Daniel Noguera - Publications

Civil and Environmental Engineering University of Wisconsin, Madison, Madison, WI 

52 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2022 Fortney NW, Myers KS, Ingle AT, Walters KA, Scarborough MJ, Donohue TJ, Noguera DR. Metagenomes and Metagenome-Assembled Genomes from Microbiomes Metabolizing Thin Stillage from an Ethanol Biorefinery. Microbiology Resource Announcements. e0029022. PMID 35862918 DOI: 10.1128/mra.00290-22  0.493
2022 Walters KA, Myers KS, Wang H, Fortney NW, Ingle AT, Scarborough MJ, Donohue TJ, Noguera DR. Metagenomes and Metagenome-Assembled Genomes from Microbial Communities Fermenting Ultrafiltered Milk Permeate. Microbiology Resource Announcements. e0029322. PMID 35770995 DOI: 10.1128/mra.00293-22  0.5
2022 Lakey BD, Myers KS, Alberge F, Mettert EL, Kiley PJ, Noguera DR, Donohue TJ. The essential Rhodobacter sphaeroides CenKR two-component system regulates cell division and envelope biosynthesis. Plos Genetics. 18: e1010270. PMID 35767559 DOI: 10.1371/journal.pgen.1010270  0.487
2022 Wadler CS, Wolters JF, Fortney NW, Throckmorton KO, Zhang Y, Miller CR, Schneider RM, Wendt-Pienkowski E, Currie CR, Donohue TJ, Noguera DR, Hittinger CT, Thomas MG. Utilization of lignocellulosic biofuel conversion residue by diverse microorganisms. Biotechnology For Biofuels and Bioproducts. 15: 70. PMID 35751080 DOI: 10.1186/s13068-022-02168-0  0.526
2022 Beach NK, Myers KS, Donohue TJ, Noguera DR. Metagenomes from 25 Low-Abundance Microbes in a Partial Nitritation Anammox Microbiome. Microbiology Resource Announcements. e0021222. PMID 35575561 DOI: 10.1128/mra.00212-22  0.48
2022 Linz AM, Ma Y, Scholz S, Noguera DR, Donohue TJ. iNovo479: Metabolic Modeling Provides a Roadmap to Optimize Bioproduct Yield from Deconstructed Lignin Aromatics by . Metabolites. 12. PMID 35448553 DOI: 10.3390/metabo12040366  0.559
2022 Beach NK, Myers KS, Owen BR, Seib M, Donohue TJ, Noguera DR. Correction for Beach et al., "Exploring the Meta-regulon of the CRP/FNR Family of Global Transcriptional Regulators in a Partial-Nitritation Anammox Microbiome". Msystems. e0021322. PMID 35414209 DOI: 10.1128/msystems.00213-22  0.413
2022 Scarborough MJ, Myers KS, Fortney NW, Ingle AT, Donohue TJ, Noguera DR. Metagenome-Assembled Genomes from a Microbiome Converting Xylose to Medium-Chain Carboxylic Acids. Microbiology Resource Announcements. 11: e0115121. PMID 35343806 DOI: 10.1128/mra.01151-21  0.526
2022 Myers KS, Behari Lal P, Noguera DR, Donohue TJ. Using Genome Scale Mutant Libraries to Identify Essential Genes. Methods in Molecular Biology (Clifton, N.J.). 2377: 215-236. PMID 34709619 DOI: 10.1007/978-1-0716-1720-5_12  0.519
2021 Beach NK, Myers KS, Owen BR, Seib M, Donohue TJ, Noguera DR. Exploring the Meta-regulon of the CRP/FNR Family of Global Transcriptional Regulators in a Partial-Nitritation Anammox Microbiome. Msystems. e0090621. PMID 34636676 DOI: 10.1128/mSystems.00906-21  0.516
2021 Linz AM, Ma Y, Perez JM, Myers KS, Kontur WS, Noguera DR, Donohue TJ. Aromatic dimer dehydrogenases from reduce monoaromatic diketones. Applied and Environmental Microbiology. AEM0174221. PMID 34613756 DOI: 10.1128/AEM.01742-21  0.558
2021 Ingle AT, Fortney NW, Walters KA, Donohue TJ, Noguera DR. Mixed Acid Fermentation of Carbohydrate-Rich Dairy Manure Hydrolysate. Frontiers in Bioengineering and Biotechnology. 9: 724304. PMID 34414173 DOI: 10.3389/fbioe.2021.724304  0.525
2021 Fortney NW, Hanson NJ, Rosa PRF, Donohue TJ, Noguera DR. Diverse Profile of Fermentation Byproducts From Thin Stillage. Frontiers in Bioengineering and Biotechnology. 9: 695306. PMID 34336807 DOI: 10.3389/fbioe.2021.695306  0.529
2021 Myers KS, Noguera DR, Donohue TJ. Promoter Architecture Differences among and Other Bacterial Taxa. Msystems. e0052621. PMID 34254822 DOI: 10.1128/mSystems.00526-21  0.476
2021 Myers KS, Place M, Kominek J, Noguera DR, Donohue TJ. Delila-PY, a Pipeline for Utilizing the Delila Suite of Software to Identify Potential DNA Binding Motifs. Microbiology Resource Announcements. 10. PMID 33858925 DOI: 10.1128/MRA.00160-21  0.422
2021 Ma Y, Donohue TJ, Noguera DR. Kinetic modeling of anaerobic degradation of plant-derived aromatic mixtures by Rhodopseudomonas palustris. Biodegradation. PMID 33675449 DOI: 10.1007/s10532-021-09932-3  0.515
2021 Perez JM, Kontur WS, Gehl C, Gille DM, Ma Y, Niles AV, Umana G, Donohue TJ, Noguera DR. Redundancy in aromatic O-demethylation and ring opening reactions in and their impact in the metabolism of plant derived phenolics. Applied and Environmental Microbiology. PMID 33579679 DOI: 10.1128/AEM.02794-20  0.559
2020 Scarborough MJ, Hamilton JJ, Erb EA, Donohue TJ, Noguera DR. Diagnosing and Predicting Mixed-Culture Fermentations with Unicellular and Guild-Based Metabolic Models. Msystems. 5. PMID 32994290 DOI: 10.1128/mSystems.00755-20  0.561
2020 Myers KS, Vera JM, Lemmer KC, Linz AM, Landick R, Noguera DR, Donohue TJ. Genome-Wide Identification of Transcription Start Sites in Two , Rhodobacter sphaeroides 2.4.1 and Novosphingobium aromaticivorans DSM 12444. Microbiology Resource Announcements. 9. PMID 32883797 DOI: 10.1128/MRA.00880-20  0.472
2020 Myers KS, Place M, Noguera DR, Donohue TJ. COnTORT: COmprehensive Transcriptomic ORganizational Tool for Simultaneously Retrieving and Organizing Numerous Gene Expression Data Sets from the NCBI Gene Expression Omnibus Database. Microbiology Resource Announcements. 9. PMID 32554783 DOI: 10.1128/MRA.00587-20  0.446
2020 Lemmer KC, Alberge F, Myers KS, Dohnalkova AC, Schaub RE, Lenz JD, Imam S, Dillard JP, Noguera DR, Donohue TJ. The NtrYX Two-Component System Regulates the Bacterial Cell Envelope. Mbio. 11. PMID 32430476 DOI: 10.1128/Mbio.00957-20  0.485
2019 Oshlag JZ, Ma Y, Morse K, Burger BT, Lemke RA, Karlen SD, Myers KS, Donohue TJ, Noguera DR. Anaerobic degradation of syringic acid by an adapted strain of . Applied and Environmental Microbiology. PMID 31732577 DOI: 10.1128/Aem.01888-19  0.575
2019 Scarborough MJ, Myers KS, Donohue TJ, Noguera DR. Medium-chain fatty acid synthesis by Weimeria bifida, gen. nov., sp. nov., and Pseudoramibacter fermentans, sp. nov. Applied and Environmental Microbiology. PMID 31704684 DOI: 10.1128/Aem.02242-19  0.571
2019 Perez JM, Kontur WS, Alherech M, Coplien J, Karlen SD, Stahl SS, Donohue TJ, Noguera DR. Funneling aromatic products of chemically depolymerized lignin into 2-pyrone-4-6-dicarboxylic acid with Novosphingobium aromaticivorans Green Chemistry. 21: 1340-1350. DOI: 10.1039/C8Gc03504K  0.507
2018 Kontur WS, Olmsted CN, Yusko LM, Niles AV, Walters KA, Beebe ET, Vander Meulen KA, Karlen SD, Gall DL, Noguera DR, Donohue TJ. A heterodimeric glutathione S-transferase that stereospecifically breaks lignin's β()-aryl ether bond reveals the diversity of bacterial β-etherases. The Journal of Biological Chemistry. PMID 30541921 DOI: 10.1074/Jbc.Ra118.006548  0.473
2018 Scarborough MJ, Lawson CE, Hamilton JJ, Donohue TJ, Noguera DR. Metatranscriptomic and Thermodynamic Insights into Medium-Chain Fatty Acid Production Using an Anaerobic Microbiome. Msystems. 3. PMID 30505946 DOI: 10.1128/mSystems.00221-18  0.591
2018 Scarborough MJ, Lynch G, Dickson M, McGee M, Donohue TJ, Noguera DR. Increasing the economic value of lignocellulosic stillage through medium-chain fatty acid production. Biotechnology For Biofuels. 11: 200. PMID 30034526 DOI: 10.1186/S13068-018-1193-X  0.509
2018 Kontur WS, Bingman CA, Olmsted CN, Wassarman DR, Ulbrich A, Gall DL, Smith RW, Yusko LM, Fox BG, Noguera DR, Coon JJ, Donohue TJ. uses a Nu-class glutathione-S-transferase as a glutathione lyase in breaking the β-aryl ether bond of lignin. The Journal of Biological Chemistry. PMID 29449375 DOI: 10.1074/Jbc.Ra117.001268  0.464
2017 Gall DL, Kontur WS, Lan W, Kim H, Li Y, Ralph J, Donohue TJ, Noguera DR. In vitro enzymatic depolymerization of lignin with release of syringyl, guaiacyl, and tricin units. Applied and Environmental Microbiology. PMID 29180366 DOI: 10.1128/Aem.02076-17  0.525
2017 Burger BT, Imam S, Scarborough MJ, Noguera DR, Donohue TJ. Combining Genome-Scale Experimental and Computational Methods To Identify Essential Genes in Rhodobacter sphaeroides. Msystems. 2. PMID 28744485 DOI: 10.1128/mSystems.00015-17  0.518
2017 Lemmer KC, Zhang W, Langer SJ, Dohnalkova AC, Hu D, Lemke RA, Piotrowski JS, Orr G, Noguera DR, Donohue TJ. Mutations That Alter the Bacterial Cell Envelope Increase Lipid Production. Mbio. 8. PMID 28536286 DOI: 10.1128/Mbio.00513-17  0.504
2017 Gall DL, Ralph J, Donohue TJ, Noguera DR. Biochemical transformation of lignin for deriving valued commodities from lignocellulose. Current Opinion in Biotechnology. 45: 120-126. PMID 28346893 DOI: 10.1016/J.Copbio.2017.02.015  0.489
2016 Pereira JH, Heins RA, Gall DL, McAndrew RP, Deng K, Holland KC, Donohue TJ, Noguera DR, Simmons BA, Sale KL, Ralph J, Adams PD. Structural and Biochemical Characterization of the Early and Late Enzymes in the Lignin β-aryl Ether Cleavage Pathway from Sphingobium sp SYK-6. The Journal of Biological Chemistry. PMID 26940872 DOI: 10.1074/Jbc.M115.700427  0.535
2015 Helmich KE, Pereira JH, Gall DL, Heins RA, McAndrew RP, Bingman CA, Deng K, Holland KC, Noguera DR, Simmons BA, Sale KL, Ralph J, Donohue TJ, Adams PD, Phillips GN. Structural basis of stereospecificity in the bacterial enzymatic cleavage of β-aryl ether bonds in lignin. The Journal of Biological Chemistry. PMID 26637355 DOI: 10.1074/Jbc.M115.694307  0.514
2015 Oyserman BO, Noguera DR, Del Rio TG, Tringe SG, McMahon KD. Metatranscriptomic insights on gene expression and regulatory controls in Candidatus Accumulibacter phosphatis. The Isme Journal. PMID 26555245 DOI: 10.1038/Ismej.2015.155  0.303
2015 Austin S, Kontur WS, Ulbrich A, Oshlag JZ, Zhang W, Higbee A, Zhang Y, Coon JJ, Hodge DB, Donohue TJ, Noguera DR. Metabolism of multiple aromatic compounds in corn stover hydrolysate by Rhodopseudomonas palustris. Environmental Science & Technology. PMID 26121369 DOI: 10.1021/Acs.Est.5B02062  0.53
2015 Lemmer KC, Dohnalkova AC, Noguera DR, Donohue TJ. Oxygen-dependent regulation of bacterial lipid production. Journal of Bacteriology. 197: 1649-58. PMID 25733615 DOI: 10.1128/Jb.02510-14  0.488
2015 Imam S, Noguera DR, Donohue TJ. An integrated approach to reconstructing genome-scale transcriptional regulatory networks. Plos Computational Biology. 11: e1004103. PMID 25723545 DOI: 10.1371/Journal.Pcbi.1004103  0.504
2015 Imam S, Noguera DR, Donohue TJ. CceR and AkgR regulate central carbon and energy metabolism in alphaproteobacteria. Mbio. 6. PMID 25650399 DOI: 10.1128/Mbio.02461-14  0.533
2015 Imam S, Fitzgerald CM, Cook EM, Donohue TJ, Noguera DR. Quantifying the effects of light intensity on bioproduction and maintenance energy during photosynthetic growth of Rhodobacter sphaeroides. Photosynthesis Research. 123: 167-82. PMID 25428581 DOI: 10.1007/S11120-014-0061-1  0.47
2015 Zhang W, Lemmer KC, Donohue TJ, Noguera DR. Maximizing fatty acid production by Rhodobacter sphaeroides grown on corn stover hydrolysate Proceedings of the Water Environment Federation. 2015: 1-5. DOI: 10.2175/193864715819558884  0.489
2014 Imam S, Noguera DR, Donohue TJ. Global analysis of photosynthesis transcriptional regulatory networks. Plos Genetics. 10: e1004837. PMID 25503406 DOI: 10.1371/Journal.Pgen.1004837  0.512
2014 Gall DL, Ralph J, Donohue TJ, Noguera DR. A group of sequence-related sphingomonad enzymes catalyzes cleavage of β-aryl ether linkages in lignin β-guaiacyl and β-syringyl ether dimers. Environmental Science & Technology. 48: 12454-63. PMID 25232892 DOI: 10.1021/Es503886D  0.465
2014 Gall DL, Kim H, Lu F, Donohue TJ, Noguera DR, Ralph J. Stereochemical features of glutathione-dependent enzymes in the Sphingobium sp. strain SYK-6 β-aryl etherase pathway. The Journal of Biological Chemistry. 289: 8656-67. PMID 24509858 DOI: 10.1074/Jbc.M113.536250  0.467
2013 Imam S, Noguera DR, Donohue TJ. Global insights into energetic and metabolic networks in Rhodobacter sphaeroides. Bmc Systems Biology. 7: 89. PMID 24034347 DOI: 10.1186/1752-0509-7-89  0.553
2013 Gall DL, Ralph J, Donohue TJ, Noguera DR. Benzoyl coenzyme a pathway-mediated metabolism of meta-hydroxy-aromatic acids in Rhodopseudomonas palustris. Journal of Bacteriology. 195: 4112-20. PMID 23852864 DOI: 10.1128/Jb.00634-13  0.545
2012 Kontur WS, Schackwitz WS, Ivanova N, Martin J, Labutti K, Deshpande S, Tice HN, Pennacchio C, Sodergren E, Weinstock GM, Noguera DR, Donohue TJ. Revised sequence and annotation of the Rhodobacter sphaeroides 2.4.1 genome. Journal of Bacteriology. 194: 7016-7. PMID 23209255 DOI: 10.1128/Jb.01214-12  0.42
2012 Kontur WS, Noguera DR, Donohue TJ. Maximizing reductant flow into microbial H2 production. Current Opinion in Biotechnology. 23: 382-9. PMID 22036711 DOI: 10.1016/J.Copbio.2011.10.003  0.5
2011 Kontur WS, Ziegelhoffer EC, Spero MA, Imam S, Noguera DR, Donohue TJ. Pathways involved in reductant distribution during photobiological H(2) production by Rhodobacter sphaeroides. Applied and Environmental Microbiology. 77: 7425-9. PMID 21856820 DOI: 10.1128/Aem.05273-11  0.498
2011 Imam S, Yilmaz S, Sohmen U, Gorzalski AS, Reed JL, Noguera DR, Donohue TJ. iRsp1095: a genome-scale reconstruction of the Rhodobacter sphaeroides metabolic network. Bmc Systems Biology. 5: 116. PMID 21777427 DOI: 10.1186/1752-0509-5-116  0.562
2010 Yilmaz LS, Kontur WS, Sanders AP, Sohmen U, Donohue TJ, Noguera DR. Electron partitioning during light- and nutrient-powered hydrogen production by Rhodobacter sphaeroides Bioenergy Research. 3: 55-66. DOI: 10.1007/S12155-009-9072-8  0.462
2008 Cho YK, Donohue TJ, Tejedor I, Anderson MA, McMahon KD, Noguera DR. Development of a solar-powered microbial fuel cell. Journal of Applied Microbiology. 104: 640-50. PMID 17927750 DOI: 10.1111/J.1365-2672.2007.03580.X  0.433
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