SAES-422 Multistate Research Activity Accomplishments Report
Sections
Status: Approved
Basic Information
- Project No. and Title: S297 : Soil Microbial Taxonomic and Functional Diversity as Affected by Land Use and Management
- Period Covered: 06/01/2003 to 06/01/2004
- Date of Report: 07/26/2004
- Annual Meeting Dates: 06/06/2004 to 06/07/2004
Participants
Mary Savin, University of Arkansas, chair; Peter Hartel, University of Georgia, chair-elect/secretary; Steve Leath, North Carolina State University, Administrator; Steve Albrecht, USDA-ARS, Pendleton, OR, meeting host; Jim Graham, University of Florida; Mike Jenkins, USDA-ARS, Watkinsville, GA; Rick Weaver, Texas A & M; Peter Tomlinson, University of Arkansas; Janice Thies, Cornell University, NY; Shiping Deng, Oklahoma State University
See listserv (http://s-297.okstate.edu) for minutes to annual meeting.
[Minutes]
Accomplishments
Objective 1.
Research for the past year has focused on: identifying sources of fecal pollution in impaired waters; geographic and temporal variability of Enterococcus spp. and subspecies; testing fundamental assumptions of microbial source tracking-survival in sediment and secondary habitats; and validating applications of the various methodologies for BST and determining ecological data that can be arrived from such information.
Targeted sampling and bacterial source tracking in New York, Puerto Rico and Alabama have worked to narrow and identify sources of contamination. Like E. coli, Ent. faecalis isolates appear to be geographically and temporally variable. Because establishing a permanent host origin database to encompass this geographic and temporal variability is likely to be expensive, alternative methods of BST need to be considered.
Enterococcus species and subspecies in nonsterile sediments did not survive sufficiently well in moist sediment to serve as a reservoir of long-past human and nonhuman fecal contamination. However, fecal enterococci survived 2, 30, and 60 days of desiccation in sediment. Enterococcal survival and potential regrowth during conditions of desiccation may cause problems for BST.
Project evaluating different methods have shown promise. In Virginia, research has shown that the use of fluorometry in estuarine and coastal zone environments to determine the presence of optical brighteners can be used as a surrogate to detect human sources of fecal pollution. Using molecular PCR-based techniques, in Indiana, REP primers were found not to be ideal for use in microbial source tracking. The BoxAR1 primer produced a wider variety of fingerprint types than the REP primers, but most animals still had one dominant fingerprint type. A species-specific ribosomal DNA gene biosensor for rapid detection of Enterococcus faecalis from environmental samples is being developed and tested in New York.
Objective 2.
Surfactants could potentially increase solubility, hence bioavailability and bioremediation of organic and inorganic contaminants in soil. Research at Oklahoma showed that nonionic surfactants had little effect, while anionic surfactants generally inhibited growth of bacterial isolates tested.
(Wisconsin and Iowa) Studies examined how sorption by humic acids affects bioavailability of polynuclear aromatic hydrocarbons (PAH) to PAH-degrading microbes, and assessed how PAH-degraders may adapt to overcome bioavailability restrictions. Reduced diversity of bacteria was isolated from humic acid-sorbed phenanthrene (HASP) enrichments compared with non-sorbed phenanthrene (NSP).
In a study at Purdue University, an array of primers and a real-time PCR protocol was used to enumerate aromatic oxygenase genes at gasoline-contaminated sites undergoing bioremediation. Overall, enumeration of aromatic oxygenase genes indicated changes in the magnitude of oxygenase gene copy numbers and the catabolic genotypes detected as a result of common treatment technologies.
Phytoremediation was used to evaluate remediation of a weathered crude oil-contaminated soil in Arkansas. Bermuda, fescue, and ryegrass were established at a field site contaminated with 2.5% by weight weathered crude oil. Vegetation and fertilizer increased total bacterial and fungal numbers compared to the control.
Isolates from three long-term nitroaromatic contaminated soils have been characterized in Oklahoma. Polymerase chain reaction amplification and denaturing gradient gel electrophoresis (PCR-DGGE) results of TNT-contaminated soil indicated a shift of microbial community structure and identification of Achromobacter spp.
Field studies in Alabama indicate that accelerated degradation of aldicarb seems to contribute to the loss of effectiveness in nematode control.
Objective 3.
Research for the past year has focused on: antibiotic resistance in environments receiving animal wastes, microbial dynamics in disturbed lands and urban landscapes, and ecological associations.
On-going collaboration between the University of Arkansas, Cornell University, Purdue University and Oklahoma State University has led to investigations of how land application of organic wastes affects microbial functioning, diversity and spread of antibiotic resistance in the environment. Research in Texas includes elucidating the seasonal dynamics of microbial populations in managed sports turfs and compost-amended common bermudagrass plots, effects of slow-release nitrogen sources on biology, measuring hydrophobicity, and investigating several microbiological parameters in a cotton crop-management system. Ranges of microbial counts (7.5 to 8.0 for bacteria and 4.5 to 5.5 for fungi) appear to be quite common across all turfgrass environments investigated. Water-extractable carbon (WEOC) showed trends very similar to those for microbial biomass and respiration suggesting it may be a good proxy for these parameters in the soils managed for cotton.
Researchers in Alabama and Indiana have been studying the dynamics of resident microbial communities in order to advance understanding of the influence of microbes in productivity of perturbed ecosystems. PLFA profiles and an approach using PCR-DGGE with cultivation appear to provide a stream-lined approach to analyze agronomic treatments.
Tree performance in the first two years of the apple replant disease (ARD) trial in New York indicates that use of rootstocks tolerant of ARD and planting in previous grass drive lanes have the greatest benefit. Multi-year field trials with Cry3Bb rootworm resistant corn indicate there is no direct adverse affect on soil ecology by cultivating this crop. Vermicompost benefits were found to far outweigh that of thermophilic compost in another study.
Multiple studies are being conducted on disturbed soil ecosystems in Colorado: a rangeland soil impacted by biosolids amendments; a forest soil impacted by a wildfire event; and dryland agronomic soils under alternative management practices along an evapotranspiration gradient. Arbuscular mycorrhizal fungi have been shown to be sensitive to the various disturbances.
The relationships between symbiotic fungi and a biotrophic root pathogen are being studied in Florida.
Mycorrhizal ferns that are hyperaccumulators of arsenic took up significantly more As than nonmycorrhizal plants, and a significant interaction was found with P level.
Mechanisms of enhanced carbon sequestration in tall fescue infected with the fungal endophyte Neotyphodium coenophialum as compared to tall fescue free of the endophyte is underway.
In addition to these projects, a second edition of the textbook, Principles and Applications of Soil Microbiology has been published.
Research for the past year has focused on: identifying sources of fecal pollution in impaired waters; geographic and temporal variability of Enterococcus spp. and subspecies; testing fundamental assumptions of microbial source tracking-survival in sediment and secondary habitats; and validating applications of the various methodologies for BST and determining ecological data that can be arrived from such information.
Targeted sampling and bacterial source tracking in New York, Puerto Rico and Alabama have worked to narrow and identify sources of contamination. Like E. coli, Ent. faecalis isolates appear to be geographically and temporally variable. Because establishing a permanent host origin database to encompass this geographic and temporal variability is likely to be expensive, alternative methods of BST need to be considered.
Enterococcus species and subspecies in nonsterile sediments did not survive sufficiently well in moist sediment to serve as a reservoir of long-past human and nonhuman fecal contamination. However, fecal enterococci survived 2, 30, and 60 days of desiccation in sediment. Enterococcal survival and potential regrowth during conditions of desiccation may cause problems for BST.
Project evaluating different methods have shown promise. In Virginia, research has shown that the use of fluorometry in estuarine and coastal zone environments to determine the presence of optical brighteners can be used as a surrogate to detect human sources of fecal pollution. Using molecular PCR-based techniques, in Indiana, REP primers were found not to be ideal for use in microbial source tracking. The BoxAR1 primer produced a wider variety of fingerprint types than the REP primers, but most animals still had one dominant fingerprint type. A species-specific ribosomal DNA gene biosensor for rapid detection of Enterococcus faecalis from environmental samples is being developed and tested in New York.
Objective 2.
Surfactants could potentially increase solubility, hence bioavailability and bioremediation of organic and inorganic contaminants in soil. Research at Oklahoma showed that nonionic surfactants had little effect, while anionic surfactants generally inhibited growth of bacterial isolates tested.
(Wisconsin and Iowa) Studies examined how sorption by humic acids affects bioavailability of polynuclear aromatic hydrocarbons (PAH) to PAH-degrading microbes, and assessed how PAH-degraders may adapt to overcome bioavailability restrictions. Reduced diversity of bacteria was isolated from humic acid-sorbed phenanthrene (HASP) enrichments compared with non-sorbed phenanthrene (NSP).
In a study at Purdue University, an array of primers and a real-time PCR protocol was used to enumerate aromatic oxygenase genes at gasoline-contaminated sites undergoing bioremediation. Overall, enumeration of aromatic oxygenase genes indicated changes in the magnitude of oxygenase gene copy numbers and the catabolic genotypes detected as a result of common treatment technologies.
Phytoremediation was used to evaluate remediation of a weathered crude oil-contaminated soil in Arkansas. Bermuda, fescue, and ryegrass were established at a field site contaminated with 2.5% by weight weathered crude oil. Vegetation and fertilizer increased total bacterial and fungal numbers compared to the control.
Isolates from three long-term nitroaromatic contaminated soils have been characterized in Oklahoma. Polymerase chain reaction amplification and denaturing gradient gel electrophoresis (PCR-DGGE) results of TNT-contaminated soil indicated a shift of microbial community structure and identification of Achromobacter spp.
Field studies in Alabama indicate that accelerated degradation of aldicarb seems to contribute to the loss of effectiveness in nematode control.
Objective 3.
Research for the past year has focused on: antibiotic resistance in environments receiving animal wastes, microbial dynamics in disturbed lands and urban landscapes, and ecological associations.
On-going collaboration between the University of Arkansas, Cornell University, Purdue University and Oklahoma State University has led to investigations of how land application of organic wastes affects microbial functioning, diversity and spread of antibiotic resistance in the environment. Research in Texas includes elucidating the seasonal dynamics of microbial populations in managed sports turfs and compost-amended common bermudagrass plots, effects of slow-release nitrogen sources on biology, measuring hydrophobicity, and investigating several microbiological parameters in a cotton crop-management system. Ranges of microbial counts (7.5 to 8.0 for bacteria and 4.5 to 5.5 for fungi) appear to be quite common across all turfgrass environments investigated. Water-extractable carbon (WEOC) showed trends very similar to those for microbial biomass and respiration suggesting it may be a good proxy for these parameters in the soils managed for cotton.
Researchers in Alabama and Indiana have been studying the dynamics of resident microbial communities in order to advance understanding of the influence of microbes in productivity of perturbed ecosystems. PLFA profiles and an approach using PCR-DGGE with cultivation appear to provide a stream-lined approach to analyze agronomic treatments.
Tree performance in the first two years of the apple replant disease (ARD) trial in New York indicates that use of rootstocks tolerant of ARD and planting in previous grass drive lanes have the greatest benefit. Multi-year field trials with Cry3Bb rootworm resistant corn indicate there is no direct adverse affect on soil ecology by cultivating this crop. Vermicompost benefits were found to far outweigh that of thermophilic compost in another study.
Multiple studies are being conducted on disturbed soil ecosystems in Colorado: a rangeland soil impacted by biosolids amendments; a forest soil impacted by a wildfire event; and dryland agronomic soils under alternative management practices along an evapotranspiration gradient. Arbuscular mycorrhizal fungi have been shown to be sensitive to the various disturbances.
The relationships between symbiotic fungi and a biotrophic root pathogen are being studied in Florida.
Mycorrhizal ferns that are hyperaccumulators of arsenic took up significantly more As than nonmycorrhizal plants, and a significant interaction was found with P level.
Mechanisms of enhanced carbon sequestration in tall fescue infected with the fungal endophyte Neotyphodium coenophialum as compared to tall fescue free of the endophyte is underway.
In addition to these projects, a second edition of the textbook, Principles and Applications of Soil Microbiology has been published.
Impacts
- NY BST efforts have brought to light that failing wastewater treatment facilities in the region studied are likely contributing to elevated levels of total coliforms and enterococci in the watershed.
- Results from River Yagüez are almost completed, and there is indication that significant variation in microbial populations exists. These indicate that factors are affecting microbial biomass.
- Results of the BST studies confirm that ribotyping of Enterococcus faecalis is a useful and highly discriminatory approach to BST, but that it must be combined with a targeted sampling protocol in order to overcome the high geographic and temporal variability in ribotypes.
- Although differences in survival exist among fecal enterococcal species and subspecies, and differences exist between locations, none of the Enterococcus species or subspecies survived sufficiently well in moist sediment to serve as a reservoir of long-past human and nonhuman fecal contamination. Therefore, the American Public Health Association rule that fecal indicators not persist in the environment held.
- However, results from desiccation experiments suggest that enterococcal survival and potential regrowth during conditions of desiccation may represent a source of relatively long-past human or nonhuman fecal contamination. Under these circumstances, the American Public Health Association rule that fecal indicators not persist in the environment fails. The implications of these results for testing fecal contamination of water are troubling.
- The watershed project in Virginia will provide a real-world evaluation of three source tracking methods and two indicator organisms over time, and offers the opportunity to compare the size and origin of sediment populations as well as those in water samples.
- The development of a method to detect optical brighteners will permit detection of fluorescent plumes from failing onsite systems or leaking sewer pipes, and should be adaptable as a instantaneous presence-absence test for human-derived pollution in recreational waters such as beaches.
- The most important finding in our comparison of genotypic methods to determine a source of fecal contamination in the environment is the need to use the method most appropriate for the question being asked and is dependent on cost and level of specificity required.
- The development of a species-specific primer that works in a biosensor to detect synthetic sequences of Enterococcus faecalis is a positive first step in the development of an inexpensive new technique to detect pathogens from the environment.
- Results of the studies under objective 2 can guide development of bioremediation strategies that maximize the use of natural resources while minimize environmental risk.
- We believe that this is the first report of a specific group of bacteria adapting to interact with humic acids in such a way that PAH sorbed by these environmental polymers is bioavailable.
- These organisms may have value as bioremediation inoculants, and have an important role in the biodegradation processes affecting the fate of PAH in the environment.
- Enumeration of aromatic oxygenase genes by real-time PCR combined with chemical analysis required in corrective action plans could be used to directly assess biodegradation of priority pollutants which can help provide more accurate assessment of biodegradation, facilitate assessment of the impact of remediation technologies on indigenous microbial populations, and enhance studies of contaminated site ecology.
- Data from the phytoremediation experiment will help understand how establishment of grasses and management practices affect microbial dynamics over the long-term and thus allow us to gather insight and interpret the process and extent of ecosystem recovery during remediation.
- Biodegradative strains isolated from RDX/TNT contaminated soils have been obtained, which may be used for environmental research and application.
- Data can be used to provide guidelines for calculating nutrient amendments for bioremediation of nitroaromatic-contaminated soils.
- Results improved knowledge of pollutant bioavailability and impact of nitroaromatic-contamination on indigenious microbial population and water quality.
- The level of resistance measured in bacteria isolates appears to be a function of the antibiotic tested, management treatment, and time since application, but further research examining additional antibiotics and manure types is needed.
- Preliminary results examining antibiotic resistance of bacteria in soils receiving animal wastes indicate that despite low rates of waste application, differences in percent resistance could be detected in bacterial isolates from soils where waste was applied compared to those that had never received waste.
- Research results will contribute to developing a comprehensive means to identify soil biota that influence crop productivity under different management conditions which is critical to the long-range improvement of US agriculture because it addresses the contribution of the immense diversity of biota to both sustaining agricultural production and maintaining or improving soil and environmental quality.
- We have established a comprehensive seasonal database describing the abundance of bacteria and fungi in highly managed turfgrass systems from sports fields with sand-based root zones to turfs managed as home lawns which provides a strong foundation upon which turf managers can make informed decisions regarding purchases of inputs for golf courses, sports fields, etc. All too often they are besieged with vendors selling dubious products with extravagant claims for turf management.
- Microbiological data from the compost study are of value, along with the data describing the physical and chemical properties of the soils, in the decision-making process involving the disposition of large volumes of compost materials derived from the composting of dairy manure in North Central Texas.
- Data from the cotton-management study indicate that there is a potential for increased carbon storage and less nitrogen is needed in soils managed in rotation and with reduced-tillage for cotton production
- The consequence of AMF suppression in conventional vegetable production systems due to routine applications of biocides in terms of assessment of root health in pathogen-dominated vegetable soils in unknown. Preliminary indications are that low AMF incidence does not render roots more susceptible to pathogens, but may reduce plant tolerance to damage.
- e conclude that AMF have an important role in the accumulation of As by Brake fern in As-contaminated soils.
Publications
Augé, R.M., J.L Moore, D.M Sylvia, and K. Cho. 2004. Mycorrhizal promotion of host stomatal conductance in relation to irradiance and temperature. Mycorrhiza 14:85-92.
Augé, R.M., J.L Moore, K. Cho, J.C. Stutz, D.M Sylvia, A.K. Al-Agely, A.M. Saxton. 2003. Relating drought resistance of Phaseolus vulgaris to soil and root colonization by mycorrhizal hyphae. J. Plant Physiol. 160: 1147-1156
Baldwin, B., C. H. Nakatsu, and L. Nies. 2003. Detection and enumeration of aromatic oxygenase genes by multiplex and real-time PCR. Appl. Environ. Microbiol. 69:3350-3358.
Bray, S.R., K. Kitajima, and D.M. Sylvia. 2003. Mycorrhizae differentially alter growth, physiology, and competitive ability of an invasive shrub. Functional Ecology 13:565-574.
Darnault, C.J.G., P. Garnier, Y.-J. Kim, K. Oveson, T.S. Steenhuis, J.Y. Parlange, M.B. Jenkins, W.C. Ghiorse, and P.C. Baveye. 2003. Transport of Cryptosporidium parvum oocysts in the subsurface environment. Wat. Environ. Res. 75:113-120.
Darnault, C.J.G., T.S. Steenhuis, P. Garnier, Y.-J. Kim, M.B. Jenkins, W.C. Ghiorse, P.C. Baveye, and J.-Y. Parlange. 2004. Preferential flow and transport of Cryptosporidium parvum oocysts through the vadose zone: experiments and modeling. Vadose Zone J. 3:262-270.
Davis, K. C., C. H. Nakatsu, R. Turco, S. Weagant, and A. K. Bhunia. 2003. Analysis of environmental Escherichia coli isolates for virulence genes using the TaqManâ PCR system. J. Appl. Microbiol. 95: 612-620.
Devare, M, CM Jones, and JE Thies. 2004. Effects of CRW transgenic corn and tefluthrin on the soil microbial community: biomass, activity, and diversity. J. Environ. Qual. 33 (3): 837-843 and Cover photos.
Feng, Y., A.C. Motta, D.W. Reeves, C.H. Burmester, E. van Santen, and J.A. Osborne. 2003. Soil microbial communities under conventional-till and no-till continuous cotton systems. Soil Biol. Biochem. 35: 1693-1703.
Hahm, B.K., Y. Maldonado, E. Schreiber, A. K.Bhunia, and C. H.Nakatsu. 2003. Subtyping of clinical and environmental isolates of Escherichia coli by multiplex PCR, AFLP, rep-PCR, PFGE and ribotyping. J. Microbiol. Meth. 53:387-399.
Hartel, P. G., J. D. Summer, and W. I. Segars. 2003. Deer diet affects ribotype diversity of Escherichia coli for bacterial source tracking. Water Res. 37:3263-3268. Also selected for inclusion in the ?Virtual Journal of Environmental Sustainability? ().
Harwood, V. J., B. Wiggins, C. Hagedorn, R. D. Ellender, J. Gooch, J. Kern, M. Samadpour, A. H. Chapman and B. J. Robinson. 2003. Phenotypic library-based microbial source tracking methods: efficacy in the California collaborative study. J. Water & Health 01:153-156.
Jenkins, M.B. 2003. Rhizobial and Bradyrhizobial symbionts of mesquite from the Sonoran Desert: salt tolerance, facultative halophily and nitrate respiration. Soil Biol. Biochem. 35:1675-1682.
Kato, S., M. Jenkins, E. Fogarty, and D. Bowman. 2004. Cryptosporidium parvum oocyst inactivation in field soil and its relation to soil characteristics: analysis using the geographic information system. Sci. Total Environ. 321:47-58.
Krutz, L.J., S.A. Senseman, K.J. McInnes, D.A. Zuberer and D.P. Tierney. 2003. Adsorption and desorption of atrazine, desethylatrazine, deisopropylatrazine and hydroxyatrazine in vegetated filter strip and cultivated soil. J. Agric. Food Chem. 51:7379-7384.
Kuntz, R. L., P. G. Hartel, D. G. Godfrey, J. L. McDonald, K. W. Gates, and W. I. Segars. 2003. Targeted sampling protocol as prelude to bacterial source tracking with Enterococcus faecalis. J. Environ. Qual. 32:2311-2318.
Lalande, T. L., H. D. Skipper, D. C. Wolf, C. M. Reynolds, D. L. Freedman, B. W. Pinkerton, P. G. Hartel, and L. W. Grimes. 2003. Phytoremediation of pyrene in a Cecil soil under field conditions. Int. J. Phytoremed. 5:1-12.
Mesarch, M. B., C. H. Nakatsu, and L. Nies. 2004. Bench-scale and field-scale evaluation of catechol 2,3-dioxygenase specific primers for use in monitoring BTX bioremediation. Water Res. 38: 1281-1288.
Myoda, S. P., C. A. Carson, J. J. Fuhrmann, B.?K. Hahm, P. G. Hartel, L. A. Johnson, R. L. Kuntz, C. H. Nakatsu, M. J. Sadowsky, M. Samadpour, and H. Yampara?Iquise. 2003. Comparison of genotypic-based microbial source tracking methods requiring a host origin database. J. Water Health 1:167-180.
Park, J.-H., Y. Feng, P. Ji, T.C. Voice, and S.A. Boyd. 2003. Assessment of bioavailability of soil-sorbed atrazine. Appl. Environ. Microbiol. 69:3288-3298.
Ritter K. J., E. Carruthers, C. A. Carson, R. D. Ellender, V. J. Harwood, K. Kingsley, C. Nakatsu, M. Sadowsky, B. Shear, B. West, J. E. Whitlock, B. A. Wiggins, J. D. Wilbur. 2003. Assessment of statistical methods used in microbial source tracking methods. J. Wat. Health 1: 209-223.
Rumberger, A, Yao, S, Merwin, IA., Nelson, EB and Thies, JE. 2004. Rootstock genotype and orchard replant position rather than soil fumigation or compost amendment determine tree growth and rhizosphere bacterial community composition in an apple replant soil. Plant and Soil. In Press (Prepublication Date: 01/21/2004).
Sylvia, D.M., A.K. Alagely, M.E. Kane, N.L. Philman. 2003. Compatible host/mycorrhizal fungus combinations for micropropagated sea oats. I. Field sampling and greenhouse evaluations. Mycorrhiza 13:177-183.
Wu, G., Y. Feng, and S.A. Boyd. 2003. Characterization of bacteria capable of degrading soil-sorbed biphenyl. Bull. Environ. Contam. Toxicol. 71:768-775.
Accepted Full Length Articles (Refereed Journals)
Heinsch, F.A., J.L. Heilman, K.J. McInnes, D.R. Cobo, D.A. Zuberer and D.L. Roelke. 2003. Carbon dioxide exchange in a high marsh on the Texas Gulf Coast: effects of freshwater availability. Ag and Forest Meteor. In press.
Keller, S.L, M.B. Jenkins, and W.C. Ghiorse. 2003. Simulating the effect of liquid CO2 on Cryptosporidium parvum oocysts in aquifer material. J. Environ. Engin. Accepted, 7 Nov. 2003.
Rodgers, K., P. G. Hartel, R. L. Kuntz, and W. I. Segars. 2004. Presence of Enterococcus faecalis in human sewage, chicken litter, and wild birds. Water Res. (accepted).
Stark, J.A., D.D. Bowman, M. Labare, E.A. Fogarty, A. Lucio-Forster, J. Barbi, M.B. Jenkins, M. Pavlo, and M.A. Butkus. 2003. Do iodine water purification tablets provide an effective barrier against Cryptosporidium parvum? Military Medicine. Accepted, 27 Oct. 2003.
Submitted Full Length Articles (Refereed Journals)
Hartel PG, S. Myoda, R. L. Kuntz, K. Rodgers, J. Entry, S. Ver Wey, E. Schröder, J. Calle, M. Lacourt, J. E. Thies, J. P. Reilly, and J. J. Fuhrmann. 2004. Geographic and temporal changes of Enterococcus faecalis ribotypes for bacterial source tracking. Submitted to J. Environ. Qual.
Jones CM, and J. E. Thies. 2004. Laboratory evaluation of the entomopathogenic fungal species Metarhizium anisopliae and Beauvaria bassiana for use in controlling the alfalfa snout beetle, Otiorhynchus ligustici. Submitted to Biological Control.
Meyers, S.K., S.P. Deng, N.T. Basta, W.W. Clarkson, and G. Wilber. 200_. Acetonitrile extractable and water leachable 2,4,6-Trinitrotoluene (TNT), Hexahydro-1,3,5-Trinitro-1,3,5-Triazine (RDX), and Octahydrol-1,3,5,7-Tetranitro-1,3,5,7-Tetrazocine (HMX) in soil and their impact on microbial community. (in review).
Stromberger, M.E. Metal vs fire: a soil microbiology laboratory incubation study demonstrating microbial biomass and activities in disturbed forest soils. Submitted to J. Nat. Res. Life Sci. Ed.
Vacca, D.J., M.C. Pellitteri, E. Padilla-Crespo, W.F. Bleam and W.J. Hickey. 2004. Isolation and molecular characterization of soil bacteria adapted to degrade humic acid-sorbed phenanthrene. Submitted to Appl. Environ. Microbiol.
Yao S, I. A. Merwin, G. Bird, G. S.Abawi, and J. E. Thies. 2004. Orchard groundcover management practices that maintain soil cover stimulate soil microbial activity and alter microbial community composition. Submitted to Plant and Soil.
In Print Abstracts:
Ackerman, C. E., F. M. Wanjau, J. D. Wilbur, S. M. Brouder, R. W. Doerge, and C.H. Nakatsu. 2003. The effects of long term tillage and rotational treatments on the rhizosphere microbial community structure of soybean. Annu. Meet. Abst. [CD-ROM]. ASA, CSSA, and SSSA, Madison, WI.
Baldwin, B., L. Nies, C. Nakatsu, and J. Simonds. 2003. Molecular genetic detection and enumeration of aromatic oxygenase genes at gasoline-contaminated sites. Abstr. Battelle Bioremed. Conf., Orlando, FL.
Beasley, F. C., C. H. Nakatsu, N. Carmosini, A. Konopka. 2003. Genotypic and phenotypic characterization of Arthrobacter isolates from chromate contaminated soil. Annu. Meet. Abstr. [CD-ROM]. ASA, CSSA, and SSSA, Madison, WI.
Carrero-Colon, M., C. Nakatsu, A. E. Konopka. 2003. Nutrient periodicity as a selective force in structuring microbial communities. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington D.C.
Devare, M, Londono, LM, Jones, CM and Thies, JE. 2003. Effects of rootworm-resistant transgenic corn and insecticide on soil microbial communities. Annu. Meet. Abst. [CD-ROM]. ASA, CSSA, and SSSA, Madison, WI.
Entry, J. A., S. A. Ver Wey, P. G. Hartel, R. L. Kuntz, and K. Rodgers. 2003. Targeted sampling with Escherichia coli for bacterial source tracking in Idaho. Abstr. Annu. Meet. Am. Soc. Microbiol. p. 591.
Feng, Y., D.W. Reeves, and P. Ji. 2003. Effect of crop rotation and tillage systems on soil microbial communities. Annu. Meet. Abst. [CD-ROM]. ASA, CSSA, and SSSA, Madison, WI.
Feng, Y, P. G. Hartel, S. Deng, K. Rodgers, J. Fisher, and B. Liu. 2004. Survival of Enterococcus species and subspecies in sediment for bacterial source tracking. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington, D.C.
Fisher, D.C., M.B. Jenkins, R.R. Lowrance, R.K. Hubbard, T.C., Strickland, G. Vellidis, and G.L. Newton. 2003. In vitro disappearances of E. coli and enterococci related to light, predation, and sedimentation. Annu. Meet. Abst. [CD-ROM]. ASA, CSSA, and SSSA, Madison, WI.
Franzluebbers, A.J., M.B. Jenkins, D.A. Zuberer, N.S. Hill. 2003. Soil responses to tall fescue endophyte infection. Annu. Meet. Abst. [CD-ROM]. ASA, CSSA, and SSSA, Madison, WI.
Hagedorn, C., A. H. Chapman, S. Herbein, M. Saluta, and P. McClellan. 2004. Microbial source tracking as a technology for identifying sources of fecal pollution in water. 4th National Conference on Science, Policy, and the Environment, National Council for Science and the Environment. Washington, D.C.
Hagedorn, C. 2004. Bridging the gap between science and policy: Environmental Detection News. 4th National Conference on Science, Policy, and the Envrionment, National Council for Science and the Environment. Washington, D.C.
Hahm, B.K., A. K.Bhunia, and C. H.Nakatsu. 2003. Application of AFLP for discriminating Escherichia coli isolated from livestock, wildlife and humans. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington D.C.
Hansom, J., M.-K. Lee, D.I. Doser, and Y. Feng. 2003. The hydrodynamics and related biogeochemical processes in the Permian Basin, western Texas. Geologic. Soc. Am. Annu. Meet. Abstr. 35(6):215.
Hartel, P. G. 2003. Combining targeted sampling and Enterococcus faecalis isolation for bacterial source tracking of human fecal contamination. Abstr. Annu. Meet. Soc. Environ. Toxicol. Chem. p. 135-136.
Hartel, P. G., S. Myoda, R. L. Kuntz, K. Rodgers, J. A. Entry, S. A. Ver Wey, E. C. Schröder, M. Lacourt, J. Calle, J. E. Thies, J. P. Reilly, and J. J. Fuhrmann. 2003. Geographic and temporal variability of Enterococcus faecalis ribotypes for bacterial source tracking. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington, D.C., p. 592.
Hartel, P. G., K. Rodgers, S. N. J. Hemmings, J. L. McDonald, K. Gates, S. H. Jones, T. L. Bryant, B. O?Hara, E. Otero, and Y. Rivera?Torres. 2004. Desiccation as a mechanism of fecal enterococcal survival and regrowth for bacterial source tracking. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington, D.C.
Hassall, A., and C. Hagedorn. 2004. Sources of fecal pollution in four mixed-use watersheds in Prince William County, Va. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington D.C.
Herbein, S., and C. Hagedorn. 2004. Fecal E. coli and Enterococcus isolated from two humans and three companion animals compared by pulsed-field gel electrophoresis. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington D.C.
Hickey, W.J., D.J. Vacca, M. Pellitterri and W.F. Bleam. 2003. Isolation and analysis of bacteria adapted to degrade humic-sorbed polynuclear aromatic hydrocarbons (PAH). Annu. Meet. Abst. [CD-ROM]. ASA, CSSA, and SSSA, Madison, WI.
Hristova, K. R., B. Inceoglu, C. Naktsu. K. M. Scow. 2003. Characterization of enzymes involved in MTBE biodegradation in strain PM1. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington D.C.
Hutchinson, J. L., K. S. McLean, Y. Feng, C. Burmester, and G. W. Lawrence. 2003. Accelerated breakdown of aldicarb in Alabama cotton field soils. Phytopath. 93:S38. Publication no. P-2003-0274-AMA.
Jenkins, M.B. and A.J. Franzluebbers. 2003. Soil microbial community structure under endophyte-free and indophyte-infected tall fescue as determined by FISH analysis. Annu. Meet. Abst. [CD-ROM]. ASA, CSSA, and SSSA, Madison, WI.
Jerke, K., C. H. Nakatsu, and A. Konopka. 2003. A physiological and genetic approach to studying lead resistance in Arthrobacter sp. VN23-1. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington, D.C.
Jimenez-Esquilin, A.E., and M. E. Stromberger. 2003. Recovery of soil microorganisms following the Hayman wildfire. Annu. Meet. Abst. [CD-ROM]. ASA, CSSA, and SSSA, Madison, WI.
Jimenez-Esquilin, A., and M. Stromberger. 2004. Structural characterization of the microbial community in a fire-affected forest soil. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington, D.C.
Kerns, J.P.K., D.M. Vietor, R.H. White T.L. Provin and D.A. Zuberer. 2003. Physical and biological properties of soil amended with composted dairy manure during turf establishment. Annu. Meet. Abst. [CD-ROM]. ASA, CSSA, and SSSA, Madison, WI.
Kourtev, P. S., N. Carmosini, F. Beasley, C. Nakatsu, A. E. Konopka. 2003. Heavy metals modulate microbial community responses to inputs of organic carbon. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington, D.C.
Kuntz, R. L., P. G. Hartel, D. G. Godfrey, J. L. McDonald, K. W. Gates, and W. I. Segars. 2003. Targeted sampling protocol with Enterococcus faecalis for bacterial source tracking. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington, D.C., p. 573-574.
McKinney, J., and C. Hagedorn. 2004. Identifying sources of fecal pollution in the Appotomattox River Watershed. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington D.C.
Provin, T.L., R.H. White, D.A. Zuberer, J.C. Thomas and J.L. Pitt. 2003. Influence of compost amendments on sod establishment and soil physical, chemical and microbiological properties. Annu. Meet. Abst. [CD-ROM]. ASA, CSSA, and SSSA, Madison, WI.
Reilly, JP, Thies, JE and Baeumner, A. 2003. Development of an optical strip-assay biosensor for Enterococcus faecalis. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington, DC.
Rodgers, K., P. G. Hartel, R. L. Kuntz, and W. I. Segars. 2003. Presence of Enterococcus faecalis in human sewage, chicken litter, and wild birds. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington, D.C., p. 592.
Sangsupan, H.A., D.E. Radcliffe, M.B. Jenkins, P.G. Hartel, W.K. Vencill, and M.L. Cabrera. 2003. Transport characteristics of 17-beta estradiol and testosterone in no-till and conventionally tilled Georgia Piedmont soil. Annu. Meet. Abst. [CD-ROM]. ASA, CSSA, and SSSA, Madison, WI.
Savin, M.C., S.E. Ziegler, G.J. Thoma, K.M. Greer , P.J. Tomlinson, and D.C. Wolf. 2003. Nematode population changes during phytoremediation of a crude oil-contaminated soil. p. 44. In 10th Annu. Internation. Petroleum Environ. Confer. Integrated Petroleum Environ. Consort., Tulsa, OK.
Schröder, E. C., C. I. Castro, P. G. Hartel, R. L. Kuntz, and K. Rodgers. 2003. Targeted sampling with Escherichia coli for bacterial source tracking in Puerto Rico. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington, D.C., p. 592.
Sullivan, T.S, and M.E. Stromberger. 2003. Microbial community responses to biosolids in rangeland soils. Annu. Meet. Abst. [CD-ROM]. ASA, CSSA, and SSSA, Madison, WI.
Tomlinson, P. J., K. R. Payne, K. R. Brye, and M. C. Savin. 2003. Microbial dynamics in long- term research plots receiving alum-treated and untreated poultry litter. Annu. Meet. Abst. [CD-ROM]. ASA, CSSA, and SSSA, Madison, WI.
Wu, W, JE Thies, Q Ye, and H Min. 2003. Effect of Bt transgenic rice straw on the bacterial community diversity in a flooded soil. Annu. Meet. Abst. [CD-ROM]. ASA, CSSA, and SSSA, Madison, WI.
Wu, W, Q Ye, H Min, and JE Thies. 2003. Microbial enzyme activities and bacterial community composition in the rhizosphere of Bt-transgenic rice as compared to its non-transgenic cultivar. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington, DC.
Zhang, L. and Y. Feng. 2003. Sorption and desorption of carbaryl by soils. Annu. Meet. Abst. Southern Branch ASA [CD-ROM], Madison, WI.
Zurdo-Piñeiro, J. L., Lorite, M. J., Brelles-Mariño, G, Schröder, E. C., Bedmar, E.J., Martinez-Molina, E., Mateos, P.F. and Velázquez, E. 2002. Identificación de rhizobia de crecimiento rápido que nodulan leguminosas en Puerto Rico. XXI Reunión Latinoamericana de Rhizobiología, Cocoyoc, México. p. 89.
Accepted Abstracts
Devare, M.H., L.M. Londono, and J. E. Thies. 2004. A comparative assessment of cry3Bb Bt corn and insecticide on microbial biomass, processes, and bacterial diversity in soil. ASA, Seattle, WA
Jones, C.M. and J.E. Thies. 2004. Microbial community analysis in biocontrol research: Creation of a regional sequence database and refinement of T-RFLP for use with fungal populations. International Society for Microbial Ecology Meeting, Cancun, Mexico.
Jones, C.M. and J.E. Thies. 2004. Soil bacterial and fungal community response to application of entomopathogenic fungi in the field. ASA, Seattle, WA
Kantety, R., L.M. Londono, M. B. McBride, and J. E. Thies. 2004. Changes in microbial community structure in long-term sludge amended soils and naturally metalliferous soils. ASA, Seattle, WA
Londoño, L.M., M. H. Devare, and J. E. Thies. 2004. Effects of Cry3Bb Bt corn and insecticide on diversity of fungi in soil. ASA, Seattle, WA
Rumberger, A, J. E. Thies, E. B. Nelson, and I. A. Merwin. 2004. Apple replant disease and bacterial rhizosphere community composition. ASA, Seattle, WA
Thies, JE, W. Wu, and M. H. Devare. 2004. Multi-year field trials validate transgenic Bt corn and Bt rice pose little risk to the osil microbial foodweb. International Society for Microbial Ecology Meeting, Cancun, Mexico.
M.S. Theses
McKinney, J. M. Identifying Sources of Fecal Pollution in the Appomattox River Watershed. M.S. Thesis, May, 2004.
Porter, K. R., Identifying Sources of Fecal Pollution in Washington D.C. Waterways. M.S. Thesis, December, 2003.
Non-Refereed Publications
Hartel, P. G., E. A. Frick, A. L. Funk, J. L. Hill, J. D. Summer, and M. B. Gregory. 2004. Sharing of ribotype patterns of Escherichia coli isolates during baseflow and stormflow conditions. U. S. Geological Survey, Scientific Investigations Report 2004?5004. 10 p.
Proceedings
Chellemi, D. O., D.J. Mitchell, M.E. Kannwischer-Mitchell, E. Rosskopf and J.Graham. 2003 Soilborne disease and root colonizing fungi in vegetable crop systems, p. 334 in Proc. 8th Intern. Cong. Plant Pathology, Christchurch, New Zealand.
Graham, J. H. M. S. Irey, J. B. Morton, L. Baucum, and D. Bright. 2003. Sugarcane yield decline and its association with early colonization rate by arbuscular mycorrhizal fungi (AMF). p. 265 in 4th Intern. Conf. on Mycorrhizas, Montreal, Canada.
Graham, J. H., S. Ravnskov, J. Larsen. 2004. Testing models for mycorrhiza Pythium interactions in tomato roots. p. 37 in Proc. Development of Biocontrol Agents of Diseases for Commercial Applications in Food Production Systems. Sevilla, Spain.
Hons, F.M., A.L. Wright, S.M. Kolodziej, V. A. Saladino, R.L. Lemon, M.L. McFarland and D.A. Zuberer. 2004. Rotation, tillage and nitrogen rate effects on cotton growth and yield. Proc. Of the 2004 Beltwide Cotton Conference, San Antonio, TX.
Kolodziej, S.M., F.M Hons, Alan Wright and D.A, Zuberer. 2004. The effects of tillage and rotation on labile organic carbon and aggregation in a cotton cropping system. Soil Management and Plant Nutrition. Proc. Beltwide Cotton Conference, San Antonio, TX.
Rodgers, K., P. G. Hartel, R. L. Kuntz, D. G. Godfrey, and W. I. Segars. 2003. Field-testing Enterococcus faecalis for bacterial source tracking. p. 837-841. In K. J. Hatcher (ed.) Proceedings of the 2003 Georgia Water Resources Conference, April 23-24, University of Georgia, Athens.
Presentations
Padilla-Crespo, E., D. Vacca and W. J. Hickey. 2003. Diversity of Burkholderia polycyclic aromatic hydrocarbons (PAH) degradation genes. NIEHS Superfund Sci. Mtg, Los Angeles, CA; 13-15 October 2003.
Reilly, J.P., and Thies, J.E. 2003. Preliminary findings from ribotyping of enterococci isolated from Wappinger and Stony Creek catchments. Invited talk at the Dutchess Environment Council meeting: Emerging Water Contaminants.
Sullivan, T., M. Stromberger, and R. Brobst. 2004. Microbial community responses to biosolids in rangeland soils. Sustainable Land Application Conference, Lake Buena Vista, FL, January 4-8.
Torres-Albelo, J.J. and Schröder, Eduardo C. 2003. Arboles Fijadores de Nitrógeno. Pithecellobium arboreum (Subfalia Mimosoidea). Grupo Caribeño de Rhizobium, March, 2003.
Book Chapters
Hartel, P.G. 2004. Environmental factors affecting microbial activity. In D. Hillel, C. Rosenzweig, D. S. Powlson, K. M. Scow, M. J. Singer, D. L. Sparks, and J. Hatfield (ed.). Encyclopedia of soils in the environment. Elsevier, London (accepted).
Hickey, W.J. 2004. Microbiology and biochemistry of xenobiotic compound degradation. In D.M. Sylvia et al. (eds.) Soil Microbiology: Environmental and Agricultural Perspectives, 2nd Ed. Oxford University Press, New York, NY. (In Press).
Keeling, W. G., C. Hagedorn, and B. A. Wiggins. Concepts and applications of bacterial source tracking in water quality. In T. Younos, (ed.). TMDL: Approaches and Challenges, PennWell Press. Expected date of publication is June 2004.
Stromberger, M.E. Fungal communities of agroecosystems. In J. Dighton et al. (ed.) The Fungal Community. Marcel Dekker, New York, NY (submitted).
Books
Sylvia, D. M., J. J. Fuhrmann, P. G. Hartel, and D. A. Zuberer (eds). 2004. Principles and applications of soil microbiology, 2nd edition. Prentice-Hall, Upper Saddle River, NJ. (accepted).
Augé, R.M., J.L Moore, K. Cho, J.C. Stutz, D.M Sylvia, A.K. Al-Agely, A.M. Saxton. 2003. Relating drought resistance of Phaseolus vulgaris to soil and root colonization by mycorrhizal hyphae. J. Plant Physiol. 160: 1147-1156
Baldwin, B., C. H. Nakatsu, and L. Nies. 2003. Detection and enumeration of aromatic oxygenase genes by multiplex and real-time PCR. Appl. Environ. Microbiol. 69:3350-3358.
Bray, S.R., K. Kitajima, and D.M. Sylvia. 2003. Mycorrhizae differentially alter growth, physiology, and competitive ability of an invasive shrub. Functional Ecology 13:565-574.
Darnault, C.J.G., P. Garnier, Y.-J. Kim, K. Oveson, T.S. Steenhuis, J.Y. Parlange, M.B. Jenkins, W.C. Ghiorse, and P.C. Baveye. 2003. Transport of Cryptosporidium parvum oocysts in the subsurface environment. Wat. Environ. Res. 75:113-120.
Darnault, C.J.G., T.S. Steenhuis, P. Garnier, Y.-J. Kim, M.B. Jenkins, W.C. Ghiorse, P.C. Baveye, and J.-Y. Parlange. 2004. Preferential flow and transport of Cryptosporidium parvum oocysts through the vadose zone: experiments and modeling. Vadose Zone J. 3:262-270.
Davis, K. C., C. H. Nakatsu, R. Turco, S. Weagant, and A. K. Bhunia. 2003. Analysis of environmental Escherichia coli isolates for virulence genes using the TaqManâ PCR system. J. Appl. Microbiol. 95: 612-620.
Devare, M, CM Jones, and JE Thies. 2004. Effects of CRW transgenic corn and tefluthrin on the soil microbial community: biomass, activity, and diversity. J. Environ. Qual. 33 (3): 837-843 and Cover photos.
Feng, Y., A.C. Motta, D.W. Reeves, C.H. Burmester, E. van Santen, and J.A. Osborne. 2003. Soil microbial communities under conventional-till and no-till continuous cotton systems. Soil Biol. Biochem. 35: 1693-1703.
Hahm, B.K., Y. Maldonado, E. Schreiber, A. K.Bhunia, and C. H.Nakatsu. 2003. Subtyping of clinical and environmental isolates of Escherichia coli by multiplex PCR, AFLP, rep-PCR, PFGE and ribotyping. J. Microbiol. Meth. 53:387-399.
Hartel, P. G., J. D. Summer, and W. I. Segars. 2003. Deer diet affects ribotype diversity of Escherichia coli for bacterial source tracking. Water Res. 37:3263-3268. Also selected for inclusion in the ?Virtual Journal of Environmental Sustainability? (
Harwood, V. J., B. Wiggins, C. Hagedorn, R. D. Ellender, J. Gooch, J. Kern, M. Samadpour, A. H. Chapman and B. J. Robinson. 2003. Phenotypic library-based microbial source tracking methods: efficacy in the California collaborative study. J. Water & Health 01:153-156.
Jenkins, M.B. 2003. Rhizobial and Bradyrhizobial symbionts of mesquite from the Sonoran Desert: salt tolerance, facultative halophily and nitrate respiration. Soil Biol. Biochem. 35:1675-1682.
Kato, S., M. Jenkins, E. Fogarty, and D. Bowman. 2004. Cryptosporidium parvum oocyst inactivation in field soil and its relation to soil characteristics: analysis using the geographic information system. Sci. Total Environ. 321:47-58.
Krutz, L.J., S.A. Senseman, K.J. McInnes, D.A. Zuberer and D.P. Tierney. 2003. Adsorption and desorption of atrazine, desethylatrazine, deisopropylatrazine and hydroxyatrazine in vegetated filter strip and cultivated soil. J. Agric. Food Chem. 51:7379-7384.
Kuntz, R. L., P. G. Hartel, D. G. Godfrey, J. L. McDonald, K. W. Gates, and W. I. Segars. 2003. Targeted sampling protocol as prelude to bacterial source tracking with Enterococcus faecalis. J. Environ. Qual. 32:2311-2318.
Lalande, T. L., H. D. Skipper, D. C. Wolf, C. M. Reynolds, D. L. Freedman, B. W. Pinkerton, P. G. Hartel, and L. W. Grimes. 2003. Phytoremediation of pyrene in a Cecil soil under field conditions. Int. J. Phytoremed. 5:1-12.
Mesarch, M. B., C. H. Nakatsu, and L. Nies. 2004. Bench-scale and field-scale evaluation of catechol 2,3-dioxygenase specific primers for use in monitoring BTX bioremediation. Water Res. 38: 1281-1288.
Myoda, S. P., C. A. Carson, J. J. Fuhrmann, B.?K. Hahm, P. G. Hartel, L. A. Johnson, R. L. Kuntz, C. H. Nakatsu, M. J. Sadowsky, M. Samadpour, and H. Yampara?Iquise. 2003. Comparison of genotypic-based microbial source tracking methods requiring a host origin database. J. Water Health 1:167-180.
Park, J.-H., Y. Feng, P. Ji, T.C. Voice, and S.A. Boyd. 2003. Assessment of bioavailability of soil-sorbed atrazine. Appl. Environ. Microbiol. 69:3288-3298.
Ritter K. J., E. Carruthers, C. A. Carson, R. D. Ellender, V. J. Harwood, K. Kingsley, C. Nakatsu, M. Sadowsky, B. Shear, B. West, J. E. Whitlock, B. A. Wiggins, J. D. Wilbur. 2003. Assessment of statistical methods used in microbial source tracking methods. J. Wat. Health 1: 209-223.
Rumberger, A, Yao, S, Merwin, IA., Nelson, EB and Thies, JE. 2004. Rootstock genotype and orchard replant position rather than soil fumigation or compost amendment determine tree growth and rhizosphere bacterial community composition in an apple replant soil. Plant and Soil. In Press (Prepublication Date: 01/21/2004).
Sylvia, D.M., A.K. Alagely, M.E. Kane, N.L. Philman. 2003. Compatible host/mycorrhizal fungus combinations for micropropagated sea oats. I. Field sampling and greenhouse evaluations. Mycorrhiza 13:177-183.
Wu, G., Y. Feng, and S.A. Boyd. 2003. Characterization of bacteria capable of degrading soil-sorbed biphenyl. Bull. Environ. Contam. Toxicol. 71:768-775.
Accepted Full Length Articles (Refereed Journals)
Heinsch, F.A., J.L. Heilman, K.J. McInnes, D.R. Cobo, D.A. Zuberer and D.L. Roelke. 2003. Carbon dioxide exchange in a high marsh on the Texas Gulf Coast: effects of freshwater availability. Ag and Forest Meteor. In press.
Keller, S.L, M.B. Jenkins, and W.C. Ghiorse. 2003. Simulating the effect of liquid CO2 on Cryptosporidium parvum oocysts in aquifer material. J. Environ. Engin. Accepted, 7 Nov. 2003.
Rodgers, K., P. G. Hartel, R. L. Kuntz, and W. I. Segars. 2004. Presence of Enterococcus faecalis in human sewage, chicken litter, and wild birds. Water Res. (accepted).
Stark, J.A., D.D. Bowman, M. Labare, E.A. Fogarty, A. Lucio-Forster, J. Barbi, M.B. Jenkins, M. Pavlo, and M.A. Butkus. 2003. Do iodine water purification tablets provide an effective barrier against Cryptosporidium parvum? Military Medicine. Accepted, 27 Oct. 2003.
Submitted Full Length Articles (Refereed Journals)
Hartel PG, S. Myoda, R. L. Kuntz, K. Rodgers, J. Entry, S. Ver Wey, E. Schröder, J. Calle, M. Lacourt, J. E. Thies, J. P. Reilly, and J. J. Fuhrmann. 2004. Geographic and temporal changes of Enterococcus faecalis ribotypes for bacterial source tracking. Submitted to J. Environ. Qual.
Jones CM, and J. E. Thies. 2004. Laboratory evaluation of the entomopathogenic fungal species Metarhizium anisopliae and Beauvaria bassiana for use in controlling the alfalfa snout beetle, Otiorhynchus ligustici. Submitted to Biological Control.
Meyers, S.K., S.P. Deng, N.T. Basta, W.W. Clarkson, and G. Wilber. 200_. Acetonitrile extractable and water leachable 2,4,6-Trinitrotoluene (TNT), Hexahydro-1,3,5-Trinitro-1,3,5-Triazine (RDX), and Octahydrol-1,3,5,7-Tetranitro-1,3,5,7-Tetrazocine (HMX) in soil and their impact on microbial community. (in review).
Stromberger, M.E. Metal vs fire: a soil microbiology laboratory incubation study demonstrating microbial biomass and activities in disturbed forest soils. Submitted to J. Nat. Res. Life Sci. Ed.
Vacca, D.J., M.C. Pellitteri, E. Padilla-Crespo, W.F. Bleam and W.J. Hickey. 2004. Isolation and molecular characterization of soil bacteria adapted to degrade humic acid-sorbed phenanthrene. Submitted to Appl. Environ. Microbiol.
Yao S, I. A. Merwin, G. Bird, G. S.Abawi, and J. E. Thies. 2004. Orchard groundcover management practices that maintain soil cover stimulate soil microbial activity and alter microbial community composition. Submitted to Plant and Soil.
In Print Abstracts:
Ackerman, C. E., F. M. Wanjau, J. D. Wilbur, S. M. Brouder, R. W. Doerge, and C.H. Nakatsu. 2003. The effects of long term tillage and rotational treatments on the rhizosphere microbial community structure of soybean. Annu. Meet. Abst. [CD-ROM]. ASA, CSSA, and SSSA, Madison, WI.
Baldwin, B., L. Nies, C. Nakatsu, and J. Simonds. 2003. Molecular genetic detection and enumeration of aromatic oxygenase genes at gasoline-contaminated sites. Abstr. Battelle Bioremed. Conf., Orlando, FL.
Beasley, F. C., C. H. Nakatsu, N. Carmosini, A. Konopka. 2003. Genotypic and phenotypic characterization of Arthrobacter isolates from chromate contaminated soil. Annu. Meet. Abstr. [CD-ROM]. ASA, CSSA, and SSSA, Madison, WI.
Carrero-Colon, M., C. Nakatsu, A. E. Konopka. 2003. Nutrient periodicity as a selective force in structuring microbial communities. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington D.C.
Devare, M, Londono, LM, Jones, CM and Thies, JE. 2003. Effects of rootworm-resistant transgenic corn and insecticide on soil microbial communities. Annu. Meet. Abst. [CD-ROM]. ASA, CSSA, and SSSA, Madison, WI.
Entry, J. A., S. A. Ver Wey, P. G. Hartel, R. L. Kuntz, and K. Rodgers. 2003. Targeted sampling with Escherichia coli for bacterial source tracking in Idaho. Abstr. Annu. Meet. Am. Soc. Microbiol. p. 591.
Feng, Y., D.W. Reeves, and P. Ji. 2003. Effect of crop rotation and tillage systems on soil microbial communities. Annu. Meet. Abst. [CD-ROM]. ASA, CSSA, and SSSA, Madison, WI.
Feng, Y, P. G. Hartel, S. Deng, K. Rodgers, J. Fisher, and B. Liu. 2004. Survival of Enterococcus species and subspecies in sediment for bacterial source tracking. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington, D.C.
Fisher, D.C., M.B. Jenkins, R.R. Lowrance, R.K. Hubbard, T.C., Strickland, G. Vellidis, and G.L. Newton. 2003. In vitro disappearances of E. coli and enterococci related to light, predation, and sedimentation. Annu. Meet. Abst. [CD-ROM]. ASA, CSSA, and SSSA, Madison, WI.
Franzluebbers, A.J., M.B. Jenkins, D.A. Zuberer, N.S. Hill. 2003. Soil responses to tall fescue endophyte infection. Annu. Meet. Abst. [CD-ROM]. ASA, CSSA, and SSSA, Madison, WI.
Hagedorn, C., A. H. Chapman, S. Herbein, M. Saluta, and P. McClellan. 2004. Microbial source tracking as a technology for identifying sources of fecal pollution in water. 4th National Conference on Science, Policy, and the Environment, National Council for Science and the Environment. Washington, D.C.
Hagedorn, C. 2004. Bridging the gap between science and policy: Environmental Detection News. 4th National Conference on Science, Policy, and the Envrionment, National Council for Science and the Environment. Washington, D.C.
Hahm, B.K., A. K.Bhunia, and C. H.Nakatsu. 2003. Application of AFLP for discriminating Escherichia coli isolated from livestock, wildlife and humans. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington D.C.
Hansom, J., M.-K. Lee, D.I. Doser, and Y. Feng. 2003. The hydrodynamics and related biogeochemical processes in the Permian Basin, western Texas. Geologic. Soc. Am. Annu. Meet. Abstr. 35(6):215.
Hartel, P. G. 2003. Combining targeted sampling and Enterococcus faecalis isolation for bacterial source tracking of human fecal contamination. Abstr. Annu. Meet. Soc. Environ. Toxicol. Chem. p. 135-136.
Hartel, P. G., S. Myoda, R. L. Kuntz, K. Rodgers, J. A. Entry, S. A. Ver Wey, E. C. Schröder, M. Lacourt, J. Calle, J. E. Thies, J. P. Reilly, and J. J. Fuhrmann. 2003. Geographic and temporal variability of Enterococcus faecalis ribotypes for bacterial source tracking. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington, D.C., p. 592.
Hartel, P. G., K. Rodgers, S. N. J. Hemmings, J. L. McDonald, K. Gates, S. H. Jones, T. L. Bryant, B. O?Hara, E. Otero, and Y. Rivera?Torres. 2004. Desiccation as a mechanism of fecal enterococcal survival and regrowth for bacterial source tracking. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington, D.C.
Hassall, A., and C. Hagedorn. 2004. Sources of fecal pollution in four mixed-use watersheds in Prince William County, Va. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington D.C.
Herbein, S., and C. Hagedorn. 2004. Fecal E. coli and Enterococcus isolated from two humans and three companion animals compared by pulsed-field gel electrophoresis. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington D.C.
Hickey, W.J., D.J. Vacca, M. Pellitterri and W.F. Bleam. 2003. Isolation and analysis of bacteria adapted to degrade humic-sorbed polynuclear aromatic hydrocarbons (PAH). Annu. Meet. Abst. [CD-ROM]. ASA, CSSA, and SSSA, Madison, WI.
Hristova, K. R., B. Inceoglu, C. Naktsu. K. M. Scow. 2003. Characterization of enzymes involved in MTBE biodegradation in strain PM1. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington D.C.
Hutchinson, J. L., K. S. McLean, Y. Feng, C. Burmester, and G. W. Lawrence. 2003. Accelerated breakdown of aldicarb in Alabama cotton field soils. Phytopath. 93:S38. Publication no. P-2003-0274-AMA.
Jenkins, M.B. and A.J. Franzluebbers. 2003. Soil microbial community structure under endophyte-free and indophyte-infected tall fescue as determined by FISH analysis. Annu. Meet. Abst. [CD-ROM]. ASA, CSSA, and SSSA, Madison, WI.
Jerke, K., C. H. Nakatsu, and A. Konopka. 2003. A physiological and genetic approach to studying lead resistance in Arthrobacter sp. VN23-1. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington, D.C.
Jimenez-Esquilin, A.E., and M. E. Stromberger. 2003. Recovery of soil microorganisms following the Hayman wildfire. Annu. Meet. Abst. [CD-ROM]. ASA, CSSA, and SSSA, Madison, WI.
Jimenez-Esquilin, A., and M. Stromberger. 2004. Structural characterization of the microbial community in a fire-affected forest soil. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington, D.C.
Kerns, J.P.K., D.M. Vietor, R.H. White T.L. Provin and D.A. Zuberer. 2003. Physical and biological properties of soil amended with composted dairy manure during turf establishment. Annu. Meet. Abst. [CD-ROM]. ASA, CSSA, and SSSA, Madison, WI.
Kourtev, P. S., N. Carmosini, F. Beasley, C. Nakatsu, A. E. Konopka. 2003. Heavy metals modulate microbial community responses to inputs of organic carbon. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington, D.C.
Kuntz, R. L., P. G. Hartel, D. G. Godfrey, J. L. McDonald, K. W. Gates, and W. I. Segars. 2003. Targeted sampling protocol with Enterococcus faecalis for bacterial source tracking. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington, D.C., p. 573-574.
McKinney, J., and C. Hagedorn. 2004. Identifying sources of fecal pollution in the Appotomattox River Watershed. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington D.C.
Provin, T.L., R.H. White, D.A. Zuberer, J.C. Thomas and J.L. Pitt. 2003. Influence of compost amendments on sod establishment and soil physical, chemical and microbiological properties. Annu. Meet. Abst. [CD-ROM]. ASA, CSSA, and SSSA, Madison, WI.
Reilly, JP, Thies, JE and Baeumner, A. 2003. Development of an optical strip-assay biosensor for Enterococcus faecalis. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington, DC.
Rodgers, K., P. G. Hartel, R. L. Kuntz, and W. I. Segars. 2003. Presence of Enterococcus faecalis in human sewage, chicken litter, and wild birds. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington, D.C., p. 592.
Sangsupan, H.A., D.E. Radcliffe, M.B. Jenkins, P.G. Hartel, W.K. Vencill, and M.L. Cabrera. 2003. Transport characteristics of 17-beta estradiol and testosterone in no-till and conventionally tilled Georgia Piedmont soil. Annu. Meet. Abst. [CD-ROM]. ASA, CSSA, and SSSA, Madison, WI.
Savin, M.C., S.E. Ziegler, G.J. Thoma, K.M. Greer , P.J. Tomlinson, and D.C. Wolf. 2003. Nematode population changes during phytoremediation of a crude oil-contaminated soil. p. 44. In 10th Annu. Internation. Petroleum Environ. Confer. Integrated Petroleum Environ. Consort., Tulsa, OK.
Schröder, E. C., C. I. Castro, P. G. Hartel, R. L. Kuntz, and K. Rodgers. 2003. Targeted sampling with Escherichia coli for bacterial source tracking in Puerto Rico. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington, D.C., p. 592.
Sullivan, T.S, and M.E. Stromberger. 2003. Microbial community responses to biosolids in rangeland soils. Annu. Meet. Abst. [CD-ROM]. ASA, CSSA, and SSSA, Madison, WI.
Tomlinson, P. J., K. R. Payne, K. R. Brye, and M. C. Savin. 2003. Microbial dynamics in long- term research plots receiving alum-treated and untreated poultry litter. Annu. Meet. Abst. [CD-ROM]. ASA, CSSA, and SSSA, Madison, WI.
Wu, W, JE Thies, Q Ye, and H Min. 2003. Effect of Bt transgenic rice straw on the bacterial community diversity in a flooded soil. Annu. Meet. Abst. [CD-ROM]. ASA, CSSA, and SSSA, Madison, WI.
Wu, W, Q Ye, H Min, and JE Thies. 2003. Microbial enzyme activities and bacterial community composition in the rhizosphere of Bt-transgenic rice as compared to its non-transgenic cultivar. Abstr. Annu. Meet. Am. Soc. Microbiol., Washington, DC.
Zhang, L. and Y. Feng. 2003. Sorption and desorption of carbaryl by soils. Annu. Meet. Abst. Southern Branch ASA [CD-ROM], Madison, WI.
Zurdo-Piñeiro, J. L., Lorite, M. J., Brelles-Mariño, G, Schröder, E. C., Bedmar, E.J., Martinez-Molina, E., Mateos, P.F. and Velázquez, E. 2002. Identificación de rhizobia de crecimiento rápido que nodulan leguminosas en Puerto Rico. XXI Reunión Latinoamericana de Rhizobiología, Cocoyoc, México. p. 89.
Accepted Abstracts
Devare, M.H., L.M. Londono, and J. E. Thies. 2004. A comparative assessment of cry3Bb Bt corn and insecticide on microbial biomass, processes, and bacterial diversity in soil. ASA, Seattle, WA
Jones, C.M. and J.E. Thies. 2004. Microbial community analysis in biocontrol research: Creation of a regional sequence database and refinement of T-RFLP for use with fungal populations. International Society for Microbial Ecology Meeting, Cancun, Mexico.
Jones, C.M. and J.E. Thies. 2004. Soil bacterial and fungal community response to application of entomopathogenic fungi in the field. ASA, Seattle, WA
Kantety, R., L.M. Londono, M. B. McBride, and J. E. Thies. 2004. Changes in microbial community structure in long-term sludge amended soils and naturally metalliferous soils. ASA, Seattle, WA
Londoño, L.M., M. H. Devare, and J. E. Thies. 2004. Effects of Cry3Bb Bt corn and insecticide on diversity of fungi in soil. ASA, Seattle, WA
Rumberger, A, J. E. Thies, E. B. Nelson, and I. A. Merwin. 2004. Apple replant disease and bacterial rhizosphere community composition. ASA, Seattle, WA
Thies, JE, W. Wu, and M. H. Devare. 2004. Multi-year field trials validate transgenic Bt corn and Bt rice pose little risk to the osil microbial foodweb. International Society for Microbial Ecology Meeting, Cancun, Mexico.
M.S. Theses
McKinney, J. M. Identifying Sources of Fecal Pollution in the Appomattox River Watershed. M.S. Thesis, May, 2004.
Porter, K. R., Identifying Sources of Fecal Pollution in Washington D.C. Waterways. M.S. Thesis, December, 2003.
Non-Refereed Publications
Hartel, P. G., E. A. Frick, A. L. Funk, J. L. Hill, J. D. Summer, and M. B. Gregory. 2004. Sharing of ribotype patterns of Escherichia coli isolates during baseflow and stormflow conditions. U. S. Geological Survey, Scientific Investigations Report 2004?5004. 10 p.
Proceedings
Chellemi, D. O., D.J. Mitchell, M.E. Kannwischer-Mitchell, E. Rosskopf and J.Graham. 2003 Soilborne disease and root colonizing fungi in vegetable crop systems, p. 334 in Proc. 8th Intern. Cong. Plant Pathology, Christchurch, New Zealand.
Graham, J. H. M. S. Irey, J. B. Morton, L. Baucum, and D. Bright. 2003. Sugarcane yield decline and its association with early colonization rate by arbuscular mycorrhizal fungi (AMF). p. 265 in 4th Intern. Conf. on Mycorrhizas, Montreal, Canada.
Graham, J. H., S. Ravnskov, J. Larsen. 2004. Testing models for mycorrhiza Pythium interactions in tomato roots. p. 37 in Proc. Development of Biocontrol Agents of Diseases for Commercial Applications in Food Production Systems. Sevilla, Spain.
Hons, F.M., A.L. Wright, S.M. Kolodziej, V. A. Saladino, R.L. Lemon, M.L. McFarland and D.A. Zuberer. 2004. Rotation, tillage and nitrogen rate effects on cotton growth and yield. Proc. Of the 2004 Beltwide Cotton Conference, San Antonio, TX.
Kolodziej, S.M., F.M Hons, Alan Wright and D.A, Zuberer. 2004. The effects of tillage and rotation on labile organic carbon and aggregation in a cotton cropping system. Soil Management and Plant Nutrition. Proc. Beltwide Cotton Conference, San Antonio, TX.
Rodgers, K., P. G. Hartel, R. L. Kuntz, D. G. Godfrey, and W. I. Segars. 2003. Field-testing Enterococcus faecalis for bacterial source tracking. p. 837-841. In K. J. Hatcher (ed.) Proceedings of the 2003 Georgia Water Resources Conference, April 23-24, University of Georgia, Athens.
Presentations
Padilla-Crespo, E., D. Vacca and W. J. Hickey. 2003. Diversity of Burkholderia polycyclic aromatic hydrocarbons (PAH) degradation genes. NIEHS Superfund Sci. Mtg, Los Angeles, CA; 13-15 October 2003.
Reilly, J.P., and Thies, J.E. 2003. Preliminary findings from ribotyping of enterococci isolated from Wappinger and Stony Creek catchments. Invited talk at the Dutchess Environment Council meeting: Emerging Water Contaminants.
Sullivan, T., M. Stromberger, and R. Brobst. 2004. Microbial community responses to biosolids in rangeland soils. Sustainable Land Application Conference, Lake Buena Vista, FL, January 4-8.
Torres-Albelo, J.J. and Schröder, Eduardo C. 2003. Arboles Fijadores de Nitrógeno. Pithecellobium arboreum (Subfalia Mimosoidea). Grupo Caribeño de Rhizobium, March, 2003.
Book Chapters
Hartel, P.G. 2004. Environmental factors affecting microbial activity. In D. Hillel, C. Rosenzweig, D. S. Powlson, K. M. Scow, M. J. Singer, D. L. Sparks, and J. Hatfield (ed.). Encyclopedia of soils in the environment. Elsevier, London (accepted).
Hickey, W.J. 2004. Microbiology and biochemistry of xenobiotic compound degradation. In D.M. Sylvia et al. (eds.) Soil Microbiology: Environmental and Agricultural Perspectives, 2nd Ed. Oxford University Press, New York, NY. (In Press).
Keeling, W. G., C. Hagedorn, and B. A. Wiggins. Concepts and applications of bacterial source tracking in water quality. In T. Younos, (ed.). TMDL: Approaches and Challenges, PennWell Press. Expected date of publication is June 2004.
Stromberger, M.E. Fungal communities of agroecosystems. In J. Dighton et al. (ed.) The Fungal Community. Marcel Dekker, New York, NY (submitted).
Books
Sylvia, D. M., J. J. Fuhrmann, P. G. Hartel, and D. A. Zuberer (eds). 2004. Principles and applications of soil microbiology, 2nd edition. Prentice-Hall, Upper Saddle River, NJ. (accepted).