Dawn E Holmes

Summary

Affiliation: University of Massachusetts
Country: USA

Publications

  1. pmc Enrichment of specific protozoan populations during in situ bioremediation of uranium-contaminated groundwater
    Dawn E Holmes
    Department of Microbiology, Morrill Science Center IVN, University of Massachusetts Amherst, Amherst, MA 01003, USA
    ISME J 7:1286-98. 2013
  2. pmc Molecular analysis of the in situ growth rates of subsurface Geobacter species
    Dawn E Holmes
    Department of Physical and Biological Sciences, Western New England University, Springfield, MA, USA
    Appl Environ Microbiol 79:1646-53. 2013
  3. pmc The genome of Geobacter bemidjiensis, exemplar for the subsurface clade of Geobacter species that predominate in Fe(III)-reducing subsurface environments
    Muktak Aklujkar
    University of Massachusetts Amherst, Amherst, MA 01003, USA
    BMC Genomics 11:490. 2010
  4. doi request reprint Genes for two multicopper proteins required for Fe(III) oxide reduction in Geobacter sulfurreducens have different expression patterns both in the subsurface and on energy-harvesting electrodes
    Dawn E Holmes
    Department of Microbiology, University of Massachusetts, Amherst, MA 01003, USA
    Microbiology 154:1422-35. 2008
  5. ncbi request reprint Subsurface clade of Geobacteraceae that predominates in a diversity of Fe(III)-reducing subsurface environments
    Dawn E Holmes
    Department of Microbiology, Morrill IV North Science Center, University of Massachusetts, Amherst, MA, USA
    ISME J 1:663-77. 2007
  6. doi request reprint Transcriptome of Geobacter uraniireducens growing in uranium-contaminated subsurface sediments
    Dawn E Holmes
    Department of Microbiology, University of Massachusetts, Amherst, MA 01003, USA
    ISME J 3:216-30. 2009
  7. ncbi request reprint Microarray and genetic analysis of electron transfer to electrodes in Geobacter sulfurreducens
    Dawn E Holmes
    Department of Microbiology, University of Massachusetts, Amherst, MA 01003, USA
    Environ Microbiol 8:1805-15. 2006
  8. pmc Potential for quantifying expression of the Geobacteraceae citrate synthase gene to assess the activity of Geobacteraceae in the subsurface and on current-harvesting electrodes
    Dawn E Holmes
    Department of Microbiology, University of Massachusetts, Amherst, MA 01003, USA
    Appl Environ Microbiol 71:6870-7. 2005
  9. pmc In situ expression of nifD in Geobacteraceae in subsurface sediments
    Dawn E Holmes
    Department of Microbiology, University of Massachusetts, Amherst, MA 01003, USA
    Appl Environ Microbiol 70:7251-9. 2004
  10. ncbi request reprint Prolixibacter bellariivorans gen. nov., sp. nov., a sugar-fermenting, psychrotolerant anaerobe of the phylum Bacteroidetes, isolated from a marine-sediment fuel cell
    Dawn E Holmes
    Department of Microbiology, University of Massachusetts, Amherst, MA 01003, USA
    Int J Syst Evol Microbiol 57:701-7. 2007

Detail Information

Publications33

  1. pmc Enrichment of specific protozoan populations during in situ bioremediation of uranium-contaminated groundwater
    Dawn E Holmes
    Department of Microbiology, Morrill Science Center IVN, University of Massachusetts Amherst, Amherst, MA 01003, USA
    ISME J 7:1286-98. 2013
    ..Thus, quantifying the influence of protozoan predation on the growth, activity and composition of the subsurface bacterial community is essential for predictive modeling of in situ uranium bioremediation strategies. ..
  2. pmc Molecular analysis of the in situ growth rates of subsurface Geobacter species
    Dawn E Holmes
    Department of Physical and Biological Sciences, Western New England University, Springfield, MA, USA
    Appl Environ Microbiol 79:1646-53. 2013
    ..These results suggest that monitoring rpsC expression may better reflect the actual rate that Geobacter species are metabolizing and growing during in situ uranium bioremediation than changes in cell abundance...
  3. pmc The genome of Geobacter bemidjiensis, exemplar for the subsurface clade of Geobacter species that predominate in Fe(III)-reducing subsurface environments
    Muktak Aklujkar
    University of Massachusetts Amherst, Amherst, MA 01003, USA
    BMC Genomics 11:490. 2010
    ..This study examines whether there are significant differences in the metabolism and physiology of G. bemidjiensis compared to non-subsurface Geobacter species...
  4. doi request reprint Genes for two multicopper proteins required for Fe(III) oxide reduction in Geobacter sulfurreducens have different expression patterns both in the subsurface and on energy-harvesting electrodes
    Dawn E Holmes
    Department of Microbiology, University of Massachusetts, Amherst, MA 01003, USA
    Microbiology 154:1422-35. 2008
    ..Furthermore, comparison of differential expression of ompB and ompC may provide insight into the in situ metabolic state of Geobacter species in environments of interest...
  5. ncbi request reprint Subsurface clade of Geobacteraceae that predominates in a diversity of Fe(III)-reducing subsurface environments
    Dawn E Holmes
    Department of Microbiology, Morrill IV North Science Center, University of Massachusetts, Amherst, MA, USA
    ISME J 1:663-77. 2007
    ..These results suggest that further study of Geobacter species in the subsurface clade is necessary to accurately model the behavior of Geobacter species during subsurface bioremediation of metal and organic contaminants...
  6. doi request reprint Transcriptome of Geobacter uraniireducens growing in uranium-contaminated subsurface sediments
    Dawn E Holmes
    Department of Microbiology, University of Massachusetts, Amherst, MA 01003, USA
    ISME J 3:216-30. 2009
    ....
  7. ncbi request reprint Microarray and genetic analysis of electron transfer to electrodes in Geobacter sulfurreducens
    Dawn E Holmes
    Department of Microbiology, University of Massachusetts, Amherst, MA 01003, USA
    Environ Microbiol 8:1805-15. 2006
    ..This has important implications for the design of electrode materials and the genetic engineering of microorganisms to improve the function of microbial fuel cells...
  8. pmc Potential for quantifying expression of the Geobacteraceae citrate synthase gene to assess the activity of Geobacteraceae in the subsurface and on current-harvesting electrodes
    Dawn E Holmes
    Department of Microbiology, University of Massachusetts, Amherst, MA 01003, USA
    Appl Environ Microbiol 71:6870-7. 2005
    ..These results suggest that it is possible to monitor the in situ metabolic rate of Geobacteraceae by tracking the expression of the citrate synthase gene...
  9. pmc In situ expression of nifD in Geobacteraceae in subsurface sediments
    Dawn E Holmes
    Department of Microbiology, University of Massachusetts, Amherst, MA 01003, USA
    Appl Environ Microbiol 70:7251-9. 2004
    ....
  10. ncbi request reprint Prolixibacter bellariivorans gen. nov., sp. nov., a sugar-fermenting, psychrotolerant anaerobe of the phylum Bacteroidetes, isolated from a marine-sediment fuel cell
    Dawn E Holmes
    Department of Microbiology, University of Massachusetts, Amherst, MA 01003, USA
    Int J Syst Evol Microbiol 57:701-7. 2007
    ..nov., sp. nov. is proposed. The type strain is F2(T) (=ATCC BAA-1284(T)=JCM 13498(T))...
  11. pmc Anaerobic oxidation of benzene by the hyperthermophilic archaeon Ferroglobus placidus
    Dawn E Holmes
    Department of Microbiology, 203N Morrill Science Center IVN, University of Massachusetts Amherst, Amherst, MA 01003, USA
    Appl Environ Microbiol 77:5926-33. 2011
    ..Thus, F. placidus provides a much-needed pure culture model for further studies on the anaerobic activation of benzene in microorganisms...
  12. pmc Genome-scale analysis of anaerobic benzoate and phenol metabolism in the hyperthermophilic archaeon Ferroglobus placidus
    Dawn E Holmes
    Department of Microbiology, University of Massachusetts Amherst, Amherst, MA, USA
    ISME J 6:146-57. 2012
    ....
  13. doi request reprint Expression of acetate permease-like (apl ) genes in subsurface communities of Geobacter species under fluctuating acetate concentrations
    Hila Elifantz
    Department of Microbiology, University of Massachusetts, Amherst, MA, USA
    FEMS Microbiol Ecol 73:441-9. 2010
    ....
  14. doi request reprint Gene transcript analysis of assimilatory iron limitation in Geobacteraceae during groundwater bioremediation
    Regina A O'Neil
    Department of Microbiology, 203 N Morrill Science Center IVN, University of Massachusetts at Amherst, Amherst, MA 01003, USA
    Environ Microbiol 10:1218-30. 2008
    ..These results demonstrate the ability of transcript analysis to reveal previously unsuspected aspects of the in situ physiology of microorganisms in subsurface environments...
  15. ncbi request reprint Geobacter bemidjiensis sp. nov. and Geobacter psychrophilus sp. nov., two novel Fe(III)-reducing subsurface isolates
    Kelly P Nevin
    Department of Microbiology, University of Massachusetts Amherst, MA 01003, USA
    Int J Syst Evol Microbiol 55:1667-74. 2005
    ..nov. (type strain Bem(T)=ATCC BAA-1014(T)=DSM 16622(T)=JCM 12645(T)) and Geobacter psychrophilus sp. nov. (strains P11, P35(T) and P39; type strain P35(T)=ATCC BAA-1013(T)=DSM 16674(T)=JCM 12644(T)) are proposed...
  16. ncbi request reprint Geobacter pickeringii sp. nov., Geobacter argillaceus sp. nov. and Pelosinus fermentans gen. nov., sp. nov., isolated from subsurface kaolin lenses
    Evgenya S Shelobolina
    Department of Microbiology, University of Massachusetts, Morrill Science Center IVN, Amherst, MA 01003, USA
    Int J Syst Evol Microbiol 57:126-35. 2007
    ..nov., sp. nov. (type strain R7(T)=DSM 17108(T)=ATCC BAA-1133(T)), in the Sporomusa-Pectinatus-Selenomonas group...
  17. ncbi request reprint Influence of heterogeneous ammonium availability on bacterial community structure and the expression of nitrogen fixation and ammonium transporter genes during in situ bioremediation of uranium-contaminated groundwater
    Paula J Mouser
    Department of Microbiology, University of Massachusetts, Amherst, Massachusetts 01003, USA
    Environ Sci Technol 43:4386-92. 2009
    ..This study also emphasizes the need for more detailed analysis of geochemical and physiological interactions at the field scale in order to adequately model subsurface microbial processes during bioremediation...
  18. ncbi request reprint Geoglobus ahangari gen. nov., sp. nov., a novel hyperthermophilic archaeon capable of oxidizing organic acids and growing autotrophically on hydrogen with Fe(III) serving as the sole electron acceptor
    Kazem Kashefi
    Department of Microbiology, University of Massachusetts, Amherst 01003, USA
    Int J Syst Evol Microbiol 52:719-28. 2002
    ..The name proposed for strain 234T is Geoglobus ahangari gen. nov., sp. nov....
  19. doi request reprint Quantifying expression of Geobacter spp. oxidative stress genes in pure culture and during in situ uranium bioremediation
    Paula J Mouser
    Department of Microbiology, University of Massachusetts, Amherst, MA, USA
    ISME J 3:454-65. 2009
    ....
  20. pmc Thermophily in the Geobacteraceae: Geothermobacter ehrlichii gen. nov., sp. nov., a novel thermophilic member of the Geobacteraceae from the "Bag City" hydrothermal vent
    Kazem Kashefi
    Department of Microbiology, University of Massachusetts, 203 Morrill Science Center IVN, Amherst, MA 01003, USA
    Appl Environ Microbiol 69:2985-93. 2003
    ....
  21. pmc 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
    Dawn E Holmes
    Department of Microbiology, 106N Morrill IV N, University of Massachusetts, Amherst, MA 01003, USA
    Appl Environ Microbiol 70:6023-30. 2004
    ..Thus, they may serve as important model organisms for further elucidation of the mechanisms of microbe-electrode electron transfer in sediment fuel cells...
  22. pmc Characterization and transcription of arsenic respiration and resistance genes during in situ uranium bioremediation
    Ludovic Giloteaux
    Department of Microbiology, University of Massachusetts, Amherst, MA 01003 9298, USA
    ISME J 7:370-83. 2013
    ..The transcriptomic approach developed here should be useful for the study of a diversity of other environments in which Geobacter species are considered to have an important influence on arsenic biogeochemistry...
  23. ncbi request reprint Comparison of 16S rRNA, nifD, recA, gyrB, rpoB and fusA genes within the family Geobacteraceae fam. nov
    Dawn E Holmes
    Department of Microbiology, University of Massachusetts, Amherst, MA 01003, USA
    Int J Syst Evol Microbiol 54:1591-9. 2004
    ....
  24. doi request reprint Highly conserved genes in Geobacter species with expression patterns indicative of acetate limitation
    Carla Risso
    Department of Microbiology, 203N Morrill Science Center IVN, University of Massachusetts Amherst, Amherst, MA 01003, USA
    Microbiology 154:2589-99. 2008
    ..Monitoring the expression of these genes could aid in the design of strategies for acetate-mediated in situ bioremediation of uranium-contaminated groundwater...
  25. ncbi request reprint Reclassification of Trichlorobacter thiogenes as Geobacter thiogenes comb. nov
    Kelly P Nevin
    Department of Microbiology, University of Massachusetts, Amherst, MA 01003, USA
    Int J Syst Evol Microbiol 57:463-6. 2007
    ..Based on extensive phylogenetic evidence and the fact that T. thiogenes has the hallmark physiological characteristics of a Geobacter species, Trichlorobacter thiogenes should be reclassified as a member of the genus Geobacter...
  26. ncbi request reprint Electrode-reducing microorganisms that harvest energy from marine sediments
    Daniel R Bond
    Department of Microbiology, University of Massachusetts, Amherst, MA 01003, USA
    Science 295:483-5. 2002
    ..This finding not only provides a method for extracting energy from organic matter, but also suggests a strategy for promoting the bioremediation of organic contaminants in subsurface environments...
  27. ncbi request reprint Dissimilatory Fe(III) and Mn(IV) reduction
    Derek R Lovley
    Department of Microbiology, University of Massachusetts Amherst, Amherst, MA 01003, USA
    Adv Microb Physiol 49:219-86. 2004
    ..In comparison with other respiratory processes, the study of Fe(III) and Mn(IV) reduction is in its infancy, but genome-enabled approaches are rapidly advancing our understanding of this environmentally significant physiology...
  28. pmc Electron transfer by Desulfobulbus propionicus to Fe(III) and graphite electrodes
    Dawn E Holmes
    Department of Microbiology, University of Massachusetts, Amherst, Massachusetts 01003, USA
    Appl Environ Microbiol 70:1234-7. 2004
    ....
  29. pmc c-Type cytochromes in Pelobacter carbinolicus
    Shelley A Haveman
    Department of Microbiology, University of Massachusetts, Amherst, MA 01003, USA
    Appl Environ Microbiol 72:6980-5. 2006
    ..sulfurreducens were not present in the P. carbinolicus genome. These results suggest that further evaluation of the functions of c-type cytochromes in the Geobacteraceae is warranted...
  30. pmc Use of Fe(III) as an electron acceptor to recover previously uncultured hyperthermophiles: isolation and characterization of Geothermobacterium ferrireducens gen. nov., sp. nov
    Kazem Kashefi
    Department of Microbiology, University of Massachusetts, Amherst, Massachusetts 01003, USA
    Appl Environ Microbiol 68:1735-42. 2002
    ..Based on both its 16S rDNA sequence and physiological characteristics, strain FW-1a represents a new genus among the Bacteria. The name Geothermobacterium ferrireducens gen. nov., sp. nov., is proposed (ATCC BAA-426)...
  31. pmc Enrichment of members of the family Geobacteraceae associated with stimulation of dissimilatory metal reduction in uranium-contaminated aquifer sediments
    Dawn E Holmes
    Department of Microbiology, University of Massachusetts, Amherst, Massachusetts 01003, USA
    Appl Environ Microbiol 68:2300-6. 2002
    ....
  32. doi request reprint Geobacter: the microbe electric's physiology, ecology, and practical applications
    Derek R Lovley
    Department of Microbiology and Environmental Biotechnology Center, University of Massachusetts, Amherst, Massachusetts, USA
    Adv Microb Physiol 59:1-100. 2011
    ..Further investigation of these environmentally relevant and physiologically unique organisms is warranted...
  33. ncbi request reprint Harnessing microbially generated power on the seafloor
    Leonard M Tender
    Center for Bio Molecular Science and Engineering, Naval Research Laboratory, Code 6900, 4555 Overlook Avenue, SW, Washington, DC 20375, USA
    Nat Biotechnol 20:821-5. 2002
    ..These results demonstrate in real marine environments a new form of power generation that uses an immense, renewable energy reservoir (sedimentary organic carbon) and has near-immediate application...