Publications

Submitted or in review

29. Ewell S, A Harvey, A Clark, M Maloney, LS Stevison and C Ballen. In revision. Instructor recommendations for student learning strategies and metacognition: An analysis of undergraduate biology syllabi.

28. Stevison LS. In Revision. Recombination and Evolution. Oxford Bibliographies. 

Published or in press

27. Novak TE, K Billings, SG Ellis, MF Smith, BD Wills, and LS Stevison. Accepted. Response of fruit fly (Drosophila pseudoobscura) to diet manipulation of nutrient density. Physiological Entomology.

Associated GitHub Repo: https://github.com/StevisonLab/Fly-Caloric-Density/ 

26. Rivera-Rincon NR, UH Altindag, R Amin, RM Graze, AG Appel, and LS Stevison. 2024. Comparison of physiological changes in response to high temperatures between Drosophila melanogaster and Drosophila pseudoobscura. Journal of Insect Physiology.

25. Clark AD*, TC Myers*, TD Steury, A Krzton, JA Yanes, A Barber, JL Barry, S Barua, KM Eaton, D Gosavi, RL Nanca, ZH Pervaiz, CG Ugochukwu, P Hartman, and LS Stevison. 2024. Does it pay to pay? A comparison of the benefits of open-access publishing across various sub-fields in Biology. PeerJ.

Associated GitHub Repo: https://github.com/AUCompBio/OA_2021_AU
Associated Data: https://aurora.auburn.edu/handle/11200/50478  

24. Bailey, NP, C Ruiz, A Tosi, and LS Stevison. 2023. Genomic analysis of the rhesus macaque (Macaca mulatta) and the cynomolgus macaque (Macaca fascicularis) uncover polygenic signatures of reinforcement speciation. Ecology and Evolution. DOI: 10.1002/ece3.10571.

23. Reifova R, SL Ament-Velazquez, Y Bourgeois, J Coughlan, J Kulmuni, AP Lipinska, G Okunde, LS Stevison, K Yoshida, and J Kitano. 2023. Mechanisms of intrinsic postzygotic isolation from genic, chromosomal, and genomic perspectives. Cold Spring Harbor Perspectives in Biology. Speciation Collection. doi:10.1101/cshperspect.a041607.

22. Novak TE, NP Bailey, and LS Stevison. 2023. Genetic Characterization of Macaca arctoides: A Highlight of Key Genes and Pathways. Primates. https://doi.org/10.1007/s10329-023-01064-x

21. Clark AD and LS Stevison. 2023. Learning R for Biologists: a mini course grab-bag for instructors. Course Source.

Associated GitHub Repo: https://stevisonlab.github.io/R-Mini-Course/ 

20. Stevison LS, ZA Szpiech, NP Bailey, TE Novak, DJ Melnick, BJ Evans, JD Wall. 2022. Evolution of genes involved in the unusual genitals of the bear macaque, Macaca arctoides. Ecology and Evolution. 12 (5) e8897. DOI: 10.1002/ece3.8897.

Associated GitHub Repository: 10.5281/zenodo.5006971

Associated Dataset (VCF files): DOI: 10.35099/aurora-67.

19. Altindag UH, HN Taylor, C Shoben, K Pownall, and LS Stevison. 2022. Putative condition-dependent viability selection in wild type stocks of Drosophila pseudoobscura. Cytogenetic and Genome Research. 162:76–93. DOI: 10.1159/000522585.

Associated Github Repository: DOI: 10.5281/zenodo.4477672.

18. Bailey NP and LS Stevison. 2021. Mitonuclear conflict in a macaque species exhibiting phylogenomic discordance. Journal of Evolutionary Biology. 34 (10): 1568-1579. 

Associated Github Repository: DOI: 10.5281/zenodo.4432937.

17. Szpiech ZA, NP Bailey, TE Novak, LS Stevison. 2021. Application of a novel haplotype-based scan for local adaptation to study high-altitude adaptation in rhesus macaques. Evolution Letters. 5(4): 408-421. 

Associated software selscan: https://github.com/szpiech/selscan 

16. Stevison LS and SE McGaugh. 2020. It’s time to stop sweeping recombination rate under the genome scan rug. Molecular Ecology. 29 (22): 4249-4253.

15. Sefick SA, MA Castranova, and LS Stevison. 2018. genotypeR: an integrated R package for SNP genotype marker design and data analysis. Methods in Ecology and Evolution. 9: 1318–1323. DOI: 10.1111/2041-210X.12965. 

Associated Github page.

14. Stevison LS, S Sefick, C Rushton, and RM Graze. 2017. Invited Review: Recombination rate plasticity: revealing mechanisms by design. Philosophical Transactions B. Themed Issue: "Evolutionary causes and consequences of recombination rate variation in sexual organisms". B 372: 20160459 

13. Wall JD and LS Stevison. 2016. Detecting recombination hotspots from patterns of linkage disequilibrium. G3: Genes, Genomes and Genetics. 6(8): 2265-2271. DOI: 10.1534/g3.116.029587. 

12. Stevison LS, AE Woerner, JM Kidd, JL Kelley, KR Veeramah, K McManus, Great Ape Genome Project, CD Bustamante, MF Hammer, JD Wall. 2016. The Time-Scale of Recombination Rate Evolution in Great Apes. Molecular Biology and Evolution. 33(4): 928-945. DOI: 10.1093/molbev/msv331

Associated Github Repository: DOI: 10.5281/zenodo.13975

Pre-print: BioRxiv. Haldane's Sieve: Top 5 most viewed in Jan '15. 

11. McManus KF, JL Kelley, S Song, K Veeramah, AE Woerner, LS Stevison, OA Ryder, Great Ape Genome Project, JM Kidd, JD Wall, CD Bustamante, and MF Hammer. Inference of Gorilla demographic and selective history from whole genome sequence data. 2015. Molecular Biology and Evolution 32 (3): 600-612.

10. Great Ape Genome Project. 2013. Great ape genetic diversity and population history. Nature 499: 471–475.

9. Wall JD, MA Yang, F Jay, SK Kim, EY Durand, LS Stevison, C Gignoux, A Woerner, MF Hammer, and M Slatkin. 2013. Higher levels of Neanderthal ancestry in East Asians than in Europeans. Genetics. 194: 199-209.

8. Oksenberg N, L Stevison, JD Wall, and N Ahituv. 2013. Function and Regulation of AUTS2, a Gene Implicated in Autism and Human Evolution. PLoS Genetics. 9(1): e1003221.

7. Stevison LS 2012. Male-mediated effects on female recombination rates. Evolution. 66(3): 905-910.

Associated Dataset: Dryad Repository. DOI: 10.5061/dryad.792g75qr.

6. Stevison LS, K Hoehn, and MAF Noor. 2011. Effects of inversions on within- and between-species recombination and divergence. Genome Biology and Evolution. 3: 830-841.

5. Stevison LS and MAF Noor. 2010. Genetic and evolutionary correlates of fine-scale recombination rate variation in Drosophila persimilis. Journal of Molecular Evolution. 71(5): 332-345.

4. Kulathinal RJ, LS Stevison, and MAF Noor. 2009. The genomics of speciation in Drosophila: Diversity, Divergence, and Introgression Estimated Using Low-Coverage Genome Sequencing. PLoS Genetics. 5(7): e1000550.

3. Stevison LS and HM Kohn. 2009. Divergence population genetic analysis of hybridization between rhesus and cynomolgus macaques. Molecular Ecology. 18(11): 2457-2475.

2. Stevison LS and HM Kohn. 2008. Inferring genetic background of cynomolgus macaques (Macaca fascicularis). Journal of Medical Primatology. 37(6): 311-317.

1. Stevison LS, BA Counterman, and MAF Noor. 2004. Molecular evolution of X-linked accessory gland proteins in Drosophila pseudoobscura. Journal of Heredity. 95(2): 114–118.

Not peer reviewed: