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Person Details: Syed A. Hashsham

Superfund Research Program

Syed A. Hashsham

Michigan State University
Civil and Environmental Engineering
1449 Engineering Research Court, Room A126
Engineering Research Complex
East Lansing, Michigan 48824
Phone: 517-355-8241


Research Briefs




  • Williams M, Hashsham SA. 2019. Direct or DNA extraction-free amplification and quantification of foodborne pathogens. Methods Mol Biol 1918:21-33. doi:10.1007/978-1-4939-9000-9_2


  • Stedtfeld RD, Guo X, Stedtfeld TM, Sheng H, Williams MR, Hauschild K, Gunturu S, Tift L, Wang F, Howe A, Chai B, Yin D, Cole JR, Tiedje JM, Hashsham SA. 2018. Primer set 2.0 for highly parallel qPCR array targeting antibiotic resistance genes and mobile genetic elements. FEMS Microbiol Ecol 94(9):8. doi:10.1093/femsec/fiy130 PMID:52926
  • Waseem H, Williams M, Stedtfeld RD, Stedtfeld TM, Shanker R, Hashsham SA. 2018. Organ-on-chip systems: an emerging platform for toxicity screening of chemicals, pharmaceuticals, and nanomaterials. Chem Sci 8:203-231. doi:10.1039/9781782623922-00203
  • Waseem H, Williams MR, Stedtfeld RD, Stedtfeld TM, Shanker R, Hashsham SA. 2018. Organ-on-chip systems: an emerging platform for toxicity screening of chemicals, pharmaceuticals, and nanomaterials. Chapter 8 in: Nanotoxicology: Experimental and Computational Perspectives. The Royal Society of Chemistry, United Kingdom. pp.203-231.


  • Ahmad F, Stedtfeld RD, Waseem H, Williams MR, Cupples AM, Tiedje JM, Hashsham SA. 2017. Most probable number - loop mediated isothermal amplification (MPN-LAMP) for quantifying waterborne pathogens in <25min. J Microbiol Methods 132:27-33. doi:10.1016/j.mimet.2016.11.010 PMID:27856278 PMCID:PMC5195917
  • Munir A, Waseem H, Williams MR, Stedtfeld RD, Gulari E, Tiedje JM, Hashsham SA. 2017. Modeling hybridization kinetics of gene probes in a DNA biochip using FEMLAB. Microarrays (Basel) 6(2):9. doi:10.3390/microarrays6020009 PMID:28555058 PMCID:PMC5487956
  • Samhan F, Stedtfeld TM, Waseem H, Williams MR, Stedtfeld RD, Hashsham SA. 2017. On-filter direct amplification of Legionella pneumophila for rapid assessment of its abundance and viability. Water Res 121:162-170. doi:10.1016/j.watres.2017.05.028 PMID:28527390
  • Srinivasan V, Stedtfeld RD, Tourlousse DM, Baushke SW, Xin Y, Miller SM, Pham T, Rouillard JM, Gulari E, Tiedje JM, Hashsham SA. 2017. Diagnostic microarray for 14 water and foodborne pathogens using a flatbed scanner. J Microbiol Methods 139:15-21. doi:10.1016/j.mimet.2017.04.009 PMID:28438642 PMCID:PMC5491306
  • Stedtfeld RD, Chai B, Crawford RB, Stedtfeld TM, Williams MR, Xiangwen S, Kuwahara T, Cole JR, Kaminski NE, Tiedje JM, Hashsham SA. 2017. Modulatory influence of segmented filamentous bacteria on transcriptomic response of gnotobiotic mice exposed to TCDD. Front Microbiol 8:12. doi:10.3389/fmicb.2017.01708 PMID:28936204 PMCID:PMC5594080
  • Stedtfeld RD, Sallach JB, Crawford RB, Stedtfeld TM, Williams MR, Waseem H, Johnston CT, Li H, Teppen BJ, Kaminski NE, Boyd SA, Tiedje JM, Hashsham SA. 2017. TCDD administered on activated carbon eliminates bioavailability and subsequent shifts to a key murine gut commensal. Appl Microbiol Biotechnol 101:7409-7415. doi:10.1007/s00253-017-8460-9 PMID:28812142
  • Stedtfeld RD, Stedtfeld TM, Fader KA, Williams MR, Bhaduri P, Quensen JF, Zacharewski TR, Tiedje JM, Hashsham SA. 2017. TCDD influences reservoir of antibiotic resistance genes in murine gut microbiome. FEMS Microbiol Ecol 93:8. doi:10.1093/femsec/fix058 PMID:28475713 PMCID:PMC5458050
  • Stedtfeld RD, Stedtfeld TM, Waseem H, Fitschen-Brown M, Guo X, Chai B, Williams MR, Shook T, Logan A, Graham A, Chae J, Sul WJ, VanHouten J, Cole JR, Zylstra GJ, Tiedje JM, Upham BL, Hashsham SA. 2017. Isothermal assay targeting class 1 integrase gene for environmental surveillance of antibiotic resistance markers. J Environ Manage 198:213-220. doi:10.1016/j.jenvman.2017.04.079 PMID:28460328
  • Waseem H, Williams MR, Stedtfeld TM, Chai B, Stedtfeld RD, Cole JR, Tiedje JM, Hashsham SA. 2017. Virulence factor activity relationships (VFARs): a bioinformatics perspective. Environ Sci Process Impacts 19(3):247-260. doi:10.1039/c6em00689b PMID:28261716 PMCID:PMC5897045
  • Williams MR, Stedtfeld RD, Stedtfeld TM, Tiedje JM, Hashsham SA. 2017. Quantification of microRNAs directly from body fluids using a base-stacking isothermal amplification method in a point-of-care device. Biomed Microdevices 19:45. doi:10.1007/s10544-017-0191-2 PMID:28536858
  • Williams MR, Stedtfeld RD, Tiedje JM, Hashsham SA. 2017. MicroRNAs-based inter-domain communication between the host and members of the gut microbiome. Front Microbiol 8:10. doi:10.3389/fmicb.2017.01896 PMID:29021788 PMCID:PMC5624305
  • Williams MR, Stedtfeld RD, Waseem H, Stedtfeld TM, Upham BL, Khalife WT, Etchebarne B, Hughes M, Tiedje JM, Hashsham SA. 2017. Implications of direct amplification for measuring antimicrobial resistance using point-of-care devices. Analytical Methods 9:1229-1241. doi:10.1039/C6AY03405E PMID:29657581 PMCID:PMC5898395


  • Chai B, Tsoi TV, Iwai S, Liu C, Fish JA, Gu C, Johnson TA, Zylstra GJ, Teppen BJ, Li H, Hashsham SA, Boyd SA, Cole JR, Tiedje JM. 2016. Sphingomonas wittichii strain RW1 genome-wide gene expression shifts in response to dioxins and clay. PLoS One 11(6):e0157008. doi:10.1371/journal.pone.0157008 PMID:27309357 PMCID:PMC4911050
  • Stedtfeld RD, Stedtfeld TM, Samhan F, Kanitkar YH, Hatzinger PB, Cupples AM, Hashsham SA. 2016. Direct loop mediated isothermal amplification on filters for quantification of Dehalobacter in groundwater. J Microbiol Methods 131:61-67. doi:10.1016/j.mimet.2016.09.025 PMID:27720723
  • Stedtfeld RD, Williams M, Fakher U, Johnson TA, Stedtfeld TM, Wang F, Khalife WT, Hughes M, Etchebarne B, Tiedje JM, Hashsham SA. 2016. Antimicrobial resistance dashboard application for mapping environmental occurrence and resistant pathogens. FEMS Microbiol Ecol 92(3):doi:10.1093/femsec/fiw020 PMID:26850162
  • Wang F, Stedtfeld RD, Kim O, Chai B, Yang L, Stedtfeld TM, Hong SG, Kim D, Lim HS, Hashsham SA, Tiedje JM, Sul WJ. 2016. Influence of soil characteristics and proximity to Antarctic research stations on abundance of antibiotic resistance genes in soils. Environ Sci Technol 50(23):12621-12629. doi:10.1021/acs.est.6b02863 PMID:27797533
  • Williams MR, Stedtfeld RD, Guo X, Hashsham SA. 2016. Antimicrobial resistance in the environment. Water Environ Res 88(10):1951-1967. doi:10.2175/106143016X14696400495974 PMID:27620115


  • Kostic T, Ellis M, Kronlein M, Stedtfeld TM, Kaneene J, Hashsham SA, Stedtfeld RD. 2015. Thirty-minute screening of antibiotic resistance genes in bacterial isolates with minimal sample preparation in static self-dispensing 64 and 384 assay cards. Appl Microbiol Biotechnol 99(18):7711-7722. doi:10.1007/s00253-015-6774-z PMID:26227406 PMCID:PMC4543423
  • Stedtfeld RD, Liu Y, Stedtfeld TM, Kostic T, Kronlein M, Srivannavit O, Khalife WT, Tiedje JM, Gulari E, Hughes M, Etchebarne B, Hashsham SA. 2015. Static self-directed sample dispensing into a series of reaction wells on a microfluidic card for parallel genetic detection of microbial pathogens. Biomed Microdevices 17(5):89. doi:10.1007/s10544-015-9994-1 PMID:26260693 PMCID:PMC4531140


  • Baushke SW, Stedtfeld RD, Tourlousse DM, Ahmad F, Wick LM, Gulari E, Tiedje JM, Hashsham SA. 2012. Identification of non-specific hybridization using an empirical equation fitted to non-equilibrium dissociation curves. J Microbiol Methods 90(1):29-35. doi:10.1016/j.mimet.2012.04.003 PMID:22537822 PMCID:PMC3366151


  • Iwai S, Johnson TA, Chai B, Hashsham SA, Tiedje JM. 2011. Comparison of the specificities and efficacies of primers for aromatic dioxygenase gene analysis of environmental samples. Appl Environ Microbiol 77:3551-3557. doi:10.1128/aem.00331-11 PMID:21498766 PMCID:PMC3127589



  • Parnell JJ, Park J, Denef VJ, Tsoi TV, Hashsham SA, Quensen JF, Tiedje JM. 2006. Coping with polychlorinated biphenyl (PCB) toxicity: physiological and genome-wide responses of Burkholderia xenovorans LB400 to PCB-mediated stress. Appl Environ Microbiol 72(10):6607-14. PMID:17021212


  • Denef VJ, Park J, Tsoi TV, Rouillard JM, Zhang H, Wibbenmeyer JA, Verstraete W, Gulari E, Hashsham SA, Tiedje JM. 2004. Biphenyl and benzoate metabolism in a genomic context: outlining genome-wide metabolic networks in Burkholderia xenovorans LB400. Appl Environ Microbiol 70(8):4961-4970. PMID:15294836


  • Denef VJ, Park J, Rodrigues JM, Tsoi TV, Hashsham SA, Tiedje JM. 2003. Validation of a more sensitive method for using spotted oligonucleotide DNA microarrays for functional genomics studies on bacterial communities. Environ Microbiol 5(10):933-943. PMID:14510847
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