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2019
Briggs, S., M. Sivaganesan, O. Shanks, R. Haugland, S. Siefring, M. Varma, K. Oshima, A. Dufour, S. Nappier, AND B. Schnitker. Derivation of the equivalent qPCR value for Escherichia coli to existing culture-based water quality standards for monitoring beaches in Michigan. IWA 20th International Symposium on Health Related Water Microbiology, Vienna, AUSTRIA, September 15 - 20, 2019.
2018
Haugland, Rich, S. Siefring, E. Anneken, M. Varma, S. Keely, R. Mitchell, AND S. Lehmann. Low Frequencies of Interference to EPA Quantitative Polymerase Chain Reaction (qPCR) Methods for Microbial Water Quality Monitoring in U.S. Rivers and Streams and Coastal Waters. 2018 UNC Water Microbiology Conference, Chapel Hill, NC, May 22 - 24, 2018.
Sivaganesan, Mano, M. Varma, S. Siefring, AND Rich Haugland. Quantification of plasmid DNA standards for U.S. EPA fecal indicator bacteria qPCR methods by droplet digital PCR analysis. JOURNAL OF MICROBIOLOGICAL METHODS. Elsevier Science Ltd, New York, NY, 152:135-142, (2018). https://doi.org/10.1016/j.mimet.2018.07.005
2015
Paar, J., M. Doolittle, M. Varma, S. Siefring, K. Oshima, AND Rich Haugland. Development and evaluation of a culture-independent method for source determination of fecal wastes in surface and storm waters using reverse transcriptase-PCR detection of FRNA coliphage genogroup gene sequences. JOURNAL OF MICROBIOLOGICAL METHODS. Elsevier Science Ltd, New York, NY, 112(2):28-35, (2015).
2014
Sivaganesan, Mano, S. Siefring, M. Varma, AND Rich Haugland. Comparison of Enterococcus quantitative polymerase chain reaction analysis results from midwest U.S. river samples using EPA Method 1611 and Method 1609 PCR reagents. JOURNAL OF MICROBIOLOGICAL METHODS. Elsevier Science Ltd, New York, NY, 101(6):9-17, (2014).
Haugland, Rich, S. Siefring, M. Varma, A. Dufour, K. Brenner, Tim Wade, E. Sams, S. Cochran, S. Braun, AND Mano Sivaganesan. Standardization of enterococci density estimates by EPA qPCR methods and comparison of beach action value exceedances in river waters with culture methods. JOURNAL OF MICROBIOLOGICAL METHODS. Elsevier Science Ltd, New York, NY, 105(7):59-66, (2014).
2012
SIVAGANESAN, M., M. VARMA, AND R. A. HAUGLAND. Comparison of Enterococcus qPCR analysis results from fresh and marine waters on two real-tme instruments. ANALYTICAL BIOCHEMISTRY. Academic Press Incorporated, Orlando, FL, 430(1):68-74, (2012).
Haugland, Rich, M. Varma, AND L. Wymer. Detection and quantification limits of the EPA Enterococcus qPCR method. 12th Annual Great Lakes Beach Asssociation Conference, Mackinac Island, MI, October 16 - 18, 2012.
KELTY, C. A., M. VARMA, M. SIVAGANESAN, R. A. HAUGLAND, AND O. C. SHANKS. Distribution of Genetic Marker Concentrations for Fecal Indicator Bacteria in Sewage and Animal Feces. APPLIED AND ENVIRONMENTAL MICROBIOLOGY. American Society for Microbiology, Washington, DC, 78(12):4225-4232, (2012).
HAUGLAND, R. A., S. SIEFRING, J. Lavender, AND M. VARMA. Influences of sample interference and interference controls on quantification of enterococci fecal indicator bacteria in surface water samples by the qPCR method. WATER RESEARCH. Elsevier Science Ltd, New York, NY, 46(18):5989-6001, (2012).
SHANKS, O. C., MANO SIVAGANESAN, L. PEED, C. A. KELTY, A. D. Blackwood, M. R. Greene, R. T. Noble, R. N. Bushon, E. A. Stelzer, J. Kinzelman, T. Anan'eva, C. Sinigalliano, D. Wanless, J. Griffith, Y. Cao, S. Weisberg, V. J. Harwood, C. Staley, K. OSHIMA, M. VARMA, AND R. A. HAUGLAND. Interlaboratory Comparison of Real-time PCR Protocols for Quantification of General Fecal Indicator Bacteria. ENVIRONMENTAL SCIENCE AND TECHNOLOGY. ACS Publications, Washington, DC, 46(2):945-953, (2012).
2011
SIVAGANESAN, M., S. SIEFRING, M. VARMA, AND R. A. HAUGLAND. MPN estimation of qPCR target sequence recoveries from whole cell calibrator samples. JOURNAL OF MICROBIOLOGICAL METHODS. Elsevier Science Ltd, New York, NY, 87(3):3235-3249, (2011).
2010
WYMER, L. J., K. OSHIMA, J. PAAR, M. Doolittle, J. Lavender, M. VARMA, AND R. A. HAUGLAND. Effects of Holding Time, Storage, and the Preservation of Samples on Sample Integrity for the Detection of Fecal Indicator Bacteria by Quantitative Polymerase Chain Reaction (qPCR)-based assays. U.S. Environmental Protection Agency, Washington, DC, EPA/600/R-10/150, 2010.
HAUGLAND, R. A., M. VARMA, M. SIVAGANESAN, C. A. KELTY, L. PEED, AND O. C. SHANKS. Evaluation of genetic markers from the 16S rRNA gene V2 region for use in quantitative detection of selected Bacteroidales species and human fecal waste by real time PCR. SYSTEMATIC AND APPLIED MICROBIOLOGY. Elsevier Science Ltd, New York, NY, 33(6):348-357, (2010).
SHANKS, O. C., K. WHITE, C. A. KELTY, M. SIVAGANESAN, J. BLANNON, M. MECKES, M. VARMA, AND R. A. HAUGLAND. Performance of PCR-based assays targeting Bacteroidales genetic markers of human fecal pollution in sewage and fecal samples. ENVIRONMENTAL SCIENCE AND TECHNOLOGY. American Chemical Society, Washington, DC, 44(16):6281-6288, (2010).
KELTY, C. A., K. M. WHITE, J. C. BLANNON, M. C. MECKES, O. C. SHANKS, M. SIVAGANESAN, M. VARMA, AND R. A. HAUGLAND. Single Laboratory Comparison of Quantitative Real-time PCR Assays for the Detection of Fecal Pollution. Presented at American Society for Microbiology 110th General Meeting, San Diego, CA, May 23 - 27, 2010.
2009
HAUGLAND, R. A., M. VARMA, R. OSHIRO, J. Parr, AND M. Doolittle. Comparison of Enterococcus qPCR analysis results from fresh and marine water samples on two real-time instruments - . Presented at National Beaches Conference 2009, Huntington Beach, CA, April 20 - 22, 2009.
SHANKS, O. C., K. M. WHITE, C. A. KELTY, S. L. HAYES, M. SIVAGANESAN, M. Jenkins, M. VARMA, AND R. A. HAUGLAND. Host Distribution of Bacteroidales Genetic Markers of Bovine Fecal Pollution. AMERICAN SOCIETY FOR MICROBIOLOGY. ASM Press, Washington, DC, , ,, (2009).
SHANKS, O. C., C. A. KELTY, M. SIVAGANESAN, M. VARMA, AND R. A. HAUGLAND. Quantitative PCR for Genetic Markers of Human Fecal Pollution. APPLIED AND ENVIRONMENTAL MICROBIOLOGY. American Society for Microbiology, Washington, DC, 75(17):5507-5513, (2009).
VARMA, M., R. I. FIELD, M. K. STINSON, B. Rukovets, L. J. WYMER, AND R. A. HAUGLAND. Quantitative Real-Time PCR Analysis of Total Propidium Monazide -Resistant Fecal Indicator Bacteria in Wastewater. WATER RESEARCH. Elsevier Science Ltd, New York, NY, 43(19):4790-4801, (2009).
SHANKS, O. C., K. M. WHITE, C. A. KELTY, S. L. HAYES, M. SIVAGANESAN, M. VARMA, R. A. HAUGLAND, AND M. JENKINS. Single Laboratory Comparison of Host-Specific PCR Assays for the Detection of Bovine Fecal Pollution. Presented at ASM 109th Geneeral Meeting, Philadelphia, PA, May 17 - 21, 2009.
SHANKS, O. C., K. M. WHITE, C. A. KELTY, S. L. HAYES, M. SIVAGANESAN, M. VARMA, AND R. A. HAUGLAND. Single Laboratory Comparison of Host-Specific PCR Assays for the Detection of Bovine Fecal Pollution. Presented at American Society for Microbiology 109th General Meeting, Philadelphia, PA, May 17 - 21, 2009.
SHANKS, O. C., K. M. WHITE, C. A. KELTY, M. SIVAGANESAN, J. C. BLANNON, M. C. MECKES, M. VARMA, AND R. A. HAUGLAND. Single Laboratory Comparison of Quantitative Real-Time PCR Assays for the Detection of Human Fecal Pollution. Presented at American Society of Microbiology 109th General Meeting, Philadelphia, PA, May 17 - 21, 2009.
SHANKS, O. C., K. M. White, C. A. KELTY, M. SIVAGANESAN, J. C. BLANNON, M. C. MECKES, M. VARMA, AND R. A. HAUGLAND. Single Laboratory Comparison of Quantitative Real-Time PCR Assays for the Detection of Human Fecal Pollution - Poster. Presented at American Society for Microbiology 109th General Meeting, Philadelphia, PA, May 17 - 21, 2009.
2006
HAUGLAND, R. A., S. SIEFRING, M. VARMA, E. ATIKOVIC, AND L. J. WYMER. COMPARISON OF REAL-TIME PCR FECAL BACTERIA MEASUREMENTS IN RECREATIONAL WATERS USING DIFFERENT INSTRUMENTS AND REAGENT SYSTEMS. Presented at 106th General Meeting of the American Society for Microbiology, Orlando, FL, May 21 - 25, 2006.
HAUGLAND, R. A., S. SIEFRING, M. VARMA, E. ATIKOVIC, K. P. BRENNER, A. P. DUFOUR, AND L. J. WYMER. EVALUATION OF MATRIX EFFECTS FROM NATIONWIDE INLAND SURFACE WATERS ON QUANTITATION POLYMERASE CHAIN REACTION ANALYSIS FOR FECAL INDICATOR BACTERIA. Presented at National Beaches Conference, Niagra Falls, NY, October 11 - 13, 2006.
VARMA, M., S. SIEFRING, E. ATIKOVIC, L. J. WYMER, AND R. A. HAUGHLAND. MONITORING FECAL INDICATOR BACTERIA WITH ALTERNATIVE REAL-TIME PCR INSTRUMENTS TO ASSESS HEALTH RISKS ASSOCIATED WITH RECREATIONAL WATER USE. Presented at 2006 EPA Science Forum, Washington, DC, May 16 - 18, 2006.
2005
VARMA, M., L. J. WYMER, AND R. A. HAUGLAND. FECAL INDICATOR BACTERIA MEASUREMENTS BY QUANTITATIVE POLYMERASE CHAIN REACTION (QPCR) ANALYSIS IN FRESH ARCHIVED DNA EXTRACT OF WATER SAMPLE FILTRATES. Presented at American Society for Microbiology 105th General Meeting, Atlanta, GA, June 05 - 09, 2005.
Haugland, R A., T Meklin, M Varma, L Wymer, AND S J. Vesper. METHODS TO CLASSIFY ENVIRONMENTAL SAMPLES BASED ON MOLD ANALYSES BY QPCR. 5th International Conference on Bioaerosols, Fungi, Bacteria, Mycotoxins and Human Health, Saratoga Springs, NY, September 10 - 12, 2003. E. Johanning (ed.), Boyd Printing Company (B Print Services, Inc.), Albany, NY, 327-334, (2005).
2004
Vesper, S J., M Varma, L J. Wymer, D. Dearborn, J. Sobolewski, AND R A. Haugland. QUANTITATIVE PCR ANALYSIS OF FUNGI IN DUST FROM HOMES OF INFANTS WHO DEVELOPED IDIOPATHIC PULMONARY HEMORRHAGING. OCCUPATIONAL AND ENVIRONMENTAL MEDICINE 46(6):596-601, (2004).
Meklin, T, R A. Haugland, T. Reponen, M Varma, Z. Lummus, D. Bernstein, L J. Wymer, D. Dearborn, AND S J. Vesper. QUANTITATIVE PCR ANALYSIS OF HOUSE DUST CAN REVEAL ABNORMAL MOLD CONDITIONS. JOURNAL OF ENVIRONMENTAL MONITORING. Royal Society of Chemistry, London, Uk, 6(7):615-620, (2004).
Haugland, R A., M Varma, L J. Wymer, AND S J. Vesper. QUANTITATIVE PCR OF SELECTED ASPERGILLUS, PENICILLIUM AND PAECILOMYCES SPECIES. SYSTEMATIC AND APPLIED MICROBIOLOGY 27(2):198-210, (2004).
2003
Manju Varma, M., Jeff D. Hester, F. Frank W. Schaefer III, M. Michael W. Ware, AND H. H. D. Alan Lindquist. DETECTION OF CYCLOSPORA CAYETANESIS USING A QUANTITATIVE REAL-TIME PCR ASSAY. JOURNAL OF MICROBIOLOGICAL METHODS 53(1):27-36, (2003).
Haugland, R A., T Meklin, M Varma, L J. Wymer, D. G. Dearborn, I. Yike, AND S J. Vesper. METHOD TO CLASSIFY ENVIRONMENTAL SAMPLES BASED ON MOLD ANALYSES BY QPCR. Presented at Bioaerosols Meeting, Saratoga, NY, September 10-12, 2003.
2002
Lindquist, H.D A., M Varma, M W. Ware, C. Aranzamendi, AND C. Vargas. COMPARISON OF MICROSCOPIC VERSUS MOLECULAR DIAGNOSIS OF CYCLOSPORA CAYETANENSIS. Presented at Joint meeting of the International Congress of Parasitology and Annual Meeting of the American Society of Parasitologists, Vancouver, British Columbia, Canada, August 4-10, 2002.
Hester, J. D., M Varma, A. M. Bobst, M W. Ware, H.D A. Lindquist, AND F W. Schaefer. SPECIES-SPECIFIC DETECTION OF THREE HUMAN-PATHOGENIC MICROSPORIDIAL SPECIES FROM THE GENUS ENCEPHALITOZOON VIA FLUOROGENIC 5' NUCLEASE PCR ASSAYS. MOLECULAR AND CELLULAR PROBES 16(6):435-444, (2002).
2001
Varma, M, H.D A. Lindquist, F W. Schaefer III, M W. Ware, AND J. D. Hester. A QUANTITATIVE REAL-TIME PCR ASSAY FOR DETECTION OF CYCLOSPORA CAYETANESIS. Presented at VII International Workshops on Opportunistic Protists (IWOP), Cincinnati, OH, June 13-16, 2001.
Hester, J. D., M Varma, A. M. Bobst, M W. Ware, H.D A. Lindquist, AND F W. Schaefer III. REAL-TIME PCR DETECTION OF THREE HUMAN-PATHOGENIC SPECIES FROM THE MICROSPORIDIAL GENUS ENCEPHALITOZOON. Presented at VII International Workshops on Opportunistic Protists (IWOP), Cincinnati, OH, June 13-16, 2001.