David M Ward

Summary

Affiliation: Montana State University
Country: USA

Publications

  1. ncbi request reprint A natural species concept for prokaryotes
    D M Ward
    Department of Microbiology, Montana State University, Bozeman MT, 59717, USA
    Curr Opin Microbiol 1:271-7. 1998
  2. ncbi request reprint Microbial diversity in natural environments: focusing on fundamental questions
    David M Ward
    Department of Land Resources and Environmental Sciences, Montana State University, Bozeman, MT 59715 3120, USA
    Antonie Van Leeuwenhoek 90:309-24. 2006
  3. pmc Cyanobacterial ecotypes in the microbial mat community of Mushroom Spring (Yellowstone National Park, Wyoming) as species-like units linking microbial community composition, structure and function
    David M Ward
    Department of Land Resources and Environmental Sciences, Montana State University, Bozeman, MT 59717, USA
    Philos Trans R Soc Lond B Biol Sci 361:1997-2008. 2006
  4. ncbi request reprint Genomics, environmental genomics and the issue of microbial species
    D M Ward
    Department of Land Resources and Environmental Science, Montana State University, Bozeman, MT 59715, USA
    Heredity (Edinb) 100:207-19. 2008
  5. pmc Fine-scale distribution patterns of Synechococcus ecological diversity in microbial mats of Mushroom Spring, Yellowstone National Park
    Eric D Becraft
    Department of Land Resources and Environmental Sciences, Montana State University, 334 Leon Johnson Hall, Bozeman, MT 59715, USA
    Appl Environ Microbiol 77:7689-97. 2011
  6. ncbi request reprint Assessing soil microbial populations responding to crude-oil amendment at different temperatures using phylogenetic, functional gene (alkB) and physiological analyses
    Natsuko Hamamura
    Department of Land Resources and Environmental Sciences, Montana State University, Bozeman, MT 59717, USA
    Environ Sci Technol 42:7580-6. 2008
  7. pmc Community ecology of hot spring cyanobacterial mats: predominant populations and their functional potential
    Christian G Klatt
    Department of Land Resources and Environmental Sciences, Montana State University, Bozeman, MT 59717, USA
    ISME J 5:1262-78. 2011
  8. ncbi request reprint Geographical isolation in hot spring cyanobacteria
    R Thane Papke
    Department of Microbiology, 109 Lewis Hall, Montana State University, Bozeman, MT 59717, USA
    Environ Microbiol 5:650-9. 2003
  9. pmc Effect of temperature and light on growth of and photosynthesis by Synechococcus isolates typical of those predominating in the octopus spring microbial mat community of Yellowstone National Park
    Jessica P Allewalt
    Land Resources and Environmental Sciences, Montana State University, P O Box 3120, Bozeman, MT 59717 3120, USA
    Appl Environ Microbiol 72:544-50. 2006
  10. pmc Microbial population dynamics associated with crude-oil biodegradation in diverse soils
    Natsuko Hamamura
    Department of Land Resources and Environmental Sciences, Montana State University, Bozeman, MT 59717, USA
    Appl Environ Microbiol 72:6316-24. 2006

Detail Information

Publications33

  1. ncbi request reprint A natural species concept for prokaryotes
    D M Ward
    Department of Microbiology, Montana State University, Bozeman MT, 59717, USA
    Curr Opin Microbiol 1:271-7. 1998
    ..The species debate can be exploited to address a larger issue - microbiologists need, in general, to take a more natural view of the organisms they study...
  2. ncbi request reprint Microbial diversity in natural environments: focusing on fundamental questions
    David M Ward
    Department of Land Resources and Environmental Sciences, Montana State University, Bozeman, MT 59715 3120, USA
    Antonie Van Leeuwenhoek 90:309-24. 2006
    ....
  3. pmc Cyanobacterial ecotypes in the microbial mat community of Mushroom Spring (Yellowstone National Park, Wyoming) as species-like units linking microbial community composition, structure and function
    David M Ward
    Department of Land Resources and Environmental Sciences, Montana State University, Bozeman, MT 59717, USA
    Philos Trans R Soc Lond B Biol Sci 361:1997-2008. 2006
    ..Further, we show that increased molecular resolution enhances our ability to detect ecotypes in this way, though yet higher molecular resolution is probably needed to detect all ecotypes in this microbial community...
  4. ncbi request reprint Genomics, environmental genomics and the issue of microbial species
    D M Ward
    Department of Land Resources and Environmental Science, Montana State University, Bozeman, MT 59715, USA
    Heredity (Edinb) 100:207-19. 2008
    ....
  5. pmc Fine-scale distribution patterns of Synechococcus ecological diversity in microbial mats of Mushroom Spring, Yellowstone National Park
    Eric D Becraft
    Department of Land Resources and Environmental Sciences, Montana State University, 334 Leon Johnson Hall, Bozeman, MT 59715, USA
    Appl Environ Microbiol 77:7689-97. 2011
    ..Different distributions along effluent channel flow and vertical gradients, where temperature, light, and O₂ concentrations are known to vary, confirmed the ecological distinctness of putative ecotypes...
  6. ncbi request reprint Assessing soil microbial populations responding to crude-oil amendment at different temperatures using phylogenetic, functional gene (alkB) and physiological analyses
    Natsuko Hamamura
    Department of Land Resources and Environmental Sciences, Montana State University, Bozeman, MT 59717, USA
    Environ Sci Technol 42:7580-6. 2008
    ..High resolution analysis of alkB genes enabled the differentiation of distinct alkane-degrading populations responding to crude-oil amendment from other closely related, well-studied strains with different temperature adaptations...
  7. pmc Community ecology of hot spring cyanobacterial mats: predominant populations and their functional potential
    Christian G Klatt
    Department of Land Resources and Environmental Sciences, Montana State University, Bozeman, MT 59717, USA
    ISME J 5:1262-78. 2011
    ..There was evidence of horizontal gene transfer among native populations, but the frequency of these events was inversely proportional to phylogenetic relatedness...
  8. ncbi request reprint Geographical isolation in hot spring cyanobacteria
    R Thane Papke
    Department of Microbiology, 109 Lewis Hall, Montana State University, Bozeman, MT 59717, USA
    Environ Microbiol 5:650-9. 2003
    ..Thus, geographical isolation (i.e. genetic drift) must in part be responsible for driving the observed evolutionary divergences. Geographical isolation may be an important underestimated aspect of microbial evolution...
  9. pmc Effect of temperature and light on growth of and photosynthesis by Synechococcus isolates typical of those predominating in the octopus spring microbial mat community of Yellowstone National Park
    Jessica P Allewalt
    Land Resources and Environmental Sciences, Montana State University, P O Box 3120, Bozeman, MT 59717 3120, USA
    Appl Environ Microbiol 72:544-50. 2006
    ..Growth rate and photosynthetic responses provided evidence for light acclimation but evidence of, at best, only subtle light adaptation...
  10. pmc Microbial population dynamics associated with crude-oil biodegradation in diverse soils
    Natsuko Hamamura
    Department of Land Resources and Environmental Sciences, Montana State University, Bozeman, MT 59717, USA
    Appl Environ Microbiol 72:6316-24. 2006
    ..However, similar Rhodococcus erythropolis-like populations were observed in four of the seven soils and were the most common hydrocarbon-degrading organisms identified via cultivation...
  11. pmc Influence of molecular resolution on sequence-based discovery of ecological diversity among Synechococcus populations in an alkaline siliceous hot spring microbial mat
    Melanie C Melendrez
    Land Resources and Environmental Science, Montana State University, Bozeman, Montana, USA
    Appl Environ Microbiol 77:1359-67. 2011
    ..Many ecotypes hypothesized by sequence analyses were different in their habitat specificities, suggesting different adaptations to temperature or other parameters that vary along the flow channel...
  12. pmc In silico approaches to study mass and energy flows in microbial consortia: a syntrophic case study
    Reed Taffs
    Thermal Biology Institute, Montana State University, Bozeman, MT 59717, USA
    BMC Syst Biol 3:114. 2009
    ..Two phases, day and night, were modeled to account for differences in the sources of mass and energy and the routes available for their exchange...
  13. pmc Diversity and functional analysis of bacterial communities associated with natural hydrocarbon seeps in acidic soils at Rainbow Springs, Yellowstone National Park
    Natsuko Hamamura
    Department of Land Resources and Environmental Sciences, Montana State University, Bozeman, MT 59717, USA
    Appl Environ Microbiol 71:5943-50. 2005
    ..This and the presence of an alkB gene homolog in this isolate confirmed the alkane degradation capability of one population indigenous to acidic hydrocarbon seep soils...
  14. pmc Microscopic examination of distribution and phenotypic properties of phylogenetically diverse Chloroflexaceae-related bacteria in hot spring microbial mats
    Ulrich Nubel
    Department of Land Resources and Environmental Sciences, Montana State University, Bozeman, Montana, USA
    Appl Environ Microbiol 68:4593-603. 2002
    ..Both type C organisms and Chloroflexus spp. were observed to assimilate radiolabeled acetate under in situ conditions...
  15. doi request reprint The importance of physical isolation to microbial diversification
    R Thane Papke
    Department of Land Resources and Environmental Studies, Montana State University, Bozeman, 59715, USA
    FEMS Microbiol Ecol 48:293-303. 2004
    ..Here we review the theoretical paradigm of physical isolation for the diversification of organisms in general and then provide a variety of evidence indicating that microbial populations also fit into a similar evolutionary framework...
  16. ncbi request reprint Comparative genomics provides evidence for the 3-hydroxypropionate autotrophic pathway in filamentous anoxygenic phototrophic bacteria and in hot spring microbial mats
    Christian G Klatt
    Department of Land Resources and Environmental Sciences, Montana State University, Bozeman, MT, USA
    Environ Microbiol 9:2067-78. 2007
    ..were participating in photoheterotrophic uptake of cyanobacterial photosynthate produced by the reductive pentose phosphate cycle...
  17. pmc Temporal metatranscriptomic patterning in phototrophic Chloroflexi inhabiting a microbial mat in a geothermal spring
    Christian G Klatt
    Department of Forest Ecology and Management, Swedish University of Agricultural Sciences, Skogsmarksgra nd, Umea, Va sterbotten SE 90183, Sweden
    ISME J 7:1775-89. 2013
    ..It further proposes that, in daytime, polyhydroxyalkanoates and wax esters are degraded and used as carbon and electron reserves to support photomixotrophy via the 3-OHP bi-cycle. ..
  18. pmc Community structure and function of high-temperature chlorophototrophic microbial mats inhabiting diverse geothermal environments
    Christian G Klatt
    Department of Land Resources and Environmental Sciences, Montana State University, Bozeman, MT, USA Thermal Biology Institute, Montana State University, Bozeman, MT, USA
    Front Microbiol 4:106. 2013
    ..Definitive linkages were established between several of the dominant phylotypes present in these habitats and important functional processes such as photosynthesis, carbon fixation, sulfur oxidation, and fermentation...
  19. pmc Cyanobacterial ecotypes in different optical microenvironments of a 68 degrees C hot spring mat community revealed by 16S-23S rRNA internal transcribed spacer region variation
    Mike J Ferris
    Department of Land Resources and Environmental Sciences, Montana State University, Bozeman, MT 59717 3120, USA
    Appl Environ Microbiol 69:2893-8. 2003
    ....
  20. pmc Competitive fitness of isolates enriched on phenanthrene sorbed to model phases
    Gregory M Colores
    Department of Land Resources and Environmental Sciences, Montana State University, Bozeman 59717 3120, USA
    Appl Environ Microbiol 73:4074-7. 2007
    ..Our results indicate that contaminant availability alone does not determine the isolates' competitive fitness...
  21. doi request reprint Effects of petroleum mixture types on soil bacterial population dynamics associated with the biodegradation of hydrocarbons in soil environments
    Natsuko Hamamura
    Center for Marine Environmental Studies, Ehime University, Matsuyama, Ehime, Japan
    FEMS Microbiol Ecol 85:168-78. 2013
    ....
  22. doi request reprint Complete genome of Candidatus Chloracidobacterium thermophilum, a chlorophyll-based photoheterotroph belonging to the phylum Acidobacteria
    Amaya M Garcia Costas
    Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, PA 16802, USA
    Environ Microbiol 14:177-90. 2012
    ..Some transposases were homologous to those of mat community members from other phyla...
  23. pmc Cultivation and genomic, nutritional, and lipid biomarker characterization of Roseiflexus strains closely related to predominant in situ populations inhabiting Yellowstone hot spring microbial mats
    Marcel T J van der Meer
    NIOZ Royal Netherlands Institute for Sea Research, Department of Marine Organic Biogeochemistry, P O Box 59, 1790 AB Den Burg, Texel, Netherlands
    J Bacteriol 192:3033-42. 2010
    ..The isolates exhibit temperature, pH, and sulfide preferences typical of their habitat. Lipids produced by these isolates matched much better with mat lipids than do lipids produced by R. castenholzii or Chloroflexus isolates...
  24. pmc Diel variations in carbon metabolism by green nonsulfur-like bacteria in alkaline siliceous hot spring microbial mats from Yellowstone National Park
    Marcel T J van der Meer
    Department of Marine Biogeochemistry and Toxicology, The Royal Netherlands Institute for Sea Research, P O Box 59, 1790 AB Den Burg Texel, The Netherlands
    Appl Environ Microbiol 71:3978-86. 2005
    ..In addition, we observed direct incorporation of [13C]acetate into GNSLB lipids in the morning. This suggests that GNSLB also have a potential for photoheterotrophy in situ...
  25. doi request reprint Regulation of nif gene expression and the energetics of N2 fixation over the diel cycle in a hot spring microbial mat
    Anne Soisig Steunou
    Department of Plant Biology, The Carnegie Institution, Stanford University, Stanford, CA, USA
    ISME J 2:364-78. 2008
    ..These results are discussed with respect to the energetics and regulation of N2 fixation in hot spring mats and factors that can markedly influence the extent of N2 fixation over the diel cycle...
  26. ncbi request reprint Impact of carbon metabolism on 13C signatures of cyanobacteria and green non-sulfur-like bacteria inhabiting a microbial mat from an alkaline siliceous hot spring in Yellowstone National Park (USA)
    Marcel T J van der Meer
    Royal Netherlands Institute for Sea Research NIOZ, Department of Marine Biogeochemistry and Toxicology, PO Box 59, 1790 AB Den Burg, Texel, The Netherlands
    Environ Microbiol 9:482-91. 2007
    ..The assimilation of 13C-enriched cyanobacterial carbon may thus lead to enriched 13C-contents of GNSLB cell components...
  27. ncbi request reprint Candidatus Chloracidobacterium thermophilum: an aerobic phototrophic Acidobacterium
    Donald A Bryant
    Department of Biochemistry and Molecular Biology, Pennsylvania State University, University Park, PA 16802, USA
    Science 317:523-6. 2007
    ..Candidatus Chloracidobacterium thermophilum" is a BChl-producing member of the poorly characterized phylum Acidobacteria...
  28. ncbi request reprint Population level functional diversity in a microbial community revealed by comparative genomic and metagenomic analyses
    Devaki Bhaya
    Department of Plant Biology, Carnegie Institution, Stanford, CA 94305, USA
    ISME J 1:703-13. 2007
    ....
  29. pmc Archaeal and bacterial glycerol dialkyl glycerol tetraether lipids in hot springs of yellowstone national park
    Stefan Schouten
    Department of Marine Biogeochemistry and Toxicology, Royal Netherlands Institute for Sea Research, P O Box 59, 1790 AB Den Burg, Texel, The Netherlands
    Appl Environ Microbiol 73:6181-91. 2007
    ..Finally, the distribution of bacterial branched GDGTs suggests that they may be derived from the geothermally heated soils surrounding the hot springs...
  30. ncbi request reprint Alkane-1,2-diol-based glycosides and fatty glycosides and wax esters in Roseiflexus castenholzii and hot spring microbial mats
    Marcel T J van ver Meer
    Netherlands Institute for Sea Research NIOZ, Department of Marine Biogeochemistry and Toxicology, P O Box 59, 1790 AB Den Burg, Texel, The Netherlands
    Arch Microbiol 178:229-37. 2002
    ..In lipid extracts from two nonsulfidic hot spring microbial mats, similar alkane-1,2-diol-based lipids were detected in minor amounts. R. castenholzii lipids are compared to lipids of mats and other thermophilic mat isolates...
  31. pmc Compound-specific isotopic fractionation patterns suggest different carbon metabolisms among Chloroflexus-like bacteria in hot-spring microbial mats
    Marcel T J van der Meer
    Department of Marine Biogeochemistry and Toxicology, Royal Netherlands Institute for Sea Research, 1790 AB Den Burg, Texel, The Netherlands
    Appl Environ Microbiol 69:6000-6. 2003
    ....
  32. pmc In situ analysis of nitrogen fixation and metabolic switching in unicellular thermophilic cyanobacteria inhabiting hot spring microbial mats
    Anne Soisig Steunou
    Department of Plant Biology, The Carnegie Institution, 260 Panama Street, Stanford, CA 94305, USA
    Proc Natl Acad Sci U S A 103:2398-403. 2006
    ..In a broader context, our data suggest that there are critical regulatory switches in situ that are linked to the diel cycle and that these switches alter many metabolic processes within the microbial mat...
  33. pmc Identifying the fundamental units of bacterial diversity: a paradigm shift to incorporate ecology into bacterial systematics
    Alexander Koeppel
    Departments of Biology and Mathematics and Computer Science, Wesleyan University, Middletown, CT 06459, USA
    Proc Natl Acad Sci U S A 105:2504-9. 2008
    ..Ecotype simulation provides a long-needed natural foundation for microbial ecology and systematics...