We make every effort to publish in Open-Access journals, pay for open options when offered, and upload manuscripts to bioRxiv prior to publication. For older manuscripts that may be behind paywalls, archival copies for personal use are provided. Updated lists are always available at ORCID, or Google Scholar.

 

Preprints under review:

Petersen HA, Chan CH, Carpenter GO, Tabari MZ, Fields JL, Zia A, Rich-New ST, Hochbaum AI, Bond DR, Wang F. A bundled antiparallel cytochrome nanowire structure suggests roles in cell-cell electron transfer and biofilm formation. bioRxiv 2025.10.22.684050 link to preprint

Publications:

Starwalt-Lee R, Gralnick JA, Bond DR. 2026.Increased mutation rates and diversity are dominant features of Geobacter multiheme cytochromes. mBio 17:e03394-25. link to paper

Petersen HA, Hochbaum AI, Bond DR, Wang F. 2025; Cytochrome nanowires under electron microscopy. Emerging Topics in Life Science 8 December 2025; 8 (4): ETLS20240008. link to paper

Hsu D, Flynn JR, Schuler CJ, Santelli CM, Toner BM, Bond DR, Gralnick JA. 2024. Isolation and genomic analysis of “Metallumcola ferriviriculae” MK1, a Gram-positive, Fe(III)-reducing bacterium from the Soudan Underground Mine, an iron-rich Martian analog site. Applied and Environmental Microbiology 90:e00044-24. link to paper

Gralnick JA, and Bond DR. 2023. Electron transfer beyond the outer membrane: Putting electrons to rest. Annual Review of Microbiology 77:517-539. link to paper

Joshi K, Chan CH, Levar CE, Bond DR. 2023. Single amino acid residues control potential-dependent inactivation of an inner membrane bc-cytochrome.  ChemElectroChem. e202200907. link to paper

Olmsted, CN., Ort, R., Tran, PQ., McDaniel, EA., Roden, EE., Bond, DR. Shaomei H, McMahon KD. 2023. Environmental predictors of electroactive bacterioplankton in small boreal lakes. Environmental Microbiology. 25(3), 705–720. link to paper

Choi S, Chan CH, Bond DR. 2022. Lack of specificity in Geobacter periplasmic electron transfer. Journal of Bacteriology. 204:12 e00322-22. link to paper 

  • Journal of Bacteriology  'Editor's Pick' 

Wang F, Chan CH, Suciu V, Mustafa K, Ammend M, Si D, Hochbaum AI, Egelman EH, Bond DR. 2022. Structure of Geobacter OmcZ filaments suggests extracellular cytochrome polymers evolved independently multiple times. eLife. Sep 5;11:e81551. PMID: 36062910. link to paper

Wang F, Mustafa K, Suciu V, Joshi K, Chan CH, Choi S, Su Z, Si D, Hochbaum AI, Egelman EH, Bond DR. 2022. Cryo-EM structure of an extracellular Geobacter OmcE cytochrome filament reveals tetrahaem packing. Nature Microbiology 2022 Aug;7(8):1291-1300. doi: 10.1038/s41564-022-01159-z. Epub 2022 Jul 7. PMID: 35798889 link to paper or archived pdf

Tan Z, Chan CH, Maleska M, Banuelos Jara B, Lohman BK, Ricks NJ, Bond DR, Hammond MC. 2022. The signaling pathway that cGAMP riboswitches found: Analysis and application of riboswitches to study cGAMP signaling in Geobacter sulfurreducens. International J Molecular Science. Jan 21;23(3):1183. PMID: 35163114 link to paper

Joshi K, Chan CH, Bond DR. 2021. Geobacter sulfurreducens inner membrane cytochrome CbcBA controls electron transfer and growth yield near the energetic limit of respiration. Molecular Microbiology. 2021-09-09. link to paper or just check out all the data in the data repository

Jiménez Otero, FJ, Chadwick GL, Yates M, Mickol RL, Saunders SH, Glaven SM, Gralnick JA, Newman DK, Tender LM, Orphan VJ, Bond DR. 2021. Evidence of a streamlined extracellular electron transfer pathway from biofilm structure, metabolic stratification, and long-range electron transfer parameters. Applied and Environmental Microbiology 87:17: e00706-21. link to paper

Kees ED, Levar CE, Miller SP, Bond DR, Gralnick JA, Dean AM. 2021. Survival of the first rather than the fittest in a Shewanella electrode biofilm. Communications Biology 4, 536. link to paper

Sheik CS, Badalamenti JP, Telling J, Hsu D, Alexander SC, Bond DR, Gralnick JA, Lollar BS, Toner BM. 2021. Novel microbial groups drive productivity in an Archean Iron formation. Fronteirs in Microbiolgy. 12:616. link to paper

Starwalt-Lee, R., El-Naggar, MY., Bond, DR., Gralnick, JA. 2021. Electrolocation? The evidence for redox-mediated taxis in Shewanella oneidensis. Molecular Microbiology; 115: 1069– 1079. link to paper

Conley BE., Weinstock MT, Bond DR, Gralnick JA. 2020. A hybrid extracellular electron transfer pathway enhances the survival of Vibrio natriegens. Applied and Environmental Microbiology 86:e01253-20. link to paper

Chadwick GL, Otero FJ, Gralnick JA, Bond DR, Orphan VJ. 2019. NanoSIMS imaging reveals metabolic stratification within current-producing biofilms. Proceedings of the National Academy of Sciences USA, 116(41), 20716-20724. link to paper

Joshi K, Kane AL, Kotloski NJ, Gralnick JA, Bond DR. (2019). Preventing hydrogen disposal increases electrode utilization efficiency by Shewanella oneidensis. Fronteirs in Energy Research., 7. link to paper and link to the CAD drawings of our reactors

Hallberg Z, Chan CH, Wright T, Kranzusch PJ, Doxzen KW, Park JJ, Bond DR, Hammond MC. 2019. Structure and mechanism of a Hypr GGDEF enzyme that activates cGAMP signaling to control extracellular metal respiration. eLife 2019;8:e43959. link to paper

Jiménez Otero F, Chan CH, Bond DR. 2018. Identification of different putative outer membrane electron conduits necessary for Fe(III) citrate, Fe(III) oxide, Mn(IV) oxide, or electrode reduction by Geobacter sulfurreducens. Journal of Bacteriology 200(19) e00347-18. link to paper

Conley BE, Intile PJ, Bond DR, Gralnick JA. 2018. Divergent Nrf-family proteins and MtrCAB homologs facilitate extracellular electron transfer in Aeromonas hydrophila. Applied and Environmental Microbiology. 02134-18. link to paper

Levar CE, Hoffman CL, Dunshee AJ, Toner BM, Bond DR. 2017. Redox potential as a master variable controlling pathways of metal reduction by Geobacter sulfurreducens. ISME Journal 11, 741–752.   link to paper

Zacharoff L, Morrone DJ,  Bond DR. 2017. Geobacter sulfurreducens Extracellular Multiheme Cytochrome PgcA Facilitates Respiration to Fe(III) Oxides But Not Electrodes. Frontiers in Microbiology 7:913.  link to paper

Chan CH, Levar CE, Jiménez Otero F, Bond DR. 2017. Genome scale mutational analysis of Geobacter sulfurreducens reveals distinct molecular mechanisms for respiration of poised electrodes vs. Fe(III) oxides. Journal of Bacteriology 199(19) e00340-17. link to paper

  • For easy instructions on how to download data sets, obtain annotated versions of our resequenced Geobacter sulfurreducens genome, or view the cool transposon mapping data to identify essential genes or regions within the genome, see :supplement from the Tn-Seq paper.

Badalamenti JP, Summers ZM, Chan CH, Gralnick JA, Bond DR. 2016. Isolation and genomic characterization of ‘Desulfuromonas soudanensis WTL’, a metal- and electrode-respiring bacterium from anoxic deep subsurface brine. Frontiers in Microbiology 7:913. link to paper

Zacharoff L, Chan CH,  Bond DR. 2016. Reduction of low potential electron acceptors requires the CbcL inner membrane cytochrome of Geobacter sulfurreducens. Bioelectrochemistry 107:7-13. link to paper

Lusk BG, Badalamenti JP, Parameswaran P, Bond DR, Torres CI. 2015. Draft genome sequence of the Gram-positive thermophilic iron reducer Thermincola ferriacetica strain Z-0001T. Genome Announcements 3(5):e01072-15. link to paper or NCBI genome record

Chan CH, Levar CE, Zacharoff L, Badalamenti JP, Bond DR. 2015. Scarless genome editing and stable inducible expression vectors for Geobacter sulfurreducens. Applied and Environmental Microbiology 81(20):7178–7186. link to paper

Badalamenti JP, Krajmalnik-Brown R, Torres CI, Bond DR. 2015. Genomes of Geoalkalibacter ferrihydriticus Z-0531Tand Geoalkalibacter subterraneus Red1T, two haloalkaliphilic metal-reducing Deltaproteobacteria. Genome Announcements 3(2):e00039-15.  link to paper or NCBI records for G. subterraneus and G. ferrihydriticus

Badalamenti JP, Bond DR. 2015. Complete genome of Geobacter pickeringii G13T, a metal-reducing isolate from sedimentary kaolin deposits. Genome Announcements 3(2):e00038-15. link to paper or NCBI genome record for NCBI RefSeq assembly GCF_000817955.1

Levar CE, Chan CH, Mehta-Kolte MG, Bond DR. 2014. An inner membrane cytochrome required only for reduction of high redox potential extracellular electron acceptors. mBio 5(6):e02034-14.  link to paper

  • Related UMN press release: "Researchers discover surprising versatility in bacteria that derive energy from metals

Liu Y, Wang Z, Liu J, Levar C, Edwards MJ, Babauta JT, Kennedy DW, Shi Z, Beyenal H, Bond DR, Clarke TA, Butt JN, Richardson DJ, Rosso KM, Zachara JM, Fredrickson JK, Shi L. 2014. A trans‐outer membrane porin‐cytochrome protein complex for extracellular electron transfer by Geobacter sulfurreducens PCA. Enviromental Microbiology Reports 6:776–785.  link to paper

Stephen CS, LaBelle EV, Brantley SL, Bond DR. 2014. Abundance of the multiheme c-type cytochrome OmcB increases in outer biofilm layers of electrode-grown Geobacter sulfurreducens. PLoS ONE 9:e104336.  link to paper

Kane AL, Bond DR, Gralnick JA. 2012. Electrochemical analysis of Shewanella oneidensis engineered to bind gold electrodes. ACS Synthetic Biology 2:93–101. link to paper

Summers ZM, Gralnick JA, Bond DR. 2013. Cultivation of an obligate Fe(II)-oxidizing lithoautotrophic bacterium using electrodes. mBio 4:e00420–12.  link to paper

Mehta-Kolte MG, Bond DR. 2012. Geothrix fermentans secretes two different redox active compounds to utilize electron acceptors across a wide potential window. Applied and Environmental Microbiology 78:6987–6995.  link to paper

Bond DR, Strycharz-Glaven SM, Tender LM, Torres CI. 2012. On electron transport through Geobacter biofilms. ChemSusChem 5:1099–1105. link to paper

Liu Y, Bond DR. 2012. Long-distance electron transfer by G. sulfurreducens biofilms results in accumulation of reduced c-type cytochromes. ChemSusChem 5:1047–1053. link to paper

Levar CE, Rollefson JB, Bond DR. 2012. Energetic and molecular constraints on the mechanism of environmental Fe(III) reduction by Geobacter.  In: Gescher J, Kappler A (eds.). Microbial Metal Respiration: From Geochemistry to Potential Applications. Springer, London; pp. 29–48.  link to chapter or archived accessible pdf

Qian Y, Paquete CM, Louro RO, Ross DE, LaBelle E, Bond DR, Tien M. 2011. Mapping the iron binding site(s) on the small tetraheme cytochrome of Shewanella oneidensis MR-1. Biochemistry 50:6217–6224. link to paper

Liu Y, Kim H, Franklin RR, Bond DR. 2011. Linking spectral and electrochemical analysis to monitor c-type cytochrome redox status in living Geobacter sulfurreducens biofilms.  ChemPhysChem 12:2235–2241. link to paper

Ross DE, Flynn JM, Baron DB, Gralnick JA, Bond DR. 2011. Towards electrosynthesis in Shewanella: energetics of reversing the Mtr pathway for reductive metabolism. PLoS ONE 6:e16649.  link to paper

Rollefson JB, Stephen CS, Tien M, Bond DR. 2011. Identification of an extracellular polysaccharide network essential for cytochrome anchoring and biofilm formation in Geobacter sulfurreducens. Journal of Bacteriology 193:1023–1033.  link to paper

  • Related Comment in Journal of Bacteriology, T. S. Magnuson, “How the xap locus put electrical Zap in Geobacter sulfurreducens biofilms"comment
  • Journal Highlight in ASM’s Microbe: 'New insights into electron transfer between bacteria, metals'  

2010-

Flynn JM, Ross DE, Hunt KA, Bond DR, Gralnick JA. 2010. Enabling unbalanced fermentations by using engineered electrode-interfaced bacteria. mBio 1:e00190–10. link to paper

Johnson ET, Baron DB, Naranjo B, Bond DR, Schmidt-Dannert C, Gralnick JA. 2010. Enhancement of survival and electricity production in an engineered bacterium by light-driven proton pumping. Applied and Environmental Microbiology 76:4123–4129.  link to paper 

Coursolle D, Baron DB, Bond DR, Gralnick JA. 2010. The Mtr respiratory pathway is essential for reducing flavins and electrodes in Shewanella oneidensis. Journal of Bacteriology 192:467–474.  link to paper

Liu Y, Kim H, Franklin R, Bond DR. 2010. Gold line array electrodes increase substrate affinity and current density of electricity-producing G. sulfurreducens biofilms. Energy and Environmental Science 3:1782–1788. link to paper

Marsili E, Sun J, Bond DR. 2010. Voltammetry and growth physiology of Geobacter sulfurreducens biofilms as a function of growth stage and imposed electrode potential. Electroanalysis 22:865–874.  link to paper

Bond DR, 2010.  Electrodes as electron acceptors, and the bacteria who love them. In: Geomicrobiology: Molecular and Environmental Perspectives. Larry Barton, Martin Mandl, and Alexander Loy (Editors). Springer. link to archived pdf 

Baron D, LaBelle E, Coursolle D, Gralnick JA, Bond DR. 2009. Electrochemical measurement of electron transfer kinetics by Shewanella oneidensis MR-1. Journal of Biological Chemistry 284:28865–28873.  link to paper

Rollefson JB, Levar CE, Bond DR. 2009. Identification of genes involved in biofilm formation and respiration via mini-Himar transposon mutagenesis of Geobacter sulfurreducens. Journal of Bacteriology 191:4207–4217.  link to paper

LaBelle E, Bond DR. 2009.  Cyclic voltammetry of electrode-attached bacteria. In: Bio-electrochemical systems: from extracellular electron transfer to biotechnological application. Integrated Environmental Technology Series,  Dr. Ir. Piet Lens (Ed.), Wageningen University, The Netherlands. link to archived pdf

Marsili E, Baron DB, Shikhare ID, Coursolle D, Gralnick JA, Bond DR. 2008. Shewanella secretes flavins that mediate extracellular electron transfer. Proceedings of the National Academy of Sciences of the United States of America. 105:3968–3973.  link to paper

Marsili E, Rollefson JB, Baron DB, Hozalski RM, Bond DR. 2008. Microbial biofilm voltammetry: Direct electrochemical characterization of catalytic electrode-attached biofilms. Applied and Environmental Microbiology 74:7329–7337.  link to paper

Srikanth S, Marsili E, Flickinger MC, Bond DR. 2008. Electrochemical characterization of Geobacter sulfurreducenscells immobilized on graphite paper electrodes. Biotechnology and Bioengineering 99:1065–1073. link to paper

Ragoonanan V, Malsam J, Bond DR, Aksan A. 2008. Roles of membrane structure and phase transition on the hyperosmotic stress survival of Geobacter sulfurreducens. Biochimica et Biophysica Acta (BBA) - Biomembranes 1778:2283–2290. link to paper

book chapter  Bond DR.  2007. Growth of Electrode-Reducing Bacteria. Manual of Environmental Microbiology (3rd ed.). Editors: Hurst CJ, Crawford RL, Garland JL, Lipson DA, Mills AL, Stetzenbach LD. ASM Press. Chapter 93. link to chapter

Flickinger MC, Schottel JL, Bond DR, Aksan A, Scriven LE. 2007. Painting and printing living bacteria: Engineering nanoporous biocatalytic coatings to preserve microbial viability and intensify reactivity. Biotechnology Progress 23:2–17.  link to paper

Postdoc papers from the University of Massachusetts

Mahadevan R, Bond DR, Butler JE, Esteve-Nuñez A, Coppi MV, Palsson BO, Schilling CH, Lovley DR. 2006. Characterization of metabolism in the Fe(III)-reducing organism Geobacter sulfurreducens by constraint-based modeling. Applied and Environmental Microbiology 72:1558–1568.  link to paper

Butler JE, Glaven RH, Esteve-Núñez A, Núñez C, Shelobolina ES, Bond DR, Lovley DR. 2006. Genetic characterization of a single bifunctional enzyme for fumarate reduction and succinate oxidation in Geobacter sulfurreducens and engineering of fumarate reduction in Geobacter metallireducens. Journal of Bacteriology 188:450–455.  link to paper

Bond DR, Mester T, Nesbø CL, Izquierdo-Lopez AV, Collart FL, Lovley DR. 2005. Characterization of citrate synthase from Geobacter sulfurreducens and evidence for a family of citrate synthases similar to those of eukaryotes throughout the Geobacteraceae. Applied and Environmental Microbiology 71:3858–3865.  link to paper

Bond DR, Lovley DR. 2005. Evidence for involvement of an electron shuttle in electricity generation by Geothrix fermentans. Applied and Environmental Microbiology 71:2186–2189. link to paper

Holmes DE, Bond DR, O’Neil RA, Reimers CE, Tender LR, Lovley DR. 2004. Microbial communities associated with electrodes harvesting electricity from a variety of aquatic sediments. Microbial Ecology 48:178–190. link to paper

Holmes DE, Nicoll JS, Bond DR, Lovley DR. 2004. Potential role of a novel psychrotolerant member of the family Geobacteraceae, Geopsychrobacter electrodiphilus gen. nov., sp. nov., in electricity production by a marine sediment fuel cell. Applied and Environmental Microbiology 70:6023–6030.  link to paper

Gregory KB, Bond DR, Lovley DR. 2004. Graphite electrodes as electron donors for anaerobic respiration. Environmental Microbiology 6:596–604. link to paper

Holmes DE, Bond DR, Lovley DR. 2004. Electron transfer by Desulfobulbus propionicus to Fe(III) and graphite electrodes. Applied and Environmental Microbiology 70:1234–1237.  link to paper

Bond DR, Lovley DR. 2003. Electricity production by Geobacter sulfurreducens attached to electrodes. Applied and Environmental Microbiology 69:1548–1555.  link to paper

Tender LM, Reimers CE, Stecher HA, Holmes DE, Bond DR, Lowy DA, Pilobello K, Fertig SJ, Lovley DR. 2002. Harnessing microbially generated power on the seafloor. Nature Biotechnology 20:821–825.  link to paper

  • related comment in Nature Biotechnology: E.F. DeLong and P. Chandler, “Power from the Deep”  comment

Bond DR, Holmes DE, Tender LM, Lovley DR. 2002. Electrode-reducing microorganisms that harvest energy from marine sediments. Science 295:483–485. link to paper

  • related article in Science: E. Pennisi,  “Microbes use mud to make electricity”, where Zeikus nails it with '...it would take fields of electrodes to get enough energy to power many undersea devices'  comment

Bond DR, Lovley DR. 2002. Reduction of Fe(III) oxide by methanogens in the presence and absence of extracellular quinones. Environmental Microbiology 4:115–124. link to paper

Papers about cows

Kim YJ, Liu RH, Bond DR, Russell JB. 2000. Effect of linoleic acid concentration on conjugated linoleic acid production by Butyrivibrio fibrisolvens A38. Applied and Environmental Microbiology 66:5226–5230.  link to paper

Bond DR, Russell JB. 2000. Protonmotive force regulates the membrane conductance of Streptococcus bovis in a non-ohmic fashion. Microbiology 146(3):687–694. link to paper

Bond DR, Tsai BM, Russell JB. 1999. Physiological characterization of Streptococcus bovis mutants that can resist 2-deoxyglucose-induced lysis. Microbiology 145(10):2977–2985. link to paper

Diez-Gonzalez F, Bond DR, Jennings E, Russell JB. 1999. Alternative schemes of butyrate production in Butyrivibrio fibrisolvens and their relationship to acetate utilization, lactate production, and phylogeny. Archives of Microbiology 171:324–330.  link to paper

Bond DR, Tsai BM, Russell JB. 1998. The diversion of lactose carbon through the tagatose pathway reduces the intracellular fructose 1,6-bisphosphate and growth rate of Streptococcus bovis. Applied Microbiology and Biotechnology. 49:600–605.  link to paper

Bond DR, Russell JB. 1998. Relationship between intracellular phosphate, proton motive force, and rate of nongrowth energy dissipation (energy spilling) in Streptococcus bovis JB1. Applied and Environmental Microbiology 64:976–981. link to paper

Russell JB, Bond DR, Cook GM. 1996. The fructose diphosphate/phosphate regulation of carbohydrate metabolism in low G+C Gram-positive anaerobes. Research in Microbiology 147:528–535. link to paper

Bond DR, Russell JB. 1996. A role for fructose 1,6-diphosphate in the ATPase-mediated energy-spilling reaction of Streptococcus bovis. Applied and Environmental Microbiology 62:2095–2099. link to paper