Publications & Patents by Year

Google Scholar Profile (Most Current Citations)

Last Updated in June of 2020.

2020

Zehra Esra Ilhan*, John K. DiBaise, Sydney E. Dautel, Nancy G. Isern, Young-Mo Kim, David W. Hoyt, Athena A. Schepmoes, Heather M. Brewer, Karl K. Weitz, Thomas O. Metz, Michael D. Crowell, Dae-Wook Kang^x, Bruce E. Rittmann & Rosa Krajmalnik-Brown* 2020 “Temporospatial shifts in the human gut microbiome and metabolome after gastric bypass surgery” npj biofilms and microbiomes 6:12. https://doi.org/10.1038/s41522-020-0122-5

Jordan R Yaron, Sriram Ambadapadi, Liqiang Zhang, Ramani N Chavan, Scott A Tibbetts, Shahar Keinan, Arvind Varsani, Juan Maldonado^X, Simona Kraberger, Amanda M Tafoya, Whitney L Bullard, Jacquelyn Kilbourne, Alison Stern-Harbutte, Rosa Krajmalnik-Brown, Barbara H Munk, Erling O Koppang, Efrem S Lim, Alexandra R Lucas. 2020. “Immune protection is dependent on the gut microbiome in a lethal mouse gammaherpesviral infection” Scientific Reports, 2371 (2020). https://doi.org/10.1038/s41598-020-59269-9

Boya Wang, Rosa Krajmalnik-Brown, Chen Zhou, Yihao Luo, Bruce E. Rittmann, Youneng Tang. 2020. “Modeling Trichloroethene Reduction, Methanogenesis, and Homoacetogenesis in a H₂-based Biofilm”. Journal of Environmental Engineering. 146:2 doi.org/10.1061/(ASCE)EE.1943-7870.0001642

Yuqiang Bi, Andrew K Marcus, Hervé Robert, Rosa Krajmalnik-Brown, Bruce E Rittmann, Paul Westerhoff, Marie-Hélène Ropers, Muriel Mercier-Bonin. 2020. “The complex puzzle of dietary silver nanoparticles, mucus and microbiota in the gut” Journal of Toxicology and Environmental Health, Part B. (1)1-21. Jan 2020. https://doi.org/10.1080/10937404.2019.1710914

2019

Tengfei Chen, Burcu M. Yavuz, Anca G. Delgado^x, Brielle Januszewski, Yi Zuo, Paul Westerhoff, Rosa Krajmalnik-Brown, and Bruce E. Rittmann. 2019. “Multi-cycle Ozonation + Bioremediation for Soils Containing Residual Petroleum”. Environmental Engineering and Science, 36 (12), 1443-1451. doi.org/10.1089/ees.2019.0195

Daniel Gutierrez, Anthony Weinstock, Vijay C Antharam, Haiwei Gu, Paniz Jasbi, Xiaojian Shi, Blake Dirks, Rosa Krajmalnik-Brown, Juan Maldonado^x, Jack Guinan, Shankar Thangamani. 2019, Antibiotic-induced gut metabolome and microbiome alterations increase the susceptibility to Candida albicans colonization in the gastrointestinal tract. FEMS microbiology ecology. In Press doi.org/10.1093/femsec/fiz187

Jim Adams, Thomas Borody, Daewook Kang^x, Alexander Khoruts, Rosa Krajmalnik-Brown, Michael Sadowsky. 2019. “Microbiota Transplant Therapy and Autism: Lessons for the Clinic”. Expert Review of Gastroenterology & Hepatology. 13:11, 1033-1037. doi.org/10.1080/17474124.2019.1687293

James B Adams, Troy Vargason, Dae-Wook Kang^x, Rosa Krajmalnik-Brown, Juergen Hahn. 2019. “Multivariate Analysis of Plasma Metabolites in Children with Autism Spectrum Disorder and Gastrointestinal Symptoms Before and After MicrobiotaTransfer Therapy”. Processes. 7:11, 806. https://doi.org/10.3390/pr7110806

Boya Wang, Rosa Krajmalnik-Brown, Chen Zhou, Yihao Luo, Bruce E. Rittmann, Youneng Tang. 2019. “Modeling Trichloroethene Reduction, Methanogenesis, and Homoacetogenesis in a H₂-based Biofilm”. Journal of Environmental Engineering. 146:2 doi.org/10.1061/(ASCE)EE.1943-7870.0001642

Voth-Gaeddert, L.E.*; Torres, O.; Maldonado^x, J.; Krajmalnik-Brown, R.; Rittmann, B.E.; Oerther, D.B. 2019. “Aflatoxin Exposure, Child Stunting, and Dysbiosis in the Intestinal Microbiome Among Children in Guatemala”. Environmental Engineering Science. https://doi.org/10.1089/ees.2019.0104

Gil Sharon, Nikki Jamie Cruz, Dae-Wook Kang^x, Michael J Gandal, Bo Wang, Young-Mo Kim, Erika M Zink, Cameron P Casey, Bryn C Taylor, Christianne J Lane, Lisa M Bramer, Nancy G Isern, David W Hoyt, Cecilia Noecker, Michael J Sweredoski, Annie Moradian, Elhanan Borenstein, Janet K Jansson, Rob Knight, Thomas O Metz, Carlos Lois, Daniel H Geschwind, Rosa Krajmalnik-Brown, Sarkis K Mazmanian. 2019 “Human Gut Microbiota from Autism Spectrum Disorder Promote Behavioral Symptoms in Mice”. Cell, 177:6, 1600-1618. doi.org/10.1016/j.cell.2019.05.004.

Dae-Wook Kang^x, James B. Adams, Devon Coleman, Elena L. Pollard, Juan Maldonado, Sharon McDonough-Means, J. Gregory Caporaso, and Rosa Krajmalnik-Brown. 2019 "Long-term benefit of Microbiota Transfer Therapy on autism symptoms and gut microbiota" Scientific Reports, 9,5821 (2019). https://doi.org/10.1038/s41598-019-42183-0.

Krajmalnik-Brown. 2019 “A Fruitful Discovery: Can Gut Bacteria Control Hyperactive Behavior?”. Molecular Cell, 7-2-2019. DOI: 10.1016/j.molcel.2019.01.031

Tomasz Kalinowski, Kristin McClellan, Thomas A Bruton; Rosa Krajmalnik-Brown, Erin M Driver, Rolf U Halden, 2019 “Autonomous Screening of Groundwater Remediation Technologies in the Subsurface Using the In Situ Microcosm Array (ISMA). Hazardous Materials. 367, 668-675. doi.org/10.1016/j.jhazmat.2018.12.054

Levi Straka, Brendan Cahill, Juan Maldonado^X, Bruce Rittmann, Rosa Krajmalnik-Brown. 2019 “Effects of Light Intensity on Soluble Microbial Products Produced by Synechocystis sp. PCC 6803 and Associated Heterotrophic Communities” Algal Research. 38: 101409 doi.org/10.1016/j.algal.2019.101409

Chen Zhou, Aura Ontiveros-Valencia, Robert Nerenberg, Youneng Tang, David Friese, Rosa Krajmalnik-Brown, Bruce E Rittmann. 2019. “Hydrogenotrophic Microbial Reduction of Oxyanions with the Membrane Biofilm Reactor”. Frontiers in Microbiology, 9:3268 doi:10.3389/fmicb.2018.03268

2018

Corrie M Whisner, Brandon Dente, Juan Maldonado^X, Rosa Krajmalnik-Brown, Meg Bruening. 2018. “Diet, physical activity and screen time but not body mass index are associated to the gut microbiome of a diverse cohort of college students living in university housing: A cross-sectional study”. BMC Microbiology 2018 18:210. https://doi.org/10.1186/s12866-018-1362-x.

Yue Deng, Nai-Yuan Liu, Francis Tsow, Xiaojun Xian, Rosa Krajmalnik-Brown, Nongjian Tao *, Erica Forzani. 2018. “Tracking personal health-environment interaction with novel mobile sensing devices”. Sensors. 18 (8), 2670. https://pubmed.ncbi.nlm.nih.gov/30110932/

Ontiveros-Valencia A, Zhou C, Zhao H-P^X, Krajmalnik-Brown R, Tang Y, Rittmann BE. 2018. “Managing microbial communities in membrane biofilm reactors”. Applied Microbiology and Biotechnology, 1-12. https://doi.org/10.1007/s00253-018-9293-x

Sofia Esquivel-Elizondo, Juan Maldonado^X, and Rosa Krajmalnik-Brown*. 2018. “Anaerobic carbon monoxide metabolism by Pleomorphomonas carboxyditropha sp. nov., a new mesophilic hydrogenogenic carboxydotroph”. FEMS Microbiology Ecology, 94, 2018. doi: 10.1093/femsec/fiy056.

Tengfei Chen, Burcu M Yavuz, Anca G Delgado^X, Garrett Montoya, Delaney Van Winkle, Yi Zuo, Roopa Kamath, Paul Westerhoff, Rosa Krajmalnik-Brown, Bruce E Rittmann. 2018. “Impacts of Moisture Content during Ozonation of Soils Containing Residual Petroleum”. Journal of Hazardous Materials. 344: 1101–1108 https://doi.org/10.1016/j.jhazmat.2017.11.060

Esquivel-Elizondo, Sofia, Joseph Miceli III, Cesar I. Torres, and Krajmalnik-Brown, Rosa*. 2018. “Impact of carbon monoxide partial pressures on methanogenesis and medium chain fatty acids production during ethanol fermentation”. Biotechnology and Bioengineering. 115:341–350 DOI: 10.1002/bit.26471

Dae-Wook Kang^X.; Zehra E Ilhan, Nancy G Isern; David W Hoyt, Ph.D.; Daniel P Howsmon; Michael Shaffer; Catherine A Lozupone, Ph.D.; Juergen Hahn, Ph.D.; James B Adams, Ph.D.; Rosa Krajmalnik-Brown*. 2018. “Differences in fecal microbial metabolites and microbiota of children with autism spectrum disorders”. Anaerobe. 49:121-131. https://doi.org/10.1016/j.anaerobe.2017.12.00

2017

Esquivel-Elizondo, Sofia, Delgado Anca^X, Bruce E Rittmann, and Krajmalnik-Brown, Rosa*. 2017. “The effects of CO₂ and H₂ on CO metabolism by pure and mixed microbial cultures”. Biotechnology for Biofuels, 10:220, https://doi.org/10.1186/s13068-017-0910-1.

Anca G. Delgado, Devyn Fajardo-Williams, Emily Bondank#, Sofia Esquivel-Elizondo, and Rosa Krajmalnik-Brown*. 2017. “Coupling bioflocculation of Dehalococcoides mccartyi to high-rate reductive dehalogenation of chlorinated ethenes”. Environmental Science and Technology, 51 (19), 11297-11307. https://pubs.acs.org/doi/10.1021/acs.est.7b03097

Aura Ontiveros-Valencia; Chen Zhou, Ph.D.; Zehra E Ilhan; Louis C de Saint Cyr; Rosa Krajmalnik-Brown; Bruce E Rittmann. “Total electron acceptor loading and composition affect hexavalent uranium reduction and microbial community structure in a Membrane Biofilm Reactor.” Water Research, 2017, 125, 341 - 349. https://www.sciencedirect.com/science/article/abs/pii/S0043135417307248

YenJung S. L., Ontiveros-Valencia A., Ilhan Z.E., Zhou Y, Miranda E., Maldonado J., Krajmalnik-Brown R, and B. E Rittmann. 2017 “Enhancing biodegradation of C16-alkyl quaternary ammonium compounds using an oxygen-based Membrane Biofilm Reactor”. Water Research 123, 825-833. https://pubmed.ncbi.nlm.nih.gov/28797964/

Esquivel-Elizondo, S. V.,Garcia-Pena, E. I., Ilhan, Z. E., Kang, D.-W., and Krajmalnik-Brown, R. “Insights into butyrate production in a controlled fermentation system via gene predictions” msystems, mSystems 2:e00051-17. https://doi.org/10.1128/mSystems.00051-17

Sofia Esquivel-Elizondo, Anca G. Delgado, and Rosa Krajmalnik-Brown*. 2017 “Evolution of microbial communities growing with carbon monoxide, hydrogen and carbon dioxide”. FEMS Microbiology Ecology, 93 (6). doi: 10.1093/femsec/fix076

Ilhan ZE, DiBaise J.K, Isern N.G, Hoyt D.W, Marcus AK, Kang D-W, Crowell M.D, Rittmann B.E, and R Krajmalnik-Brown*. “Distinctive microbiomes and metabolites linked with weight loss after gastric bypass, but not gastric banding”. 2017 ISME Journal (Nature group), doi:10.1038/ismej.2017.71

Ilhan ZE, Marcus AK, Kang D-W, Rittmann BE, Krajmalnik-Brown* ”pH-mediated microbial and metabolic interactions in fecal enrichment cultures” msphere, 2:3 e00047-17 https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5415631/

Chen, T., A. G. Delgado, B. M. Yavuz, J. Maldonado, Y. Zuo, R. Kamath, P. Westerhoff, R. Krajmalnik-Brown and B. E. Rittmann*. 2017. “Interpreting the interaction between ozone and residual petroleum hydrocarbons in soil”. Environmental Science & Technology, 51(1): 506-513 https://pubs.acs.org/doi/abs/10.1021/acs.est.6b04534

Dae-Wook Kang, James B. Adams, Ann C. Gregory, Thomas Borody, Lauren Chittick, Alessio Fasano, Alexander Khoruts, Elizabeth Geis, Juan Maldonado, Sharon McDonough-Means, Elena L. Pollard, Simon Roux, Michael J. Sadowsky, Karen Schwarzberg Lipson, Matthew B. SullivanEmail author, J. Gregory CaporasoEmail author and Rosa Krajmalnik-Brown. MicrobiotaTransfer Therapy alters gut ecosystem and improves gastrointestinal and autism symptoms: an open-label study. Microbiome 2017 5:10

2016

Timothy R. Sampson, Justine W. Debelius, Taren Thron, Stefan Janssen, Gauri G. Shastri, Zehra Esra Ilhan, Collin Challis, Catherine E. Schretter, Sandra Rocha, Viviana Gradinaru, Marie-Francoise Chesselet, Ali Keshavarzian, Kathleen M. Shannon, Rosa Krajmalnik-Brown, Pernilla Wittung-Stafshede, Rob Knight, and Sarkis K. Mazmanian "Gut Microbiota Regulate Motor Deficits and Neuroinflammation in a Model of Parkinson’s Disease" Cell Volume 167 , Issue 6 , 1469 - 1480.e12

Sofia Esquivel-Elizondo, Prathap Parameswaran, Anga G. Delgado, Juan Maldonado, Bruce E. Rittmann and Rosa Krajmalnik-Brown. 2016. "Archaea and Bacteria acclimate to high total ammonia in a methanogenic reactor treating swine waste". Archaea.

Delgado AG, Fajardo-Williams D, Kegerreis KL, Parameswaran P, Krajmalnik-Brown R. 2016. Impact of ammonium on syntrophic organohalide-respiring and fermenting microbial communities. mSphere 10.1128/mSphere.00053-16.

Chen Zhou, Aura Ontiveros-Valencia, Zhao Cheng Wang, Juan Maldonado, He-Ping Zhao, Rosa Krajmalnik-Brown, and Bruce E. Rittmann. 2016 “Palladium recovery in a H2-based membrane biofilm reactor: formation of Pd(0) nanoparticles through enzymatic and autocatalytic reductions”. Environmental Science and Technology.

Aura Ontiveros-Valencia, Ryan Penton, Rosa Krajmalnik-Brown, Bruce E. Rittman. 2016 “Hydrogen-fed biofilm reactors reducing selenate and sulfate: community structure and location of elemental selenium within the biofilm” Biotechnology and Bioengineering. In press

Alexander S. Zevin, Bruce E. Rittmann, Rosa Krajmalnik-Brown. 2016 “The source of inoculum drives bacterial community structure in Synechocystis sp. PCC6803-based photobioreactors” Algal Research-Biomass Biofuels and Bioproducts, 13:109-115.

2015

Richard E. Frye, John Slattery, Derrick F. MacFabe, Emma Allen-Vercoe, William Parker, John Rodakis, James B. Adams, Rosa Krajmalnik-Brown, Ellen Bolte, Stephen Kahler, Jana Jennings, Jill James, Carl E. Cerniglia, and Tore Midtvedt. 2015 “Approaches to studying and manipulating the enteric microbiome to improve autism symptoms” Microbial Ecology in Health and Disease. 26

Zevin, A.S., Nam, T.G., Rittmann, B.E., Krajmalnik-Brown, R. 2015. “Effects of phosphate limitation on soluble microbial products and microbial community structure in semi-continuous Synechocystis-based photobioreactors”. Biotechnology and Bioengineering In Press

Krajmalnik-Brown R, Lozupone C, Kang D-W, Adams J.B. 2015. "Gut bacteria in children with Autism Spectrum Disorders: Challenges and promise of studying how complex community influences a complex disease. Microbial Ecology in Health and Disease 2015, 26: 26914

Badalamenti J, Torres CI, Krajmalnik-Brown R and Bond D. 2015 “Genomes of Geoalkalibacter ferrihydriticus Z-0531T and Geoalkalibacter subterraneus Red1T, two haloalkaliphilic metal-reducing Deltaproteobacteria" Genome Announcements, 3 (2).

Kang D-W, DiBaise JK, Ilhan ZE, Crowell MD, Rideout JR, Caporaso JR, Rittmann BE, Krajmalnik-Brown R. 2015. Gut microbial and short-chain fatty acid profiles in adults with chronic constipation before and after treatment with lubiprostone, Anaerobe. 33: 33-41.

Book Chapters

Zhang H, Parameswaran P, Badalamenti JP, Rittmann BE, Krajmalnik-Brown R. Integrating high-throughput pyrosequencing and quantitative real-time PCR to analyze microbial communities. 2011. In High-Throughput Next Generation Sequencing, Methods in Molecular Biology 733:107-128.