Kyle Bibby

Assistant Professor
View Dr. Bibby's Google Scholar Index Visit Dr. Bibby's lab site Civil & Environmental Engr


(2010 - 2012) EPA Science to Achieve Results (STAR) Graduate Research Fellowship.

(2009 - 2010) Environmental Research and Education Foundation Graduate Research Fellowship.

(2008 - 2011) Yale University School of Engineering and Applied Science Goodyear Fellowship.

(2007) Tau Beta Pi and Chi Epsilon Honor Societies.

(2007) ACS Undergraduate Award in Environmental Chemistry.

(2006 - 2007) Notre Dame Energy Center Sloan Undergraduate Research Fellowship.

Ph.D., Environmental Engineering, Yale University, 2012

M.Phil., Environmental Engineering, Yale University, 2010

M.S., Environmental Engineering, Yale University, 2009

B.S., Civil Engineering and Geological Sciences, University of Notre Dame, 2008

Lipus, D., Vikram, A., Ross, D., Bain, D., Gulliver, D., Hammack, R., & Bibby, K. (2017). Predominance and Metabolic Potential of Halanaerobium spp. in Produced Water from Hydraulically Fractured Marcellus Shale Wells. APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 83(8).American Society for Microbiology. doi: 10.1128/AEM.02659-16.

II, P.A.J., Vikram, A., Bibby, K.J., & Marr, L.C. (2016). Seasonal Dynamics of the Airborne Bacterial Community and Selected Viruses in a Children's Daycare Center. In Yao, M. (Ed.). PLOS ONE, 11(3), e0151004.Public Library of Science (PLoS). doi: 10.1371/journal.pone.0151004.

Lipus, D., Vikram, A., Ross, D.E., & Bibby, K. (2016). Draft Genome Sequence of Methanohalophilus mahii Strain DAL1 Reconstructed from a Hydraulic Fracturing-Produced Water Metagenome. Genome Announc, 4(5).American Society for Microbiology. doi: 10.1128/genomeA.00899-16.

Vikram, A., Lipus, D., & Bibby, K. (2016). Metatranscriptome analysis of active microbial communities in produced water samples from the Marcellus Shale. MICROBIAL ECOLOGY, 72(3), 571-581.Springer Science and Business Media LLC. doi: 10.1007/s00248-016-0811-z.

Ma, X., Baron, J.L., Vikram, A., Stout, J.E., & Bibby, K. (2015). Fungal diversity and presence of potentially pathogenic fungi in a hospital hot water system treated with on-site monochloramine. WATER RESEARCH, 71, 197-206.Elsevier BV. doi: 10.1016/j.watres.2014.12.052.

Stephens, B., Adams, R.I., Bhangar, S., Bibby, K., & Waring, M.S. (2015). From commensalism to mutualism: integrating the microbial ecology, building science, and indoor air communities to advance research on the indoor microbiome. INDOOR AIR, 25(1), 1-3.Wiley. doi: 10.1111/ina.12167.

Baron, J.L., Vikram, A., Duda, S., Stout, J.E., & Bibby, K. (2014). Shift in the Microbial Ecology of a Hospital Hot Water System following the Introduction of an On-Site Monochloramine Disinfection System. In Bereswill, S. (Ed.). PLOS ONE, 9(7), e102679.Public Library of Science (PLoS). doi: 10.1371/journal.pone.0102679.

Bibby, K. (2014). Improved Bacteriophage Genome Data is Necessary for Integrating Viral and Bacterial Ecology. MICROBIAL ECOLOGY, 67(2), 242-244.Springer Science and Business Media LLC. doi: 10.1007/s00248-013-0325-x.

Good, M., Sodhi, C.P., Ozolek, J.A., Buck, R.H., Goehring, K.C., Thomas, D.L., Vikram, A., Bibby, K., Morowitz, M.J., Firek, B., Lu, P., & Hackam, D.J. (2014). Lactobacillus rhamnosus HN001 decreases the severity of necrotizing enterocolitis in neonatal mice and preterm piglets: evidence in mice for a role of TLR9. AMERICAN JOURNAL OF PHYSIOLOGY-GASTROINTESTINAL AND LIVER PHYSIOLOGY, 306(11), G1021-G1032.American Physiological Society. doi: 10.1152/ajpgi.00452.2013.

Larson, L.N., Sanchez-Espana, J., Kaley, B., Sheng, Y., Bibby, K., & Burgos, W.D. (2014). Thermodynamic Controls on the Kinetics of Microbial Low-pH Fe(II) Oxidation. ENVIRONMENTAL SCIENCE & TECHNOLOGY, 48(16), 9246-9254.American Chemical Society (ACS). doi: 10.1021/es501322d.

Mohan, A.M., Bibby, K.J., Lipus, D., Hammack, R.W., & Gregory, K.B. (2014). The Functional Potential of Microbial Communities in Hydraulic Fracturing Source Water and Produced Water from Natural Gas Extraction Characterized by Metagenomic Sequencing. In Forster, R.J. (Ed.). PLOS ONE, 9(10), e107682.Public Library of Science (PLoS). doi: 10.1371/journal.pone.0107682.

Vikram, A., Lipus, D., & Bibby, K. (2014). Produced Water Exposure Alters Bacterial Response to Biocides. ENVIRONMENTAL SCIENCE & TECHNOLOGY, 48(21), 13001-13009.American Chemical Society (ACS). doi: 10.1021/es5036915.

Yamamoto, N., & Bibby, K. (2014). Clustering of fungal community internal transcribed spacer sequence data obscures taxonomic diversity. ENVIRONMENTAL MICROBIOLOGY, 16(8), 2491-2500.Wiley. doi: 10.1111/1462-2920.12390.

Yamamoto, N., Dannemiller, K.C., Bibby, K., & Peccia, J. (2014). Identification accuracy and diversity reproducibility associated with internal transcribed spacer-based fungal taxonomic library preparation. ENVIRONMENTAL MICROBIOLOGY, 16(9), 2764-2776.Wiley. doi: 10.1111/1462-2920.12338.

Bibby, K. (2013). Metagenomic identification of viral pathogens. TRENDS IN BIOTECHNOLOGY, 31(5), 11-15.Elsevier BV. doi: 10.1016/j.tibtech.2013.01.016.

Bibby, K., & Peccia, J. (2013). Identification of Viral Pathogen Diversity in Sewage Sludge by Metagenome Analysis. ENVIRONMENTAL SCIENCE & TECHNOLOGY, 47(4), 1945-1951.American Chemical Society (ACS). doi: 10.1021/es305181x.

Mohan, A.M., Hartsock, A., Bibby, K.J., Hammack, R.W., Vidic, R.D., & Gregory, K.B. (2013). Microbial Community Changes in Hydraulic Fracturing Fluids and Produced Water from Shale Gas Extraction. ENVIRONMENTAL SCIENCE & TECHNOLOGY, 47(22), 13141-13150.American Chemical Society (ACS). doi: 10.1021/es402928b.

Rismani-Yazdi, H., Carver, S.M., Christy, A.D., Yu, Z., Bibby, K., Peccia, J., & Tuovinen, O.H. (2013). Suppression of methanogenesis in cellulose-fed microbial fuel cells in relation to performance, metabolite formation, and microbial population. BIORESOURCE TECHNOLOGY, 129, 281-288.Elsevier BV. doi: 10.1016/j.biortech.2012.10.137.

Hospodsky, D., Qian, J., Nazaroff, W.W., Yamamoto, N., Bibby, K., Rismani-Yazdi, H., & Peccia, J. (2012). Human Occupancy as a Source of Indoor Airborne Bacteria. PLOS ONE, 7(4), e34867.Public Library of Science (PLoS). doi: 10.1371/journal.pone.0034867.

Wong, K., Fong, T.T., Bibby, K., & Molina, M. (2012). Application of enteric viruses for fecal pollution source tracking in environmental waters. ENVIRONMENT INTERNATIONAL, 45(1), 151-164.Elsevier BV. doi: 10.1016/j.envint.2012.02.009.

Yamamoto, N., Bibby, K., Qian, J., Hospodsky, D., Rismani-Yazdi, H., Nazaroff, W.W., & Peccia, J. (2012). Particle-size distributions and seasonal diversity of allergenic and pathogenic fungi in outdoor air. ISME JOURNAL, 6(10), 1801-1811.Springer Science and Business Media LLC. doi: 10.1038/ismej.2012.30.

Yates, M.D., Kiely, P.D., Call, D.F., Rismani-Yazdi, H., Bibby, K., Peccia, J., Regan, J.M., & Logan, B.E. (2012). Convergent development of anodic bacterial communities in microbial fuel cells. ISME JOURNAL, 6(11), 2002-2013.Springer Science and Business Media LLC. doi: 10.1038/ismej.2012.42.

Bibby, K., Viau, E., & Peccia, J. (2011). Viral metagenome analysis to guide human pathogen monitoring in environmental samples. LETTERS IN APPLIED MICROBIOLOGY, 52(4), 386-392.Wiley. doi: 10.1111/j.1472-765X.2011.03014.x.

Peccia, J., Hospodsky, D., & Bibby, K. (2011). New Directions: A revolution in DNA sequencing now allows for the meaningful integration of biology with aerosol science. ATMOSPHERIC ENVIRONMENT, 45(10), 1896-1897.Elsevier BV. doi: 10.1016/j.atmosenv.2010.11.037.

Rismani-Yazdi, H., Haznedaroglu, B.Z., Bibby, K., & Peccia, J. (2011). Transcriptome sequencing and annotation of the microalgae Dunaliella tertiolecta: Pathway description and gene discovery for production of next-generation biofuels. BMC GENOMICS, 12(1), 148.Springer Science and Business Media LLC. doi: 10.1186/1471-2164-12-148.

Viau, E., Bibby, K., Paez-Rubio, T., & Peccia, J. (2011). Toward a Consensus View on the Infectious Risks Associated with Land Application of Sewage Sludge. ENVIRONMENTAL SCIENCE & TECHNOLOGY, 45(13), 5459-5469.American Chemical Society (ACS). doi: 10.1021/es200566f.

Bibby, K., Viau, E., & Peccia, J. (2010). Pyrosequencing of the 16S rRNA gene to reveal bacterial pathogen diversity in biosolids. WATER RESEARCH, 44(14), 4252-4260.Elsevier BV. doi: 10.1016/j.watres.2010.05.039.

Downing, L.S., Bibby, K.J., Esposito, K., Fascianella, T., Tsuchihashi, R., & Nerenberg, R. (2010). Nitrogen Removal from Wastewater Using a Hybrid Membrane-Biofilm Process: Pilot-Scale Studies. WATER ENVIRONMENT RESEARCH, 82(3), 195-201.Wiley. doi: 10.2175/106143009X426103.

Bibby, K.J., Viau, E.J., & Peccia, J. (2010). Next-generation DNA sequencing reveals viral diversity in biosolids. In ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY, 240.

Downing, L.S., Bibby, K.J., Fascianella, T., Esposito, K., & Nerenberg, R. (2008). The Hybrid Membrane Biofilm Process for TN Removal from Wastewater: Bench and Pilot Scale Studies. In World Environmental and Water Resources Congress 2008, 316.American Society of Civil Engineers. doi: 10.1061/40976(316)173.