PUBLICATIONS
25. Bewick* AJ, Zhang Y, Wendte JM, Zhang X, Schmitz RJ (2019) Evolutionary and experimental loss of gene body methylation and its consequence to gene expression. G3 Genes|Genomes|Genetics doi.org/10.1534/g3.119.400365.
24. Ji* L, Mathioni SM, Johnson S, Tucker D, Bewick AJ, Kim KD, Daron J, Slotkin RK, Jackson SA, Parrott WA, Meyers BC, Schmitz RJ (2019) Genome-wide reinforcement of DNA methylation during somatic embryogenesis. The Plant Cell (out for review).
**23. Bewick* AJ, Hofmeister BT, Powers R, Mondo SJ, Grigoriev IV, James TY, Stajich JE, Schmitz RJ (2019) Diversity of cytosine methylation across the fungal tree of life. Nature Ecology and Evolution doi: 10.1038/s41559-019-0810-9.
**Press coverage in UGA Franklin College of Arts and Sciences and JGI Science Highlights.
22. Bewick* AJ, Sanchez Z, Mckinney EC, Moore AJ, Moore, PJ, Schmitz RJ (2019) Gene-regulatory independent functions for insect DNA methylation. Epigenetics and Chromatin 12:6.
21. Fallon* TR, Lower* SE, Chang C, Manabu BU, Martin GJ, Bewick AJ, Behringer M, Debat HJ, Wong I, Day JC, Suvorov A, Silva CJ, Hall DW, Schmitz RJ, Nelson DR, Lewis S, Shigenobu S, Bybee SM, Larracuente AM, Oba Y, Weng JK (2018) Firefly genomes illuminate the origin and evolution of bioluminescence. eLife https://doi.org/10.7554/eLife.36495.001.
20. Merritt* TJS, Bewick AJ (2017) Genetic diversity in insect metal tolerance. Frontiers in Genetics, section Toxicogenomics 8:172.
19. Edger* PP, Smith R, McKain MR, Cooley AM, Vallejo-Marin M, Yuan Y, Bewick AJ, Ji L, Platts AE, Bowman MJ, Childs KL, Schmitz RJ, Smith GD, Pires JC, Puzey JR (2017) Subgenome dominance in an interspecific hybrid, synthetic allopolyploid, and a 140 year old naturally established neo-allopolyploid monkeyflower. The Plant Cell 29:2150–2167.
18. Bewick* AJ, Schmitz RJ (2017) Gene body DNA methylation in plants. Current Opinion in Plant Biology 36:103–110.
17. Masalia* RR, Bewick* AJ, Burke JM (2017) Connectivity in gene coexpression networks negatively correlates with rates of molecular evolution in flowering plants. PLoS One 12:e0182289.
16. Susek* K, Braszewska-Zalewska A, Bewick AJ, Hasterok R, Schmitz RJ, Naganowska B (2017) Epigenomic diversification within the genus Lupinus. PLoS One 12:e0179821.
15. Mondo* SJ, Dannebaum* RO, Kuo RC, Louie KB, Bewick AJ, LaButti K, Haridas S, Kuo A, Salamov A, Ahrendt SR, Lau R, Bowen BP, Lipzen A, Sullivan W, Andreopoulos BB, Clum A, Lindquist E, Daum C, Northen TR, Kunde-Ramamoorthy G, Schmitz RJ, Gryganskyi A, Culley D, Magnuson J, James TY, O'Malley MA, Stajich JE, Spatafora JW, Visel A, Grigoriev IV (2017) Widespread adenine N6-methylation of active genes in fungi. Nature Genetics 9:964–968.
14. Bewick* AJ, Niederhuth CE, Ji L, Rohr NA, Griffin PT, Leebens-Mack J, Schmitz RJ (2017) The evolution of CHROMOMETHYLASES and gene body DNA methylation in plants. Genome Biology 18:65.
**13. Bewick* AJ, Vogel KJ, Moore AJ, Schmitz RJ (2017) Evolution of DNA methylation across insects. Molecular Biology and Evolution 34:654–665.
12. Niederhuth* CE, Bewick* AJ, Ji L, Alabady M, Kim KD, Page JT, Li Q, Rohr NA, Rambani A, Burke JM, Udall JA, Egesi C, Schmutz J, Grimwood J, Jackson SA, Springer NM, Schmitz RJ (2016) Widespread natural variation of DNA methylation within angiosperms. Genome Biology 17:194.
11. Bewick* AJ, Ji* L, Niederhuth* CE, Willing* E-M, Hofmeister BT, Shi X, Wang L, Lu Z, Rohr NA, Hartwig B, Kiefer C, Deal RB, Schmutz J, Grimwood J, Stroud H, Jacobsen SE, Schneeberger K, Zhang X, Schmitz RJ (2016) On the origin and evolutionary consequences of gene body DNA methylation. Proceedings of the National Academy of Sciences USA 113:9111–9116.
10. Bewick* AJ, Hofmeister BT, Lee K, Zhang X, Hall DW, Schmitz RJ (2015) FASTmC: a suite of predictive models for non-reference-based estimations of DNA methylation. G3 Genes|Genomes|Genetics 6:447–452.
9. Bewick* AJ, Schmitz RJ (2015) Epigenetics in the wild. eLife 4:e07808.
8. Furman* LS, Bewick AJ, Harrison TL, Greenbaum E, Gvoždík V, Kusamba C, Evans, BJ (2015) Pan-African phylogeography of a model organism, the African clawed frog “Xenopus laevis”. Molecular Ecology 24:909–925.
7. Bewick* AJ, Chain FJ, Zimmerman LB, Sesay A, Gilchrist MJ, Owens ND, Seifertova, E, Krylov V, Macha J, Tlapakova T, Kubickova S, Cernohorska H, Zarsky V, Evans BJ (2013) A large pseudoautosomal region on the sex chromosomes of the frog Silurana tropicalis. Genome Biology and Evolution 5:1087–1098.
6. Shen* J, Bewick AJ, Dushoff J, Evans BJ (2013) Genomic dynamics of transposable elements in the Western Clawed Frog (Silurana tropicalis). Genome Biology and Evolution 5:998–1009.
5. Bewick* AJ, Chain FJJ, Heled J, Evans BJ (2012) The pipid root. Systematic Biology 61:913–926.
4. Bewick* AJ, Anderson DW, Evans BJ (2011) Evolution of the closely related, sex-related genes DMW and DMRT1 in African clawed frogs (Xenopus). Evolution 65:698–712.
3. Bell* MA, Gangavalli AK, Bewick A, Aguirre WE (2008) Frequency of Ectodysplasin alleles and limited introgression between sympatric threespine stickleback populations. Environmental Biology of Fishes 89:189–198.
2. Veitch* ZW, Guo B, Hembruff SL, Bewick AJ, Heibein AD, Eng J, Cull S, Maclean DA, Parissenti AM (2008) Induction of aldoketoreductases 1C2 and 1C3 and other drug dose-dependent genes upon acquisition of anthracycline resistance. Pharmacogenetics and Genomics 19:477–488.
1. Laurence* S, Bewick AJ, Coltman DW, Davis CS, Elsasser SC, Kidd AG, Lesbarrères D, Schulte-Hostedde AI (2008) Isolation and characterization of polymorphic microsatellite loci in muskrat, Ondatra zibethicus. Molecular Ecology Resources 9:654–657.