Research Publications

2020

Consequences of Discount Rate Selection for Financial and Ecological Expectation and Risk in Forest Management 2020. Buongiomo, J., and Zhou, M. Journal of Forest Economics 35(1):1-17.
Estimating Dynamics of Central Hardwood Forests Using Random Forests 2020. Ma, W., Lin, G., and Liang, J. Ecological Modeling 419:108947.
A Machine Learning-Based Classification System for Urban Built-Up Areas Using Multiple Classifiers and Data Sources 2020. Sun,L., Tang, L, Shao, G., and Qiu, Q. Remote Sensing 12(1): DOI:10.3390/rs12010091.
Forest Genomics and Biotechnology 2020. Eds. Meilan, R., Kirst, M published CABI, Boston, MA
Hardwood Species Show Wide Variability in Response to Silviculture during Reclamation of Coal Mine Sites 2020. Schempf, W.M. and Jacobs, D.F. Forest 11(1) DOI:10.3390/f11010072.
The complete chloroplast genome sequence of American elm (Ulmus americana) and comparative genomics of related species 2020. Ebrahimi, A., Antonides, J.D., Pinchot, C.C., Slavicek, J.M., Flower, C.E., and Woeste, K.E. bioRxiv The preprint server for Biology.
Remotely Sensed Mid-Channel Bar Dynamics in Downstream of the Three Gorges Dam, China 2020. Wen, Z., Yang, W., Zhang, C., Shao, G., and Wu, S. Remote Sensing 12(3):409.

2019

Detection of Geosmitia morbida on Numerous Insect Species in Four Eastern States (PDF 939 KB) 2019. Moore, M., Juzwik, J., Miller, F., Roberts, L., and Ginzel, M.D. Plant Health Progress 20(3):133-139.
Predicting invasiveness of exotic woody species using a traits-based framework (PDF 482 KB) 2019. Nunez-Mir, G.C., Guo, Q., and Fei, S. Ecology Ecological Society of America DOI:https://doi.org/10.1002/ecy.2797.
Effect of Prescribed Fire on Timber Volume and Grade in the Hoosier National Forest (PDF 436 KB) 2019. Stanis, S., Wiedenback, J., and Saunders, M.R. Forest Science fxz039, https://doi.org/10.1093/forsci/fxz039.
Microsatellite Borders and Micro-sequence Conservation in Juglans (PDF 896 KB) 2019. Ebrahimi, A., Mathur, S., Lawson, S.S., LaBonte, N.R., Lorch, A., Coggeshall,M.V., and Woeste, K.E. Scientific Reports DOI: https://doi.org/10.1038/s41598-019-39793-z
Optimal forest management under financial risk aversion with discounted Markov decision process models 2019. Zhou, M. and Buongiomo, J. Canadian Journal of Forest Research 49(7):802-809.
Accelerating upward treeline shift in the Altai Mountains under last-century climate change 2019. Cazzolla Gatti, R., Callaghan, T., Velichevskaya, A., Dudko, A.. Fabbio, L., Battipaglia, G., and Liang, J. Scientific Reports 9:7678.
Parameterization of biodiversity-productivity relationship and its scale dependency using georeferenced tree-level data 2019. Luo, W., Liang, J., Cazzolla Gatti, R., Zhao, X., and Zhang, C. Journal of Ecology 107(3):1106-1119.
Climatic controls of decomposition drive the global biogeography of forest-tree symbioses 2019. Steidinger, B.S., Crowther, T.W., Liang, J., Van Nuland, M.E., Werner, G.D.A., Reich, P.B., Nabuurs, G.J., de-Miguel, S., Zhou, M., Picard, N., Herault, B., Zhao, X., Zhang, C., Routh, D., Peay, K.G., and GFBI consortium Nature 569:404-408.
Coastal Alaska forests under climate change: What to expect? 2019. Ma, W., Zhou, X., Liang, J. and Zhou, M. Forest Ecology and Management 448:432-444.
Predicting invasiveness of exotic woody species using a traits-based framework 2019. Nunez-Mir, G.C., Guo, Q., and Fei, S. Ecology Ecological Society of America 100(10):e02797 DOI:https://doi.org/10.1002/ecy.2797.
Using a tree seedling mortality budget as an indicator of landscape-scale forest regeneration security 2019. Vickers, L,A., McWilliams, W.H. ,Knapp, B.O., D'Amato, A.W., Saunders, M.R., Shifley, S.R., Kabrick, J.M., Dey, D.C., Larsen, D.R., and Westfall, J.A. Ecological Indicators 96(1):718-727.
Short-term, spatial regeneration patterns following expanding group shelterwood harvests and prescribed fire in the Central Hardwood Region 2019. Greenler, S.M. and Saunders, M.R. Forest Ecology and Management 432:1053-1063.
Shifts in forest composition in the eastern United States 2019. Knott, J.A., Desprez, J.M., Oswalt, C.M., and Fei, S. Forest Ecology and Management 433:176-183.
Microbial mechanisms and ecosystem flux estimation for aerobic NOy emissions from deciduous forest soils 2019. Mushinski, R.M., Phillips, R.P., Payne, Z.C., Abney, R.B., Jo, I., Fei, S., Pusede,S.E., White, J.R.. Rusch, D.B. and Raff, J.D. PNAS 116(6):2138-2145.
Influence of mulching and tree shelters on 4-year survival and growth of zeen oak (Quercus canariensis) seedlings 2019. Mechergui.T, Pardos, M., and Jacobs, D.F. Journal of Forestry Research 30:129-141.
Natural regeneration of Pinus pinaster facilitates Quercus ilex survival and growth under severe deer browsing pressure 2019. Maltoni, Al., Mariotti, B. Tani, A., Martini, S., Jacobs, D.F., and Tognetti, R. Forest Ecology and Management 432:356-364.
Microsatellite Borders and Micro-sequence Conservation in Juglans 2019. Ebrahimi, A., Mathur, S., Lawson, S.S., LaBonte, N.R., Lorch, A., Coggeshall,M.V., and Woeste, K.E. Scientific Reports 9:2748 DOI: https://doi.org/10.1038/s41598-019-39793-z.
Delineation of individual deciduous trees in plantations with low-density LiDAR data 2019. Shao, G., Shao, G., and Fei, S. International Journal of Remote Sensing 40(1):346-363.
Trends in ecology: shifts in ecological research themes over the past four decades 2019. McCallen, E., Knott, J., Nunez-Mir, G., Taylor, B., Insu, J., Fei, S. Frontiers in Ecology and the Environment 17(2):109-116.
An integrated assessment of the potential impacts of climate change on Indiana forests 2019. Phillips, R.P., Brandt, L., Polly, P.D., Zollner, P., Saunders, M.R., Clay, K, Iverson, L., and Fei, S. Climatic Change DOI: https://doi.org/10.1007/s10584-018-2326-8.
Shifts in dominant tree mycorrhizal associations in response to anthropogenic impacts 2019. Jo, I., Fei, S., Oswalt, C.M., Domke, G.M., and Phillips, R.P. Science Advances 5(4):eaav6358.
Tree diversity regulates forest pest invasion 2019. Guo, Q., Fei, S., Potter, K.M., Liebhold, A.M., and Wen, J. PNAS 116(15):7382-7386.
Mapping global forest biomass and its changes over the first decade of the 21st century 2019. Chen, A., Peng, S., and Fei, S. Science China Earth Sciences 62:585-594.
Using a tree seedling mortality budget as an indicator of landscape-scale forest regeneration security 2019. Vickers, L.A., McWilliams, W.H., Knapp, B.O., D’Amato, A.W., Saunders, M.R., Shifley, S.R., Kabrick, J.M., Dey, D.D., Larsen, D.R., and Westfall, J.A. Ecological Indicators 96(1):718-727.
Restoring forests: regeneration and ecosystem function for the future 2019. Lof, M., Madsen, P., Metslaid, M., Witzell, J., and Jacobs, D.F. New Forests 50:139-151.
Regeneration niches in Nothofagus-dominated old-growth forest after partial disturbance: Insights to overcome arrested succession 2019. Soto, D.P, Puettmann, K.J., Fuentes, C., and Jacobs, D.F. Forest Ecology and Management 445:26-36.
Photosynthetic parameters of Juglans nigra trees are linked to cumulative water stress 2019. Gauthier, M.M. and Jacobs, D.F. Canadian Journal of Forest Research 49:752-758.
Effect of Prescribed Fire on Timber Volume and Grade in the Hoosier National Forest 2019. Stanis, S., Wiedenback, J., and Saunders, M.R. Forest Science 65(6):714-724 https://doi.org/10.1093/forsci/fxz039.
Phylogenomics Reveals an Ancient Hybrid Origin of the Persian Walnut 2019. Zhang, B.W., Xu, L.L., Li, N., Yan, P.C., Jiang, X.H., Woeste, K.E., Lin, K., Renner, S.S., Zhang, D.Y. and Bai, W.N. Molecular Biology and Evolution 36(11):2451-2461 DOI:10.1093/molbev/msz112.
Detection of Geosmithia morbida on Numerous Insect Species in Four Eastern States 2019. Moore, M., Juzwik, J., Miller, F., Roberts, L., and Ginzel, M.D. Plant Health Progress 20(3):133-139.
Overcoming cellulose recalcitrance in woody biomass for the lignin-first biorefinery 2019. Yang, H., Zhang, X., Luo, H., Liu, B., Shiga,T.M., Li, X., Kim, J.I., Rubinelli, P., Overton, J.C., Subramanyam, V., Cooper, B.R., Mo, H., Abu-Omar, M.M., Chapple, C., Donohoe, B.S., Makowski, L., Mosier, N.S., McCann, M.C., Carpita, N.C., and Meilan, R. Biotechnology for Biofuels 12:171-188.
High rates of primary production production in structurally complex forests 2019. Gough, C.M., Atkins, J.W., Fahey, R.T., and Hardiman, B.S. Ecology:100(10):e2864 https://doi.org/10.1002/ecy.2864.
An enhanced strategy for molecular detection of thousand cankers disease 2019. Stackhouse, T., Oren, E., Boggess, S., Ginzel, M., Hadziabdic, D., Trigiano R., and Klingeman, W. Mid-Atlantic States Mycological Conference (MASMC) University of Tennessee-Knoxville April 12-14, 2019.
Urban sprawl scenario simulations based on cellular automata and ordered weighted averaging ecological constraints 2019. Liao, J., Shao, G., Wang, C., Tang, L., Huang, Q., and Qiu, Q. Ecological Indicators Volume 107:105572.
Ecologically distinct pine species show differential root development after outplanting in response to nursery nutrient cultivation 2019. Toca, A., Oliet, J.A., Villar-Salvador, P., Catalan, R.A.M., and Jacobs, D.F. Forest Ecology and Management Vol: 451:117562.
Defining a spectrum of integrative trait-based vegetation canopy structural types 2019. Fahey, R.T., Atkins, J.W., Gough, C.M., Hardiman, B.S., Nave, L.E., Tallant, J.M., Nadehoffer, K.J., Vogel, C., Scheuermann, C.M., Stuart-Haentjens, E., Haber, L.T., Fotis, A.T., Ricart, R., and Curtis, P.S. Ecology Letters 22(12):2049-2059 DOI: 10.1111/ele.13388.
Structural diversity as a predictor of ecosystem function 2019. LaRue, E.A., Hardiman, B.S., Elliott, J.M., and Fei, S. Environmental Research Letters 14(11)114011.
Overselling overall map accuracy misinforms about research reliability 2019. Shao, G., Tang, L. and Liao, J. Landscape Ecology 34:2487-2492.
Rhamnogalacturonan-I is a determinant of cell-cell adhesion in poplar wood 2019. Yang, H., Benatti, M.R., Karve, R.A., Fox, A., Meilan, R., Carpita, N.C., and McCann, M.C. Plant Biotechnology Journal (https://doi.org/10.1111/pbi.13271)
Age structure and recruitment of Trillium luteum (Trilliaceae) populations in secondary forests of the southern Appalachian Mountains 2019. Jenkins, M.A. and Webster, C.R. The Journal of the Torrey Botanical Society 146(4): 239-251.
Herbivory and Competing Vegetation Interact as Site Limiting Factors in Maritime Forest Restoration 2019. Thyroff, E.C., Burney, O.T., and Jacobs, D.F. Forest 10, 950; doi:10.3390/f10110950.
Unraveling Shade Tolerance and Plasticity of Semi-Evergreen Oaks: Insights From Maritime Forest Live Oak Restoration 2019. Thyroff, E.C., Burney, O.T., Mickelbart, M.V. and Jacobs, D.F. Frontiers in Plant Science DOI: 10.3389/fpls.2019.01526.
Spatial and Climatic Factors Influence Ambrosia Beetle (Coleoptera: Curculionidae) Abundance in Intensively Managed Plantations of Eastern Black Walnut 2019. Williams, G.M. and Ginzel, M.D. Environmental Entomology DOI: 10.1093/ee/nvz125.
Population genetic structure and adaptive differentiation of iron walnut Juglans regia subsp. sigillata in southwestern China 2019. Sun, Y.W., Hou, N., Woeste, K., Zhang, C., Yue, M., Yuan, X.Y., and Zhao, P. Ecology and Evolution DOI: 10.1002/ece3.5850.
Water stress rather than N addition mitigates impacts of elevated O3 on foliar chemical profiles in popular saplings 2019. Li, Z., Yang, J., Shang, B., Xu, Y., Couture, J.J., Yuan, X., Kobayashi, K., and Feng, Z. Science of The Total Environment.
Implications of climate change for managing urban green infrastructure: an Indiana, US case study 2019. Reynolds, H.L., Brandt, L., Fischer, B.C., Hardiman, B.S., Moxley, D.J., Sandweiss, E., Speer, J.H., and Fei, S. Climate Change DOI: https://doi.org/10.1007/s10584-019-02617-0.
Surface and subsurface material selections influence the early outcomes of boreal upland forest restoration 2020. Stack, S., Jones, C., Bockstette, J., and Jacobs, D.F. Ecological Engineering 144:1057052.
Implications of climate change for managing urban green infrastructure: an Indiana, US case study 2019. Reynolds, H.L., Brandt, L., Fischer, B.C., Hardiman, B.S., Moxley, D.J., Sandweiss, E., Speer, J.H., and Fei, S. Climate Change DOI: https://doi.org/10.1007/s10584-019-02617-0.

2018

Pollen flow and paternity in an isolated and non-isolated black walnut (Juglans nigra L.) timber seed orchard (PDF 2 MB) 2018. Ebrahimi, A., Lawson, S.S., Frank, G.S., Coggeshall, M.V., Woeste, K.E., McKenna, J.R. PLoS ONE 13(12):e0207861.
Genomic Variation Among and Within Six Juglans Species (PDF 2 MB) 2018. Stevens, K.A., Woeste, K., Chakraborty, S., Crepeau, M.W., Leslie, C.A., Martinez-Garcia, P.J., Puiu, D., Romero-Sevenson, J., Coggeshall, M., Dandekar, A.M., Kluepfel, D., Neale, D.B., Salzberg, S.L., and Langley, C.H. Genes Genomes Genetics 8(7):2153-2165.
Identification and Characterization of Phenolic Compounds in Black Walnut Kernels (PDF 642 KB) 2018. Vu, D.C., Vo, P.H., Coggeshall, M.V., and Lin, C.H. Journal of Agriculture and Food Chemistry 66(17):4503-4511.
Discrimination and assessment of black walnut (Juglans nigra L.) cultivars using phenology and microsatellite markers (SSRs) (PDF 840 KB) 2018. Zhao, P., Zhou, H., Coggeshall, M.V., and Chung-Ho, L. Canadian Journal of Plant Science 98(3):616-627.
A novel molecular toolkit for rapid detection of the pathogen and primary vector of thousand cankers disease (PDF 1 MB) 2018. Oren, E., Klingeman, W., Gazis, R., Moulton, J., Lambdin, P., Coggeshall, M., Hulcr, J., Seybold, S.J., and Hadziabdic, D. PLoS ONE 13(1):e018587,
Reproduction and potential range expansion of walnut twig beetle across the Juglandaceae (PDF 1 MB) 2018. Hefty, A.R., Aukema, B.H., Venette, R.C., Coggeshall, M.V., McKenna, J.R., and Seybold, S.J. Biological Invasions 20:2141.
Trends in Production of Hardwood Tree Seedlings Across the Northeast United States From 2008 to 2016 (PDF 1022 KB) 2018. Pike, C., Warren, J., and Coggeshall, M. Tree Planter's Notes 61(1):18-25.
Pooled whole-genome sequencing of interspecific chestnut (Castanea) hybrids reveals loci associated with differences in caching behavior of fox squirrels (Sciurus niger L.) (PDF 648 KB) 2018. LaBonte, N.R. and Woeste, K.E. Ecology and Evolution DOI: 10.1002/ecew.4336.
Resources for studies of iron walnut (Juglans sigillata) gene expression, genetic diversity, and evolution (PDF 1 MB) 2018. Feng, X., Yuan, X., Sun, Y., Hu, Y., Zulgigar, S., Quyang, X., Dang, M., Zhou, H., Woeste, K,, Zhoa, P. Tree Genetics & Genomes 14:51 DOI: 10.1007/s11295-018-1263-z
Genetic diversity of superior Persian walnut genotypes in Azadshahr, Iran (PDF 532 KB) 2018. Shamlu, F., Rezaei, M., Lawson, S., Ebrahimi, A., Biabani, A., and Khan-Ahmadi, A. Physiology and Molecular Biology of Plants DOI https://doi.org/10.1007/s12298-018-0573-9.
Using a tree seedling mortality budget as an indicator of landscape-scale forest regeneration security (PDF 193 KB) 2018. Vickers, L,A., McWilliams, W.H. ,Knapp, B.O., D'Amato, A.W., Saunders, M.R., Shifley, S.R., Kabrick, J.M., Dey, D.C., Larsen, D.R., and Westfall, J.A. Ecological Indicators DOI https://doi.org/10.1016/j.ecolind.2018.06.028.
Overstory species response to clearcut harvest across environmental gradients in hardwood forests (PDF 233 KB) 2018. Swaim, J.T., Dey, D.C., Saunders, M.R., Weigel, D.R., Thornton, C.D., Kabrick, J.M., and Jenkins, M.A. Forest Ecology and Management 428:66-80.
Genetic engineering of trees: progress and new horizons (PDF 1 MB) 2018. Chang, S., Mahon, E.L., MacKay, H.A., Rottmann, W.H., Strauss, S.H., Pijut, P.M., Powell, W.A., Coffey, V., Lu, H., Mansfield, S.D., and Jones, T.J. In Vitro Cellular and Developmental Biology-Plant DOI: 10.1007/s11627-018-9914-1.
Optimization of Agrobacterium-mediated genetic transformation of Fraxinus nigra and development of black ash for possible emerald ash borer resistance (PDF 1,019 KB) 2018. Lee, J.H. and Pijut, P.M. Plant Cell, Tissue and Organ Culture 134(2):217-229.
Promoting and maintaining diversity in contemporary hardwood forests: Confronting contemporary drivers of change and the loss of ecological memory (PDF 227 KB) 2018. Webster, C.R., Dickinson, Y.L., Burton, J.I., Frelich, L.E., Jenkins, M.A., Kern, C.C., Raymond, P, Saunders, M.R., Walters, M.B., and Willis, J.L. Forest Ecology and Management 421:98-108.
Signatures of Selection in the Genomes of Chinese Chestnut (Castanea mollissima Blume): The Roots of Nut Tree Domestication (PDF 257 KB) 2018. LaBonte, N.R., Zhao, P., and Woeste, K. Frontiers in Plant Science 9:1-13.
Data mining for discovery of endophytic and epiphytic fungal diversity in short-read genomic data from deciduous trees (PDF 257 KB) 2018. LaBonte, N.R., Jacobs, J., Ebrahimi, A., Lawson, S., and Woeste, K. Fungal Ecology 35:1-9.
Localized gene expression changes during adventitious root formation in black walnut (Juglans nigra L.) (PDF 1 MB) 2018. Stevens, M.E., Woeste, K.E. and Pijut, P.M. Tree Physiology 38:877-894.
Rapid in vitro Shoot Multiplication of the Recalcitrant Species Juglans nigra L. (PDF 503 KB) 2018. Stevens, M.E. and Pijut, P.M. In Vitro Cellular & Developmental Biology-Plant 54:309-317.
Population genetics, phylogenomics and hybrid speciation of Juglans in China determined from whole chloroplast genomes, transcriptomes, and genotyping-by-sequencing (GBS) (PDF 1MB) 2018. Zhao, P., Zhou, H.J., Potter, D., Hu, Y.H., Feng, X.J., Dang, M., Feng, L., Zulfiqar, S., Liu, W.Z., Zhao, G.F., and Woeste, K. Molecular Phylogenetics and Evolution 126:250-265.
Pooled whole-genome sequencing of interspecific chestnut (Castanea) hybrids reveals loci associated with differences in caching behavior of fox squirrels (Sciurus niger L.) 2018. LaBonte, N.R. and Woeste, K.E. Ecology and Evolution 8(22):10638-10654.
Simulated predation of of Quercus variabills acorns impairs nutrient remobilzation and seedlings performance irrespective of soil fertility 2018. Shi, W., Villar-Salvador, P., Jacobs, D.F., Li, G., and Jiang, X. Plant and Soil 423:295-306.
Alleviation of heavy metal phytotoxicity in sewage sludge by vermlcoposting with additive urban plant litter 2018. Wu, D., Yu, X., Chu,S, Jacobs, D.F., Wei, X., Wang, C., Long, F., Chen, X., and Zeng, S. Science of the Total Environment 633:71-80.
Trends in Production of Hardwood Tree Seedlings Across the Northeast United States From 2008 to 2016 2018. Pike, C., Warren, J., and Coggeshall, M. Tree Planter's Notes 61(1):18-25.
Reproduction and potential range expansion of walnut twig beetle across the Juglandaceae 2018. Hefty, A.R., Aukema, B.H., Venette, R.C., Coggeshall, M.V., McKenna, J.R., and Seybold, S.J. Biological Invasions 20(8):2141-2155.
A novel molecular toolkit for rapid detection of the pathogen and primary vector of thousand cankers disease 2018. Oren, E., Klingeman, W., Gazis, R., Moulton, J., Lambdin, P., Coggeshall, M., Hulcr, J., Seybold, S.J., and Hadziabdic, D. PLoS ONE 13(1):e018587,
Discrimination and assessment of black walnut (Juglans nigra L.) cultivars using phenology and microsatellite markers (SSRs) 2018. Zhao, P., Zhou, H., Coggeshall, M.V., and Chung-Ho, L. Canadian Journal of Plant Science 98(3):616-627.
Identification and Characterization of Phenolic Compounds in Black Walnut Kernels 2018. Vu, D.C., Vo, P.H., Coggeshall, M.V., and Lin, C.H. Journal of Agriculture and Food Chemistry 66(17):4503-4511.
Genomic Variation Among and Within Six Juglans Species 2018. Stevens, K.A., Woeste, K., Chakraborty, S., Crepeau, M.W., Leslie, C.A., Martinez-Garcia, P.J., Puiu, D., Romero-Sevenson, J., Coggeshall, M., Dandekar, A.M., Kluepfel, D., Neale, D.B., Salzberg, S.L., and Langley, C.H. Genes Genomes Genetics 8(7):2153-2165.
Pollen flow and paternity in an isolated and non-isolated black walnut (Juglans nigra L.) timber seed orchard 2018. Ebrahimi, A., Lawson, S.S., Frank, G.S., Coggeshall, M.V., Woeste, K.E., McKenna, J.R. PLoS ONE 13(12):e0207861.
Growth traits of juvenile American chestnut and red oak as adaptations to disturbance 2018. Belair, E.P., Saunders, M.R., and Landhausser, S.M. Restoration Ecology 26(4):712-719.
Ten-Year Responses of Underplanted Northern Red Oak to Silvicultural Treatments, Herbivore Exclusion, and Fertilization 2018. Frank, G.S., Rathfon, R.A., and Saunders, M.R. Forests 9(9):571.

2017

Evaluation of genetic variability among “Early Mature” Juglans regia using microsatellite markers and morphological traits (PDF 470 KB) 2017. Ebrahimi, A., Zarei, A., Zamani Fardadonbeh, M., and Lawson, S. PeerJ: DOI 10.7717/peerj.3834.
Completion of the Chloroplast Genomes of Five Chinese Juglans and Their Contribution to Chloroplast Phylogeny (PDF 535 KB) 2017. Hu, Y., Woeste, K.E., and Zhao, P. Frontiers in Plant Science 2017 7:1-6 DOI: 10.3389/pls.2016.01955.
Demographically Idiosyncratic Responses to Climate Change and Rapid Pleistocene Diversification of the Walnut Genus Juglans (Juglandaceae) Reveals by Whole-genome Sequences (PDF 959 KB) 2017. Bai, W.N., Yan, P.C., Zhang, B.W., Woeste, K.E., Lin, K., and Zhang, D.Y. new Phytologist DOI: 10.1111/nph.14917.
Costs and Returns of Producing Hops in Established Tree Plantations (PDF 620 KB) 2017. Ha. K., Atallah, S., Benjamin, T., Hoagland, L., Farlee, L., and Woeste, K. Purdue Extension FNR-546W.
Practical Strategies of Black Walnut Genetic Improvement – An Update (PDF 592 KB) 2017. Rink, G, Van Sambeek, J.W., O'Connor, P., and Coggeshall, M.V. Walnut Council Bulletin 44(2): 1-3, 10-11.
High-quality genetic mapping with ddRADseq in the non-model tree Quercus rubra (PDF 886 KB) 2017. Konar, A., Choudhury, O., Bullis, R., Fiedler, L., Kruser, J.M., Stephens, M.T., Gailing, O., Schlarbaum, S., Coggeshall, M.V., Staton, M.E., Carlson, J.E., Emrich, S., and Romero-Severson, J. BMC Genomics 18:417.
Development of Novel Genic Microsatellite Markers from Transcriptome Sequencing in Sugar Maple (Acer saccharum Marsh.) (PDF 800 KB) 2017. Harmon, M., Lane, T., Staton, M. Coggeshall, M.V., Best, T., Chien-Chin Chen, Liang, H., Zembower, N., Drautz-Moses, D.I., Yap Zhei Hwee, Schuster, S.C., Schlarbaum, S.E., Carlson, J.E., Gailing, O. BMC Res. Notes 10:369
Origin of adventitious roots in black walnut (Juglans nigra) softwood cuttings rooted under optimized conditions in a fog chamber (PDF 582 KB) 2017. Stevens, M.E. and Pijut, P.M. New Forests 48:685-697.
Adventitious Shoot Regeneration from in vitro Leaf Explants of Fraxinus nigra (PDF 1MB) 2017. Lee, J.H. and Pijut, P.M. Plant Cell Tissue and Organ Culture 130:335-343.
Genetic diversity of Persian walnut (Juglans regia) in the cold-temperate zone of the United States and Europe (PDF 268 KB) 2017. Ebrahimi, A., Zarei, A., McKenna, J.R., Bujdoso, G., and Woeste, K.E. Scientia Horticulturae 220:36-41.
Isolation and characterization of a floral homeotic gene in Fraxinus nigra causing earlier flowering and homeotic alterations in transgenic Arabidopsis (PDF 344 KB) 2017. Lee, J.H. and Pijut, P.M. Plant Gene 10:17-25.
Pollen gene flow, male reproductive success, and genetic correlations among offspring in a northern red oak (Quercus rubra L.) seed orchard (PDF 397 KB) 2017. Alexander, L. and Woeste, K. PLOS ONE 12(2): e0171598. doi: 10.1371/journal.pone.0171598.
Combining Biodiversity Resurveys across Regions to Advance Global Change Research (PDF 535 KB) 2017. Verheyen, K., De Frenne, P., Baeten, L., Waller, D.M., Hedl, R., Perring, M.P., Blondeel, H., Brunet, J., Chudomelova, M., Decocq, G., De Lombaerde, E., DePauw, L., Dirnbock, T., Durak, T., Eriksson, O., Guilliam, F.S., Heinken, T., Heinrichs, S., Hermy, M., Jaroszewicz, B., Jenkins, M.A., Johnson, S.E., Kirby, K.J., Kopecky, M., Landuyt, D., Lenoir, J., Li, D., Macek, M., Maes, S.L., Malis, F., Mitchell, F.J.G., Naaf, T., Peterken, G., Petrik, P., Reczynska, K., Rogers, D.A., Schei, F.H., Schmidt, W., Standovar, T., Swierkosz, K., Ujhazy, K., Van Calster, H., Vellend, M., Vild, O., Woods, K., Wulf, M., and Bernhardt-Romermann, M. BioScience 67:73-83.
Response of spring flora to nearly two decades of deer exclusion and resurgent woody understories within exclosures (PDF 220 KB) 2017. Webster, C.R., Rock, J.H., and Jenkins, M.A. Journal of the Torrey Botanical Society 144(1):1-14.

2016

Genetic diversity and genetic structure of Persian walnut (Juglans regia) accessions from 14 European, African, and Asian countries using SSR markers (PDF 703 KB) 2016. Ebrahimi, A., Zarei, A., Lawson, S., Woeste, K.E., and Smulders, M.J.M. Tree Genetics & Genomes 12:114.
Vegetative and Adaptive Traits Predict Different Outcomes for Restoration Using Hybrids (PDF 1 MB) 2016. Crystal, P.A., Lichti, N.I., Woeste, K.E., and Jacobs, D.F. Frontiers in Plant Science 7:1-11 DOI 10.3389/fpls.2016.01741.
Adventitious root formation in Juglans nigra: a time and place for everything (PDF 1 MB) 2016. Stevens, M.E. and Pijut, P.M. Acta Horticulturae 1140:337-339.
Consequences of Shifts in Abundance and Distribution of American Chestnut for Restoration of a Foundation Forest Tree (PDF 1MB) 2016. Dalgleish, H.J., Nelson, C.D., Scrivani, J.A., and Jacobs, D.F. Forests 7(4): 1-9.
Genectic diversity and population structure of common walnut (Juglans regia,) in China based EST-SSRs and the nuclear gene phenylalanine ammonia-lyase (PAL) (PDF 804 KB) 2016. Han, H., Woeste, K.E., Hu,Y., Dang, M., Zhang, T., Gao, S., Zhou, H., Feng, X., Zhao, G., and Zhao, P. Tree Genetics & Genomes 12:111-122.
Characterization of the complete chloroplast genome of Platycarya strobilacea (Juglandaceae) (PDF 876 KB) 2016. Yan, J., Han, K., Zeng, S., Zhao, P., Woeste, K., Li, J., and Liu, Z. Conservation Genet. Resour. DOI 10.1007/s12686-016-0624-x.
Characterization of the complete chloroplast genome of the endangered species Carya sinensis (Juglandaceae) (PDF 829 KB) 2016. Hu, Y., Chen, X., Feng, X., Woeste, K.E., and Zhao, P. Conservation Gent. Resour. 8:467-470.
Two decades of compositional and structural change in deciduous old-growth forests of Indiana, USA (PDF 1 MB) 2016. Lowney, C.A., Graham, B.D., Spetich, M.A., Shifley, S.R., Saunders, M.R., and Jenkins, M.A. Journal of Plant Ecology 9(3):236-271.
Predicting the height growth of oak species (Quercus) reproduction over a 23-year period following clearcutting (PDF 1 MB) 2016. Swaim, J.T., Dey, D.C., Saunders, M.R., Weigel, D.R., Thornton, C.D., Kabrick, J.M., and Jenkins, M.A. Forest Ecology and Management 364:101-112.
Effectiveness of a detached-leaf assay as a proxy for stem inoculations in backcrossed chestnut (Castanea) blight resistance breeding populations (PDF 464 KB) 2016. LaBonte, N.R., McKenna, J.R., and Woeste, K. Forest Pathology DOI: 10.1111/efp.12313.
Protoplast isolation and genetically true-to-type plant regeneration from leaf- and callus-derived protoplasts of Albizia julibrissin (PDF 1 MB) 2016. Rahmani, M., Pijut, P.M., and Shabanian, N. Plant Cell Tissue Organ Culture 127:475-488.
Germination and early seedling growth of Pinus densata Mast. provenances (PDF 531 KB) 2016. Xu, Y, Cai, N., He, B., Zhang, R., Zhao, W., Mao, J., Duan, A., Li, Y., Woeste, K. Journal of Forestry Research 27(2):283-294.
The complete chloroplast genome of common walnut (Juglans regia) (PDF 303 KB) 2016. Hu, Y., Woeste, K.E., Dang, M., Zhou, T., Feng, X., Zhao, G., Liu, Z., Li, Z., and Zhao, P. Mitogenome DNA: Resources DOI: 10.108023802359.2015.1137804.
De novo genome assembly of Geosmithia morbida, the casual agent of thousand cankers disease (PDF 159 KB) 2016. Schuelke, T.A., Westbrook, A., Broders, K., Woeste, K., and MacManes, M.D. PeerJ 4:31952: DOI 10.7717/peerj.1952.

2015

Geosmithia morbida Found on Weevil Species Stenomimus pallidus in Indiana (PDF 924 KB) 2015. Juzwik, J., Banik, M.T., Reed, S.E., English, J.T., Ginzel, M.D. Plant Health Progress 16(1):7-10.
Restoring forests: What constitutes success in the twenty-first century? (PDF 405 KB) 2015. Jacobs, D.F., Oliet, J.A., Aronson, J., Bolte, A., Bullock, J.M., Donoso, P.J., Landhausser, S.M., Madsen, P., Peng, S., Rey-Benayas, J.M., and Weber, J.C. New Forests 46:601-614.
Propagating figured wood in black walnut (PDF 426 KB) 2015. McKenna, J.R., Geyer, W.A., Woeste, K.E., and Cassens, D.L. Open Journal of Forestry 5:518-525.
Genetic fidelity assessment of in vitro-regenerated plants of Albizia julibrissin using SCoT and IRAP fingerprinting (PDF 921 KB) 2015. Rahmani, M.S., Pijut, P.M., Shabanian, N., and Nasri, M.In Vitro Cellular and Developmental Biology-Plant 51:407-419.
Agrobacterium-mediated genetic transformation of Fraxinus americana hypocotyls (PDF 818 KB) 2015. Palla, K.J. and Pijut, P.M. Plant Cell Tissue and Organ Culture-Journal of Plant Biotechnology 120:631–641.

2014

Agrobacterium-mediated transformation of black cherry for flowering control and insect resistance (PDF 1389 KB) 2014. Wang, Y. and Pijut, P.M. Plant Cell Tissue Organ Culture 119:107-116.
Improvement of Agrobacterium-mediated transformation and rooting of black cherry (PDF 1,0001 KB) 2014. Wang, Y. and Pijut, P.M. In Vitro Cellular & Developmental Biology - Plant 50:307-316.
Agrobacterium-mediated genetic transformation and plant regeneration of the hardwood tree species Fraxinus profunda (PDF 792 KB) 2014. Stevens, M.E. and Pijut, P.M. Plant Cell Reports 33:861-870.
Biogeomorphic Impacts of Invasive Species (PDF 346 KB) 2014. Fei, S., Phillips, J., and Shouse, M. Annual Reviews of Ecology, Evolution, and Systematics 45:69-87.
Molecular and physiological responses to abiotic stress in forest trees and their relevance to tree improvement (PDF 766 KB) 2014. Harfouche, A., Meilan, R., and Altman, A. Tree Physiology 34(11):1181-1198
The Cloning and Characterization of a Poplar Stomatal Density Gene (PDF 1 MB) 2014. Lawson, Shaneka S., Pijut, Paula M., and Michler, Charles H. Genes Genom 36:427-441.
Population structure of Geosmithia morbida, the casual agent of Thousand Cankers Disease of walnut trees in the United States (PDF 2 MB) 2014. Zerillo, M.M., Caballero, J.I., Woeste, K., Graves, A.D., Hartel, C., Pscheidt, J.W., Tonos, J., Broders, K., Cranshaw, W., Seybold, S.J., and Tisserat, N. Plos One 9(11):1-21.
Overexpression of AtSTO1 leads to improved salt tolerance in Populus tremula x P. alba (PDF 949 KB) 2014. Lawson, S.S. and Michler, C.H. Transgenic Research 23:817-826.
Landscape genetics of Persian walnut (Juglans regia L.) across its Asian range (PDF 1 MB) 2014. Pollegioni, P., Woeste, K.E., Ghiocchini, F., Olimpieri, I., Tortolano, V., Clark, J., Hemery, G.E., Mapelli, S., and Malvolti, M.E. Tree Genetics & Genomes DOI 10.1007/s11295-014-0740-2.
Improvement of Agrobacterium-mediated transformation and rooting of black cherry (PDF 771 KB) 2014. Wang, Y. and Pijut, P.M. In Vitro Cellular and Developmental Biology-Plant 50:307-316.
How a flower becomes a chestnut: Morphological development of Chinese chestnuts (Castanea mollissima) (PDF 1 MB) 2014. Miller, Amy, Miller, Diane D., and Pijut, Paula M. The Journal of American Chestnut Foundation 28 (2):13-18.
From Flower to Chestnut (PDF 833 KB) 2014. Miller, Amy, Miller, Diane, D., and Pijut, Paula M. Austrilian Nut Grower 28:24-26.
Comparison of Arabidopsis Stomatal Density Mutants Indicates Variation in Water Stress Responses and Potential Epistatic Effects (PDF 923 KB) 2014. Lawson, S.S., Pijut, P.M., and Michler, C.H. Journal of Plant Biology. 47-162-173.
Can Prunus serotina be Genetically Engineered for Reproductive Sterility and Insect Pest Resistance? (PDF 259 KB) 2014. Wang, Y. and Pijut, P.M. Springer Science Reviews 2:75-93.
Biotic and abiotic factors affecting the genetic structure and diversity of butternut in the southern Appalachian Mountains, USA (PDF 789 KB) 2014. Parks, A., Jenkins, M., Ostry, M., Zhao, P., Woeste, K. Tree Genetics & Genomes 10:541-554.
Agrobacterium-mediated transformation of black cherry for flowering control and insect resistance (PDF 827 KB) 2014. Wang, Y. and Pijut, P.M. Plant Cell Tissue and Organ Culture 119:107-116.
Agrobacterium-mediated genetic transformation and plant regeneration of the hardwood tree species Fraxinus profunda (PDF 608 KB) 2014. Stevens, M.E. and Pijut, P.M. Plant Cell Report 33:861-870.

2013

In Vitro Culture and Rooting of Diospyros virginiana L. (PDF 295 KB) 2013. Palla, K.J., Beasley, R.R., and Pijut, P.M. HortScience 48(6):747-749.
Species selection in hardwoods research: variations in baseline physio-logical responses of select temperate hardwood tree species (PDF 506 KB) 2013. Lawson, S.S., Pijut, P.M., and Michler, C.H. Journal of Forestry Research 24(2):285-292.
Bark and Ambrosia Beetles and their Associated Fungi Colonizing Stressed Walnut in Missouri and Indiana (PDF 627) 2013. Reed, S., English, J., Juzwik, J., and Ginzel, M. Walnut Bulletin 40(2): 17-19.
Regeneration of plants from Fraxinus nigra Marsh. hypocotyls (PDF 211 KB) 2013. Beasley, R.R. and Pijut, P.M. HortScience 48(7):887-890.
Isolation and characterization of a TERMINAL FLOWER 1 homolog from Prunus serotina Ehrh (PDF 2 MB) 2013. Wang, Y. and Pijut, P.M. Tree Physiology 33:855-865.
How a flower becomes a chestnut: Morphological developement of Chinese chestnuts (Castanea mollissima) (PDF 838 KB) 2013. Miller, A., Miller, D.D., and Pijut, P.M. 103rd Annual Report of the Northern Nut Growers Association (Sept):27-33.
Conservation status of a threatened tree species: Establishing a baseline for restoration of Juglans cinerea L. in the Southern Appalachian Mountains, USA (PDF 48 KB) 2013. Parks, A.M., Jenkins, M.A., Woeste, K.E., and Ostry, M.E. Natural Areas Journal 33(4):413-426.

2012

Morph-specific mating patterns in a low-density population of a heterodichogamous tree, Juglans ailantifolia (PDF 643 KB) 2012. Kimura, M.K., Goto, S., Suyama, Y., Matsui, M., Woeste, K., and Seiwa, K. Plant Ecology DOI: 10.1007/s11258-012-0105-6
In vitro propagation of tropical hardwood tree species – A review (2001-2011) (PDF 443 KB) 2012. Pijut, P.M., Beasley, R.R., Lawson, S.S., Palla, K.J., Stevens, M.E., and Wang, Y. Propagation of Ornamental Plants 12(1):25-51.
Hypocotyl derived in vitro regeneration of pumpkin ash (Fraxinus profunda) (PDF 269 KB) 2012. Stevens, M.E. and Pijut, P.M. Plant Cell Tissue and Organ Culture 108:129-135.
Genetic transformation of Populus tomentosa to improve salt tolerance (PDF 344 KB) 2012. Du, N., Liu, X., Li, Y.,Chen, S., Zhang, J., Ha, D., Deng, W., Sun, C., Zhang, Y., and Pijut, P.M. Plant Cell Tiss Organ. Cult. 108:181-189.
Barriers to interspecific hybridization between Juglans nigra L. and J. regia L species (PDF 802 KB) 2012. Pollegioni, P., Olimpieri, I., Woeste, K.E., De Simoni, G., Gras, M., and Malvolti, M.E. Tree Genetics Genomes DOI: 10.1007/s11295-012-0555-y

2011

Promotion of Adventitious Root Formation of Difficult-to-Root Hardwood Tree Species (PDF 206 KB) 2011. Pijut, P.M., Woeste, K.E., and Michler, C.H. Horticultural Reviews 38:213-251.
Effects of gibberellin A_4/7, 6-benzylaminopurine and chlormequat chloride on the number of male and female strobili and immature cones in Chinese Pine (Pinus tabuliformis) with foliar sprays (PDF 450 KB) 2011. Peng, Z, Fan, J.F., Zhang, S.X., Huang, Z.L., Yang, P., Ma, Z., and Woeste, K.E. Journal of Forestry Research 22(3):353-359.
Regeneration of plants from Fraxinus americana hypocotyls and cotyledons (PDF 199 KB) 2011. Palla, K.J. and Pijut, P.M. In Vitro Cellular and Developmental Biology – Plant 47:250-256.
Long-term human impacts on genetic structure of Italian walnut inferred by SSR markers (PDF 568 KB) 2011. Pollegioni, P., Woeste, K., Olimpieri, I., Marandola, D., Cannata, F., and Malvolti, M.E. Tree Genetics & Genomes 7:707-723.
JnCML-like, an EF-hand motif-containing gene seasonally upregulated in the transition zone of black walnut (Juglans nigra L.) (PDF 521 KB) 2011. Huang, Z., Surana, P., Kihara, D. Meilan, R., and Woeste, K. American J. of Molecular Biology 1(3):140-155.
Half-sib seed source and nursery sowing density affect black walnut (Juglans nigra) growth after 5 years (PDF 166 KB) 2011. Woeste, K.E., Jacobs, D.F., and McKenna, J.R. New Forests 41:235-245.
Effects of gibberellin A4/7, 6-benzylaminopurine and chlormequat chloride on the number of male and female strobili and immature cones in Chinese pine (Pinus tabuliformis) with foliar sprays (PDF 348 KB) 2011. Zhao, P, Fan, J.F.,Zhang, S.X., Huang, Z.L., Yang, P.H., Ma, Z.H., and Woeste, K.W. Journal of Forestry Research 22(3):353-359.
DNA markers identify hybrids between butternut (Juglans cinerea L.) and Japanese walnut (Juglans ailantifolia Carr.) (PDF 426 KB) 2011. Zhao, P. and Woeste, K.E. Tree Genetics & Genomes 7(3):511-533.
Discovery of single-nucleotide polymorphisms (SNPs) in the uncharacterized genome of the ascomycete Ophiognomonia clavigignenti-juglandacearum from 454 sequence data (PDF 121 KB) 2011. Broders, K.D., Woeste, K.E., SanMiguel, P.J., Westerman, R.P., and Boland, G.J. Molecular Ecology Resources 11:693-702.
Biotechnological efforts for preserving and enhancing temperate hardwood tree biodiversity, health, and productivity (PDF 338 KB) 2011. Pijut, P.M., Lawson, S.S., and Michler, C.H. In Vitro Cell. Dev. Biol. - Plant 47:123-147.

2010

Transgenic Crop Plants Volume 1: Principles and Development (PDF 38 KB) 2010. (eds) Kole, C., Michler, C.H., Abbott, A.G., and Hall, T.C. Springer Heidelbert Dordrecht London New York. p. 315.
Transgenic Crop Plants Volume 2: Utilization and Biosafety (PDF 38 KB) 2010. (eds) Kole, C., Michler, C.H., Abbott, A.G., and Hall, T.C. Springer Heidelbert Dordrecht London New York. p. 487.
Breeding American Chestnuts for Blight Resistance (PDF 199 KB) 2010. Worthen, L.M., Woeste, K.E., and Michler, C.H. Plant Breeding Reviews 33:305-339.
Isolation and Characterization of an AGAMOUS Homolog from Fraxinus pennsylvanica (PDF 405 KB) 2010. Du, N. and Pijut, P.M. Plant Molecular Biology Reporter 28:344-351.
Agrobacterium-mediated transformation of mature Prunus serotina (black cherry) and regeneration of transgenic shoots. 2010. Liu, X. and Pijut, P.M. Plant Cell Tissue and Organ Culture 101:49-37.
Cloning and Characterization of Prunus serotina AGAMOUS, a Putative Flower Homeotic Gene. 2010. Liu, X., Anderson, J.M., and Pijut, P.M. Plant Molecular Biology Reporter 28:193-203.
Uses and Desirable Properties of Wood in the 21st Century (PDF 267 KB) 2010. Wegner, T., Skog, K.E., Ince, P.J., and Michler, C.H. Journal of Forestry 108(4):165-173.
Plant breeding and rural development in the United States (PDF 502 KB) 2010. Woeste, K.E., Blanche, S.B., Moldenhauer, K.A., and Nelson, D. Crop Science 50:1625-1632.
Molecular characterization of Persian Walnut populations in Iran with Microsatellite Markers (PDF 542 KB) 2010. Karimi, R., Ershadi, A., Vahdati, K. and Woeste, K. HortScience 45(9):1403-1406.
Genetic consequences of harvest in a mature second-growth stand of black walnut (Juglans nigra L.) (PDF 253 KB) 2010. Robichaud, R.L., Glaubitz, J.C., Rhodes, Jr., O.E., and Woeste, K. Ann. For. Sci. 67:702p1-702p9.
Ecophysiological Responses of Black Walnut (Juglans nigra) to Plantation Thinning Along a Vertical Canopy Gradient (PDF 324 KB) 2010. Gauthier, M. and Jacobs, D.F. Forest Ecology and Management 259:867-874

2009

A KNAT3-like homeobox gene from Juglans nigra L., JnKNAT3-like, highly expressed during heartwood formation (PDF 557 KB) 2009. Huang, Zhonglian, Meilan, R., and Woeste, K. Plant Cell Reports 28:1717.
Agrobacterium-mediated transformation of Fraxinus pennsylvanica hypocotyls and plant regeneration (PDF 335 KB) 2009. Du, N. and Pijut, P.M. Plant Cell Reports 28:915-923.
Somatic embryogenesis and plant regeneration of northern red oak (Quercus ruba L.) (PDF 326 KB) 2009. Vengadesan, G. and Pijut, P.M. Plant Cell Tissue and Organ Culture 97:141-149.
Fall fertilization of Pinus resinosa seedlings: nutrient uptake, cold hardiness, and morphological development (PDF 414 KB) 2009. Islam, M.A., Apostol, K.G., Jacobs, D.F., Dumroese, R.K. Annals of Forest Science 66:704p1-704p9.
Winter variation in physiological status of cold stored and freshly lifted semi-evergreen Quercus nigra seedlings (PDF 160 KB) 2009. Goodman, R.C., Jacobs, D.F., Apostol, K.G., Wilson, B.C. and Gardiner, E.S. Annals of Forest Science 66:103p1-103p8
The peril and potential of butternut (PDF 1 MB) 2009. Woeste, K. and Pijut, P.M. Arnoldia 66 (4):2-12.
Root desiccation and drought stress responses of bareroot Quercus rubra seedlings treated with a hydrophilic polymer root dip (PDF 164 KB) 2009. Apostol, K.G. and Jacobs, D.F. Plant Soil 315:229-240.
Retrospective identification of hybridogenic walnut plants by SSR fingerprinting and parentage analysis (PDF 339 KB) 2009. Pollegioni, P., Woeste, K., Mugnozza, G.S., and Malvolti, M.E. Mol. Breeding 24:321-335.
Inoculating Acacia koa with Bradyrhizobium and applying fertilizer in the nursery: effects on nodule formation and seedling growth (PDF 457 KB) 2009. Dumroese, R.K., Jacobs, D.F., and Davis, A.S. HortScience 44(2):443-446
In vitro propagation of northern red oak (Quercus rubra L.) (PDF 233 KB) 2009 Vengadesan, G. and Pijut, P.M. In Vitro Cell. Dev. Biol. Plant 45:474-482.
Characterization of Juglans nigra (L.), Juglans regia (L.) and Juglans x intermedia (Carr.) by SSR markers: a case study in Italy (PDF 1 MB) 2009. Pollegioni, P., Woeste, K., Major, A., Mugnozza, G.S., and Malvolti, M.E. Silvae Genetica 57:68-78.
A KNAT3-like homeobox gene from Juglans nigra L., JnKNAT3-like, highly expressed during heartwood formation (PDF 393 KB) 2009. Huang, Z., Meilan, R., and Woeste, K. Plant Cell Reports DOI 10.1007/s00299-009-0771-6
A forest manager’s guide to butternut (PDF 340 KB) 2009. Woeste, K., Farlee, L, Ostry, M., McKenna, J., and Weeks, S. Northern Journal of Applied Forestry 26(1):9-14.

2008

Regeneration of plants from Fraxinus pennsylvanica hypocotyls and cotyledons (PDF 504 KB) 2008. Du, N. and Pijut, P.M. Scientia Horticulturae 118:74-79.
Black Walnut Part 9 Transgenic Forest Tree Species (PDF 39 KB) 2008. Michler, Charles H. P.M. Pijut, R. Meilan, G. Smagh, X Liang, K.E. Woeste, Black Walnut , in Kole, C. and Hall, T. C. (eds.), Compendium of Transgenic Crop Plants: Transgenic Forest Tree Species, Blackwell Publishing, Oxford, UK, pp 263 - 278.
Challenges to Commercial Use of Transgenic Plants (PDF 522 KB) 2008. Meilan, R. Journal of Crop Improvement 18(1-2):433-450. DOI 10.1300/J411v18n01_07.
Cold hardiness and transplant response of Juglans nigra seedlings subjected to alternative storage regimes (PDF 148 KB) 2008. Jacobs, D.F., Wilson, B.C., Ross-Davis, A.L., and Davis, A.S. Ann. For. Sci 65:606-606p8.
Transient physiological responses of planting frozen root plugs of Douglas-fir seedlings (PDF 213 KB) 2008. Islam, M.A.., Jacobs, D.F., Apostol, K.G., and Dumroese, R. K. Canadian Journal of Forest Research 38:1517-1525.
Subirrigation of Quercus rubra seedlings: nursery stock quality, media chemistry, and early field performance (PDF 724 KB) 2008. Bumgarner, M.L., Salifu, K.F., Jacobs, J.F. HortScience 43(7):2179-2185.
Short-day treatment alters Douglas-fir seedling dehardening and transplant root proliferation at varying rhizosphere temperatures (PDF 224 KB) 2008. Jacobs, D.F., Davis, A.S., Wilson, B.C., Dumroese, R.K., Goodman, R.C., and Salifu, K.F. Canadian Journal of Forest Research 38:1526-1535.
Plant regeneration from in vitro leaves of mature black cherry (Prunus serotina) (PDF 299 KB) 2008. Liu, X. and Pijut, P.M. Plant Cell Tissue Organ Culture 94:113-123.
Nitrate reductase activity and nitrogen compounds in xylem exudate of Juglans nigra seedlings: relation to nitrogen source and supply (PDF 298 KB) 2008. Nicodemus, M.A., Salifu, K.F., and Jacobs, D.F. Trees 22:685-695.
Morphological and molecular methods to identify butternut (Juglans cinerea) and butternut hybrids: relevance to butternut conservation (PDF 67 KB) 2008. Ross-Davis, A., Huang, Z., McKenna, J., Ostry, M., and Woeste, K. Tree Physiology 28:1127-1133.
Media effects on black walnut (Juglans nigra L.) shoot culture growth in vitro: evaluation of multiple nutrient formulations and cytokinin types (PDF 360 KB) 2008. Bosela, M.J. and Michler, C.H. In Vitro Cellular & Developmental Biology - Plant 44:315-329.
Growth, nutrition, and photosynthetic response of Black Walnut to varying nitrogen sources and rates (PDF 258 KB) 2008. Nicodemus, M.A., Salifu, F.K., and Jacobs, D.F. Journal of Plant Nutrition 31:1917-1936.
Genetic diversity of butternut (Juglans cinerea) and implications for conservation (PDF 714 KB) 2008. Ross-Davis, A., Ostry, M., and Woeste, K.E. Can. J. For. Res. 38:899-907.
Competitive success of natural oak regeneration in clearcuts during the stem exclusion stage (PDF 655 KB) 2008. Morrissey, R.C., Jacobs, D.F., Seifert, J.R., Fischer, B.C., and Kershaw, J.A. Canadian Journal of Forestry Research 38:1419-1430.
Carbon translocation patterns associated with new root proliferation during episodic growth of transplanted Quercus rubra seedlings (PDF 110 KB) 2008. Sloan, J.L. and Jacobs, D.F. Tree Physiology. 28:1121-1126.
Artificial regeneration of major oak (Quercus) species in the Eastern United States – A review of the literature (PDF 2 MB) 2008. Dey, D.C., Jacobs, D., NcNabb, K., Miller, G., Baldwin, V., and Foster, G. Forest Science 54(1):77-106.

2007

Loosening lignin’s grip on biofuel production (PDF 834 KB) 2007. Chapple, C., Ladisch, M., and Meilan, R. Nature Biotechnology 25(7):746-8.
Toward development of silvical strategies for forest restoration of American chestnut (Castanea dentata) using blight-resistant hybrids (PDF 470 KB) 2007. Jacobs, D.F. Biological Conversation 137(4):497-506.
Technological advances in temperate hardwood tree improvement including breeding and molecular marker applications (PDF 288 KB) 2007. Pijut, P.M., Woeste, K.E., Vengadesan, G., and Michler, C.H. In Vitro Cellular and Developmental Biology - Plant 43:283-303.
Salicylate and catechol levels are maintained in nahG transgenic poplar (PDF 311 KB) 2007. Morse, A.M., Tschaplinski, T.J., Dervinis, C., Pijut, P.M., Schmelz, E.A., Day, W., and Davis, J.M. Phytochemistry 68:2043-3052.
Microclimatic conditions and plant morpho-physiological development within a tree shelter environment during establishment of Quercus ilex seedlings (PDF 254 KB) 2007. Oliet, J.A. and Jacobs, D.F. Agricultural and Forest Meteorology 144:58-72.
Ecological and population genetics research imperatives for transgenic trees (PDF 184 KB) 2007. Farnum, P., Lucier, A., and Meilan, R. Tree Genetics and Genomes 3(2):119-133.
Enhanced phytoremediation of volatile environmental pollutants with transgenic trees (PDF 154) 2007. Doty, S.L., James, C.A., Moore, A.L., Vajzovic, A., Singleton, G.L., Ma, C., Khan, Z., Xin, G., Kang, J.W., Park, J.Y., Meilan, R., Strauss, S.H., and Strand, S.E. Proceedings of the National Academy of Science USA 104(43):16816-16821.

2006

Modified exponential nitrogen loading to promote morphological quality and nutrient storage of bareroot-clutured Quercus rubra and Quercus alba seedlings (PDF 332 KB) 2006. Birge, Z.K.D., Salifu, F., and Jacobs, D.F. Scandinavian Journal of Forest Research 21:306-316.
Subirrigation reduces water use, nitrogen loss, and mass growth in a container nursery (PDF 647 KB) 2006. Dumrose, R.K., Pinto, J.R., Jacobs, D.F., Davis, A.S., and Horiuchi, B. Native Plants Journal Fall 253-261.
Influence of seasonal planting date on field performance of six temperate deciduous forest tree species (PDF 498 KB) 2006. Seifert, J.R., Jacobs, D.F., and Selig, M.F. Forest Ecology and Management 371-378.
Characterizing fertility targets and multi-element interactions in nursery culture of Quercus rubra seedlings (PDF 404 KB) 2006. Salifu, K.F. and Jacobs, D.F. Ann. For. Sci. 63:231-237.
Improving disease resistance of butternut (Juglans cinerea), a threatened fine hardwood: a case of single-tree selection through genetic improvement and deployment (PDF 55 KB) 2005. Michler, C.H., Pijut, P.M., Jacobs, D.F., Meilan, R., Woeste, K.E., and Ostry, M.E. Tree Physiology 26:121-128.
The Hardwood Tree Improvement and Regeneration Center looks to the future (PDF 893 KB) 2006. Michler, C., Meilan, R., Pijut, P., and Woeste, K. Hardwood Matters (April) pp. 6-7.
Stocktype and harvest gap size influence northern red oak regeneration success (PDF 154 KB) 2006. Jacobs, D.F., Rathfon, R.A., Davis, A.S., Carlson, D.E. Connor, Kristina F., ed. Proceedings of the 13th biennial southern silvicultural research conference. Gen. Tech. Rep. SRS-92. Asheville, NC: US Department of Agriculture, Forest Service, Southern Research Stations 640 p.
Stock quality of black walnut (Juglans Nigra) seedlings as affected by half-sib seed source and nursery sowing density (PDF 615 KB) 2006. Jacobs, D.F., Woeste, K.E., Wilson, B.C., and McKenna, J.R. Proc. Vth Int. Walnut Symp. Eds. M.E. Malvolti and D. Avanzato. Acta Hort 705.
Response of grafted Juglans nigra to increasing nutrient availability: growth, nutrition, and nutrient retention in root plugs (PDF 97 KB) 2006. Salifu, K.F., Jacobs, D.F., Pardillo, G., and Schott, M. HortScience 41(6):1477-1480.
Organic matter added to bareroot nursery beds influences soil properties and morphology of Fraxinus pennsylvanica and Quercus rubra seedlings (PDF 192 KB) 2006. Davis, A.S., Jacobs, D.F., Wightman, K.E., and Birge, Z.K.D. New Forests 31:293-303.
Genetic homogeneity in Juglans nigra (Juglandaceae) at nuclear microsatellites (PDF 110 KB) 2006. Victory, E.R., Glaubitz, J.C., Rhodes, O.E., Jr., and Woeste, K.E. American Journal of Botany 93(1):118-126.
Evaluating chemical indices of growing media for nursery production of Quercus rubra seedlings (PDF 109 KB) 2006. Salifu, K.F., Nicodemus, M.A., Jacobs, D.F., and Davis, A.S. HortScience 41(5):1342-1346.
Comparing cold stored and freshly lifted water oak (Quercus nigra) seedlings based on physiological parameters (PDF 566 KB) In Riley, L.E., and Dumroese, R.K., technical coordinators. National Proceedings: Forest and Conservation Nursery Associations-2006. USDA Forest Service Rocky Mountain Research Station Proceedings 126-131.
Biophysical and socioeconomic factors explaining the extent of forest cover on private ownerships in a Midwestern (USA) agrarian landscape (PDF 231 KB) 2006. Frimpong, E.A., Ross-Davis, A.L., Lee, J.G., and Broussard, S.R. Landscape Ecology 21:763-776.
Assessing viability of northern red oak acorns with X-rays: application for seed managers (PDF 271 KB) 2006. Goodman, R.C., Jacobs, D.F., and Karrfalt, R.P. Native Plants Journal Fall 279-283.
Adventitious Shoot Regeneration and Rooting of Prunus serotina In Vitro Cultures (PDF 256 KB) 2006. Espinosa, A.C., Pijut, P.M. and Michler, C.H. HortScience 41(1):193-201.
A robust set of black walnut microsatellites for parentage and clonal identification (PDF 262 KB) 2006. Robichaud, R.R., Glaubitz, J.C., Rhodes, O.E., and Woeste, K. New Forests 32:179-196.

Prior Years

An efficient method for evaluating black walnut for resistance to walnut anthracnose in field plots and the identification of resistant genotypes (PDF 308 KB) 2001. Woeste, K.E. and Beineke, W.F. Plant Breeding 120:454-456.
Heartwood production in a 35-year-old black walnut progeny test (PDF 33 KB) 2002. Woeste, K.E. Canadian Journal of Forest Research 32:177-181.
Early season softwood cuttings effective for vegetative propagation of Juglans cinerea. (PDF 815 KB) 2002. Pijut, P.M., and Moore, M.J. HortScience 37(4):697-700.
Vegetative propagation of butternut (Juglans cinerea) – field results (PDF 300 KB) 2004. Pijut, P.M. In: Michler, C.H.; Pijut, P.M.; Van Sambeek, J.: Coggeshall, M.; Seifert, J.; Woeste, K.; Overton, R. (eds.) Black walnut in new century. Proceedings of the 6th Walnut Council research symposium. Gen. Tech. Rep. NC-243. St. Paul, MN: U.S. Department of Agriculture, Forest Service, North Central Research Station 188 p.
Establishment success of conservation tree plantations in relation to silvicultural practices in Indiana, USA (PDF 136 KB) 2004. Jacobs, D.F., Ross-Davis, A.L., and Davis, A.S.. New Forest 28:23-36.
Dominance of interplanted American chestnut (Castanea dentata) in southwestern Wisconsin, USA (PDF 322 KB) 2004. Jacobs, D.F. and Severeid, L.R. Forest Ecology and Management 191:11-120.
Successful Stock Production for Forest Regeneration: What Foresters Should Ask Nursery Managers About Their Crops (and Vice Versa) (PDF 170 KB) 2005. Dumroese, R.K., Jacobs, D.R., and Landis, T.D. The Thin Green Line: A symposium on the state-of-the-art in reforestation Proceedings. Thunder Bay, ON. 26-28 July 2005. Ont. Min. Nat. Resour. Ont. For. Res. Inst. Sault Ste. Marie, On. For. Res. Inf. Pap. No. 160 p. Pp. 14-20.
Straw mulch prevents loss of fall-sown seeds to cold temperatures and wildlife predation (PDF 135 KB) 2005. Wichman, J., Hawkins, R., and Pijut, P.M. Native Plants Journal. 6(3):282-285.
Seedling quality standards for bottomland hardwood afforestation: in the Lower Mississippi River Alluvial Valley: Preliminary Results (PDF 107 KB) In Riley, Dumroese, R.K., Riley, L.E., Landis, T.D. 2005. National proceedings: Forest and Conservation Nursery Associations-2004. Proc. RMRS-P-35. Fort Collins, CO: U.S. Department of Agriculture, Forest Service, Rocky Mountain Research Station. 142 p.
Relative contribution of initial root and shoot morphology in predicting field performance of hardwood seedlings (PDF 241 KB) 2005. Jacobs,D.F., Salifu, F., and Seifert, J.R. New Forests. 30:235-251.
Quantifying root system quality of nursery seedlings and relationship to outplanting performance (PDF 179 KB) 2005. Davis, A.S. and Jacobs, D.F. New Forests 30:295-311.
Maximizing Nutrient Storage in Nursery Culture to Promote Retranslocation and Growth of Outplanted Seedlings (PDF 230 KB) 2005. Salifu, K.F., Jacobs, D.F, and Birge, Z. The Thin Green Line: A symposium on the state-of-the-art in reforestation Proceedings. Thunder Bay, ON. 26-28 July 2005. Ont. Min. Nat. Resour. Ont. For. Res. Inst. Sault Ste. Marie, On. For. Res. Inf. Pap. No. 160 p. Pp. 86-91.
Hardwood Genetics and Tree Improvement – A Midwest USA Perspective (PDF 149 KB) 2005. Michler, C.H., Meilan, R. Woeste, K.E., Pijut, P.M., Jacobs, D., ALdrich, P., and Glaubitz, J. The Thin Green Line: A symposium on the state-of-the-art in reforestation Proceedings. Thunder Bay, ON. 26-28 July 2005. Ont. Min. Nat. Resour. Ont. For. Res. Inst. Sault Ste. Marie, ON. For. Res. Inf. Pap. No. 160. 169 p. Pp. 69-74.
Growth and nutritional response of hardwood seedlings to controlled-release fertilization at outplanting (PDF 241 KB) 2005. Jacobs, D.F., Salifu, K.F., and Seifert, J.R. Forest Ecology and Management 214:28-31.
Genetic structure inside a declining red oak community in old-growth forest (PDF 96 KB) 2005. Aldrich, P., Glaubitz, J., Parker, G., Rhodes, O.G. Jr., and Michler, C. Journal of Heredity 96(6):627-634.
Genetic Considerations in the operational production of hardwood nursery stock in the Eastern United States (PDF 312 KB) 2005. Jacobs, D.F. and Davis, A.S. NativePlants Spring.
Fertilizer-induced changes in rhizosphere electrical conductivity: relation to forest tree seedling root system growth and function (PDF 204 KB) 2005. Jacobs, D.F. and Timmer, V.R. New Forests 30:147-166.
Evaluating desiccation sensitivity of Quercus rubra acorns using X-ray image analysis (PDF 679 KB) 2005. Goodman, R.C., Jacobs, D.F., and Karrfalt, R.P. Canadian Journal of Forest Research 35:2823-2831.
Development of rooted cutting propagation method for Prunus serotina (PDF 251 KB) 2005. Pijut, P.M. and Espinosa, A.C. The International Plant Propagators' Society Combined Proceedings 54:513-51.
Afforestatrion Motivations of Private Landowners: An Examination of Hardwood Tree Plantings in Indiana (PDF 197 KB) 2005. Ross-Davis, A.L., Broussard, S.R., Jacobs, D.F. and Davis, A.S. Northern Journal of Applied Forestry 23(3):149-153.
Afforestation in the Central Hardwood Forest Region of the USA (PDF 161 KB) 2005. Davis, A.S. and Jacobs, D.F. The Thin Green Line: A symposium on the state-of-the-art in reforestation Proceedings. Thunder Bay, ON. 26-28 July 2005. Ont. Min. Nat. Resour. Ont. For. Res. Inst. Sault Ste. Marie, On. For. Res. Inf. Pap. No. 160 p. Pp. 48-53.
Genetic considerations in the operational production of hardwood nursery stock in the Eastern United States (PDF 312 KB) 2005. Jacobs, D.F. and Davis, A.S. Nativeplants Spring

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