List of Publications:

2023 |2022 | 2021 | 2020 | 2019 | 201820172016 | 2015 | 2014 | 2013 | 2012 | 2011 | 2010 | 2009 | 2008 | 2007 | 2006 | 2005 | 2004 | 2003 | 2002 | 2001 | 2000 |

For citation statistics and metrics, see: Google Scholar or ORCID, though that doesn’t seem to have everything. In general, Google scholar will have our most up-to-date publications, including pre-prints.

PubMed Search all years

bioRxiv search here | Pre-prints & Conferences Presentations


Eserman, L. A., M. T. Buril, L. W. Chatrou, K. Clay, T. E. Desquilbet, P. P. A. Ferreira, J. R. Grande Allende, G. Huerta-Ramos, R. K. Kojima, R. E. Miller, S. More, A. L. C. Moreira, M. Pastore, F. S. Petrongari, P. Pisuttimarn, P. Pornpongrungrueng, J. Rifkin, V. B. Shimpale, M. S. M. Sosef, J. R. Stinchcombe, and A. R. G. Simões. 2023. Towards a collaborative approach to the systematics of Ipomoea: A response to the “Rebuttal to (2786) Proposal to change the conserved type of Ipomoea, nom. cons. (Convolvulaceae).” Taxon In press. [pdf]

Henry, G. A., and J. R. Stinchcombe. 2023. Strong selection is poorly aligned with genetic variation in Ipomoea hederacea: implications for divergence and constraint. Evolution 77:1712–1719. [pdf]

For a commentary, see Cai and Des Marais (2023)’s Evolution digest, here.

Parshuram, Z. A., T. L. Harrison, A. K. Simonsen, J. R. Stinchcombe, and M. E. Frederickson. 2023. Nonsymbiotic legumes are more invasive, but only if polyploid. New Phytol. 237:758–765. [pdf]

Henry, G. A., and J. R. Stinchcombe. 2023. G-matrix stability in clinally diverging populations of an annual weed. Evolution 77:49–62. [pdf]


Kreiner, J. M., S. M. Latorre, H. A. Burbano, J. R. Stinchcombe, S. P. Otto, D. Weigel, and S. I. Wright. 2022. Rapid weed adaptation and range expansion in response to agriculture over the past two centuries. Science 378:1079–1085. [pdf]

Parshuram, Z. A., T. L. Harrison, A. K. Simonsen, J. R. Stinchcombe, and M. E. Frederickson. 2022. Nonsymbiotic legumes are more invasive, but only if polyploid. New Phytol., 237: 758-765. doi: 10.1111/nph.18579. [pdf]

Gomulkiewicz, R., and J. R. Stinchcombe. 2022. Phenotypic plasticity made simple, but not too simple. Am. J. Bot. 109:1519–1524. [pdf]

Cornille, A., M. Tiret, A. Salcedo, H. R. Huang, M. Orsucci, P. Milesi, D. Kryvokhyzha, K. Holm, X. J. Ge, J. R. Stinchcombe, S. Glémin, S. I. Wright, and M. Lascoux. n.d. The relative role of plasticity and demographic history in Capsella bursa-pastoris: a common garden experiment in Asia and Europe. AoB Plants, 14: 1-13.  doi: 10.1093/aobpla/plac011. [pdf]

Kreiner, J. M., G. Sandler, A. J. Stern, P. J. Tranel, D. Weigel, J. R. Stinchcombe, and S. I. Wright. 2022. Repeated origins, widespread gene flow, and allelic interactions of target-site herbicide resistance mutations. eLife 11: e70242. [pdf]


Horvath, R., E. B. Josephs, E. Pesquet, J. R. Stinchcombe, S. I. Wright, D. Scofield, and T. Slotte. 2021. Selection on Accessible Chromatin Regions in Capsella grandiflora. Mol. Biol. Evol. 38: 5563–5575.  [pdf]

Kreiner, J. M., P. J. Tranel, D. Weigel, J. R. Stinchcombe, and S. I. Wright. 2021. The genetic architecture and population genomic signatures of glyphosate resistance in Amaranthus tuberculatus. Mol. Ecol. 30: 5373–5389.  [pdf]

Afkhami, M. E., M. L. Friesen, and J. R. Stinchcombe. 2021. Multiple Mutualism Effects generate synergistic selection and strengthen fitness alignment in the interaction between legumes, rhizobia and mycorrhizal fungi. Ecol. Lett. 24: 1824–1834.  [pdf]

Boyle, J. A., A. K. Simonsen, M. E. Frederickson, and J. R. Stinchcombe. 2021. Priority effects alter interaction outcomes in a legume-rhizobium mutualism. Proc. Roy. Soc. B. 288: 20202753. [pdf]

Kreiner, J. M., A. Caballero, S. I. Wright, and J. R. Stinchcombe. 2022. Selective ancestral sorting and de novo evolution in the agricultural invasion of Amaranthus tuberculatus. Evolution 76: 70–85.  [pdf]

McGoey, B. V., and J. R. Stinchcombe. 2021. Introduced populations of ragweed show as much evolutionary potential as native populations. Evol. Appl. 14: 1436–1449. [pdf]

Back to top


Batstone R. T., M. A. E. Peters, A. K. Simonsen, J. R. Stinchcombe, and M. E. Frederickson. 2020. Environmental variation impacts trait expression and selection in the legume-rhizobium symbiosis. American Journal of Botany 107: 195-208. [pdf]

Eserman L. A., M. S. M. Sosef, R. Simão‐Bianchini, T. M. A. Utteridge, J. C. J. Barbosa, M. T. Buril, L. W. Chatrou, K. Clay, G. Delgado, and T. E. Desquilbet. 2020. (2786) Proposal to change the conserved type of Ipomoea, nom. cons.(Convolvulaceae). Taxon 69: 1369-1371. [pdf]

Gupta S., D. M. Rosenthal, J. R. Stinchcombe, and R. S. Baucom. 2020. The remarkable morphological diversity of leaf shape in sweet potato (Ipomoea batatas): the influence of genetics, environment, and G×E. New Phytologist 225: 2183-2195. [pdf]

Josephs E. B., Y. W. Lee, C. W. Wood, D. J. Schoen, S. I. Wright, and J. R. Stinchcombe. 2020. The evolutionary forces shaping cis and trans regulation of gene expression within a population of outcrossing plants. Molecular Biology and Evolution 37: 2386-2393. [pdf]

McGoey B. V., K. A. Hodgins, and J. R. Stinchcombe. 2020. Parallel flowering time clines in native and introduced ragweed populations are likely due to adaptation. Ecology and Evolution 10: 4595-4608. [pdf]

Vaidya P., and J. R. Stinchcombe. 2020. The potential for genotype-by-environment interactions to maintain genetic variation in a model Legume–Rhizobia mutualism. Plant Communications 1: 100114. [pdf]

Yuan M., and J. R. Stinchcombe. 2020. Population genomics of parallel adaptation. Molecular Ecology 29: 4033-4036. [pdf]

Back to top


Chong V. K., and J. R. Stinchcombe. 2019. Evaluating Population Genomic Candidate Genes Underlying Flowering Time in Arabidopsis thaliana Using T-DNA Insertion Lines. Journal of Heredity 110:445-454. [pdf]

Hernandez D., K. N. Kiesewetter, S. Palakurty, J. R. Stinchcombe, and M. E. Afkhami. 2019. Synergism and symbioses: unpacking complex mutualistic species interactions using transcriptomic approaches. Pp. 1045-1054 in The Model Legume Medicago truncatula. John Wiley & Sons, Inc, Hoboken, NJ, USA. [pdf]

Kreiner J. M., D. A. Giacomini, F. Bemm, B. Waithaka, J. Regalado, C. Lanz, J. Hildebrandt, P. H. Sikkema, P. J. Tranel, D. Weigel, J. R. Stinchcombe, and S. I. Wright. 2019. Multiple modes of convergent adaptation in the spread of glyphosate-resistant Amaranthus tuberculatus. Proceedings of the National Academy of Sciences – PNAS 116:21076-21084. [pdf]

Kryvokhyzha D., A. Salcedo, M. C. Eriksson, T. Duan, N. Tawari, J. Chen, M. Guerrina, J. M. Kreiner, T. V. Kent, U. Lagercrantz, J. R. Stinchcombe, S. Glémin, S. I. Wright, and M. Lascoux. 2019. Parental legacy, demography, and admixture influenced the evolution of the two subgenomes of the tetraploid Capsella bursa-pastoris (Brassicaceae). PLoS Genetics 15:e1007949. [pdf]

One Thousand Plant Transcriptomes Initiative. 2019. One thousand plant transcriptomes and the phylogenomics of green plants. Nature 574:679–685. [pdf]

Samis K. E., J. R. Stinchcombe, and C. J. Murren. 2019. Population climatic history predicts phenotypic responses in novel environments for Arabidopsis thaliana in North America. American Journal of botany 106:1068-1080. [pdf]

Uzunović J., E. B. Josephs, J. R. Stinchcombe, and S. I. Wright. 2019. Transposable Elements Are Important Contributors to Standing Variation in Gene Expression in Capsella Grandiflora. Molecular Biology and evolution 36:1734-1745. [pdf]

Wood C. W., and J. R. Stinchcombe. 2019. A window into the transcriptomic basis of genotype-by-genotype interactions in the legume-rhizobia mutualism (vol 26, pg 5869, 2017). Molecular Ecology 28: 3285. [pdf]

Back to top


Chong, V.K., H.F. Fung, and J.R. Stinchcombe. 2018. A note on measuring selection on principal component scores. Evolution Letters 2: 272-280. [pdf]

Harrison, T.L., A.K. Simonsen, J.R. Stinchcombe, and M.E. Frederickson. 2018. More partners, more ranges: generalist legumes spread more easily around the globe. Biology Letters 14: 20180616. [pdf]

Kreiner, J.M., J.R. Stinchcombe, and S.I. Wright. 2018. Population genomics of herbicide resistance: adaptation via evolutionary rescue. Annual Review of Plant Biology 69: 611-635. [pdf]

Palakurty, S.X., J.R. Stinchcombe, and M.E. Afkhami. 2018. Cooperation and coexpression: How coexpression networks shift in response to multiple mutualists. Molecular Ecology 27: 1860-1873. [pdf]

Wood, C.W., B.L. Pilkington, P. Vaidya, C. Biel, and J.R. Stinchcombe. Genetic conflict with a parasitic nematode disrupts the legume-rhizobia mutualism. Evolution Letters 2: 233-245. [pdf]

Back to top


Austen, E.J., L. Rowe, J.R. Stinchcombe, and J.R.K. Forrest. 2017. Explaining the apparent paradox of persistent selection for early flowering. New Phytologist 215: 929-934. [pdf]

Gould, B.A. and J.R. Stinchcombe. 2017. Population genomic scans suggest novel genes underlie convergent flowering time evolution in the introduced range of Arabidopsis thaliana.  Molecular Ecology 26: 92-106. [pdf]

Harrison, T.L., C.W. Wood, K.D. Heath, and J.R. Stinchcombe. 2017. Geographically structured genetic variation in the Medicago lupulina – Ensifer mutualism. Evolution 71: 1787-1801. [pdf]

Harrison, T.L., C.W. Wood, I.L. Borges, and J.R. Stinchcombe. 2017. No evidence for local adaptation to local rhizobial mutualists in the legume Medicago lupulina. Ecology and Evolution 7: 4367-4376 [pdf]

Josephs, E.B., J.R. Stinchcombe, and S.I. Wright. 2017. What can genome-wide association studies tell us about the evolutionary forces maintaining genetic variation for quantitative traits?  New Phytologist 214: 21-33[pdf]

Josephs, E.B., S.I. Wright, J.R. Stinchcombe, and D.J. Schoen. 2017. The relationship between selection, network connectivity, and regulatory variation within a population of Capsella grandiflora. Genome Biology and Evolution 9: 1099-1109. [pdf]

McGoey, B.V., R. Janik, and J.R. Stinchcombe. 2017. Individual chambers for controlling crosses in wind pollinated plants. Methods in Ecology and Evolution 8:887-891[pdf]

Stinchcombe, J.R., J.L. Kelley, and J.K. Conner. 2017. How to measure natural selection. Methods in Ecology and Evolution 8: 660-662. [pdf]

Weinig, C. and J.R. Stinchcombe. 2017. Honorary lifetime membership award: Johanna Schmitt. American Naturalist 189: ii. [pdf].

Wood, C.W. and J.R. Stinchcombe. 2017. A window into the transcriptomic basis of genotype-by-genotype interactions in the legume-rhizobia mutualism. Molecular Ecology 26: 5869-5871. [pdf]

Back to top


Afkhami, M.E. and 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.[pdf]

Grillo, M.A., J.R. Stinchcombe, and K.D. Heath. 2016. Nitrogen addition does not influence pre-infection partner choice in the legume-rhizobium symbiosis. American Journal of Botany 103: 1763-1770. [pdf]

Sicard, A., C. Kappel, Y.W. Lee, N.J. Woźniaka, C. Marona, J.R. Stinchcombe, S.I. Wright, and M. Lenhard. Standing genetic variation in a tissue-specific enhancer underlies selfing-syndrome evolution in Capsella. PNAS 113: 13911-13916. [pdf]

Weiß, C.L., V.J. Schuenemann, J. Davos, G. Shirsekar, E. Reiter, B.A. Gould, J.R. Stinchcombe, J. Krause, and H.A. Burbano. Temporal patterns of damage and decay kinetics of DNA retrieved from plant herbarium specimens. Royal Society Open Science 3: 160239. [pdf]

Back to top


Huang, Y., J.R. Stinchcombe and A.F. Agrawal. 2015. Quantitative genetic variance in experimental fly populations evolving with or without environmental heterogeneity. Evolution 69, no. 10 (2015): 2735-2746. [pdf]

Josephs, E.B., Y.W. Lee, J.R. Stinchcombe and S.I. Wright.  2015. Association mapping reveals the role of purifying selection in the maintenance of genomic variation in gene expression.  Proceedings of the National Academy of Sciences 112: 15390-15395.  [pdf]

Kingsolver, J.G., N. Heckman, J. Zhang, P.A. Carter, J.L Knies, J.R. Stinchcombe and K. Meyer. 2015. Genetic variation, simplicity, and evolutionary constraints for function-valued traits. American Naturalist. 185, No. 6 (June 2015), pp. E166-E181
[pdf] [On-line Supplementary Data]

Sicard, A., C. Kappel, E.B. Josephs, Y.W. Lee, C. Marona, J.R. Stinchcombe, S.I. Wright and M. Lenhard. 2015. Divergent sorting of a balanced ancestral polymorphism underlies the establishment of gene-flow barriers in CapsellaNature communications 6 (2015). [pdf]

Simonsen, A.K., S. Han, P. Rekret, C.S. Rentschler, K.D. Heath and J.R. Stinchcombe. 2015. Short-term fertilizer application alters phenotypic traits of symbiotic nitrogen fixing bacteria. PeerJ 3 (2015): e1291.  [pdf]

Stock, A.J., B.V. McGoey and J.R. Stinchcombe. 2015. Water availability as an agent of selection in introduced populations of Arabidopsis thaliana: impacts on flowering time evolution. PeerJ. 3: e898[pdf] [On-line Supplementary Data]

Back to top


Campitelli, B.E. and J.R. Stinchcombe. 2014. Population dynamics and evolutionary history of the weedy vine Ipomoea hederacea in North America. G3: Genes, Genomes, Genetics 4: 1407-1416 . doi:10.1534/g3.114.011700
[pdf] [On-line Supplementary Data]

Heath, K.D. and J.R. Stinchcombe. 2014. Explaining mutualism variation: A new evolutionary paradox? Evolution 68: 309-317. DOI: 10.1111/evo.12292

Lee, Y.W., B.A. Gould, and J.R. Stinchcombe. 2014. Identifying the genes underlying quantitative traits: A rationale for the QTN programme. AoB Plants 6: plu004 . DOI:10.1093/aobpla/plu004

Sicard, A., A. Thamm, C. Marona, Y.W. Lee, V. Wahl, J.R. Stinchcombe, S.I. Wright, C. Kappel, and M. Lenhard. 2014. Repeated evolutionary changes of leaf morphology caused by mutations to a homebox gene. Current Biology 24: 1880-1886.
[pdf] [On-line Supplementary Data]

Simonsen, A.K. and J.R. Stinchcombe 2014a. Herbivory eliminates fitness costs of mutualism exploiters. New Phytologist 202: 651-661. DOI: 10.1111/nph.12668
[pdf] [On-line Supplementary Data]

Simonsen, A.K. and J.R. Stinchcombe. 2014b. Standing genetic variation in host preference for mutualist microbial symbionts. Proc Roy Soc B. 281: 20142036.
[pdf[On-line Supplementary Data]

Simonsen, A.K., T. Chow, and J.R. Stinchcombe. 2014. Reduced plant competition amongst kin can be explained by Jensen’s inequality. Ecology and Evolution. 4: 4454-4466.
[pdf[On-line Supplementary Data]

Stinchcombe, J.R. 2014. Cross-pollination of plants and animals: wild quantitative genetics and plant evolutionary genetics. Pages 128- 146, in A. Charmantier, D. Garant, and L.E.B. Kruuk, eds., Quantitative Genetics in the Wild, Oxford University Press, Oxford, U.K.
[pdf][Purchase a copy of the book here]

Stinchcombe, J.R., Simonsen, A.K., and M.W. Blows. 2014. Estimating uncertainty in multivariate responses to selection. Evolution 68: 1188-1196. DOI: 10.1111/evo.12321
[pdf] [On-line Supplementary Data]

Stock, A.J., B.E. Campitelli and J.R. Stinchcombe. 2014. Quantitative genetic variance and multivariate clines in the Ivyleaf morning glory, Ipomoea hederacea. Phil. Trans. R. Soc. B 369: 20130259; doi:10.1098/rstb.2013.0259
[pdf] [On-line Supplementary Data]

Back to top


Campitelli B. E., and J. R. Stinchcombe. 2013a. Testing potential selective agents acting on leaf shape in I pomoea hederacea: predictions based on an adaptive leaf shape cline. Ecology and Evolution 3:2409-2423. [pdf] [On-Line Supporting Information] [Data on Dryad]

Campitelli B. E., and J. R. Stinchcombe. 2013b. Natural selection maintains a single‐locus leaf shape cline in Ivyleaf morning glory, I pomoea hederacea. Molecular ecology 22:552-564. [pdf]

Campitelli B. E., A. J. Gorton, K. L. Ostevik, and J. R. Stinchcombe. 2013. The effect of leaf shape on the thermoregulation and frost tolerance of an annual vine, Ipomoea hederacea (Convolvulaceae). American journal of botany 100:2175-2182. [pdf] [On-line Supplementary Data]

Gaydos T. L., N. E. Heckman, M. Kirkpatrick, J. R. Stinchcombe, J. Schmitt, J. Kingsolver, and J. S. Marron. 2013. Visualizing genetic constraints. The Annals of Applied Statistics :860-882. [pdf]

Haudry A., A. E. Platts, E. Vello, D. R. Hoen, M. Leclercq, R. J. Williamson, E. Forczek, Z. Joly-Lopez, J. G. Steffen, and K. M. Hazzouri. 2013. An atlas of over 90,000 conserved noncoding sequences provides insight into crucifer regulatory regions. Nature genetics 45:891-898. [pdf] [On-Line Supporting Information]

Wyman M. J., J. R. Stinchcombe, and L. Rowe. 2013. A multivariate view of the evolution of sexual dimorphism. Journal of Evolutionary Biology 26:2070-2080. [pdf]

Back to top


Gorton A. J., K. D. Heath, M. Pilet-Nayel, A. Baranger, and J. R. Stinchcombe. 2012. Mapping the genetic basis of symbiotic variation in legume-rhizobium interactions in Medicago truncatula. G3: Genes| Genomes| Genetics 2:1291-1303. [pdf] [On-Line Supporting Information]

Heath K. D., P. V. Burke, and J. R. Stinchcombe. 2012. Coevolutionary genetic variation in the legume‐rhizobium transcriptome. Molecular ecology 21:4735-4747. [pdf] [On-Line Supporting Information] [Perspective by Simms & Porter]

Samis K. E., C. J. Murren, O. Bossdorf, K. Donohue, C. B. Fenster, R. L. Malmberg, M. D. Purugganan, and J. R. Stinchcombe. 2012. Longitudinal trends in climate drive flowering time clines in North American Arabidopsis thaliana. Ecology and Evolution 2:1162-1180. [pdf] [On-Line Supporting Information]

Stinchcombe J. R., M. Kirkpatrick, and F. T. W. Group. 2012. Genetics and evolution of function-valued traits: understanding environmentally responsive phenotypes. Trends in Ecology & Evolution 27:637-647. [pdf]

Von Wettberg, Eric J B, J. R. Stinchcombe, and J. Schmitt. 2012. Early developmental responses to seedling environment modulate later plasticity to light spectral quality. PloS one 7:e34121. [pdf]

Back to top


Baucom, R.S., S-M. Chang, J.M. Kniskern, M.D. Rausher, and J. R. Stinchcombe. 2011. Morning glory as a powerful model in ecological genomics: tracing adaptation through both natural and artificial selection. Heredity 107: 377-385 .

Back to top


Brock M. T., J. M. Dechaine, F. L. Iniguez-Luy, J. N. Maloof, J. R. Stinchcombe, and C. Weinig. 2010. Floral genetic architecture: an examination of QTL architecture underlying floral (co) variation across environments. Genetics 186:1451-1465. [pdf] [On-Line Supporting Information]

Heath K. D., A. J. Stock, and J. R. Stinchcombe. 2010. Mutualism variation in the nodulation response to nitrate. Journal of evolutionary biology 23:2494-2500. [pdf] [On-Line Supporting Information]

Simonsen A. K., and J. R. Stinchcombe. 2010. Quantifying evolutionary genetic constraints in the Ivyleaf morning glory, Ipomoea hederacea. International Journal of Plant Sciences 171:972-986. [pdf]

Simonsen A. K., H. van Tol, and J. R. Stinchcombe. 2010. The influence of rhizobia genotype on plant productivity in a sub population of legumes. Pittsburgh, USA: Ecological Society of America .

Stinchcombe J. R. 2010. Ecology and evolution on the banks of the St Lawrence. The New Phytologist 187:892-894. [pdf]

Stinchcombe, J.R., R. Izem, M.S. Heschel, B.V. McGoey, and J. Schmitt. 2010. Across-environment genetic correlations and the frequency of selective environments shape the evolutionary dynamics of growth rate in Impatiens capensis. Evolution 64: 2887-2903.
[pdf] [On-Line Supporting Information]

Back to top


Agrawal, A.F. and J.R. Stinchcombe. 2009. How much do genetic covariances alter the rate of adaptation? Proceedings of the Royal Society of London B 276: 1183-1191.
[pdf] [Supplemental Data]

Brock M. T., J. R. Stinchcombe, and C. Weinig. 2009. Indirect effects of FRIGIDA: floral trait (co) variances are altered by seasonally variable abiotic factors associated with flowering time. Journal of evolutionary biology 22:1826-1838. [pdf]

Johnson M. T. J., M. Vellend, and J. R. Stinchcombe. 2009. Evolution in plant populations as a driver of ecological changes in arthropod communities. Philosophical Transactions of the Royal Society B: Biological Sciences 364:1593-1605. [pdf] [Supplemental Data]

McGoey B. V., and J. R. Stinchcombe. 2009. Interspecific competition alters natural selection on shade avoidance phenotypes in Impatiens capensis. New Phytologist 183:880-891. [pdf]

Stinchcombe J. R., C. Weinig, K. D. Heath, M. T. Brock, and J. Schmitt. 2009. Polymorphic genes of major effect: consequences for variation, selection and evolution in Arabidopsis thaliana. Genetics 182:911-922. [pdf]

Back to top


Campitelli Stehlik I. Stinchcombe J.R., Brandon E. 2008. Leaf variegation is associated with reduced herbivore damage in Hydrophyllum virginianum. Botany 86:306-313. [pdf] [Supplemental Figure S1]

Campitelli B. E., A. K. Simonsen, A. Rico Wolf, J. S. Manson, and J. R. Stinchcombe. 2008. Leaf shape variation and herbivore consumption and performance: a case study with Ipomoea hederacea and three generalists. Arthropod-Plant Interactions 2:9-19. [pdf]

Hopkins R., J. Schmitt, and J. R. Stinchcombe. 2008. A latitudinal cline and response to vernalization in leaf angle and morphology in Arabidopsis thaliana (Brassicaceae). New Phytologist 179:155-164. [pdf]

McKay J. K., and J. R. Stinchcombe. 2008. Ecological genomics of model eukaryotes. Evolution 62:2953-2957. [pdf]

Samis K. E., K. D. Heath, and J. R. Stinchcombe. 2008. Discordant longitudinal clines in flowering time and phytochrome C in Arabidopsis thaliana. Evolution 62:2971-2983. [pdf] [Supplemental Data]

Stinchcombe J. R., A. F. Agrawal, P. A. Hohenlohe, S. J. Arnold, and M. W. Blows. 2008. Estimating nonlinear selection gradients using quadratic regression coefficients: double or nothing? Evolution 62:2435-2440. [pdf]

McKay, J.K. and J.R. Stinchcombe. 2008. Ecological genomics of model eukaryotes. Evolution 62: 2953-2957.

Back to top


Johnson M. T. J., and J. R. Stinchcombe. 2007. An emerging synthesis between community ecology and evolutionary biology. Trends in ecology & evolution 22:250-257. [pdf]

Korves T. M., K. J. Schmid, A. L. Caicedo, C. Mays, J. R. Stinchcombe, M. D. Purugganan, and J. Schmitt. 2007. Fitness effects associated with the major flowering time gene FRIGIDA in Arabidopsis thaliana in the field. The American Naturalist 169:E141-E157. [pdf]

Simonsen A. K., and J. R. Stinchcombe. 2007. Induced responses in Ipomoea hederacea: simulated mammalian herbivory induces resistance and susceptibility to insect herbivores. Arthropod-Plant Interactions 1:129-136. [pdf]

Stinchcombe J. R., and H. E. Hoekstra. 2007. Combining population genomics and quantitative genetics: finding the genes underlying ecologically important traits. Heredity 100:158-170.

Back to top


Stinchcombe, J.R. and J. Schmitt. 2006. Ecosystem engineers as selective agents: the effects of leaf litter on emergence time and early growth in Impatiens capensis. Ecology Letters 9: 258-270.

Back to top


Kelley, J.L., J.R. Stinchcombe, C. Weinig, and J. Schmitt. 2005. Hard and soft selection on plant defense traits in Arabidopsis thaliana. Evolutionary Ecology Research 7: 287-302 .

Stinchcombe, J.R., A.L. Caicedo, R. Hopkins, C. Mays, E.W. Boyd, M.D. Purugganan, and J. Schmitt. 2005. Vernalization sensitivity in Arabidopsis thaliana (Brassicaceae): the effects of latitude and FLC variation. American Journal of Botany 92: 1701-1707.
[pdf] [Supplemental Data] [Data on Dryad]

Stinchcombe, J.R. 2005. Measuring natural selection on proportional traits: comparisons of three types of selection estimates for resistance and susceptibility to herbivore damage. Evolutionary Ecology 18: 363-373.

Back to top



Agrawal A. A., N. Underwood, and J. R. Stinchcombe. 2004. Intraspecific variation in the strength of density dependence in aphid populations. Ecological Entomology 29:521-526. [pdf]

Agrawal A. A., J. K. Conner, and J. R. Stinchcombe. 2004. Evolution of plant resistance and tolerance to frost damage. Ecology Letters 7:1199-1208. [pdf]

Caicedo A. L., J. R. Stinchcombe, K. M. Olsen, J. Schmitt, and M. D. Purugganan. 2004. Epistatic interaction between Arabidopsis FRI and FLC flowering time genes generates a latitudinal cline in a life history trait. Proceedings of the National Academy of Sciences of the United States of America 101:15670. [pdf] [Supplemental Data]

Heschel M. S., J. Stinchcombe, K. Holsinger, and J. Schmitt. 2004. Natural selection on light response curve parameters in the herbaceous annual, Impatiens capensis. Oecologia 139:487-494. [pdf]

Jackson M. W., J. R. Stinchcombe, T. M. Korves, and J. Schmitt. 2004. Costs and benefits of cold tolerance in transgenic Arabidopsis thaliana. Molecular Ecology 13:3609-3615. [pdf]

Olsen K. M., S. S. Halldorsdottir, J. R. Stinchcombe, C. Weinig, J. Schmitt, and M. D. Purugganan. 2004. Linkage disequilibrium mapping of Arabidopsis CRY2 flowering time alleles. Genetics 167:1361-1369. [pdf] [Supplemental Data]

Stinchcombe J. R., L. A. Dorn, and J. Schmitt. 2004. Flowering time plasticity in Arabidopsis thaliana: a reanalysis of Westerman & Lawrence (1970). Journal of Evolutionary Biology 17:197-207. [pdf]

Stinchcombe J. R., C. Weinig, M. Ungerer, K. M. Olsen, C. Mays, S. S. Halldorsdottir, M. D. Purugganan, and J. Schmitt. 2004. A latitudinal cline in flowering time in Arabidopsis thaliana modulated by the flowering time gene FRIGIDA. Proceedings of the National Academy of Sciences of the United States of America 101:4712. [pdf] [Supplemental Data] [Supplemental Figure]

Back to top


Moyle, L.C., J.R. Stinchcombe, B.R. Hudgens, and W.F. Morris. 2003. Conservation genetics in the recovery of endangered animal species: a review of U.S. endangered species recovery plans (1977-1998). Animal Biodiversity and Conservation 26: 85-95.

Schmitt, J., J.R. Stinchcombe, M.S. Heschel, H. Huber. 2003. The adaptive evolution of plasticity: phytochrome-mediated shade avoidance responses. Integrative and Comparative Biology 43: 459-469.

Weinig, C., J.R. Stinchcombe, and J. Schmitt. 2003a. QTL architecture of resistance and tolerance traits in Arabidopsis thaliana in natural environments. Molecular Ecology 12: 1153-1163. [pdf]

Weinig, C.*, J.R. Stinchcombe*, and J. Schmitt. 2003b. Evolutionary genetics of resistance and tolerance to natural herbivory in Arabidopsis thaliana. Evolution 57: 1270-1280.
(*) Authors contributed equally to this paper.

Back to top


Morris, W.F., P.L. Bloch, B.R. Hudgens, L.C. Moyle, and J.R. Stinchcombe. 2002. The use of population viability analysis in endangered species recovery planning: past trends and recommendations for future improvement. Ecological Applications 12: 708-712.
[pdf] [Appendix A]

Stinchcombe, J.R., L.C. Moyle, B.R. Hudgens, P.L. Bloch, S. Chinnadurai, and W.F. Morris. 2002. The influence of the academic conservation biology literature on endangered species recovery planning. Conservation Ecology 6: 15. (Available on-line at:

Stinchcombe, J.R. 2002a. Can tolerance traits impose selection on herbivores? Evolutionary Ecology 16: 595-602. [pdf]

Stinchcombe, J.R. 2002b. Environmental dependency in the expression of costs of tolerance to deer herbivory. Evolution 56: 1063-1067. [pdf]

Stinchcombe, J.R. 2002c. Fitness consequences of cotyledon and mature-leaf damage in the Ivyleaf morning glory. Oecologia 131: 220-226. [pdf]

Stinchcombe, J.R. and M.D. Rausher. 2002. Evolution of tolerance to deer herbivory: modifications caused by the presence or absence of insects. Proceedings of the Royal Society of London, Ser. B 269: 1241-1246. [pdf]

Stinchcombe, J.R., M.T. Rutter, D.S. Burdick, P. Tiffin, M.D. Rausher, and R. Mauricio. 2002. Testing for environmentally induced bias in phenotypic estimates of natural selection: theory and practice. American Naturalist 160: 511-523. [pdf] [Commentary by Kruuk, Merila, and Sheldon]

Back to top


Inouye, B. and J.R. Stinchcombe. 2001. Relationships between ecological interaction modifications and diffuse coevolution: similarities, differences, and causal links. Oikos 95: 353-360.

Stinchcombe, J.R. and M.D. Rausher. 2001. Diffuse selection on resistance to deer herbivory in the Ivyleaf Morning glory, Ipomoea hederacea. American Naturalist 158: 376-388.


Stinchcombe, J.R. 2000. U.S. Endangered species management: the influence of politics. Endangered Species Update 17: 118-121.

Back to top