Publications

Welcome to my publications page! I have several areas of research, they are broken down by topic below. For reprints please contact me, Deborah.Neher@uvm.edu

Recent Publications

Neher, D.A. and Powers, T.O. 2022. Nematodes. In: Blagodatskaya, J., and Unc, A. (section editors) Encyclopedia of Soils in the Environment, Second Edition, Elsevier, New York. https://doi.org/10.1016/B978-0-12-822974-3.00038-0

Neher, D.A., Harris, J.M., Horner, C.E., Scarborough, M.J., Badireddy, A.R., Faulkner, J.W., White, A.C., Darby, H.M., Farley, J.C., and Bishop-von Wettberg, E.J. 2022. Resilient soils for resilient farms: An integrative approach to assess, promote and value soil health for small- and medium-size farms. Phytobiomes https://doi.org/10.1094/PBIOMES-10-21-0060-P (open access)

Kinnebrew, E., Neher, D.A., Ricketts, T.H., Wallin, K.F., Darby, H., Ziegler, S.E., Alger, S.A., and Galford, G.L. Cultivated milkweed hosts high diversity of surface-active and soil-dwelling arthropods in a New England case study. 2022. Agriculture, Ecosystems and Environment 325: 107749. https://doi.org/10.1016/j.agee.2021.107749

Neher, D. A., and Hoitink, H. A. 2021. Compost use for plant disease suppression. Chapter 17 (Pages 847-878) in: Rynk, R. (editor) The Composting Handbook, Second Edition, Elsevier. https://doi.org/10.1016/B978-0-323-85602-7.00015-7 

Limoges, M.A., Neher, D.A., Weicht, T.R., Millner, P. D., Sharma, M., and Donnelly, C. 2021. Differential survival of generic E. coli and Listeria spp. in northeastern U.S. soils amended with dairy manure compost, poultry litter compost, and heat-treated poultry pellets and fate in raw edible radish crops. Journal of Food Protection https://doi.org/10.4315/JFP-21-261. PMID: 34855938.

Neher, D.A. 2021. Biological indicators and compost for managing plant disease. Acta Horticulturae 1317, 33-46. doi.org/10.17660/ActaHortic.2021.1317.5

Readyhough, T., Neher, D.A., and Andrews, T. 2021. Organic amendments alter soil hydrology and belowground microbiome of tomato (Solanum lycopersicum). Microorganisms 9: 1561. doi.org/10.3390/microorganisms9081561

Unc, A., Altdorff, D., Abakumov, E., Adl, S., Baldursson, S., Bechtold, M., Cattani, D., Firbank, L., Grand, S., Guðjónsdóttir, S., Kallenbach, C., Kedir, A., Li, P., McKenzie, D., Misra, D., Nagano, H., Neher, D.A., Niemi, J., Oelbermann, M., Overgård Lehmann, J., Parsons, D., Quideau, S., Sharkhuu, A., Smreczak, B., Sorvali, J., Vallotton, J., Whalen, J., Young, E.H., Zhang, M., and Borchart, N. (alphabetical order). 2021. Expansion of agriculture in northern cold-climate regions: A cross-sectoral perspective on opportunities and challenges. Frontiers in Sustainable Food Systems 5:663448. doi.org/10.3389/fsufs.2021.663448

Andrews, T., Jeffrey, C., Gilker, R., Neher, D.A., and Barlow, J.W. 2021. Survey design and implementation quantifying winter housing and bedding types used on Vermont organic dairy farms. Journal of Dairy Science 104: 8326-8337. doi.org/10.3168/jds.2020-19832

Neher, D.A., Limoges, M.A., Weicht, T.R., Sharma, M., Miller, P.D. and Donnelly, C. 2020. Bacterial community dynamics distinguish poultry compost from dairy compost and unamended soils planted with spinach. Microorganisms 8(10):1601. doi:10.3390/microorganisms8101601

Porterfield, K.K., Joblin, R., Neher, D.A., Curtis, M., Dvorak, S., Rizzo, D.M., Faulkner, J.W. and Roy, E.D. 2020. Upcycling phosphorus recovered from anaerobically digested dairy manure to support production for vegetables and flowers. Sustainability 12:1139. doi: 10.3390/su12031139 

Neher, D.A. 2019. Compost and plant disease suppression. BioCycle 60(8): 22-25.

O’Brien, B.J., Neher, D.A., and Roy, E.D. 2019. Nutrient and pathogen suppression properties of anaerobic digestates from dairy manure and food waste feedstocks. Waste and Biomass Valorization DOI 10.1007/s12649-019-00906-4

Neher, D.A. and Barbercheck, M.E. 2019. Soil microarthropods and soil health: Intersection of decomposition and pest suppression. Insects 10(12):414. DOI 10.3390/insects10120414

Andrews, T., Neher, D.A., Weicht, T.R., and Barlow, J.W. 2019. Mammary microbiome of lactating organic dairy cows varies by time, tissue site, and infection status. PloS ONE 14(11): e0225001. DOI 10.1371/journal.pone.0225001

Neher, D.A., Nishanthan, T., Grabau, Z.J., and Chen, S.Y. 2019. Crop rotation and tillage affect nematode communities more than biocides in monoculture soybean. Applied Soil Ecology 140: 89-97. DOI 10.1016/j.apsoil.2019.03.016

Neher, D.A., Cutler, A.J., Weicht, T.R., Sharma, M., and Millner, P.D. 2019. Composts of poultry litter or dairy manure differentially affect survival of enteric bacteria in fields with spinach. Journal of Applied Microbiology 126:1910-1922. DOI 10.1111/jam.14268

Hu, W., Kidane, E., Neher, D.A., and Chen, S. 2019. Field and greenhouse evaluations of soil suppressiveness to Heterodera glycines in the Midwest corn-soybean production systems. Journal of Nematology 51:e2019-32. DOI 10.21307/jofnem-2019-032

Biological Indicators of Soil

Neher, D.A. 2021. Biological indicators and compost for managing plant disease. Acta Horticulturae 1317, 33-46. doi.org/10.17660/ActaHortic.2021.1317.5

Neher, D.A., Nishanthan, T., Grabau, Z.J., and Chen, S.Y. 2019. Crop rotation and tillage affect nematode communities more than biocides in monoculture soybean. Applied Soil Ecology 140: 89-97. DOI 10.1016/j.apsoil.2019.03.016

Neher, D.A. and Barbercheck, M.E. 2019. Soil microarthropods and soil health: Intersection of decomposition and pest suppression. Insects 10(12):414. DOI 10.3390/insects10120414

Neher, D.A., Weicht, T.R. 2018. A plate competition assay as a quick preliminary assessment of disease suppression. Journal of Visualized Experiments e58767, http://www.jove.com/video/58767, doi:10.3791/58767.

Steel, H., Moens, T., Vandecasteele, B., Hendrickx, F., De Neve, S., Neher, D. A., and Bert, W. 2018. Factors influencing the nematode community during composting and nematode-based criteria for compost maturity. Ecological Indicators 85: 409-421. DOI 10.1016/j.ecolind.2017.10.039.

Neher, D. A., Fang, L., and Weicht, T. R. 2017. Ecoenzymes as indicators of compost to suppress Rhizoctonia solani. Compost Science and Utilization 25(4): 251-261. DOI 10.1080/1065657X.2017.1300548.

Zhang, P., Neher, D.A., Li, B., and Wu, J. 2017. The impacts of above- and belowground plant input on soil microbiota: invasive Spartina alterniflora vs. native Phragmites australis. Ecosystems 10.1007/s10021-017-0162-8.

Neher, D.A., Williams, K.M., and Lovell, S.T. 2017. Environmental indicators reflective of road design in a forested landscape. Ecosphere 8(3):e01734. 10.1002/ecs2.1734.

Bakelaar, J.E., Neher, D.A., and Gilker, R. 2016. Minimal soil impact by cold season pasture management in Vermont. Canadian Journal of Soil Science  DOI 10.1139/CJSS-2014-0005.

Shao, Y., Wang, X., Zhao, J., Wu, J., Zhang, W., Neher, D. A., Li, Y., Lou, Y. and Fu, S. 2016. Subordinate plants sustain the complexity and stability of soil micro-food web in a subtropical natural forest ecosystem. Journal of Applied Ecology 53: 130-139.

Li, Y., Yang, G., Neher, D.A., Xu, C-Y., and Wu, J. 2015. Status of soil nematode communities during natural regeneration of a subtropical forest in southwestern China. Nematology 17: 79-90.

Zhao, J., and Neher, D.A. 2014. Soil energy pathways of different ecosystems using nematode trophic group analysis: a meta-analysis. Nematology 16: 379-385.

Wang, F., Li, J., Wang, X., Zhang, W., Zou, B., Neher, D.A., and Li, Z. 2014. Nitrogen and phosphorus addition impact soil N2O emission in a secondary tropical forest of South China. Scientific Reports DOI 10.1038/srep05615.

Zhao, J., and Neher, D.A. 2013. Soil nematode genera that predict specific types of disturbance. Applied Soil Ecology 64: 135-141.

Zhao, J., Neher, D.A., Fu, S., Li, Z., Wang, K. 2013. Non-target effects of herbicides on soil nematode assemblagesPest Management Science 69: 679-684.

Zhao, J., Shao, Y., Wang, X., Neher, D.A., Xu, G., Li, Z., and Fu, S. 2013. Sentinel soil invertebrate taxa as bioindicators for forest management practices. Ecological Indicators 24: 236-239.

Neher, D.A., Asmussen, D., and Lovell,  S.T. 2013. Roads in northern hardwood forests affect adjacent plant communities and soil chemistry in proportion to maintained roadside area. Science of the Total Environment. 449: 320-327.

Neher, D.A., Weicht, T.R., and Barbercheck, M.E. 2012. Linking invertebrate communities to decomposition rate and nitrogen availability in pine forest soils. Applied Soil Ecology 54:14-23.

Shao, Y., Zhang, W., Liu, Z., Sun, Y., Chen, D., Wu, J., Zhau, L., Xia, H., Neher, D.A., and Fu, S. 2012. Responses of soil microbial and nematode communities to aluminum toxicity in vegetated soil-shale-waste lands. Ecotoxicology 21: 2132-2142.

Neher, D.A. 2010. Ecology of plant and free-living nematodes in natural and agricultural soil. Annual Review of  Phytopathology 48:371-394.

Powers, T.O., Neher, D.A., Mullin, P. Esquivel, A., Giblin-Davis, R.M., Kanzaki, N., Stock, S.P., Mora, M.M., and Uribe-Lorio, L. 2009. Tropical nematode diversity: Vertical stratification of nematode communities in a Costa Rican humid lowland tropical rainforest. Molecular Ecology 18: 985-996.

Neher, D.A., Lewins, S.A., Weicht, T.R., and Darby, B.J. 2009. Microarthropod communities associated with biological soil crusts in the Colorado Plateau and Chihuahuan deserts. Journal of Arid Environments 73:672-677.

Barbercheck, M.E., Neher, D.A., Anas, O., El-Allaf, S.M., and Weicht, T.R. 2009. Response of soil fauna to disturbance across three resource regions in North Carolina. Environmental Monitoring and Assessment 152: 283-298

Darby, B.J., Neher, D.A., and Belnap, J. 2007. Soil nematode communities are ecologically more mature beneath late- than early-successional stage biological soil crusts. Applied Soil Ecology 35: 203-212

 Neher, D.A., and Stürzenbaum, S.R. 2006. Extra-long PCR, an identifier of DNA adducts in single nematodes (Caenorhabditis elegans). Comparative Biochemistry and Physiology, Part C 144:279-285.

Neher, D.A., Wu, J., Barbercheck, M.E., and Anas, O. 2005. Ecosystem type affects interpretation of soil nematode community measures. Applied Soil Ecology 30: 47-64.

Li, F., Neher, D.A., Darby, B.J., and Weicht, T.R. 2005. Observed differences in life history characteristics of nematodes Aphelenchus and Acrobeloides  upon exposure to copper and benzo(a)pyrene. Ecotoxicology 14: 419-429.

Liang, W., Li, Q., Jiang, Y., and Neher, D.A. 2005. Nematode faunal analysis in an aquic brown soil fertilised with slow-release urea, Northeast China. Applied Soil Ecology 29:185-192.

Liang, W., Zhang, X., Li, Q., Jiang, Y., Ou, W., and Neher, D.A. 2005. Vertical distribution of bacterivorous nematodes under different land uses. Journal of Nematology 37:254-258.

Neher, D.A., Fiscus, D.A., and Li, F. 2004. Selection of sentinel taxa and biomarkers. Nematology Monographs and Perspectives 2: 511-514.

Neher, D.A., Barbercheck, M.E., El-Allaf, S.M., and Anas, O. 2003. Effects of disturbance and ecosystem on decomposition. Applied Soil Ecology 23:165-179.

Blakely, J.K., Neher, D.A., and Spongberg, A. L. 2002. Microinvertebrate and microbial communities, and decomposition as indicators of polycyclic aromatic hydrocarbon contamination. Applied Soil Ecology 21: 71-88.

Fiscus, D.A. and Neher, D.A. 2002. Distinguishing nematode genera based on relative sensitivity to physical and chemical disturbances. Ecological Applications 12:565-575.

Neher, D.A. 2001. Role of nematodes in soil health and their use as indicators. Journal of Nematology 33: 161-168.

Savin, M.C., Görres, J.H., Neher, D., and Amador, J.A. 2001. Uncoupling of carbon and nitrogen mineralization: Role of microbivorous nematodes. Soil Biology and Biochemistry 33:1463-1472.

Savin, M.C., Görres, J.H., Neher, D.A., and Amador, J.A. 2001. Biogeophysical factors influencing soil respiration and mineral nitrogen content in an old field soil. Soil Biology and Biochemistry 33:429-438.

Neher, D.A. and Olson, R.K. 1999. Nematode communities in soils of four farm cropping management systems. Pedobiologia 43:430-438.

Neher, D.A. 1999. Soil community composition and ecosystem processes: Comparing agricultural ecosystems with natural ecosystems. Agroforestry Systems 45:159-185.

Görres, J. H., Savin, M. Neher, D.A., Weicht, T. R., and Amador, J.A. 1999. Grazing in a porous environment 1. Interaction between grazing and soil structure on nutrient mineralization. Plant and Soil 212:75-83.

Neher, D.A., Weicht, T. R., Savin, M., Görres, J. H.and Amador, J. A. 1999. Grazing in a porous environment 2. Nematode community structure. Plant and Soil 212:85-99. Erratum: Table 2 should be replaced with this version.

Neher, D.A. 1999. Nematode communities in organically and conventionally managed agricultural soils. Journal of Nematology 31:142-154.

Neher, D.A., Easterling, K. N., Fiscus, D., and Campbell, C. L. 1998. Comparison of nematode communities in agricultural soils of North Carolina and NebraskaEcological Applications 8:213-223.

Neher, D.A., and Campbell, C. L. 1996. Sampling for regional monitoring of nematode communities in agricultural soils. Journal of Nematology 28:196-208.

Neher, D.A., Peck, S. L., Rawlings, J. O., and Campbell, C. L. 1995. Measures of nematode community structure and sources of variability among and within fields. Plant and Soil 170:167-181.

Neher, D.A., and Campbell, C. L. 1994. Nematode communities and microbial biomass in soils with annual and perennial crops. Applied Soil Ecology 1:17-28.  

INVITED BOOK CHAPTERS

Darby, B.J. and Neher, D.A. 2016. Microfauna within biological soil crusts. Pages 139-157 in: Weber, B., Büdel, B. and Belnap, J. (editors) Ecological Soil Crusts: An Organizing Principle in Drylands. Ecological Studies 226, Springer.

Neher, D.A. and Darby, B.J. 2009. General community indices that can be used for analysis of nematode assemblages in: Wilson, M., and Kakouli-Duarte, T. (editors) Nematodes as Environmental Bioindicators, pp. 107-123, CABI.

Neher, D.A. and Darby, B.J. 2006. Computation and application of nematode community indices: General guidelines. Pages 211-222 In: Abebe, E. (editor) Freshwater Nematodes: Ecology and Taxonomy, CABI, 752 pp.

Neher, D.A. and Powers, T.O. 2004. Nematodes. In: Hillel, D., Rosenzweig, C., Powlson, D., Scow, K., Singer, M. and Sparks, D. (editors) Encyclopedia of Soils in the Environment, Vol. 3, pp. 1-5, Academic Press, New York.

Neher, D.A. 2001. Nematode communities as ecological indicators of agroecosystem health. Pages 105-120 in: Gliessman, S.R. (editor). Agroecosystem Sustainability: Developing Practical Strategies. CRC Press, Boca Raton, Florida.

Neher, D.A., Noffsinger, M., and Campbell, C. L. 1998. Nematode communities of North Carolina and Nebraska (USA). Pages 321-334 in: DeGoede, R., and Bongers, T. (editors). Nematode Communities of Northern Temperate Grassland Ecosystems. Diversity Effects in Grassland Ecosystems of Europe, Wageningen, Netherlands.

Neher, D.A., and Barbercheck, M. E. 1998. Diversity and role of soil mesofauna. Pages 27-47 in: Collins, W. and Qualset, C. O. (editors). Biodiversity in Agroecosystems. Lewis Publishers, Chelsea, Michigan.  

Climate Change & Biological Soil Crust

Porter, D., Broxton, D., Bass, A., and Neher, D. A. 2016. The role of biofilms and lichens in the preservation of archaeological features in the Bandelier tuff, Bandelier National Monument. Annual Digital Journal on Research in Conservation and Cultural Heritage 5: 12-13.

Zhang, W., Hendrix, P. F., Dame, L. E., Burke, R. A., Wu, J., Neher, D. A., Li, J., Shao, Y., and Fu, S. 2013. Earthworms facilitate carbon sequestration through unequal amplification of carbon stabilization compared to mineralization. Nature Communications. DOI: 10.1038/ncomms3576.

Darby, B.J. and Neher, D.A. 2016. Microfauna within biological soil crusts. Pages 139-157 in: Weber, B., Büdel, B. and Belnap, J. (editors) Ecological Soil Crusts: An Organizing Principle in Drylands. Ecological Studies 226, Springer.

Wang, F., Li, J., Wang, X., Zhang, W., Zou, B., Neher, D.A., and Li, Z. 2014. Nitrogen and phosphorus addition impact soil N2O emission in a secondary tropical forest of South China. Scientific Reports DOI 10.1038/srep05615.

Neher, D. A., and Weicht, T. R. 2013. Nematode genera in forest soil respond deferentially to elevated CO2. Journal of Nematology 45: 214-222.

Wang, F., Zhu, W., Zou, B., Neher, D.A., Xia, H., Fu, S., Li, Z. 2013. Seedling growth and soil nutrient availability in exotic and native tree species: implications for afforestation in southern China. Plant and Soil  364: 207-218.

Wang, F., Liu, J., Zou, B., Neher, D.A., Zhu, W., and Li, Z. 2013. Species-dependent responses of soil microbial properties to fresh leaf inputs in a subtropical forest soil in South China. Journal of Plant Ecology 7: 86-96.

Zhang, W., Hendrix, P. F., Dame, L. E., Burke, R. A., Wu, J., Neher, D. A., Li, J., Shao, Y., and Fu, S. 2013. Earthworms facilitate carbon sequestration through unequal amplification of carbon stabilization compared to mineralization. Nature Communications. DOI: 10.1038/ncomms3576.

Zelikova, T.J., Housman, D.C., Grote, E.E., Neher, D.A., and Belnap, J. 2012. Warming and increased precipitation frequency on the Colorado Plateau: Implications for biological soil crusts and soil processes. Plant and Soil 355: 265-282.

Darby, B.J., and Neher, D.A. 2012. Stable isotope composition of microfauna supports the occurrence of biologically fixed nitrogen from cyanobacteria in desert soil food webs. Journal of Arid Environments 85: 76-78.

Wang, F., Zhu, W., Zou, B., Neher, D.A., Xia, H., Fu, S., Li, Z. 2012. Seedling growth and soil nutrient availability in exotic and native tree species: implications for afforestation in southern China. Plant and Soil  DOI 10.1007/s11104-012-1353-x.

Darby B.J., Housman, D.C., Neher, D.A., and Belnap, J. 2011. Few short-term effects of elevated soil temperature and increased frequency of summer precipitation on the abundance and taxonomic diversity of desert soil micro– and meso-fauna. Soil Biology and Biochemistry 43:1474-1481.

Darby, B.J., Neher, D.A., and Belnap, J. 2009. Impact of biological soil crusts and desert plants on soil microfaunal community composition. Plant and Soil 328:421-431.

Neher, D.A., Lewins, S.A., Weicht, T.R., and Darby, B.J. 2009. Microarthropod communities associated with biological soil crusts in the Colorado Plateau and Chihuahuan deserts. Journal of Arid Environments 73:672-677.

Housman, D.C., Yeager, C.M. Darby, B.J., Sanford, R.L., Jr., Kuske, C.R., Neher, D.A., and Belnap, J. 2007. Heterogeneity of soil nutrients and subsurface biota in a dryland ecosystem. Soil Biology and Biochemistry 39:2138-2149.

Li, Q., Liang, W., Jiang, Y., Shi, Y., Zhu, J., and Neher, D.A.  2007. Effect of elevated CO2 and N fertilisation on soil nematode abundance and diversity in a wheat field. Applied Soil Ecology 36: 63-69.

Darby, B.J., Neher, D.A., and Belnap, J. 2007. Soil nematode communities are ecologically more mature beneath late- than early-successional stage biological soil crusts. Applied Soil Ecology 35: 203-212

Darby, B.J., Housman, D.C., Zaki, A.M., Shamout, Y., Adl, S.M., Belnap, J., and Neher, D.A.  2006. Effects of altered temperature and precipitation on desert protozoa associated with biological soil crusts. Journal of Eukaryotic Microbiology 53: 507-514.

Veluci, R.M., Neher, D.A., and Weicht, T.R. 2006. Fixation and leaching of nitrogen by biological soil crust communities in mesic temperate soils. Microbial Ecology 51: 189–196

Choi, W.I., Moorhead, D.L., Neher, D.A., and Ryoo, M.I.  2006. A modeling study of soil temperature and moisture effects on population dynamics of Paronychiurus kimi (Collembola: Onychiuridae).  Biology & Fertility of Soils 43: 69-75.

Neher, D.A., Weicht, T.R., Moorhead, D.L., and Sinsabaugh, R.L. 2004. Elevated CO2 alters functional attributes of nematode communities in forest soils. Functional Ecology 18: 584-591.

Neher, D.A., Walters, T., Tramer, E., Weicht, T.R., Veluci, R.M., Saiya-Cork, K., Will-Wolf, S., Toppin, J., Traub, J., and Johansen, J.R. 2003. Biological soil crust and vascular plant communities in a sand savanna of northwestern Ohio. Journal of the Torrey Botanical Society 130:244-252.

Sinsabaugh, R.L., Saiya-Cork, K., Long, T., Osgood, M.P., Neher, D.A., Zak, D.R and Norby, R.J. 2003. Soil microbial activity in a Liquidambar plantation unresponsive to CO2-driven increases in primary production. Applied Soil Ecology 24: 263-271.

Ecotoxicology and Biotechnology Risk Assessment

Neher, D.A., Muthumbi, A.W.N., and Dively, G.P. 2014. Impact of coleopteran-active Bt corn on non-target nematode communities in soil and decomposing corn roots. Soil Biology and Biochemistry 76: 127-135.

Neher, D.A., Asmussen, D., and Lovell,  S.T. 2013. Roads in northern hardwood forests affect adjacent plant communities and soil chemistry in proportion to maintained roadside area. Science of the Total Environment. 449: 320-327.

Shao, Y., Zhang, W., Liu, Z., Sun, Y., Chen, D., Wu, J., Zhau, L., Xia, H., Neher, D.A., and Fu, S. 2012. Responses of soil microbial and nematode communities to aluminum toxicity in vegetated soil-shale-waste lands. Ecotoxicology 21: 2132-2142.

Lawhorn, C.N., Neher, D.A., and Dively, G.P. 2009. Impact of Coleopteran targeting toxin (Cry3Bb1) of Bt corn on microbially mediated decomposition. Applied Soil Ecology 41: 364-368.

Spongberg, A.L., Hartley, L., Neher, D.A., and Witter, J. 2008. Fate of heavy metal contaminants in a former sewage treatment lagoon, Hancock County, Ohio. Soil and Sediment Contamination 17:619-629.

Choi, W.I., Neher, D.A., and Ryoo, M.I. 2008. Life history trade-offs of Paronychiurus kimi (Lee) (Collembola: Onychiuridae) populations exposed to paraquat. Ecotoxicology and Environmental Safety 69:227-232.

Neher, D.A., and Stürzenbaum, S.R. 2006. Extra-long PCR, an identifier of DNA adducts in single nematodes (Caenorhabditis elegans). Comparative Biochemistry and Physiology, Part C 144:279-285.

Choi, W.I., Moorhead, D.L., Neher, D.A., and Ryoo, M.I.  2006. A modeling study of soil temperature and moisture effects on population dynamics of Paronychiurus kimi (Collembola: Onychiuridae)Biology & Fertility of Soils 43: 69-75.

Li, F., Neher, D.A., Darby, B.J., and Weicht, T.R. 2005. Observed differences in life history characteristics of nematodes Aphelenchus and Acrobeloides  upon exposure to copper and benzo(a)pyrene. Ecotoxicology 14: 419-429.

Blakely, J.K., Neher, D.A., and Spongberg, A. L. 2002. Microinvertebrate and microbial communities, and decomposition as indicators of polycyclic aromatic hydrocarbon contamination. Applied Soil Ecology 21: 71-88.

Fiscus, D.A. and Neher, D.A. 2002. Distinguishing nematode genera based on relative sensitivity to physical and chemical disturbances. Ecological Applications 12:565-575.

Plant Pathology & Sustainable Agriculture

Readyhough, T., Neher, D.A., and Andrews, T. 2021. Organic amendments alter soil hydrology and belowground microbiome of tomato (Solanum lycopersicum). Microorganisms 9: 1561; https://doi.org/10.3390/microorganisms9081561

Unc, A., Altdorff, D., Abakumov, E., Adl, S., Baldursson, S., Bechtold, M., Cattani, D., Firbank, L., Grand, S., Guðjónsdóttir, S., Kallenbach, C., Kedir, A., Li, P., McKenzie, D., Misra, D., Nagano, H., Neher, D.A., Niemi, J., Oelbermann, M., Overgård Lehmann, J., Parsons, D., Quideau, S., Sharkhuu, A., Smreczak, B., Sorvali, J., Vallotton, J., Whalen, J., Young, E.H., Zhang, M., and Borchart, N. (alphabetical order). 2021. Expansion of agriculture in northern cold-climate regions: A cross-sectoral perspective on opportunities and challenges. Frontiers in Sustainable Food Systems 5:663448. https://doi.org/10.3389/fsufs.2021.663448

Andrews, T., Jeffrey, C., Gilker, R., Neher, D.A., and Barlow, J.W. 2021. Survey design and implementation quantifying winter housing and bedding types used on Vermont organic dairy farms. Journal of Dairy Science 104: 8326-8337. doi.org/10.3168/jds.2020-19832

Neher, D.A., Limoges, M.A., Weicht, T.R., Sharma, M., Miller, P.D. and Donnelly, C. 2020. Bacterial community dynamics distinguish poultry compost from dairy compost and unamended soils planted with spinach. Microorganisms 8(10):1601. doi:10.3390/microorganisms8101601

Porterfield, K.K., Joblin, R., Neher, D.A., Curtis, M., Dvorak, S., Rizzo, D.M., Faulkner, J.W. and Roy, E.D. 2020. Upcycling phosphorus recovered from anaerobically digested dairy manure to support production for vegetables and flowers. Sustainability 12:1139. doi: 10.3390/su12031139 

Neher, D.A., Cutler, A.J., Weicht, T.R., Sharma, M., and Millner, P.D. 2019. Composts of poultry litter or dairy manure differentially affect survival of enteric bacteria in fields with spinach. Journal of Applied Microbiology 126:1910-1922. DOI 10.1111/jam.14268

Neher, D.A. 2019. Compost and plant disease suppression. BioCycle 60(8): 22-25.

O’Brien, B.J., Neher, D.A., and Roy, E.D. 2019. Nutrient and pathogen suppression properties of anaerobic digestates from dairy manure and food waste feedstocks. Waste and Biomass Valorization DOI 10.1007/s12649-019-00906-4

Andrews, T., Neher, D.A., Weicht, T.R., and Barlow, J.W. 2019. Mammary microbiome of lactating organic dairy cows varies by time, tissue site, and infection status. PloS ONE 14(11): e0225001. DOI 10.1371/journal.pone.0225001

Neher, D.A., Nishanthan, T., Grabau, Z.J., and Chen, S.Y. 2019. Crop rotation and tillage affect nematode communities more than biocides in monoculture soybean. Applied Soil Ecology 140: 89-97. DOI 10.1016/j.apsoil.2019.03.016

Hu, W., Kidane, E., Neher, D.A., and Chen, S. 2019. Field and greenhouse evaluations of soil suppressiveness to Heterodera glycines in the Midwest corn-soybean production systems. Journal of Nematology 51:e2019-32. DOI 10.21307/jofnem-2019-032

Conrad, Z.,  Niles, M., Neher, D. A., Roy, E. D., Tichenor, N. E., and Jahns, L. 2018. Relationship between diet quality, food waste, and environmental sustainability. PloS ONE 13(4): e0195405. DOI 10.1371/journal.pone.0195405.

Shah, M.K., Bradshaw, R., Nyarko, E., Millner, P.D., Neher, D.A., Weicht, T.R., Bergholz, T.M., and Sharma, M. 2019. Survival and growth of wild-type and rpoS-deficient Salmonella Newport strains in soil extracts amended with heat-treated poultry pellets. Journal of Food Protection 82(3):501-506.

Neher, D.A., Weicht, T.R. 2018. A plate competition assay as a quick preliminary assessment of disease suppression. Journal of Visualized Experiments e58767, http://www.jove.com/video/58767, doi:10.3791/58767.

Neher, D. A., Fang, L., and Weicht, T. R. 2017. Ecoenzymes as indicators of compost to suppress Rhizoctonia solani. Compost Science and Utilization 25(4): 251-261. DOI 10.1080/1065657X.2017.1300548.

Bakelaar, J.E., Neher, D.A., and Gilker, R. 2016. Minimal soil impact by cold season pasture management in Vermont. Canadian Journal of Soil Science  DOI 10.1139/CJSS-2014-0005.

Neher, D.A., Weicht, T.R., and Dunseith, P. 2015. Compost for management of weed seeds, pathogen, and early blight on brassicas in organic farmer fields. Agroecology and Sustainable Food Systems 39: 3-18.

Neher, D. A., Weicht, T. R., Bates, S. T., Leff, J. W., and Fierer, N. 2013. Changes in bacterial and fungal communities across compost recipes, preparation methods, and composting times. PLoS ONE 10.1371/journal.pone.0079512.

Gilker, R.E., Bakelaar, J.E., Canella, M.P., and Neher, D.A. 2012. Bedded Pack in Vermont: Five stories. University of Vermont Extension Bulletin.

Bao, Y., and Neher, D.A. 2011. Survey of lesion and northern root-knot nematodes associated with vegetables in Vermont. Nematropica 41:98-106.

Bao, Y., Neher, D.A., and Chen, S. 2010. Effect of soil disturbance and biocides on nematode communities and extracellular enzyme activity in soybean cyst nematode suppressive soil. Nematology 13:387-699.

Neher, D.A. 2010. Ecology of plant and free-living nematodes in natural and agricultural soil. Annual Review of  Phytopathology 48:371-394.

Lawhorn, C.N., Neher, D.A., and Dively, G.P. 2009. Impact of Coleopteran targeting toxin (Cry3Bb1) of Bt corn on microbially mediated decomposition. Applied Soil Ecology 41: 364-368.

Leisner, S.M. and Neher, D.A. 2002. Third position codon composition suggests two classes of genes within the Cauliflower Mosaic Virus genome. Journal of Theoretical Biology 217:195-201.

Neher, D.A., McKeen, C.D., and Duniway, J.M. 1993. Relationships among Phytophthora root rot development, P. parasitica populations in soil, and yield of tomatoes under commercial field conditions. Plant Disease 77:1106-1111.

Neher, D.A., and Campbell, C.L. 1992. Underestimation of disease progress rates with logistic, monomolecular, and Gompertz models when maximum disease intensity is less than 100 percent. Phytopathology 82:811-814.

Neher, D. 1992. Ecological sustainability in agricultural systems: Definition and measurement. Journal of Sustainable Agriculture 2:51-61.

Neher, D.A., Wilkinson, H.T., and Augspurger, C.K. 1992. Epidemic progress of damping-off epidemics in Glycine populations of even-age and mixed –age structures. Canadian Journal of Botany 70:1032-1038.

Neher, D., and Duniway, J.M. 1992. Dispersal of Phytophthora parasitica in tomato fields by furrow irrigation. Plant Disease 76: 582-586.

Neher, D., and Duniway, J.M. 1991. Relationship between amount of Phytophthora parasitica added to field soil and the development of root rot in processing tomatoes. Phytopathology 81:1124-1129.

Van Bruggen, A.H.C., Neher, D.A., and Weicht, T.R. 1991. Teaching computer-based diagnosis of plant diseases. Plant Disease 75:320-322.

Goodwin, P.H., English J.T., Neher, D.A., Duniway, J.M., and Kirkpatrick, B.C. 1990. Detection of Phytophthora parasitica from host tissue with a species-specific DNA probe. Phytopathology 80:277-281.

Neher, D.A., Augspurger, C.K., and Wilkinson, H.T. 1987. Influence of age structure of plant populations on damping-off epidemics. Oecologia 74:419-424.

INVITED BOOK CHAPTERS

1. Landis, D.A. and Neher, D.A. 2002. Ecological Role of Pests . Pages 218-220 in: Pimentel, D. (editor) Encyclopedia of Pest Management, Marcel Dekker, New York.

2. Campbell, C.L., and Neher, D.A. 1996. Challenges, opportunities, and obligations in root disease epidemiology and management. Pages 20-49 in: Hall, R. (editor). Principles and Practice of Managing Soilborne Plant Pathogens. American Phytopathological Society Press, St. Paul, Minnesota.

3. Campbell, C.L., and Neher, D.A. 1994. Estimating severity and incidence of root diseases. Pages 117-147 in: Campbell, C.L. and Benson, D.M. (editors). Epidemiology and Management of Root Diseases. Springer-Verlag, New York.

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