-reducing bacterium Desulfovibrio alaskensis G20.

Kuehl JV, Price MN, Ray J, Wetmore KM, Esquivel Z, Kazakov AE, Nguyen M, Kuehn R, Davis RW, Hazen TC, Arkin AP, Deutschbauer A.

MBio. 2014 May 27;5(3):e01041-14. doi: 10.1128/mBio.01041-14.

42.

Genetic basis for nitrate resistance in Desulfovibrio strains.

Korte HL, Fels SR, Christensen GA, Price MN, Kuehl JV, Zane GM, Deutschbauer AM, Arkin AP, Wall JD.

Front Microbiol. 2014 Apr 21;5:153. doi: 10.3389/fmicb.2014.00153. eCollection 2014.

43.

The energy-conserving electron transfer system used by Desulfovibrio alaskensis strain G20 during pyruvate fermentation involves reduction of endogenously formed fumarate and cytoplasmic and membrane-bound complexes, Hdr-Flox and Rnf.

Meyer B, Kuehl JV, Price MN, Ray J, Deutschbauer AM, Arkin AP, Stahl DA.

Environ Microbiol. 2014 Nov;16(11):3463-86. doi: 10.1111/1462-2920.12405. Epub 2014 Mar 5.

PMID:
24447568
44.

An evaluation of high-throughput approaches to QTL mapping in Saccharomyces cerevisiae.

Wilkening S, Lin G, Fritsch ES, Tekkedil MM, Anders S, Kuehn R, Nguyen M, Aiyar RS, Proctor M, Sakhanenko NA, Galas DJ, Gagneur J, Deutschbauer A, Steinmetz LM.

Genetics. 2014 Mar;196(3):853-65. doi: 10.1534/genetics.113.160291. Epub 2013 Dec 27.

45.

Control of methionine metabolism by the SahR transcriptional regulator in Proteobacteria.

Novichkov PS, Li X, Kuehl JV, Deutschbauer AM, Arkin AP, Price MN, Rodionov DA.

Environ Microbiol. 2014 Jan;16(1):1-8. doi: 10.1111/1462-2920.12273. Epub 2013 Oct 9.

PMID:
24118949
46.

"Replica-extraction-transfer" nanostructure-initiator mass spectrometry imaging of acoustically printed bacteria.

Louie KB, Bowen BP, Cheng X, Berleman JE, Chakraborty R, Deutschbauer A, Arkin A, Northen TR.

Anal Chem. 2013 Nov 19;85(22):10856-62. doi: 10.1021/ac402240q. Epub 2013 Oct 29.

PMID:
24111681
47.

Exploring the roles of DNA methylation in the metal-reducing bacterium Shewanella oneidensis MR-1.

Bendall ML, Luong K, Wetmore KM, Blow M, Korlach J, Deutschbauer A, Malmstrom RR.

J Bacteriol. 2013 Nov;195(21):4966-74. doi: 10.1128/JB.00935-13. Epub 2013 Aug 30.

48.

Flexibility of syntrophic enzyme systems in Desulfovibrio species ensures their adaptation capability to environmental changes.

Meyer B, Kuehl JV, Deutschbauer AM, Arkin AP, Stahl DA.

J Bacteriol. 2013 Nov;195(21):4900-14. doi: 10.1128/JB.00504-13. Epub 2013 Aug 23.

49.

Dissecting a complex chemical stress: chemogenomic profiling of plant hydrolysates.

Skerker JM, Leon D, Price MN, Mar JS, Tarjan DR, Wetmore KM, Deutschbauer AM, Baumohl JK, Bauer S, Ibáñez AB, Mitchell VD, Wu CH, Hu P, Hazen T, Arkin AP.

Mol Syst Biol. 2013 Jun 18;9:674. doi: 10.1038/msb.2013.30.

50.

Indirect and suboptimal control of gene expression is widespread in bacteria.

Price MN, Deutschbauer AM, Skerker JM, Wetmore KM, Ruths T, Mar JS, Kuehl JV, Shao W, Arkin AP.

Mol Syst Biol. 2013 Apr 16;9:660. doi: 10.1038/msb.2013.16.

Supplemental Content

Loading ...
Support Center