Publications

2021

Delavaux, Camille S., Sidney L. Sturmer, Maggie R. Wagner, Ursel Schütte, Joseph B. Morton, James D. Bever.  2021.  Utility of LSU for environmental sequencing of arbuscular mycorrhizal fungi: a new reference database, pipeline, and comparison to ITS. New Phytologist.  229: 3048–3052.

2020

House, Geoffrey L. and J. D. Bever.  2020.  Biochar soil amendments in prairie restorations do not interfere with the benefits provided by arbuscular mycorrhizal fungi.  Restoration Ecology. 28: 785-795. doi: 10.1111/rec.12924.

Jiang Jiang, Karen Abbott, Mara Baudena, Maarten B. Eppinga, James A. Umbanhowar, James D. Bever.  2020.  Pathogens and mutualists as joint drivers of host species coexistence and turnover: implications for plant competition and succession.  American Naturalist.  195: 591-602.

Duchicela, Jessica, P. A. Schultz and J. D. Bever. 2020. Symbionts as filters of plant colonization of islands: Tests of expected patterns and environmental consequences in the Galapagos. Plants.  9: 74; doi:10.3390/plants9010074

 Bauer, Jonathan T, Liz Koziol, and James D. Bever. 2020. Local adaptation of mycorrhizae communities changes plant community composition and increases above-ground productivity. Oecologia. 192: 735–744.

Ghosh, Shyamolina, Lawrence W. Sheppard, Mark T. Holder, Terrance E. Loecke, Philip C. Reid, James D. Bever, Daniel C. Reuman. 2020. Copulas and their potential for ecology. Advances in Ecological Research.  62: 409-468.

Collins, Cathy D.  James D. Bever, Michelle H. Hersh. 2020. Community context for mechanisms of disease dilution:  insights from linking epidemiology and plant-soil feedback theory.  Annals of the NY Academy of Sciences. 1469: 65–85.  doi: 10.1111/nyas.14325. 

Koziol, Liz, Timothy E. Crews, James D. Bever. 2020. Native plant abundance, diversity and richness increases in prairie restoration with field inoculation density of native mycorrhizal amendments. Restoration Ecology.  10.1111/rec.13151 In press.

Delavaux, Camille; Bever, James; Karppinen, Erin; Bainard, Luke. 2020. Keeping it cool: Soil sample storage and DNA shipment up to one month does not impact metagenomic results. Ecology and Evolution. 10:4652–4664  DOI: 10.1002/ece3.6219.

Dodds, Walter K., Lydia Zeglin, Robert J. Ramos, Thomas G. Platt, Aakash Pandey, Theo Michaels, Mohammadali Masigol, Anna ML Klompen, Michelle C. Kelly, Ari Jumpponen, Emma Hauser, Paige M. Hansen, Mitchell J. Greer, Niloufar Fattahi, Camille S. Delavaux, R. Kent Connell, Sharon Billings, James D Bever, Niloy Barua, Folashade B. Agusto.  2020. Connections and feedbacks: aquatic, plant, and soil microbiomes in a heterogeneous and changing world.  BioScience.  Doi:10.1093/biosci/biaa046.

Micheals, T., M. B.  Eppinga, J. D. Bever. 2020. A nucleation framework for transitions between alternate states: Short-circuiting barriers to ecosystem recovery.  Ecology. 101: e03099. Doi:10.1002/ecy.3099.

Reynolds, Hannah, Rebekah Wagner, Guangzhou Wang, Haley Burrill, James D. Bever, Helen M. Alexander.  2020.  Effects of the soil microbiome on the demography of two annual prairie plants.  Ecology and Evolution. 10:6208–6222.  DOI: 10.1002/ece3.6341.

Tian, Qiuying, Pengfei Ma, Nana Liu, Liuyi Yang, Wenming Bai, Hong Wang, Lifei Ren, Peng Lu, Wenwu Han,Peggy A, Schultz, James D. Bever, Fu-Suo Zhang, Hans Lambers, Wen-Hao Zhang.  2020.  Below‐ground‐mediated and phase‐dependent processes drive nitrogen‐evoked community changes in grasslands. Journal of Ecology. 108: 1874– 1887.  DOI: 10.1111/1365-2745.13415.

McKenna, Thomas P., Liz Koziol, James D. Bever, Timothy E. Crews, and Benjamin A. Sikes.  2020.  Abiotic and biotic context dependency of perennial crop yield.  PlosOne.  15: e0234546.

Lubin, T., H. Alexander, and J. D. Bever.  2020.  Adaptation of plant-mycorrhizal interactions to moisture availability in prairie restoration.  Restoration Ecology.  29: e13270. 

Delavaux, Camille S., Josh L. Schemanski, Geoffrey L. House, Alice G. Tipton, Benjamin A. Sikes, James D. Bever.  2021. Plant pathogen differentiation along climate gradients is minimized by anthropogenic disturbance.  ISME Journal.  15:304–317.

Sturmer, Sidney L, James D Bever, Peggy A Schultz, Stephen P Bentivenga.  2020.  Celebrating INVAM: 35 years of the largest living culture collection of arbuscular mycorrhizal fungi.  Mycorrhiza. 

Wang, Guangzhou, Shuikuan Bei, Jianpeng Li, Xingguo Bao, Jiudong Zhang, Peggy A. Schultz, Haigang Li, Long Li, Fusuo Zhang, James D. Bever, Junling Zhang. 2020. Soil microbial legacy drives crop diversity advantage: Linking ecological plant–soil feedback with agricultural intercropping.  Journal of Applied Ecology.  DOI: 10.1111/1365-2664.13802.

2019

Koziol, L and James D. Bever.  2019.  Mycorrhizal feedbacks generate positive frequency dependence accelerating grassland succession.  J. Ecology. 107:622–632.

Mack, KML, Eppinga M. and JD Bever.  2019.  Keystone competitors stabilize plant communities structured by biotic feedbacks:  Invasion, coexistence, and robustness in multi-species models.  PLOS One.  14(2): e0211572.

Delavaux, Camille S., Patrick Weigelt, Wayne Dawson, Jessica Duchicela, Franz Essl, Mark van Kleunen, Christian König, Jan Pergl, Petr Pyšek, Anke Stein, Marten Winter, Peggy A. Schultz, Holger Kreft, James D. Bever. 2019. Mycorrhizal fungi shape global plant biogeography. Nature Ecology and Evolution. 3: 424-429. 10.1038/s41559-019-0823-4.

Schütte, Ursel M.E., Jeremiah A. Henning, Yuzhen Ye, Annie Bowling, James Ford, Merritt Turetsky, Mark Waldrop, Jeffrey R. White, James D. Bever. 2019.  Effect of permafrost thaw on plant and soil fungal community in the boreal forest: Does fungal community change mediate plant productivity response?  J. Ecology.  107: 1817-1827.

Crawford, Kerri M., Jonathan T. Bauer, Liza S. Comita, Maarten B. Eppinga, Daniel J. Johnson, Scott A. Mangan, Simon A. Queenborough, Allan E. Strand, Katie N. Suding, James Umbanhowar, James D. Bever.  2019.  When and where plant-soil feedback may promote plant coexistence: a meta-analysis.  Ecology Letters. 22: 1274-1284.  doi: 10.1111/ele.13278

Wang, Guangzhou, Peggy Schultz, Alice Tipton, Junling Zhang, Fusuo Zhang and James D. Bever.  2019. Microbiome mediation of positive plant productivity-diversity relationships in late successional grassland species.  Ecology Letters.  22: 1221-1232.  doi: 10.1111/ele.13273

Lubin, T, P Schultz, JD Bever, H Alexander. 2019.  Are two strategies better than one? Manipulation of seed density and soil community in an experimental prairie restoration.  Restoration Ecology.  27: 1021–1031. doi.org/10.1111/rec.12953

Bennett, Alison; Preedy, Katharine; Golubski, Antonio; Umbanhowar, James; Borrett, Stuart; Byrne, Loren; Apostol, Kent; Bever, James; Biederman, Lori; Classen, Aimee; Cuddington, Kim; de Graaff, Marie-Anne; Garrett, Karen; Gross, Lou; Hastings, Alan; Hrynkiv, Volodymyr; Karst, Justine; Kummel, Miroslav; Lee, Charlotte; Liang, Chao; Liao, Wei; Mack, Keenan; Miller, Laura; Ownley, Bonnie; Rojas, Claudia; Simms, Ellen; Walsh, Vonda; Warren, Matthew; Zhu, Jun.  2019.  Beyond the Black Box:  Promoting mathematical collaborations for elucidating interactions in soil ecology.  Ecosphere.  10(7):e02799. 10.1002/ecs2.2799

Koziol, Liz, Timothy E. Crews, James D. Bever. 2019. Benefits of native mycorrhizal amendments to perennial agroecosystems increases with field inoculation density.  Agronomy.  9: doi: 10.3390/agronomy9070353

Cheeke, Tanya E., Chaoyuan Zheng, Liz Koziol, Carli R. Gurholt, James D. Bever. 2019. Sensitivity of plants to arbuscular mycorrhizal fungal species is greater in late-successional native than early-successional native or non-native plants.  Ecology. 100: e02855. 10.1002/ecy.2855

Duell, E., J. D. Bever, G. T. Wilson. 2019. Climate affects plant-soil feedbacks of native and invasive grasses: Negative feedbacks in stable but not variable environments.  Frontiers in Ecology and Evolution.  7: 419. 10.3389/fevo.2019.00419.

Ghosh, Shyamolina, Lawrence W. Sheppard, Mark T. Holder, Terrance E. Loecke, Philip C. Reid, James D. Bever, Daniel C. Reuman. 2019. Copulas and their potential for ecology. bioRxiv 650838; doi: https://doi.org/10.1101/650838

Herrera-Peraza, RA, JD Bever, E Furrazola, RL Ferrer, and P Herrera. 2019.  Functional Strategies of Arbuscular Mycorrhizal Diversity: Significance of Analysing Glomeromycotan spores numbers of Biovolumes.  Acta Botanica Cubana.  218: 143-159.

2018

Malik, Rondy J., Jared G. Ali and James D. Bever.  2018.  Mycorrhizal composition influences plant anatomical defense and impacts herbivore growth and survival in a life-stage dependent manner.  Pedobiologia.  66: 29-35.

House, G. L. and J. D. Bever. 2018. Disturbance reduces the differentiation of mycorrhizal fungal communities in grasslands along a precipitation gradient. Ecological Applications. 28: 736–74.

Bauer JT, Koziol L, Bever JD. 2018. Ecology of Floristic Quality Assessment: testing for correlations between coefficients of conservatism, species traits and mycorrhizal responsiveness. AoB PLANTS 10: plx073; doi: 10.1093/aobpla/plx073

Christian, N. and J.D. Bever.  2018.  Carbon allocation and competition maintain variation in plant root mutualisms. Ecology and Evolution.  8: 5792–5800.

Lekberg, Ylva; Bever, James; Bunn, Rebecca; Callaway, Ray; Hart, Miranda; Kivlin, Stephanie; Klironomos, John; Larkin, Beau; Maron, John; Reinhart, Kurt; Remke, Michael; van der Putten, Wim.  2018.  Relative importance of competition and plant soil feedbacks, their synergy, context dependency and implications for coexistence.  Ecology Letters.  doi: 10.1111/ele.13093.

Eppinga, Maarten B., Mara Baudena, Daniel J. Johnson, Jiang Jiang, Keenan M.L. Mack, Allan E. Strand & James D. Bever.  2018.  Frequency-dependent feedback and plant community coexistence.  Nature Ecology and Evolution.  2: 1403–1407.

Hoeksema, Jason, James D. Bever, Sounak Chakraborty, V. Chaudhary, Monique Gardes, Catherine Gehring, Miranda Hart, Elizabeth Housworth, Wittaya Kaonongbua, Marc Lajeunesse, James Meadow, Brook Milligan, Bridget Piculell, Anne Pringle, Megan Rua, James Umbanhowar, Wolfgang Viechtbauer, Yen-Wen Wang, Gail Wilson, Peter Zee.  2018. Evolutionary history predicts the strength of mycorrhizal mutualism: A meta-analysis. Communications Biology. DOI: 10.1038/s42003-018-0120-9

Stürmer, Sidney L., James D. Bever, Joseph B. Morton.  2018. On the biogeography of arbuscular mycorrhizal fungi (Glomeromycota): phylogenetic perspective on species distribution patterns. Mycorrhiza.  28:587–603

Koziol, L.; Schultz, Peggy A.; House, Geoffrey; Bauer, Jonathan; Middleton, Elizabeth; Bever., James D. 2018.  Plant microbiome and native plant restoration: The example of native mycorrhizal fungi.  BioScience. 68:996-1006.  doi/10.1093/biosci/biy125.  Featured in podcast https://eurekalert.org/pub_releases/2018-11/aiob-utp111418.php

Wang, GuangZhou, Chengcheng Ye, JunLing Zhang, Liz Koziol, James D. Bever, FuSuo Zhang, Xiaolin Li.  2018. Asymmetric facilitation of maize by inoculation of arbuscular mycorrhizal fungi leads to overyielding and improved water use in maize/faba bean intercropping.  Journal of Plant Interactions. 14:10-20.

2017

Koziol, L and JD Bever.  2017. The missing link in grassland restoration: arbuscular mycorrhizal fungi inoculation increases plant diversity and accelerates succession.  J Applied Ecology.  54: 1301–1309.

van Tassel, David L. J. Kenneth Albrecht, James D, Bever, Arvid A. Boe, Yaniv Brandvain, Timothy E. Crews, Markus Gansberger, Pedro Gerstberger, Luciana González-Paleo, Brent S. Hulke, Nolan C. Kane, Paul J. Johnson, Elena G. Pestsova, Valentín D. Picasso Risso, Jarrad R, Prasifka, Damian A. Ravetta, Brandon Schlautman, Craig C. Sheaffer, Kevin P. Smith, Pablo R. Speranza, M. Kathryn Turner, Alejandra E Vilela, Philipp von-Gehren, and Christian Weaver.  2017.  Accelerating Silphium domestication: an opportunity to develop new crop ideotypes and breeding strategies informed by multiple disciplines. Crop Science.  57:1274–1284.  *Voted Outstanding Paper on Plant Genetic Resources in 2017 by Crop Science of America

Whitaker, BK, JT Bauer, JD Bever, K Clay.  2017.  Phyllosphere microbiota induce stronger negative feedbacks than soil microbiota in four native Asteraceae.  Ecology Letters.  20: 1064–1073.  *Recommended by Faculty of 1000

Tang, Min, James D. Bever, Fei-Hai Yu. 2017. Open access increases citations of papers in ecology.  Ecosphere.  8(7):  e01887. 10.1002/ecs2.1887

Koziol, L., G. House, J. Bauer, E. Middleton, PA Schultz, JD Bever. 2017.  A Practical Guide to Inoculation with Arbuscular Mycorrhizal Fungi in Ecological Restoration.  SERDP Technical Report. http://www.dtic.mil/dtic/tr/fulltext/u2/1042964.pdf

Jaksetic, N., Foster, B. L., Bever, J. D., Schwarting, J. and Alexander, H. M. 2018. Sowing density effects and patterns of colonization in a prairie restoration. Restoration Ecology. 26: 245-254.

2016

Hamilton, Cyd E., James D. Bever, Jessy Labbé, Xiaohan Yang, Hengfu Yin.  2016.  Utilization of microbiomes for crop production: Mitigative and adaptive opportunities via community complementarity.  Agriculture, Ecosystems and Environment.  216: 304-308.

Steidinger, BS and JD Bever.  2016.  Host discrimination in modular mutualisms:  a theoretical framework for meta-populations of mutualists and cheaters.  Proceedings of the Royal Society of London, B.  283: 20152428.  http://dx.doi.org/10.1098/rspb.2015.2428.

Chaudhary, V. Bala, Megan A. Rúa, Anita Antoninka, James D. Bever, Jeffery Cannon, Ashley Craig, Jessica Duchicela, Alicia Frame, Monique Gardes, Catherine Gehring, Michelle Ha, Miranda Hart, Jacob Hopkins, Baoming Ji, Nancy Collins Johnson, Wittaya Kaonongbua, Justine Karst, Roger Koide, Louis J Lamit, James Meadow, Brook G. Milligan, John Moore, Thomas H. Pendergast IV, Bridget Piculell, Blake Ramsby, Suzanne Simard, Shubha Shrestha, James Umbanhowar, Wolfgang Viechtbauer, Lawrence Walters, Gail Wilson, Peter C. Zee, and Jason Hoeksema.  2016.  MycoDB: A global database of plant response to mycorrhizal fungi.  Scientific Data.  3:160028 | DOI: 10.1038/sdata.2016.28

Ji, B. and J. D. Bever.  2016.  Plant preferential allocation and fungal reward decline with soil phosphorus enrichment: implications for evolution of the arbuscular mycorrhizal mutualism.  Ecosphere.  7:e01256. 10.1002/ecs2.1256

Barrett, Luke G., Peter C. Zee, James D. Bever, Joseph T. Miller, Peter H. Thrall.  2016.   Evolutionary history shapes patterns of specificity in Acacia-rhizobial mutualisms.  Evolution.  70: 1473-1485.

Rua, M.A., A. Antonika, P. M. Antunes, V. B. Chaudhary, C. Gehring, L. J. Lamit, B. P. Piculell, J. D.Bever, C. Zabinski,  J. F. Meadow, M. Lajeunesse, B. Milligan, J. Karst, J. D. Hoeksema.  2016.  Home-field advantage? Evidence of local adaptation among plants, soil, and arbuscular mycorrhizal fungi through meta-analysis.  BMC Evolutionary Biology.  16: 122.

House, Geoffrey L., Saliya Ekanayake, Yang Ruan, Ursel Schütte, Wittaya Kaonongbua, Geoffrey Fox, Yuzhen Ye, James D. Bever.  2016.  Phylogenetically Structured Differences in rRNA Gene Sequence Variation among Species of Arbuscular Mycorrhizal Fungi and Their Implications for Sequence Clustering .  Applied and Environmental Microbiology.  82:16 4921-4930.

Koziol, L. and J. D. Bever.  2016.  AMF, phylogeny and succession: specificity of plant response to arbuscular mycorrhizal fungal species increases with succession.  Ecosphere.  7(11):e01555. 10.1002/ecs2.1555.

Malik, Rondy, MH Dixon, and James D. Bever. 2016.  Mycorrhizal Composition Can Predict Foliar Pathogen (Pseudomonas syringae pv. glycinea) Propagation.   Biological Control.  103: 46-53.

Herrera-Peraza, Ricardo A. James D Bever, José Manuel de Miguel, Antonio Gómez-Sal, Pedro Herrera, Elisa Eva García, Ramona Oviedo, Yamir Torres-Arias, Freddy Delgado, Oscar Valdés-Lafont, Bárbara C Muñoz, Jorge A Sánchez.  2016.  Una nueva hipótesis sobre la sucesión de los bosques tropicales húmedos y secos/A new hypothesis on humid and dry tropical forests succession.  Acta Botánica Cubana. 215: 232-280.

Cheeke, Tanya E., Richard P. Phillips, Edward R. Brzostek, Anna Rosling, James D. Bever, and Petra Fransson.  2016.  Dominant mycorrhizal association of trees alters carbon and nutrient cycling by selecting for microbial groups with distinct enzyme function.  New Phytologist. 
214: 432-442

Wang, GuangZhou, HaiGang Li, Peter Christie, FuSuo Zhang, JunLing Zhang, James D. Bever  2016.  Plant-soil feedback contributes to intercropping overyielding by reducing the negative effect of take-all on wheat and compensating the growth of faba bean.  Plant and Soil.  doi:10.1007/s11104-016-3139-z.

2015 cont.

Bauer, JT, KML Mack, and JD Bever.  2015.  Plant-soil feedbacks as drivers of succession: Evidence from remnant and restored tallgrass prairies.  Ecosphere. (9):158. http://dx.doi.org/10.1890/ES14-00480.1

Smith, VH, RC McBride, J Shurin, JD Bever, T Crews, GD Tilman.  2015.  Crop diversification can contribute to disease control in sustainable biofuels production.  Frontiers in Ecology and Environment.  13: 561–567.

Middleton, Elizabeth, Sarah Richardson, Liz Koziol, Corey E. Palmer, Zhanna Yermakov, Jeremiah A. Henning, Peggy A. Schultz, and James D. Bever.  2015.  Locally-adapted arbuscular mycorrhizal fungi improve vigor and resistance to herbivory of native prairie plant species.    Ecosphere 6:276. http://dx.doi.org/10.1890/ES15-00152.1

Bever, JD, S Mangan, and H Alexander.  2015.  Pathogens maintain plant diversity.  Annual Review of Ecology and Systematics.  46: 305-325.

Previous Publications

Abbott et al. 2015. Spatial heterogeneity in soil microbes alters outcomes of plant competition. PloS ONE. DOI:10. 1371.

Barrett, L.G., J.D. Bever, A. Bissett, and P.H. Thrall. 2015. Partner diversity and identity impacts on plant productivity in Acacia-rhizobial interactions. Ecology. 103, 130-142.

Bennett, A. and J. D. Bever. 2007. Mycorrhizal species differentially alter plant growth and response to herbivory. Ecology. 88: 210–218.

Bauer, J.T., N.M. Kleczewski, J.D. Bever, K. Clay, and H.L. Reynolds. 2012. Nitrogen-fixing bacteria, arbuscular mycorrhizal fungi, and the productivity and structure of prairie grassland communities. Oecologia. 170:1089-1098

Bennett, A. and J. D. Bever. 2009. Trade-offs between AM fungal competitive ability and host growth promotion in Plantago lanceolata. Oecologia. 160: 807–816

Bennett, A. J. D. Bever and D. Bowers. 2009. Arbuscular Mycorrhizal Fungal species can suppress inducible plant responses and alter defensive strategies following herbivory. Oecologia. 160: 771–779.

Bennett, A., J. Alers-Garcia, and J. D. Bever. 2006. Three-way interactions amoung mutualistic mycorrhizal fungi, plants, and plant enemies: Hypotheses and synthesis. American Naturalist. 167: 141–152.

Bentivenga, S. P., J. D. Bever, and J. Morton. 1997. Genetic variation of morphological characters within a single isolate of the endomycorrhizal fungus, Glomus clarum (Glomaceae). American Journal of Botany. 84: 1211-1216.

Bever, J. D. 1994. Feedback between plants and their soil communities in an old field community. Ecology. 75: 1965-1977

Bever, J. D. 1999. Dynamics within mutualism and the maintenance of diversity: Inference from a model of interguild frequency dependence. Ecology Letters. 2: 52-62.

Bever, J. D. 2002. Host-specificity of AM fungal population growth rates can generate feedback on plant growth. Plant and Soil. 244: 281-290.

Bever, J. D. 2002. Negative feedback within a mutualism: Host-specific growth of mycorrhizal fungi reduces plant benefit. Proceedings of the Royal Society of London. 269: 2595-2601.

Bever, J. D. 2003. Soil Community feedback and the coexistence of competitors: Conceptual frameworks and empirical tests. New Phytologist. 157: 465-473.

Bever, J.D. 2015. Preferential allocation, physio-evolutionary feedbacks, and the stability and environmental patterns of mutualism between plants and their root symbionts. New Phytologists. 205:1503-1514.

Bever, J.D., L.M. Broadhurts, and P.H. Thrall. 2013. Microbial phylotype composition and diversity predicts plant productivity and plant-soil feedbacks. Ecology Letters. 16: 167-174.

Bever, James D., Ian A. Dickie, Evelina Facelli, Jose M. Facelli, John Klironomos, Mari Moora, Matthias C. Rillig, William D. Stock, Mark Tibbett, Martin Zobel. 2010. Rooting Theories of Plant Community Ecology in Microbial Interactions. Trends in Ecology and Evolution. 25: 468–478.

Bever, J. D. and F. Felber. 1992. Theoretical population genetics of autopolyploidy. Oxford Surveys in Evolutionary Biology. 8: 185-217.

Bever, J. D, H. Kang, W. Kaonongbua, and M. Wang. 2008. Genomic Organization and Mechanisms of Inheritance in Arbuscular Mycorrhizal Fungi: Contrasting the Evidence and Implications of Current Theories. In: Mycorrhiza, 3rd Edition. (Ajit Varma, Ed.). Springer-Verlag, Berlin. 135-148.

Bever, J. D. and J. Morton. 1999. Heritable variation and mechanisms of inheritance of spore shape within a population of Scutellospora pellucida, an arbuscular mycorrhizal fungus. American Journal of Botany. 86: 1209-1216.

Bever, J. D., J. B. Morton, J. Antonovics, and P. A. Schultz. 1996. Host-dependent sporulation and species diversity of arbuscular mycorrhizal fungi in a mown grassland. Journal of Ecology. 84: 71-82.

Bever, J. D., A. Pringle and P. Schultz. 2002. Dynamics within the Plant—Arbuscular Mycorrhizal Fungal Mutualism: Testing the Nature of Community Feedback. In Mycorrhizal Ecology, ed. by MGA. van der Heijden and IR. Sanders. Springer-verlag, Berlin. Pp. 267-294.

Bever, J.D., S. Richardson, B.M. Lawrence, J. Holmes and M. Watson. 2009. Preferential Allocation to Beneficial Symbiont with Spatial Structure Maintains Mycorrhizal Mutualism. Ecology Letters. 12: 13–21.

Bever, J. D., P. A. Schultz, R. M. Miller, L. Gades and J. D. Jastrow. 2003. Prairie mycorrhizal fungal inoculant may increase native prairie plant diversity on restored sites. Ecological Restoration. 21: 311-312.

Bever, J. D., P. Schultz, A. Pringle, and J. Morton. 2001. Arbuscular mycorrhizal fungi: More diverse than meets the eye, and the ecological tale of why. Bioscience. 51: 923-931.

Bever, J. D. and P. A. Schultz. 2005. Mechanisms of arbuscular mycorrhizal mediation of plant-plant interactions. In: The Fungal Community. 4th Ed. J. Dighton and P. Oudemans, Eds. Taylor and Francis, Boca Raton. Pp. 443-459.

Bever, J. D. and E. Simms. 2000. Evolution of Nitrogen Fixation in Spatially Structured Populations of Rhizobium. Heredity. 85: 366-373.

Bever, J. D. and M. Wang. 2005. Hyphal fusion and multigenomic structure in Arbuscular Mycorrhizal Fungi. Nature. 433: E3-4.

Bever, J. D., K. Westover, and J. Antonovics. 1997. Incorporating the soil community into plant population dynamics: The utility of the feedback approach. Journal of Ecology. 85: 561-573.

Bever, J. D., K. M. Westover, and J. Antonovics. 1998. The role of soil community in plant population dynamics: is allelopathy effects a key component? (A reply to Pellissier). Trends in Ecology and Evolution. 13: 407-408.

Chaudhary, V. Bala, Lawrence L. Walters, James D. Bever, Jason D. Hoeksema, Gail Wilson. 2010. Advancing synthetic ecology: a data management technique to facilitate complex ecological meta-analyses. Bulletin of the Ecological Society of America. April. 235-243.

Cheeke, T.E., H. Darby, T.N. Rosenstiel, J.D. Bever, and M.B. Cruzan. 2014. Effect of Baccilus thuringiensis (Bt) maize cultivation history on arbuscular mycorrhizal fungal colonization, spore abundance and diversity, and plant growth. Agriculture, Ecosystems, and Environment. 195:29-35.

Cheeke et al. 2015. Spatial soil heterogeneity has a greater effect on symbiotic arbuscular mycorrhizal fungal communities and plant growth than genetic modification with Bacillus thuringiensis toxin genes. Molecular Ecology. 24: 2580-2593.

Duchicela, J., T.S. Sullivan, E. Bontti, and J.D. Bever. 2013. Soil aggregate stability increase is strongly related to fungal community succession along an abandoned agricultaul field chronosequence in the Bolivan Altiplano. Journal of Applied Ecology. 50: 1266-1273.

Eppstein, M. J., J. D. Bever and J. Molofsky. 2006. Spatio-temporal community dynamics induced by frequency dependent interactions. Ecological Modeling. 197: 133-147.

Felber, F. and J. D. Bever. 1997. Effect of triploid fitness on the coexistence of diploids and tetraploids. Biological Journal of the Linnean Society. 60: 95-106.

Goodrich-Blair, H, J-M Ané, JD Bever, S Bordenstein, M Bright, JM Chaston, K Clay, CR Currie, AE Douglas, N Gerardo, MJ Harrison, RE Ley, M McFall-Ngai, A Mukherjee, B Rader, KF Raffa, EG Ruby, MB Saffo, MA Selosse, JL Sonnenburg, SP Stock, G Suen, K Turnau, M Udvardi, KL Visick, VM Weis. 2010. Symbiosis research, technology, and education: Proceedings of the 6th International Symbiosis Society Congress held in Madison Wisconsin, USA, August 2009. Symbiosis. 51: 1–12.

Hoeksema, J. D. V. B. Chaudhary, C. A. Gehring, N. C. Johnson, J. Karst, R. T. Koide, A. Pringle, C. Zabinski, J. D. Bever, J. C. Moore, G. W. T. Wilson, J. N. Klironomos, Integrative Biology, J. Umbanhowar. 2010. Context-dependency in plant response to mycorrhizal fungi: A meta-analysis. Ecology Letters. 13: 394–407

Johnson, NC, JD Hoeksema, JD Bever, VB Chaudhary, C Gehring, J Klironomos, R Koide, RM Miller, J Moore, P Moutoglis, M Schwartz, S Simard, W Swenson, J Umbanhowar, G Wilson, and C Zabinski. 2006. From Lilliput to Brobdingnag: Extending models of mycorrhizal function across scales. BioScience. 56: 889-900.

Ji, B. and J.D. Bever. 2012. Mycorrhizal Ecology. Ecology. Oxford Bibliographies.

Kaonongbua, W., J. B. Morton and J. D. Bever. 2010. Taxonomic revision of arbuscular mycorrhizal fungi genus Acaulospora Gerd. &Trappe to include Klukospora and a description of Acaulospora colliculosa sp. nov. from field collected materials. Mycollogia. Submitted.

Kozoil, L. and J.D. Bever. 2015. Mycorrhizal response trades off with plant growth rate and increases with plant successional status. Ecology. 96:1768-1774.

Kozoil, L. and J.D. Bever. 2015. Mycorrhizal response trades off with plant growth rate and increases with plant successional status. Ecological Archives. E096-158-A1.

Larimer, A, James D. Bever and Keith Clay. 2010. Meta-analysis of the interactive effects of plant microbial symbionts. Symbiosis. 51: 139-148.

Larimer, A., K. Clay, and J.D. Bever. 2014. Synergism and context dependency of interactions between arbuscular mycorrhizal fungi and rhizobia with a praire legume. Ecology. 95: 1045-1054.

Mack, K.M.L. and J.D. Bever. 2014. Coexistence and relative abundance in plant communities are determined by feedbacks when the scale of feedback and dispersal is local. Journal of Ecology. 102: 1195-1201.

Mangan, SA, EA Herre and JD Bever. 2010. Specificity between Neotropical tree seedlings and their fungal mutualists: Evidence for AMF-mediated plant-soil feedback. Ecology. 91: 2594–2603.

Mangan S. A., Schnitzer S. A., Herre E. A., Mack, K., Valencia, M., Sanchez, E., and Bever, J. D. 2010. Negative plant-soil feedback predicts tree-species relative abundance in a tropical forest. Nature. 466, 752-755. And Supplementary Material

Middleton, E., J. D. Bever and P. A. Schultz. 2010. The effect restoration methods on the quality of the restoration and resistance to invasion by exotics. Restoration Ecology. 18: 181–187

Miller, R. M., C. I. Smith, J. D. Jastrow, and J. D. Bever. 1999. Mycorrhizal status of the genus Carex (Cyperaceae). American Journal of Botany. 86: 547-553.

Miller, S. P. and J. D. Bever. 1999. Distribution of arbuscular mycorrhizal fungi in stands of the wetland grass Panicum hemitomon along a wide hydrologic gradient. Oecologia. 119: 586-592.

Mills, K. and J. D. Bever. 1998. Maintenance of diversity within plant communities: Soil pathogens as agents of negative feedback. Ecology. 70: 1595-1601.

Mitchell, C. E. A. A. Agrawal, J. D. Bever, G. S. Gilbert, R. A. Hufbauer, J. N. Klironomos, J. L.

Maron, W. F. Morris, I. M. Parker, A. G. Power, E. W. Seabloom, M. E. Torchin, D. P. Vázquez. 2006. Biotic interactions and plant invasions. Ecology Letters. 9: 726-740.

Molofsky, J. and J. D. Bever. 2002. A novel theory to explain species diversity in landscapes: positive frequency dependence and habitat suitability. Proceedings of the Royal Society of London. 269: 2389-2393.

Molofsky, J. and J. D. Bever. 2004. A new kind of ecology? Bioscience. 54: 440-446.

Molofsky, J., J. D. Bever and J. Antonovics. 2001. Coexistence under positive frequency dependence. Proceedings of the Royal Society of London. B. 268: 273-277.

Molofsky, J., J. D. Bever, J. Antonovics and T.J. Newman. 2002. Negative frequency-dependence and the importance of spatial scale. Ecology. 83: 21-27.

Morris, W. F., R. A. Hufbauer, A. A. Agrawal, J. D. Bever, V. A. Borowicz, G. S. Gilbert, J. L.

Maron, C. E. Mitchell, I. M. Parker, A. G. Power, M. E. Torchin and D. P. Vázquez. 2007. Direct and interactive effects of enemies and mutualists on plant performance: A meta-analysis. Ecology. 88: 1021–1029.

Morton, J. B., J. D. Bever, and F. L. Pfleger. 1997. Taxonomy of Acaulospora gerdemannii and Glomus leptotichum, synanamorphs of an arbuscular mycorrhizal fungus in Glomales. Mycological Research. 101: 625-631.

Morton, J. B., S. P. Bentivenga, and J. D. Bever. 1995. Discovery, measurement, and interpretation of diversity in arbuscular endomycorrhizal fungi. Canadian Journal of Botany. 73: S25-S32.

Morton, E.R., P.M. Merritt, J.D. Bever, and C. Fuqua. 2013. Large deletions in the pAtC58 megaplasmid of Agrobacterium tumefaciens can confer reduced carriage cost and increased expression of virulence genes. Genome Biol. Ecol. 5(7): 1353-1364.

Morton, E.R. T.G. Platt, C. Fuqua, and J.D. Bever. 2014. Non-additive costs and interactions alter the competitive dynamics of co-occurring ecologically distinct plasmids. Proc. R. Soc. B281.

Platt, T. G. and J. D. Bever. 2009. Kin competition and kin cooperation. Trends in Ecology and Evolution. 24: 370-377.

Platt, T.G., J.D. Bever, and C. Fuqua. 2012. A cooperative virulence plasmid imposes a high fitness cost under conditions that induce pathogenesis. Proc. R. Soc. B. 179:1691-1699.

Platt, T.G., E. R. Morton, I.S. Barton, J.D. Bever, and C. Fuqua. 2014. Ecological dynamics and complex interactions of Agrobacterium megaplasmids. Frontiers in Plant Science. 6, 635: 1-15.

Price, JS, J. D. Bever and K Clay. 2004. Genotype, environment, and genotype by environment interactions determine quantitative resistance to leaf rust (Coleosporium asterum) in Euthamia graminiolia (Asteraceae). New Phytologist. 162: 729-743.

Pringle A. and J. D. Bever. 2002. Divergent phenologies may facilitate the coexistence of arbuscular mycorrhizal fungi in a North Carolina grassland. American Journal of Botany. 89: 1439-1446.

Pringle A. and J. D. Bever. 2008. Analogous effects of arbuscular mycorrhizal fungi in the laboratory and a North Carolina field. New Phytologist. 180: 162–175.

Pringle, Anne, James D. Bever, Monique Gardes, Jeri L. Parrent, Matthias C. Rillig, and John N. Klironomos. 2009. Mycorrhizal symbioses and plant invasions. Annual Review of Ecology and Systematics. 40:699–715.

Poisot, T., J.D. Bever, P.H. Thrall, and M.E. Hochberg. 2014. Dispersal and spatial heterogeneity allow coexistence between enemies and protective mutualists. Ecology and Evolution. 3841-3850.

Reynolds H L, K M Vogelsang, A E Hartley, J D Bever, and P A Schultz. 2005. Variable responses of old-field perennials to arbuscular mycorrhizal fungi and phosphorus source. Oecologia. 167: 141–152.

Reynolds, H. L., A. E. Hartley, K. M. Vogelsang, J. D. Bever and P. A. Schultz. 2005. Arbuscular mycorrhizal fungi do not enhance nitrogen acquisition and growth of old-field perennials under low nitrogen supply in greenhouse culture. New Phytologist. 167:869-880.

Reynolds, H., A. Packer, J.D. Bever and K. Clay. 2003. Grassroots ecology: Plant-microbe-soil interactions as drivers of plant community structure and dynamics. Ecology. 84: 2281-2291.

Ronsheim, M. and J. D. Bever. 2000. Genetic variation and evolutionary trade-offs for sexual and asexual reproductive modes in Allium vineale (Liliaceae). American Journal of Botany. 87: 1769-1777.

Schultz, P. A., R. A. Miller, J. D. Jastrow, C. V. Rivetta and J. D. Bever. 2001. Evidence of a Mycorrhizal Mechanism for the Adaptation of Andropogon gerardii to High- and Low-Nutrient Prairies. American Journal of Botany. 88: 1650-1656.

Schultz, P., J. D. Bever, and J. Morton. 1999. Acaulospora colossa sp. nov. from an old field in North Carolina and morphological comparisons with similar species, A. laevis and A. koskei. Mycologia. 91: 676–683.

Seifert, E.K., J.D. Bever and J. M Maron. 2009. Evidence for evolution of reduced mycorrhizal dependence during plant invasion. Ecology. 90: 1055–1062.

Simms, E. L. and J. D. Bever. 1998. Evolutionary dynamics of rhizopine within spatially structured Rhizobium populations. Proceedings of the Royal Society of London. B. 265: 1713-1719.

Steideinger, B.S. and J.D. bever. 2014. The coexistence of hosts with different abilities to discriminate against cheater partners: An evolutionary game-theory approach. The American Naturalist. 183: 761-770.

Subramanium, B. J. D. Bever, and P. A. Schultz. 2002. Global circulations: Nature, culture, and the possibility of sustainable development. In K. Saunders (Ed.): Feminist Post-Development Thought. Zed Books, London. Pp. 199-211.

Sylvia, D. M., W. Kaonongbua, and J. D. Bever. 2007. Isolation, Culture and Detection of Arbuscular Mycorrhizal Fungi. In: Hurst, Knudsen, and McInerney, editors. Manual of Environmental Microbiology. 3rd Edition. ASM Press, Washington. Pp. 627-637.

Taheri, W and JD Bever. 2010. Adaptation of plants and Arbuscular Mycorrhizal Fungi to coal tailings. Applied Soil Ecology. 45: 138-143.

Thrall, P. H., J. D. Bever, J. Mihail, and H. Alexander. 1997. The population dynamics of annual plants and soil-borne fungal pathogens. Journal of Ecology. 85: 313-328.

Thrall, PH, JD Bever, and JJ Burdon. 2010. Evolutionary change in agriculture: the past, present and future. Evolutionary Applications. 3: 405–408.

Thrall, P. H., J. J. Burdon and J. D. Bever. 2002. Local adaptation in the Linum marginale-Melampsora lini host-pathogen interaction. Evolution. 56: 1340-1351.

Thrall, P. H., M. E. Hochberg, J. J. Burdon and J. D. Bever. 2007. Coevolution of symbiotic mutualists and parasites in a community context. Trends in Ecology and Evolution. 22: 120-126.

Thrall, P.H., J. Antonovics, and J. D. Bever. 1997. Sexual transmission of disease and host mating systems: I. Within season reproductive success. The American Naturalist. 149: 485-506.

Thrall, P.H., J. D. Bever and J. F. Slattery. 2008. Rhizobial mediation of Acacia adaptation to soil salinity: Evidence of underlying trade-offs and tests of expected patterns. Journal of Ecology. 96: 746–755.

Van der Putten et al. 2013. Plant-soil feedbacks: the past, the present and future challenges. Journal of Ecology. 101: 265-276.

Vogelsang, K. M., H. L. Reynolds, and J. D. Bever. 2006. Mycorrhizal fungal identity and richness determine the diversity and productivity of the tallgrass prairie system. New Phytologist. 172: 554–562.

Vogelsang, KM and JD Bever. 2009. Mycorrhizal densities decline in association with non-native plants and contribute to plant invasion. Ecology. 90: 399-407.

Wade, MJ, DS Wilson State, C Goodnight, D Taylor, Y Bar-Yam, MAM de Aguiar, B Stacey, J Werfel, GA Hoelzer, ED Brodie III, P Fields, F Breden, TA Linksvayer, JA Fletcher, PJ Richerson, JD Bever, JD Van Dyken, P Zee. 2010. Multilevel and kin selection in a connected world. Nature. 463: E8-9.

Westover, K.M. and J. D. Bever. 2001. Mechanisms of plant species coexistence: roles of rhizosphere bacteria and root fungal pathogens. Ecology. 82: 3285-3294.

Zee, P.C. and J.D. Bever. 2014. Joint evolution of kin recognition and cooperation in spatially structure rhizobium populations. Plos One. Vol. 9, 4: 1-8.

Zheng, C., B. Ji, J. Zhang, F. Zhang, and J. D. Bever. Shading decreases plant carbon preferential allocation towards the most beneficial mycorrhizal mutualist. New Phytologist. 205: 361-368.

Book Chapters

Bever, J. D., A. Pringle and P. Schultz.  2002. Dynamics within the Plant—Arbuscular Mycorrhizal Fungal Mutualism:  Testing the Nature of Community Feedback.  In Mycorrhizal Ecology, ed. by MGA. van der Heijden and IR. Sanders.   Springer-verlag, Berlin.  Pp. 267-294.

Bever, J. D.  2002.  Host-specificity of AM fungal population growth rates can generate negative feedback on plant growth. In Diversity and Integration in Mycorrhizas, Ed. By SE Smith and FA Smith.  Kluwer Academic Publishers. Pp 281-290.  

Subramanium, B. J. D. Bever, and P. A. Schultz.  2002.  Global circulations:  Nature, culture, and the possibility of sustainable development.  In K. Saunders (Ed.):  Feminist Post-Development Thought.  Zed Books, London.  Pp. 199-211.

Bever, J. D.  and P. A. Schultz.  2005.  Mechanisms of arbuscular mycorrhizal mediation of plant-plant interactions.  In: The Fungal Community.  4th Ed.  J. Dighton and P. Oudemans, Eds.  Taylor and Francis, Boca Raton.   Pp.  443-459.  

Sylvia, D. M., W. Kaonongbua, and J. D. Bever.  2007.  Isolation, Culture and Detection of Arbuscular Mycorrhizal Fungi.  In: Hurst, Knudsen, and McInerney, editors. Manual of Environmental Microbiology. 3rd Edition.  ASM Press, Washington.  Pp. 627-637.

Bever, J. D, H. Kang, W. Kaonongbua, and M. Wang.  2008.  Genomic Organization and Mechanisms of Inheritance in Arbuscular Mycorrhizal Fungi: Contrasting the Evidence and Implications of Current Theories.  In: Mycorrhiza, 3rd Edition. (Ajit Varma, Ed.).  Springer-Verlag, Berlin.  135-148.

Platt, Thomas G,  Peter C. Zee, Keenan M. L. Mack, James D. Bever.  2012.  Microbial Communities.  In Sourcebook in Theoretical Ecology (Alan Hastings and Louis Gross, Ed.).  University of California Press, Berkeley.  Pp. 445-450.  

Ji, Baoming and J. D. Bever.  2012.  Mycorrhizal Ecology. In: Oxford Bibliographies in Ecology. David Gibson, Ed.  Oxford University Press.  May 5, 2012. DOI: 10.1093/OBO/9780199830060-0014

Angelard, C and J. D. Bever.  2013.  The Genetics of Symbionts.  In: Brenner’s Encyclopedia of Genetics, 2nd Edition.  S. Maloy and K. Hughes, Eds.  Pages 595-597.