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United States Department of Agriculture

Agricultural Research Service

Research Project: Pathogen Fate and Transport in Irrigation Waters

Location: Environmental Microbial and Food Safety Laboratory

Publications (Clicking on the reprint icon Reprint Icon will take you to the publication reprint.)

Comparison of microbial quality of irrigation water delivered in aluminum and PVC pipes - (Peer Reviewed Journal)
Shelton, D.R., Kiefer, L., Pachepsky, Y.A., Martinez, G., Mccarty, G.W., Dao, T.H. 2013. Comparison of microbial quality of irrigation water delivered in aluminum and PVC pipes. Agricultural Water Management. 129:145–151.
Coliform retention and release in biofilms formed on new and weathered irrigation pipes - (Peer Reviewed Journal)
Kiefer, L., Shelton, D.R., Pachepsky, Y.A., Blaustein, R.A., Martinez, G. 2012. Coliform retention and release in biofilms formed on new and weathered irrigation pipes. Irrigation Science. 31(5):971-981.
Evaluating manure release parameters for nonpoint contaminant transport model KINEROS2/STWIR     Reprint Icon - (Peer Reviewed Journal)
Guber, A., Pachepsky, Y.A., Dao, T.H., Shelton, D.R., Sadeghi, A.M. 2013. Evaluating manure release parameters for nonpoint contaminant transport model KINEROS2/STWIR. Ecological Modeling. 263:126-138.
E. coli survival in waters: temperature dependence     Reprint Icon - (Peer Reviewed Journal)
Blaustein, R., Pachepsky, Y.A., Hill, R., Shelton, D.R., Whelan, G. 2013. E. coli survival in waters: temperature dependence. Water Research. 47:569-578.
Comparing dependencies of E. coli, Salmonella, and Enterococci survival on temperature in surface waters - (Abstract Only)
Blaustein, R.A., Pachepsky, Y.A., Hill, R., Whelan, G., Shelton, D.R. 2013. Comparing dependencies of E. coli, Salmonella, and Enterococci survival on temperature in surface waters. BARC Poster Day.
Developing new bacteria subroutines in the SWAT model - (Abstract Only)
(04-Mar-13)
Using the Q10 model to simulate the E. coli survival in cowpats on grazing lands     Reprint Icon - (Peer Reviewed Journal)
Martinez, G., Pachepsky, Y.A., Shelton, D.R., Whelan, G., Zepp, R., Molina, M., Panhosrt, K. 2013. Using the Q10 model to simulate the E. coli survival in cowpats on grazing lands. Environment International. 54:1-10.
Integrating model abstraction into monitoring strategies - (Government Publication)
(20-Feb-13)
Modeling transport of Escherichia coli in a creek during and after artificial high-flow events: Three year study and analysis     Reprint Icon - (Peer Reviewed Journal)
Yakirevich, A., Pachepsky, Y.A., Gish, T.J., Guber, A., Shelton, D.R., Cho, K. 2013. Modeling transport of Escherichia coli in a creek during and after artificial high-flow events: Three year study and analysis. Water Research. DOI: 10.1016/j.watres.2013.02.011.
Temporal stability of soil water content as affected by climate: a simulation study - (Peer Reviewed Journal)
Martinez, G., Pachepsky, Y.A., Vereecken, H. 2013. Temporal stability of soil water content as affected by climate: a simulation study. Hydrological Processes. DOI: 10.1002/hyp9737.
Ssda Code to Apply Data Assimilation in Soil Water Flow Modeling: documentation and User Manual - (Government Publication)
Martinez, G., Feng, P., Pachepsky, Y.A. 2013. SSDA code to apply data assimilation in soil water flow modeling: Documentation and user manual. Software and User Manual Public Release. Available: http://www.ars.usda.gov/research/docs.htm?docid=23018.
On the effect of soil hydraulic properties on the relationship between spatial variation and spatial mean of soil water contents - (Abstract Only)
Martinez, G., Pachepsky, Y.A., Vereecken, H. 2013. On the effect of soil hydraulic properties on the relationship between spatial variation and spatial mean of soil water contents. [abstract] European Geophysical Society; American Geophysical Union; European Union of Geosciences. Vol 15.
Simulation of local controls on the temporal stability of soil water content     Reprint Icon - (Peer Reviewed Journal)
Martinez, G., Pachepsky, Y.A., Vereecken, H., Hardelauf, H., Herbst, M., Vanderlilnden, K. 2013. Simulation of local controls on the temporal stability of soil water content. Journal of Hydrology. 481:106-118.
Survival and release of animal waste-borne E. Coli in field conditions - (Abstract Only)
Martinez, G., Pachepsky, Y.A., Shelton, D.R., Whelan, G., Molina, M., Zepp, R., Jeong, J., Williams, J. 2012. Survival and release of animal waste-borne E. Coli in field conditions. [abstract]. Paper No. 83-2.
The arrhenius equation as means to simulate E. Coli survival in waters - (Abstract Only)
Blaustein, R., Pachepsky, Y.A., Hill Robert, Whelan, G., Molina, M., Zepp, R., Sadeghi, A.M. 2012. The arrhenius equation as means to simulate E. Coli survival in waters. [abstract]. Paper No. 357-3.
Modeling E. Coli release and transport in a creek during artificial high-flow events - (Abstract Only)
Yakirevich, A., Pachepsky, Y.A., Gish, T.J., Gho, K., Kuznetsov, M. 2012. Modeling E. Coli release and transport in a creek during artificial high-flow events. [abstract].
How can climate, soil, and monitoring schedule affect temporal stability of soil water contents - (Abstract Only)
Martinez, G., Pachepsky, Y.A., Vereecken, H. 2012. How can climate, soil, and monitoring schedule affect temporal stability of soil water contents. [abstract].
Applying model abstraction techniques to optimize monitoring networks for detecting subsurface contaminant transport - (Abstract Only)
Pachepsky, Y.A., Guber, A., Gish, T.J., Yakirevich, A., Nicholson, T., Cady, R. 2012. Applying model abstraction techniques to optimize monitoring networks for detecting subsurface contaminant transport. [abstract].
Geophysics applications in critical zone science: emerging topics - (Abstract Only)
Pachepsky, Y.A., Martinez, G., Guber, A., Walthall, C.L., Vereecken, H. 2012. Geophysics applications in critical zone science: emerging topics. [abstract].
Single collector attachment efficiency of colloid capture by a cylindrical collector in laminar overland flow - (Peer Reviewed Journal)
Wu, L., Gao, B., Munoz-Carpena, R., Pachepsky, Y.A. 2012. Single collector attachment efficiency of colloid capture by a cylindrical collector in laminar overland flow. Environmental Science and Technology. 46(16):8878-8886.
Persistence of E. coli introduced into streambed sediments with goose, deer, and bovine animal waste - (Peer Reviewed Journal)
Kiefer, L., Shelton, D.R., Pachepsky, Y.A., Blaustein, R.A., Santin, M. 2012. Persistence of E. coli introduced into streambed sediments with goose, deer, and bovine animal waste. Letters in Applied Microbiology. 55(5):345-353.
The modified SWAT model for predicting fecal coliform in the Wachusett Reservoir Watershed, USA     Reprint Icon - (Peer Reviewed Journal)
Cho, K., Pachepsky, Y.A., Kim, J., Kim, J., Park, M. 2012. The modified SWAT model for predicting fecal coliform in the Wachusett Reservoir Watershed, USA . Water Research. 46:4750-4760.
Ensemble modeling with pedotransfer functions in the hydropedological context - (Abstract Only)
(29-May-12)
Quasi 3D modeling of water flow in vadose zone and groundwater - (Peer Reviewed Journal)
Kuznetsov, M., Yakirevich, A., Pachepsky, Y.A., Sorek, S. 2012. Quasi 3D modeling of water flow in vadose zone and groundwater. Journal of Hydrology. 450-451:140-149.
Temporal stability of soil water contents as affected by weather patterns: a simulation study. - (Abstract Only)
Martinez, G., Pachepsky, Y.A., Vereecken, H., Hardelauf, H., Herbst, M., Vaderlinden, K. 2012. Temporal stability of soil water contents as affected by weather patterns: a simulation study.[abstract]. Paper No.74041.
Environmental research to improve food safety - (Other)
Pachepsky, L., Pachepsky, Y.A., Shelton, D.R., Van Kessel, J.S. 2012. Environmental research to improve food safety. Internet Web Page. Available: www.ars.usda.gov/research/docs.htm?docid=22497
An information theory application to improve understanding of subsurface flow and transport conditions at the BARC OPE3 site - (Abstract Only)
Yakirevich, A., Gish, T.J., Pachepsky, Y.A., Guber, A.K., Cady, R., Nicholson, T. 2012. An information theory application to improve understanding of subsurface flow and transport conditions at the BARC OPE3 site. BARC Poster Day.
E. coli survival in waters: applicability of the Arrhenius equation - (Abstract Only)
Blaustein, R.A., Pachepsky, Y.A., Whelan, G., Hill, R., Shelton, D.R., Sadeghi, A.M. 2012. E. coli survival in waters: applicability of the Arrhenius equation. [abstract]. BARC Poster Day. p.14.
Survival and release of Escherichia coli in land-applied animal manure: models and parameters - (Abstract Only)
Martinez, G., Pachepsky, Y.A., Shelton, D.R., Dao, T.H., Whelan, G., Kim, K., Williams, J., Jaehak, J. 2012. Survival and release of Escherichia coli in land-applied animal manure: models and parameters. [abstract]. BARC Poster Day. p. 40.
Temporal stability of soil water contents: A review of data and analyses - (Peer Reviewed Journal)
Vanderlilnden, K., Vereecken, H., Hardelauf, H., Herbst, M., Martinez, G., Cosh, M.H., Pachepsky, Y.A. 2012. Temporal stability of soil water contents: A review of data and analyses. Vadose Zone Journal. DOI:10.2136/vzj2011.0178.
Upscaling with data assimilation in soil hydrology - (Abstract Only)
Pachepsky, Y.A., Gish, T.J., Daughtry, C.S., Jacques, D., Cady, R., Nicholson, T. 2012. Upscaling with data assimilation in soil hydrology. [abstract]Proceedings of PEDOFRACT. p.13.
Biofilms in irrigation pipes affect the microbial quality of irrigation water - (Abstract Only)
Pachepsky, Y.A., Shelton, D.R. 2012. Biofilms in irrigation pipes affect the microbial quality of irrigation water [abstract] p. 13-14.
Estimating topsoil water content of clay soils with data from time-lapse electrical conductivity surveys - (Peer Reviewed Journal)
Gonzalo, M., Vanderlinden, K., Pachepsky, Y.A., Giraldez, J., Espejo, A. 2012. Estimating topsoil water content of clay soils from with data from time-lapse electrical conductivity surveys. Soil Science. 177(6):369-376.
Parameter estimation and uncertainty in scaling KINEROS2 runoff parameters - (Abstract Only)
Kim, K., Whelan, G., Purucker, T., Cyterski, M., Marirosa, M., Gu, Y., Pachepsky, Y.A., Guber, A., Franklin, D.H. 2011. Parameter estimation and uncertainty in scaling KINEROS2 runoff parameters. [abstract]. Abstract book 1741B-1032.
Non-local controls on spatial and temporal variability of soil water content in heavy clay soils - (Abstract Only)
Vanderlinden, K., Pedrera-Parrilla, A., Martinez, G., Espejo, A., Giraldez, J., Pachepsky, Y.A. 2011. Non-local controls on spatial and temporal variability of soil water content in heavy clay soils. [abstract]. Abstract book 1731M-02.
Augmenting an observation network to facilitate flow and transport model discrimination. - (Abstract Only)
Pachepsky, Y.A., Kuznetsov, M., Guber, A., Yakirevich, A., Martinez, G., Gish, T.J., Cady, R., Nicholson, T. 2011. Augmenting an observation network to facilitate flow and transport model discrimination. [abstract]. American Geophysical Union. H23H-1372.
Estimating spatial variations in water content of clay soils from time-lapse electrical conductivity surveys - (Abstract Only)
Martinez, G., Pachepsky, Y.A., Vanderlinden, K., Giraldez, J. 2011. Estimating spatial variations in water content of clay soils from time-lapse electrical conductivity surveys. [abstract]. Abstract book. H42F-05.
Detection of E. coli O157:H7 by immunomagnetic separation coupled with fluorescence immunoassay - (Peer Reviewed Journal)
Zhu, P., Shelton, D.R., Li, S., Adams, D., Karns, J.S., Amstutz, P., Tang, C. 2011. Detection of E. coli O157:H7 by immunomagnetic separation coupled with fluorescence immunoassay. Biosensors and Bioelectronics. 30:337-341.
Scale effects on information theory-based measures applied to streamflow patterns in two rural watersheds     Reprint Icon - (Peer Reviewed Journal)
Pan, F., Pachepsky, Y.A., Guber, A.K., Hill, R. 2012. Scale effects on information theory-based measures applied to streamflow patterns in two rural watersheds. Journal of Hydrology. 414-415:99-107.
Kirkham’s legacy and contemporary challenges in soil physics research - (Peer Reviewed Journal)
Jury, W., Or, D., Pachepsky, Y.A., Vereecken, H., Hopmans, J., Ahuja, L.R., Clothier, B., Bristo, K., Kluitenberg, G., Moldrup, P., Simunek, J., Van Genuchten, M., Horton, R. 2011. Kirkham’s legacy and contemporary challenges in soil physics research. Soil Science Society of America Journal. 75:1589-1601.
Is it enough to have one ECa map for the site-specific management delineation? - (Abstract Only)
Martinez, G., Pachepsky, Y.A., Vanderlinden, K., Giraldez, J. 2011. Is it enough to have one ECa map for the site-specific management delineation?. ASA-CSSA-SSSA Proceedings. Paper No. 67335.
Using passive capillary lysimeter water flux measurements to improve flow predictions in variably saturated soils. - (Abstract Only)
Pachepsky, Y.A., Guber, A.K., Diederik, J., Van Genuchten, M., Cady, R., Nicholson, T. 2011. Using passive capillary lysimeter water flux measurements to improve flow predictions in variably saturated soils.[abstract] ASA-CSSA-SSSA Annual Meeting Abstracts. Paper No. 67149.
Status of the database on microorganism inactivation in environmental media (DIMEM) - (Abstract Only)
Bolster, C.H., Pachepsky, Y.A., Sadeghi, A.M., Shelton, D.R. 2011. Status of the database on microorganism inactivation in environmental media (DIMEM) [abstract]. ASA-CSSA-SSSA Annual Meeting Abstracts. Paper No. 67154.
Modeling rainfall-induced release of manure constituents from surface-applied liquid dairy manure - (Abstract Only)
Guber, A.K., Pachepsky, Y.A., Shelton, D.R. 2011. Modeling rainfall-induced release of manure constituents from surface-applied liquid dairy manure. [abstract]. ASA-CSSA-SSSA Annual Meeting. Paper No. 67329.
Irrigation waters as a source of pathogenic microorganisms in produce: a review     Reprint Icon - (Review Article)
Pachepsky, Y.A., Shelton, D.R., Mclain, J.E., Patel, J.R., Mandrell, R.E. 2011. Irrigation waters as a source of pathogenic microorganisms in produce: a review. Advances in Agronomy. 113:73-138.
Ultra-sensitive detection using integrated waveguide technologies - (Book / Chapter)
Li, S., Kiefer, L., Zhu, P., Shelton, D.R., Amstutz, P., Tang, C. 2011. Ultra-sensitive detection using integrated waveguide technologies. In: Somerset, V. Environmental Biosensors. Rijeka, Croatia: InTech. p.305-313.
Measurement challenges of detecting enteric organisms in food and water - (Abstract Only)
Shelton, D.R. 2011. Measurement challenges of detecting enteric organisms in food and water. [abstract].
Pilot study of the effect of biofilms in irrigation pipes on the microbial water quality of irrigation water - (Abstract Only)
Davies, G.E., Downey, A., Guber, A.K., Morrow, J., Pachepsky, Y.A., Rowland, R.A., Shelton, D.R. 2011. Pilot study of the effect of biofilms in irrigation pipes on the microbial water quality of irrigation water. BARC Poster Day. #10.
Information and complexity measures for hydrologic model evaluation - (Abstract Only)
Pan, F., Wagener, T., Pachepsky, Y.A., Hill, R. 2011. Information and complexity measures for hydrologic model evaluation. BARC Poster Day. 39.
Data assimilation with soil water content sensors and pedotransfer functions in soil water flow modeling     Reprint Icon - (Peer Reviewed Journal)
Pan, F., Pachepsky, Y.A., Jacques, D., Guber, A.K., Hil, R. 2012. Data assimilation with soil water content sensors and pedotransfer functions in soil water flow modeling. Soil Science Society of America Journal. 76:829-844.
Last Modified: 7/22/2014
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