* Undergraduate Author † Co-first author

1. Tumulty JP, Miller SE, Van Belleghem SM, Weller HI, Jernigan CM, Vincent S*, Staudenraus RJ*, Legan AW, Polnaszek TJ, Uy FMK, Walton A, Sheehan MJ. Evidence for a selective link between cooperation and individual recognition. Current Biology. 33:5478-5487. https://doi.org/10.1016/j.cub.2023.11.032 

2. Miller SE, Sheehan MJ. Sex differences in deleterious genetic variants in a haplodiploid social insect. Molecular Ecology. 32(16): 4546-4556. https://doi.org/10.1111/mec.17057

3. Miller SE. Facial color diversity of Polistes paper wasps. (2023). Insectes Sociaux. 70: 181-190.  https://doi.org/10.1007/s00040-023-00904-9

4. Miller SE, Legan AW, Uy FMK,  Sheehan MJ. (2022). Highly Contiguous Genome Assemblies of the Guinea Paper Wasp (Polistes exclamans) and Mischocyttarus mexicanus. Genome Biology and Evolution. 14: evac110.43 https://doi.org/10.1093/gbe/evac110

5. Miller SE, Jernigan CM, Legan AW, Miller CH, Tumulty JP, Walton A, Sheehan MJ. (2021). Animal behavior missing from data archives. Trends in Ecology and Evolution. 36: 960-963. https://doi.org/10.1016/j.tree.2021.07.008

6. Uy FMK, Jernigan CM, Zaba NC*, Mehrotra E*, Miller SE, Sheehan MJ. (2021). Dynamic neurogenomic responses to social interactions and dominance outcomes in female paper wasps. Plos Genetics. 17:e1009474. https://doi.org/10.1371/journal.pgen.1009474

7. Legan AW, Jernigan CM, Miller SE, Fuch MF*, Sheehan MJ. Expansion and accelerated evolution of 9-exon odorant receptors in Polistes paper wasps (Hymenoptera: Vespidae). (2021). Molecular Biology and Evolution. 38: 3832:3846. https://doi.org/10.1093/molbev/msab023

8. Miller SE, Sheehan MJ. (2021). Ecogeographical patterns of body size differ among North American paper wasp species. Insectes Sociaux. 68: 109-122. https://doi.org/10.1007/s00040-020-00796-z

9. ​Sheehan MJ, Miller SE. The promises and challenges of archiving insect behavior and natural history in a changing world. (2021). Current Opinions in Insect Science. 45: 115-120. https://doi.org/10.1016/j.cois.2021.03.008

10. Miller SE, Barrow L, Ehlman S, Goodheart J, Greiman S, Lutz H, Misiewicz T, Smith S, Tan M, Thawley C, Cook J, Light J. (2020). Building natural history collections for the 21st century and beyond. BioScience. 70: 674-687.​ https://doi.org/10.1093/biosci/biaa069 BioScience Talks

11. Miller SE, Sheehan MJ, Reeve, HK. (2020). Co-evolution of investment in recognition accuracy and individual distinctiveness in individual recognition systems. Philosophical Transactions of the Royal Society B. 375: 20190467. https://doi.org/10.1098/rstb.2019.0467

12. Miller SE, Legan AW, Henshaw M, Ostevik KL, Samuk K, Uy FMK, Reeve HK, Sheehan MJ. (2020). Evolutionary dynamics of recent selection on cognitive abilities. Proceedings of the National Academy of Sciences. 117: 701- 714. https://doi.org/10.1073/pnas.1918592117 Cover article

13. Bluher SE†, Miller SE†, Sheehan MJ. (2020). Fine-scale population structure but limited genetic differentiation in a cooperatively breeding paper wasp. Genome Biology and Evolution. 12: 701-714. https://doi.org/10.1093/gbe/evaa070

14. Sun SJ, Catherall AM, Pascoal S, Jarrett BJ, Miller SE, Sheehan MJ, Kilner RM. (2020). Rapid local adaptation linked with phenotypic plasticity. Evolution Letters. 4: 345-359. https://doi.org/10.1002/evl3.176

15. Rennison D†, Delmore KE†, Samuk K, Owens GL, Miller SE. (2020). Shared patterns of genome-wide differentiation are more strongly predicted by geography than by ecology. American Naturalist. 195: 192-200. https://doi.org/10.1086/706476

16. Miller SE, Roesti M, Schluter D. (2019). A single interacting species leads to widespread parallel evolution of the stickleback genome. Current Biology. 29: 530-537. https://doi.org/10.1016/j.cub.2018.12.044

17. Miller SE, Legan AW, Flores ZA*, Ng HY*, Sheehan MJ. (2018). Strong, but incomplete, mate choice discrimination between two closely related species of paper wasp. Biological Journal of the Linnean Society. 126: 614-622. https://doi.org/10.1093/biolinnean/bly191

18. Miller SE, Bluher SE, Bell E, Cini A, da Silva RC, de Souza AR, Gandia KM, Jandt J, Loope K, Prato A, Pruitt JN, Rankin D, Rankin E, Southon RJ, Uy FMK, Weiner S, Wright CM, Downing H, Gadagkar R, Lorenzi MC, Rusina L, Sumner S, Tibbetts EA, Toth A, Sheehan MJ. (2018). WASPnest: A worldwide assessment of social Polistine nesting behavior. Ecology. 99: 2405. https://doi.org/10.1002/ecy.2448

19. Samuk KM, Owens G, Delmore K, Miller SE, Rennison D, Schluter D. (2017). Gene flow and selection interact to promote adaptive divergence in regions of low recombination. Molecular Ecology. 26: 4378-4390.  https://doi.org/10.1111/mec.14226 ​News & Views F1000

20. Miller SE, Baruetto M, Schluter D. (2017). Comparative analysis of experimental pelvic spine reduction in stickleback. Journal of Evolutionary Biology. 30: 1165-1176. https://doi.org/10.1111/jeb.13085

21. Miller SE, Samuk KM, Rennison D. (2016) An experimental test of predation's effect upon behavior and trait correlations in threespine stickleback. Biological Journal of the Linnean Society. 119(1):117-125.  https://doi.org/10.1111/bij.12790

22. Miller SE, Metcalf D*, Schluter D.  (2015) Intraguild predation leads to genetically based character shifts in the threespine stickleback.  Evolution. 69(12): 3194-3203. https://doi.org/10.1111/evo.12811

In Revision

1. Cook HL, Miller SE, Giri G, Loope KJ, Sheehan MJ, Uy FMK. Adaptive genomic variation is linked to a climatic gradient in a social wasp. bioRxiv. https://doi.org/10.1101/2023.10.12.561994

Human Disease and Variation

1. Weihl CC, Miller SE, Zaidman CM, Pestronk A, Baloh RH, Al-Lozi M. (2011) Novel GNE mutations in two phenotypically distinct HIBM2 patients. Neuromuscular disorders. 21(2): 102-5.

2. Ju JS, Varadhachary AS, Miller SE, Weihl CC. (2010) Quantitation of “autophagic flux” in mature skeletal muscle. Autophagy. 6(7): 651-7.

3. Gurnett CA, Desruisseau DM, McCall K, Choi R, Miller SE, Ju JS, Pestronk A, Connolly AM, Schmidt RE, Druley TE, Mitra RD, Weihl CC, Dobbs MB. Myosin binding protein C1 (MYBPC1) mutations cause distal arthrogryposis type 1. Human Molecular Genetics. 19(7): 1165-73.

4. Ju JS, Fuentealba RA, Miller SE, Jackson E, Piwnica-Worms D, Baloh R, Weihl CC. (2009) VCP is required for autophagy and is disrupted in VCP disease. Journal of Cell Biology. 187(6): 875-88.

5. Ju JS, Miller SE, Jackson E, Cadwell K, Piwnica-Worms D, Weihl CC. (2009) Quantitation of selective autophagic protein aggregate degredation in vitro and in vivo using luciferase reporters. Autophagy. 5(4): 511-9.

6. Ju JS, Miller SE, Hanson PI, Weihl CC. (2008). Impaired protein aggregate handling and clearance underlie the pathogenesis of p97/VCP-associated disease. Journal of Biological Chemistry. 283: 30289-30299.

7. Weihl CC, Miller SE, Watts G, Smith C, Kimonis V. (2008) TDP-43 accumulation in IBM muscle suggests a common pathogenic mechanism with Frontotemporal dementia. J. Neurol Neurosurg Psychiatry. 79(10):1186-9.

8. Weihl CC, Miller SE, Hanson PI, Pestronk A. (2007) Transgenic expression of inclusion body myopathy associated mutant p97/VCP causes weakness and ubiquitinated protein inclusions in mice. Hum Mol Genet. 16(8): 919-28.

9. Taillon-Miller P, Saccone SF, Saccone NL, Duan S, Kloss EF, Lovins EG, Donaldson R, Phong A, Ha C, Flagstad L, Miller S, Drendel A, Lind D, Miller RD, Rice JP, Kwok PY. (2004) Linkage disequilibrium maps constructed with common SNPs are useful for first-pass disease association screens. Genomics. 84(6): 899-912.