cover of special issue-1

Cooperation and Coexpression: How coexpression networks shift in response to multiple mutualists. Special Issue on “The Host-Associated Microbiome: Pattern, Process, and Function” (Molecular Ecology 2018)


Cheaters must prosper: Reconciling theoretical and empirical perspectives on cheating in mutualism. (Ecology Letters, 2015)

S. Palakurty*, J.R. Stinchcombe , & M.E. Afkhami. (2018) Cooperation and Coexpression: How coexpression networks shift in response to multiple mutualists. Molecular Ecology. Special Issue on “The Host-Associated Microbiome: Pattern, Process, and Function” 27:1860-1873 *indicates undergraduate mentee 

David, A.S.*, K.B. Thapa Magar*, & M.E. Afkhami (2018) Microbial Mitigation-Exacerbation Continuum: A novel framework for microbiome effects on hosts in the face of stress. Ecology. 99:517-523 doi: 10.1002/ecy.2153          * indicate equal authorship of postdoc and postbac mentees

Afkhami, M.E., D.L. Mahler, J.H. Burns, M.G. Weber, M.F., Wojciechowski, J. Sprent & S.Y. Strauss. (2018) Symbioses with nitrogen-fixing bacteria: Nodulation and phylogenetic data across legume genera. Ecology.  99:502. doi:10.1002/ecy.2110.

Batstone, R. T.*,  K. A. Carscadden*, M. E. Afkhami, & M. E. Frederickson. (2018) Using niche breadth theory to explain generalization in mutualisms.  Ecology. 99: 1039-1050.                          * indicate equal graduate student coauthors

Hernandez, D.*, K. Kiesewetter*, S. Palakurty**, J. Stinchcombe, and M.E. Afkhami. (2018) Synergism and symbiosis: Unpacking complex species interactions using transcriptomic approaches. in The Model Legume Medicago truncatula. Ed. F.J. de Bruijn. Wiley Publishers. (Accepted)         * indicates graduate and **undergraduate mentees

Afkhami, M.E. & J.R. Stinchcombe. (2016) Multiple Mutualist Effects on genome-wide expression in the tripartite association between Medicago truncatula, nitrogen-fixing bacteria, and mycorrhizal fungi. Molecular Ecology. 25: 4946-4962.

**To see a nice article on our paper click here.

Afkhami, M.E. & S.Y. Strauss. (2016) Native fungal endophytes suppress an exotic dominant and increase plant diversity over small and large spatial scales. Ecology97: 1159-1169.

E.I. Jones, M.E. Afkhami, E. Akcay, J.L. Bronstein, R. Bshary, M.E. Frederickson, K.D. Heath, J. Hoeksema, J. Ness, S. Pankey, S.S. Porter, J.L. Sachs, K. Scharnagl, & M.L. Friesen. (2015) Cheaters must prosper: Reconciling theoretical and empirical perspectives on cheating in mutualism. Ecology Letters. 18:1270–1284

Afkhami, M.E., P.J. McIntyre, & S.Y. Strauss. (2014) Mutualist-mediated effects on species’ range limits across large geographic scales. Ecology Letters. 17: 1265-1273.

** Recommended by F1000.         ** To see this great article on our paper click here.

Charlton, N.D., K.D. Craven, M.E. Afkhami, B.A. Hall*, S.R. Ghimire, & C.A. Young. (2014) Interspecific hybridization and bioactive alkaloid variation increases diversity in endophytic Epichloë species of Bromus laevipes. FEMS Microbiology Ecology. 90: 276-289.

Afkhami, M.E., J.A. Rudgers, & J.J. Stachowicz. (2014) Multiple Mutualist Effects: Conflict and synergy in multispecies mutualisms. Ecology. 95: 833-844.

Gorischek, A.M.*, M.E. Afkhami, E.K. Seifert, & J.A. Rudgers. (2013) Fungal symbionts as manipulators of reproductive biology. The American Naturalist. 181: 562-570.    **Covered by Science News: Pennisi, E. (March 2013) Fungus get off my lawn.

Afkhami, M. E. (2012) Fungal endophyte-grass symbioses are rare in the California floristic province and other regions with Mediterranean-influenced climates. Fungal Ecology special issue. 5: 345-352.

Afkhami, M. E. & J. A Rudgers. (2009) Endophyte-mediated resistance to herbivores depends on herbivore identity in the wild grass, Festuca subverticillata. Environmental Entomology. 38: 1086-1095.

Rudgers, J.A., M. E. Afkhami, M. A. Rúa, A. J. Davitt, S. Hammer, & V. M. Huguet. (2009) A fungus among us: broad patterns of endophyte distribution in the grasses. Ecology. 90(6): 1531-1539.

Afkhami, M. E. & J. A. Rudgers. (2008) Symbiosis Lost: Imperfect vertical transmission of fungal endophytes in grasses. The American Naturalist. 172(3): 405-416.

Afkhami, M. E. & J. E. Strassmann. (2007) Adult Yellow-crowned Night-herons face in opposite directions at the nest. The Wilson Journal of Ornithology. 119(4):747–749.



David, A.S.* P. Quintana-Ascencio, E. Menges, K. Thapa-Magar, M.E.A. Afkhami**, C.A.S. Searcy**. (Submitted) Living in a microbial world: Endangered plant requires soil microbiome for population persistence. Nature Ecology & Evolution.          *postdoc mentee   ** indicates co-senior authors

Garoutte A.*, M.E. Afkhami*, K. Childs, J.R. Stinchcombe, & M. Friesen. (In Review) Moving GWAS forward: Methodological considerations for using incomplete data in diverse natural populations. PlosOne.        *indicated co-first authors

Zanne, A.E., K. Abarenkov, M.E. Afkhami, et al. (In Review) Fungal functional ecology: Bringing a trait-based approach to plant-associated fungi. Ecology Letters.



David, A.S.*, S.Y. Strauss, C.A. Searcy, & M.E. Afkhami (In Prep) Mutualist-driven population persistence overwhelmed by herbivore pressure. American Naturalist.      *postdoc mentee   ** indicates co-senior authors

Afkhami, M.E., M. Friesen & J.R. Stinchcombe. (In Prep) Party Crashers? Third-party mutualist required for fitness alignment of legume-rhizobia mutualism. Evolution.

Carscadden, K.A., M.E. Afkhami, C.A. Arnillas, M.W. Cadotte, N.C. Emery, D. Gravel, S.W. Livingstone, & J.J. Wiens. (Revising for resubmission) Broadening the horizons of niche breadth research.

For citation statistics, see google scholar.


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