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Published manuscripts
  • Cotto, I, Dai, Z, Huo, L, Anderson, C.L, Vilardi, K.J., Ijaz, U.Z., Khunjar, W, Wilson, C., De Clippeleir, H., Gilmore, K., Bailey, E., Pinto, A.J (2019) Long solids retention times and attached growth phase favor prevalence of comammox bacteria in nitrogen removal systems. biorxiv Pre-Print. DOI:10.1101/696351.
  • Sevillano, M.C., Dai, Z., Calus, S.T., Bautista de los Santos, Q.M., Eren, A.M., Ijaz, U.I., van der Wielen, P., and Pinto.A.J. (2019). Disinfectant residuals in drinking water systems select for mycobacterial populations with intrinsic antimicrobial resistance. biorxiv Pre-print. DOI: 10.1101/675561
  • Potgieter, S.C., Pinto, A.J., Havenga, M., Sigudu, M., Venter, S.N. (2019) Reproducible microbial community dynamics of two drinking water systems treating similar source water. biorxiv Pre-Print. DOI: 10.1101/678920.
  • Potgieter, S.C., Dai, Z., Venter, S.N., Sigudu, M., and Pinto, A.J. (2019) Microbial nitrogen metabolism in chloraminated drinking water reservoirs. biorxiv Pre-Print. DOI: 10.1101/655316.
  • Chen, L. Pinto, A.J., Alshawabkeh, A.N. (2019) Activated carbon as a cathode for water disinfection through the Electro-Fenton process.  Catalysts. Vol 9(7): 601. DOI:10.3390/catal9070601
  • Kiristis, M.J., Emelko, M. and Pinto, A.J. (2019) Applying biotechnology for drinking water biofiltration: advancing science and practice". Current Opinions in Biotechnology. DOI: 10.1016/j.copbio.2019.05.009 
  • Hull, N. M.; Ling, F.; Pinto, A. J.; Albertsen, M.; Jang, H. G.; Hong, P.-Y.; Konstantinidis, K. T.; LeChevallier, M.; Colwell, R. R.; Liu, W.-T., (2019) "Drinking Water Microbiome Project: Is it Time?" Trends in Microbiology. DOI:10.1016/j.tim.2019.03.011
  • Srinivasan, V. N., Li, G., Wang, D., Tooker, N. B., Dai, Z., Onnis-Hayden, A., .Pinto, A.J., Gu, A. Z. (2019). "Oligotyping and Genome-Resolved Metagenomics Reveal Distinct Candidatus Accumulibacter Communities in Full-Scale Side-Stream versus Conventional Enhanced Biological Phosphorus Removal (EBPR) Configurations." bioRxiv, 596692. DOI:10.1101/596692
  • Bradley, I., Sevillano-Rivera, M., Pinto, A.J., and Guest, J.S. (2019) “Impact of solids residence time on community structure and nutrient dynamics of mixed phototrophic wastewater treatment systems.” Water Research. Vol 150 (1), 271-282. DOI: 10.1016/j.watres.2018.11.065
  • Fedders, A.C., DeBellis, J.L., Bradley, I.M., Sevillano-Rivera, M.C., Pinto, A.J., and Guest, J.S. (2018) “Comparable nutrient uptake across diel cycles by three phototrophic communities”. Environmental Science and Technology. DOI: 10.1021/acs.est.8b05874
  • Calus, S.T., Ijaz, U.I, and Pinto, A.J. (2018) “NanoAmpli-Seq: A workflow for amplicon sequencing from mixed microbial communities on the nanopore sequencing platform”. Gigascience. Vol 7(12). DOI: 10.1093/gigascience/giy160
  • Potgieter, S., Pinto, A.J., Sigudu, M., du Preez , H., Ncube, E, Venter, S. (2018) “Long-term spatial and temporal microbial community dynamics in a large-scale drinking water distribution system with multiple disinfectant regimes.” Water Research. DOI: 10.1016/j.watres.2018.03.077
  • De Vriese, J., Pinto, A.J., Sloan, W.T., and Ijaz, U.I. (2018) “The active microbial community more accurately reflects the anaerobic digestion process: 16S rRNA (gene) sequencing as a predictive tool”. Microbiome. Vol 6: 63. DOI:10.1186/s40168-018-0449-9
  • Liu, G., Zhang, U., van der Mark, E., Knezev, A., Pinto, A.J., van den Bogert, B., Liu, W.T., van der Meer, W., and Medema, G. (2018) “Assessing the origin of bacteria in tap water and distribution system in an unchlorinated drinking water system by SourceTracker using microbial community fingerprints”. Water Research. Vol 138, 86-96. DOI: 10.1016/j.watres.2018.03.043
  • Chao, L., Olivares, C., Pinto, A.J., Lauderdale, C., Brown, J., Selbes, M., and Karanfil, T., (2017) "The control of disinfection by-products and their precursors in biologically active filtration processes". Water Research. Vol 124, 630-653. DOI: 10.1016/j.watres.2017.07.080
  • Chia-Chen, W., Ghosh, S., Martin, K., Pinto, A.J., Denef, V.J., Olson, T.M., and Love, N.G. (2017) “The microbial colonization of activated carbon block point-of-use (PoU) filters with and without chlorinated phenol disinfection byproducts”. Environmental Science: Water Research and Technology . DOI: 10.1039/C7EW00134G
  • Sismaet, H.J., Pinto, A.J., and Goluch, E.D. (2017) “Electrochemical sensors for identifying pyocyanin production in clinical Pseudomonas aeruginosa isolates. Biosensors and Bioelectronics. Vol 97, 65-69. DOI: 10.1016/j.bios.2017.05.042
  • Marcus, D.N, Pinto, A.J., Anantharaman, K, Ruberg, S., Kramer, E., Raskin, L., and Dick, G. (2017) “Diverse manganese (II)-oxidizing bacteria are prevalent in drinking water”. Environmental Microbiology Reports. Vol 9, 120-128. DOI: 10.1111/1758-2229.12508
  • Bradley, I., Pinto, A.J., and Guest, J.S. (2016) “Design and evaluation of Illumina MiSeq compatible 18S rRNA primers for improved characterization of mixed phototrophic communities.”. Applied and Environmental Microbiology, Vol 82, 5878-5891. DOI: 10.1128/AEM.01630-16
  • Bautista, Q.M., Schroeder, J., Sevillano, M.C.R, Sungthong, R., Ijaz, U., Sloan, W.T., and Pinto, A.J. (2016) “Drinking water microbial communities across disinfection strategies – a meta-analysis”. Environmental Science: Water Research and Technology. Vol. 2, 631-644. DOI: 10.1039/C6EW00030D 
  • Clancy, T.M., Smith, A., Reddy, R., Pinto, A.J., Hayes, K., and Raskin, L. (2016) “Anaerobic microbial community response to methanogenic inhibitors 2-bromoethanosulfonate and propionic acid”. Microbiology Open. DOI: 10.1002/mbo3.349
  • Pinto A.J., Sharp, J.O., Yoder, M.J., and Almstrand, R. (2016): “Draft genome of two novel Acidimicrobiaceae from an acid mine drainage biofilm metagenome.” Genome Announcements, Vol. 4, pp. e01563-15. DOI: 10.1128/genomeA.01563-15.
  • Almstrand, R., Pinto, A.J., Figueroa, L.A., and Sharp, J.O. (2016): “Draft genome of a novel Desulfobacteraceae member from a sulfate-reducing bioreactor metagenome”. Genome Announcements, Vol. 4, pp. e01540-15. DOI: 10.1128/genomeA.01540-15.
  • Bautista, Q.M, Blakemore, O., Schroeder, J., Moses, J., Haffey, M., Sloan, W., and Pinto, A.J. (2016): “The impact of sampling, PCR, and sequencing replication on discerning changes in drinking water bacterial community over diurnal time-scales”. Water Research, Vol. 90, pp 216-224. DOI: 10.1016/j.watres.2015.12.010.
  • Pinto, A.J., Marcus, D.N., Ijaz, U.Z., Bautista, Q.M., Dick, G.J. and Raskin, L. (2015): “Metagenomic evidence for the presence of comammox Nitrospira-like bacteria in a drinking water system” mSphere J, Vol. 1, pp. e00054-15. DOI: 10.1128/mSphere.00051-15. (Note: Featured in Science Magazine, DOI: 10.1126/science.aad9839)
  • Schroeder, J., Lunn, M., Pinto, A.J., Raskin, L., and Sloan, W.T. (2015): “Probabilistic models to describe the dynamics of  migrating microbial communities”. PLoS One, Vol. 10, pp. e0117221. DOI: 10.1371/journal.pone.0117221.
  • Pinto, A.J., Schroeder, J., Lunn, M., Sloan, W.T., and Raskin, L. (2014): “Spatial-temporal survey and occupancy-abundance modeling to predict bacteria community dynamics in the drinking water microbiome”. mBio J, Vol. 5, pp. e01135-14. DOI: 10.1128/mBio.01135-14.
  • Chiao, T.C., Clancy, T., Pinto, A.J., Xi, C., and Raskin, L. (2014): “Differential resistance of drinking water bacterial populations to monochloramine disinfection,” Environmental Science & Technology, Vol. 48, pp 4038-4047.  DOI: 10.1021/es4055725.
  • Pinto, A.J. and Raskin, L. (2012): “PCR biases distort bacterial and archaeal community structure in pyrosequencing datasets” PLoS One, Vol. 7,  pp e43093. DOI: 10.1371/journal.pone.0043093. (Note: Recommended article by F1000 Prime. DOI: 10.3410/f.718417056.393498737)
  • Pinto, A.J., Xi, C., and Raskin, L. (2012): “Bacterial community structure in the drinking water microbiome is governed by filtration processes”  Environmental Science & Technology, Vol. 46, pp 8851-8859.   DOI: 10.1021/es302042t. (Note: Press release issued by American Chemical Society and featured in The Scientist and The New Scientist magazines).
  • Pinto, A.J., and Love, N.G. (2012): “Bioreactor function under perturbation scenarios is affected by interactions between bacteria and protozoa”  Environmental Science & Technology, Vol. 45, pp 7558-7566. DOI: 10.1021/es301220f.
  • Pinto, A.J., Guest, J., Love, N., Shaw, A., Fairey, A., Iler, P., Earle, J., Shellenbarger, D., Barker, D (2007): “Testing corrective action strategies to mitigate the impact of toxic shock events in activated sludge systems” Water Practice, Vol. 1, pp. 1-11. DOI: 10.2175/193317707X256973.
Technical reports
  • Zhang, Y., Edwards, M., Pinto, A.J., Love, N., Camper, A., Rahman, M., and Baribeau, H. (2010) Effect of Nitrification on Corrosion in the Distribution System. American Water Research Foundation.
  • T2.  Love, N.G., Pinto A.J., Guest, J.S., Hardin S.C., and Shaw, A. (2009) Determining and Assessing Corrective Action strategies for Treatment Plants Exposed to Chemical Toxins. Water Environment Research Foundation. Project number: 04-CTS-11S