Daniel R. Noguera - Publications

Affiliations: 
University of Wisconsin, Madison, Madison, WI 
Area:
Environmental Engineering, Microbiology Biology, Biochemistry

51 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
2017 Keene NA, Reusser SR, Scarborough MJ, Grooms AL, Seib M, Santo Domingo J, Noguera DR. Pilot plant demonstration of stable and efficient high rate biological nutrient removal with low dissolved oxygen conditions. Water Research. 121: 72-85. PMID 28521237 DOI: 10.1016/j.watres.2017.05.029  0.72
2016 Wei L, Li Y, Noguera DR, Zhao N, Song Y, Ding J, Zhao Q, Cui F. Adsorption of Cu(2+) and Zn(2+) by extracellular polymeric substances (EPS) in different sludges: Effect of EPS fractional polarity on binding mechanism. Journal of Hazardous Materials. 321: 473-483. PMID 27669389 DOI: 10.1016/j.jhazmat.2016.05.016  1
2016 Wei L, Wang K, Noguera DR, Jiang J, Oyserman B, Zhao N, Zhao Q, Cui F. Transformation and speciation of typical heavy metals in soil aquifer treatment system during long time recharging with secondary effluent: Depth distribution and combination. Chemosphere. 165: 100-109. PMID 27639465 DOI: 10.1016/j.chemosphere.2016.09.027  1
2016 Camejo PY, Owen BR, Martirano J, Ma J, Kapoor V, Santo Domingo J, McMahon KD, Noguera DR. Candidatus Accumulibacter phosphatis clades enriched under cyclic anaerobic and microaerobic conditions simultaneously use different electron acceptors. Water Research. 102: 125-137. PMID 27340814 DOI: 10.1016/j.watres.2016.06.033  1
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  1
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  1
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  1
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  1
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  1
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  1
2015 Fitzgerald CM, Camejo P, Oshlag JZ, Noguera DR. Ammonia-oxidizing microbial communities in reactors with efficient nitrification at low-dissolved oxygen. Water Research. 70: 38-51. PMID 25506762 DOI: 10.1016/j.watres.2014.11.041  1
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  1
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  1
2014 Noguera DR, Wright ES, Camejo P, Yilmaz LS. Mathematical tools to optimize the design of oligonucleotide probes and primers. Applied Microbiology and Biotechnology. 98: 9595-608. PMID 25359473 DOI: 10.1007/s00253-014-6165-x  1
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  1
2014 Wright ES, Yilmaz LS, Corcoran AM, Ökten HE, Noguera DR. Automated design of probes for rRNA-targeted fluorescence in situ hybridization reveals the advantages of using dual probes for accurate identification. Applied and Environmental Microbiology. 80: 5124-33. PMID 24928876 DOI: 10.1128/AEM.01685-14  1
2014 Wright ES, Yilmaz LS, Ram S, Gasser JM, Harrington GW, Noguera DR. Exploiting extension bias in polymerase chain reaction to improve primer specificity in ensembles of nearly identical DNA templates. Environmental Microbiology. 16: 1354-65. PMID 24750536 DOI: 10.1111/1462-2920.12259  1
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  1
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  1
2013 Jin M, Bothfeld W, Austin S, Sato TK, La Reau A, Li H, Foston M, Gunawan C, LeDuc RD, Quensen JF, McGee M, Uppugundla N, Higbee A, Ranatunga R, Donald CW, ... ... Noguera DR, et al. Effect of storage conditions on the stability and fermentability of enzymatic lignocellulosic hydrolysate. Bioresource Technology. 147: 212-20. PMID 23999256 DOI: 10.1016/j.biortech.2013.08.018  1
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  1
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  1
2012 Yilmaz LS, Loy A, Wright ES, Wagner M, Noguera DR. Modeling formamide denaturation of probe-target hybrids for improved microarray probe design in microbial diagnostics. Plos One. 7: e43862. PMID 22952791 DOI: 10.1371/journal.pone.0043862  1
2012 Okten HE, Yilmaz LS, Noguera DR. Exploring the in situ accessibility of small subunit ribosomal RNA of members of the domains Bacteria and Eukarya to oligonucleotide probes. Systematic and Applied Microbiology. 35: 485-95. PMID 22264799 DOI: 10.1016/j.syapm.2011.11.001  1
2012 Wright ES, Yilmaz LS, Noguera DR. DECIPHER, a search-based approach to chimera identification for 16S rRNA sequences. Applied and Environmental Microbiology. 78: 717-25. PMID 22101057 DOI: 10.1128/AEM.06516-11  1
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  1
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  1
2011 Yilmaz LS, Parnerkar S, Noguera DR. mathFISH, a web tool that uses thermodynamics-based mathematical models for in silico evaluation of oligonucleotide probes for fluorescence in situ hybridization. Applied and Environmental Microbiology. 77: 1118-22. PMID 21148691 DOI: 10.1128/AEM.01733-10  1
2009 Flowers JJ, He S, Yilmaz S, Noguera DR, McMahon KD. Denitrification capabilities of two biological phosphorus removal sludges dominated by different "Candidatus Accumulibacter" clades. Environmental Microbiology Reports. 1: 583-588. PMID 20808723 DOI: 10.1111/j.1758-2229.2009.00090.x  1
2009 Pérez-Roa RE, Anderson MA, Rittschof D, Hunt CG, Noguera DR. Involvement of reactive oxygen species in the electrochemical inhibition of barnacle (Amphibalanus amphitrite) settlement. Biofouling. 25: 563-71. PMID 19449240 DOI: 10.1080/08927010902995564  1
2008 Park HD, Noguera DR. Nitrospira community composition in nitrifying reactors operated with two different dissolved oxygen levels. Journal of Microbiology and Biotechnology. 18: 1470-4. PMID 18756110  1
2008 Yilmaz LS, Bergsven LI, Noguera DR. Systematic evaluation of single mismatch stability predictors for fluorescence in situ hybridization. Environmental Microbiology. 10: 2872-85. PMID 18707615 DOI: 10.1111/j.1462-2920.2008.01719.x  1
2008 Hoshino T, Yilmaz LS, Noguera DR, Daims H, Wagner M. Quantification of target molecules needed to detect microorganisms by fluorescence in situ hybridization (FISH) and catalyzed reporter deposition-FISH. Applied and Environmental Microbiology. 74: 5068-77. PMID 18552182 DOI: 10.1128/AEM.00208-08  1
2008 Pérez-Roa RE, Anderson MA, Rittschof D, Orihuela B, Wendt D, Kowalke GL, Noguera DR. Inhibition of barnacle (Amphibalanus amphitrite) cyprid settlement by means of localized, pulsed electric fields. Biofouling. 24: 177-84. PMID 18348008 DOI: 10.1080/08927010801975725  1
2007 Park HD, Noguera DR. Characterization of two ammonia-oxidizing bacteria isolated from reactors operated with low dissolved oxygen concentrations. Journal of Applied Microbiology. 102: 1401-17. PMID 17448175 DOI: 10.1111/j.1365-2672.2006.03176.x  1
2007 Yilmaz LS, Noguera DR. Development of thermodynamic models for simulating probe dissociation profiles in fluorescence in situ hybridization. Biotechnology and Bioengineering. 96: 349-63. PMID 16878331 DOI: 10.1002/bit.21114  1
2006 Park HD, Whang LM, Reusser SR, Noguera DR. Taking advantage of aerated-anoxic operation in a full-scale University of Cape Town process. Water Environment Research : a Research Publication of the Water Environment Federation. 78: 637-42. PMID 16894988 DOI: 10.2175/106143006X99786  1
2006 Maixner F, Noguera DR, Anneser B, Stoecker K, Wegl G, Wagner M, Daims H. Nitrite concentration influences the population structure of Nitrospira-like bacteria. Environmental Microbiology. 8: 1487-95. PMID 16872410 DOI: 10.1111/j.1462-2920.2006.01033.x  0.32
2006 Perez-Feito R, Peccia J, Noguera DR. Comparison between direct microscopy and flow cytometry for rRNA-based quantification of Candidatus Accumulibacter phosphatis in activated sludge. Water Environment Research : a Research Publication of the Water Environment Federation. 78: 181-8. PMID 16566525  0.52
2006 Yilmaz LS, Okten HE, Noguera DR. Making all parts of the 16S rRNA of Escherichia coli accessible in situ to single DNA oligonucleotides. Applied and Environmental Microbiology. 72: 733-44. PMID 16391113 DOI: 10.1128/AEM.72.1.733-744.2006  1
2004 Yilmaz LS, Noguera DR. Mechanistic approach to the problem of hybridization efficiency in fluorescent in situ hybridization. Applied and Environmental Microbiology. 70: 7126-39. PMID 15574909 DOI: 10.1128/AEM.70.12.7126-7139.2004  1
2004 Morgenroth E, Eberl HJ, van Loosdrecht MC, Noguera DR, Pizarro GE, Picioreanu C, Rittmann BE, Schwarz AO, Wanner O. Comparing biofilm models for a single species biofilm system. Water Science and Technology : a Journal of the International Association On Water Pollution Research. 49: 145-54. PMID 15303735  1
2004 Park HD, Noguera DR. Evaluating the effect of dissolved oxygen on ammonia-oxidizing bacterial communities in activated sludge. Water Research. 38: 3275-86. PMID 15276744 DOI: 10.1016/j.watres.2004.04.047  1
2003 Regan JM, Oldenburg PS, Park HD, Harrington GW, Noguera DR. Simultaneous determination of bacterial viability and identity in biofilms using ethidium monoazide and fluorescent in situ hybridization. Water Science and Technology : a Journal of the International Association On Water Pollution Research. 47: 123-8. PMID 12701916  1
2003 Regan JM, Harrington GW, Baribeau H, De Leon R, Noguera DR. Diversity of nitrifying bacteria in full-scale chloraminated distribution systems. Water Research. 37: 197-205. PMID 12465801  0.52
2002 Zilles JL, Peccia J, Noguera DR. Microbiology of enhanced biological phosphorus removal in aerated-anoxic Orbal processes. Water Environment Research : a Research Publication of the Water Environment Federation. 74: 428-36. PMID 12469947  0.76
2002 Hung CH, Peccia J, Zilles JL, Noguera DR. Physical enrichment of polyphosphate-accumulating organisms in activated sludge. Water Environment Research : a Research Publication of the Water Environment Federation. 74: 354-61. PMID 12413136  0.76
2002 Park HD, Regan JM, Noguera DR. Molecular analysis of ammonia-oxidizing bacterial populations in aerated-anoxic orbal processes. Water Science and Technology : a Journal of the International Association On Water Pollution Research. 46: 273-80. PMID 12216636  1
2002 Zilles JL, Hung CH, Noguera DR. Presence of Rhodocyclus in a full-scale wastewater treatment plant and their participation in enhanced biological phosphorus removal. Water Science and Technology : a Journal of the International Association On Water Pollution Research. 46: 123-8. PMID 12216613  0.76
2002 Zilles JL, Peccia J, Kim MW, Hung CH, Noguera DR. Involvement of Rhodocyclus-related organisms in phosphorus removal in full-scale wastewater treatment plants. Applied and Environmental Microbiology. 68: 2763-9. PMID 12039731  0.76
2002 Regan JM, Harrington GW, Noguera DR. Ammonia- and nitrite-oxidizing bacterial communities in a pilot-scale chloraminated drinking water distribution system. Applied and Environmental Microbiology. 68: 73-81. PMID 11772611  0.52
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