In Press and Preprints
Repeated evolutionary turnover of vertebrate skeletal muscle myosins.
Harvey CM, Schuppe ER, Brainard MS, Fuxjager MJ, Pease JB. bioRxiv.
doi: 10.1101/2025.10.28.684953v1
Upslope diversification and gene flow among congeneric Andean trees
Quinlan EJ, Pease JB, Sallo-Bravo J, Fuentes AF, Farfan-Rios W, Silman MR. bioRxiv.
doi: 2025.09.22.677938
Tomato pollen tube integrity is critical for pollen function at high temperature and is controlled by RALF signaling.
Almasaud RA, Ouonkap SVY, Ingram SJ, Oseguera Y, Alkassem Alosman M, Travis C, Henry A, Medina M, Oulhen N, Wessel GM, DeLong A, Pease JB, DaSilva N, Johnson MA. bioRxiv.
doi: 10.1101/2025.10.25.684177
2025
Longevity in plants impacts phylogenetic and population dynamics.
Smith SA, Pease JB, Carruthers T, Bradburd GS, Huegele IB, Stull GW, Weaver WN, Yang T, Yi T, Bealieu JM. 2025. New Phytologist.
doi:
Differential gene reactions reveal drought response strategies in African acacias.
Weinheimer EI, Cory ST, Kortessis N, Anderson TM, Pease JB. 2025. The Plant Journal. 123: e70385
doi: 10.1111/tpj.70385 — PMID: 40758440
Deep-time gene expression shift reveals an ancient change in avian muscle phenotypes.
Harvey CM, Fuxjager MJ, Pease JB. 2025. PLoS Genetics. 21(4):e1011663
doi: 10.1371/journal.pgen.1011663 — PMID: 40215240
2024–2021
Sequential introgression of a carotenoid processing gene underlies sexual ornament diversity in a genus of manakins.
Lim HC, Bennett KFP, Justyn NM, Long KM, Powers MJ, Kingston SE, Pease JB, Fuxjager MJ, Bolton PE, Balakrishnan CN, Day LB, Parsons TJ, Brawn JD, Hill GE, Braun MJ. 2024. Science Advances. 10: eadn8339
doi: 10.1126/sciadv.adn8339 — PMID: 39565864
Enhanced pollen tube performance at high temperature contributes to thermotolerant fruit and seed production in tomato.
Ouonkap SVY, Palaniappan M, Pryze K, Jong E, Ali MF, Styler B, Almasaud RA, Harkey AF, Reid RW, Loraine AE, Smith SE, Muday GK, Pease JB, Palanivelu R, Johnson MA. 2024. Current Biology. 34:5319–5333.e5.
doi: 10.1016/j.cub.2024.10.025 — PMID: 39510073
Flavonols improve thermotolerance in tomato pollen during germination and tube elongation by maintaining ROS homeostasis.
Postiglione AE, Delange AM, Ali MF, Wang EY, Houben M, Hahn SL, Khoury MG, Roark CM, Davis M, Reid RW, Pease JB, Loraine AE, Muday GK. 2024. The Plant Cell. 36: 4511–4534.
doi: 10.1093/plcell/koae222 ― PMID: 39102899
Phylogenetic analysis under heterogeneity and discordance.
Pease JB, Weinheimer EI. 2023. In Species tree Inference. LS Kubatko and LL Knowles, editors. Princeton University Press.
https://press.princeton.edu/books/paperback/9780691207605/species-tree-inference.
Layered evolution of gene expression in “superfast” muscles for courtship.
Pease JB*, Driver RJ*, de la Cerda DA, Day LB, Lindsay WR, Schlinger BA, Schuppe ER, Balakrishnan CN, Fuxjager MJ. 2022. Proceedings of the National Academy of the USA 119(14) e2119671119.
doi: 10.1073/pnas.2119671119 — PMID: 35363565 — Data: 10.5281/zenodo.6299082 — Software: PhyDGhttps://u.osu.edu/peaselab/software/peaselabET
2020–2015
The catalytic-dependent and -independent roles of Lsd1 and Lsd2 lysine demethylases in heterochromatin formation in Schizosaccharomyces pombe.
Marayati BF, Tucker JF, de la Cerda DA, Huo T, Chen R, Sugiyama T, Pease JB, Zhang K. 2020. Cells 9(4) 955.
doi: 10.3390/cells9040955 —PMID: 32295063
Group A Rotavirus VP1 polymerase and VP2 core shell proteins: Intergenotypic sequence variation and in vitro functional compatibility.
Steger CL, Boudreaux CE, LaConte LE, Pease JB, McDonald SM. 2019. Journal of Virology 93 (2) e01642-18.
doi: 10.1128/JVI.01642-18 — PMID: 30355692
A deep-sequencing-assisted, spontaneous suppressor screen in the fission yeast Schizosaccharomyces pombe.
Marayati BF, Pease JB, Zhang K. 2019. Journal of Visualized Experiments. (145), e59133.
doi: 10.3791/59133 — PMID: 30907886
Why phylogenomic uncertainty enhances introgression analyses.
Pease JB. 2018. Molecular Ecology. 27(22): 4347–4349.
doi: 10.1111/mec.14851 — PMID: 30474302
Quartet Sampling distinguishes lack of support from conflicting support in the green plant tree of life.
Pease JB, Brown JW, Walker JF, Hinchliff CE, Smith SA. 2018.American Journal of Botany. 105(3): 385–403.
doi: 10.1002/ajb2.1016 — PMID: 29746719 — Data: 10.5061/dryad.6m20j — Software: quartetsampling
Encoding data using biological principles: the Multisample Variant Format for phylogenomics and population genomics.
Pease JB, Rosenzweig BK. 2018 IEEE/ACM Transactions on Computational Biology and Bioinformatics. 15(4) 1231–1238.
doi: 10.1109/tcbb.2015.2509997 —PMID: 26701894 — Software: MVFtools
Loss of Elongation-Like Factor 1 spontaneously induces diverse, RNase H-related suppressor mutations in Schizosaccharomyces pombe.
Marayati BF, Drayton AL, Tucker JF, Huckabee RH, Anderson AM, Pease JB, Zeyl CW, Zhang K. 2018 Genetics. 209(4): 967–981.
doi: 10.1534/genetics.118.301055 — PMID: 29844133
Heterogeneous molecular processes among the causes of how sequence similarity scores can fail to recapitulate phylogeny.
Smith SA, Pease JB. 2017. Briefings in Bioinformatics. 18: 451–457.
doi: 10.1093/bib/bbw034 — PMID: 27103098
Molecular mechanisms of postmating prezygotic reproductive isolation uncovered by transcriptome analysis.
Pease JB, Guerrero RF, Sherman NA, Hahn MW, Moyle LC. 2016. Molecular Ecology. 25: 2592–2608.
doi: 10.1111/mec.13679 — PMID: 27136303 — Data: 10.5061/dryad.j3s5r — Software: MVFtools
Powerful methods for detecting introgressed regions from population genomic data.
Rosenzweig BK, Pease JB, Besansky NJ, Hahn MW. 2016. Molecular Ecology. 25: 2387–2397.
doi: 10.1111/mec.13610 — PMID: 26945783 — Data: 10.5061/dryad.f7h13 — Software: MVFtools
Phylogenomics reveals three sources of adaptive variation during a rapid radiation.
Pease JB, Haak DC, Hahn MW, Moyle LC. 2016. PLoS Biology 14(2): e1002379.
doi: 10.1371/journal.pbio.1002379 — PMID: 26871574 — Data: 10.5061/dryad.182dv — Software: MVFtools, dfoil
Detection and polarization of introgression in a five-taxon phylogeny.
Pease JB, Hahn MW. 2015. Systematic Biology 64 (4): 651–662.
doi: 10.1093/sysbio/syv023 — PMID: 25888025 — Data: 10.5061/dryad.4h462 — Software: dfoil
Extensive introgression in a malaria vector species complex revealed by phylogenomics.
Fontaine, MC*, Pease JB*, Steele A, Waterhouse RM, Neafsey DE, Sharakhov IV, Jiang X, Hall AB, Catteruccia F, Kakani E, Mitchell SN, Wu Y, Smith HA, Love RR, Lawniczak MK, Slotman MA, Emrich SJ, Hahn MW, Besansky NJ. 2015. Science 347 (6217), 1258524.
doi: 10.1126/science.1258524 — PMID: 2543149 — Data: 10.5061/dryad.f4114 —Software: dfoil
2014–2010
Quantitative genetic analysis indicates natural selection on leaf phenotypes across wild tomato species ( Solanum sect. Lycopersicon; Solanaceae).
Muir CD, Pease JB, Moyle LC. 2014. Genetics 198:1629–43.
doi: 10.1534/genetics.114.169276 — PMID: 25298519 — Data: 10.5061/dryad.116td
More accurate phylogenies inferred from low-recombination regions in the presence of incomplete lineage sorting.
Pease JB, Hahn MW. 2013. Evolution 67:2376–84.
doi: 10.1111/evo.12118 — PMID: 23888858
Sex chromosomes evolved from independent ancestral linkage groups in winged insects.
Pease JB, Hahn MW. 2012. Molecular Biology & Evolution 29: 1645–53.
doi: 10.1093/molbev/mss010 — PMID: 22319158
No excess gene movement is detected off the Avian or Lepidopteran Z chromosome.
Toups MA, Pease JB, Hahn MW. 2011. Genome Biology & Evolution 3:1381–90.
doi: 10.1093/gbe/evr109 — PMID: 22024813
On the possible role of robustness in the evolution of infectious diseases.
Ogbunugafor CB, Pease JB, Turner PE. 2010. Chaos 20(2):026108.
doi: 10.1063/1.3455189 — PMID: 20590337