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Jonathan Chang

Publications

Google Scholar profile: 2350 citations; h-index: 15; i10-index: 17

Peer-reviewed manuscripts

  1. (2021) BF Melo, BL Sidlauskas, TJ Near, FF Roxo, A Ghezelayagh, LE Ochoa, MLJ Stiassny, J Arroyave, J Chang, BC Faircloth, DJ MacGuigan, RC Harrington, RC Benine, MD Burns, K Hoekzema, NC Sanches, JA Maldonado Ocampo, RMC Castro, F Foresti, ME Alfaro, C Oliveira. Accelerated diversification explains the exceptional species richness of tropical characoid fishes. Systematic Biology 71(1):78-92 doi:10.1093/sysbio/syab040

  2. (2020) LE Ochoa, A Datovo, C DoNascimiento, FF Roxo, MH Sabaj, J Chang, BF Melo, GSC Silva, F Foresti, ME Alfaro, C Oliveira. Phylogenomic analysis of trichomycterid catfishes (Teleostei: Siluriformes) inferred from ultraconserved elements. Scientific Reports 10(1):2697 doi:10.1038/s41598-020-59519-w

  3. (2020) E Gjesfjeld, D Silvestro, J Chang, B Koch, JG Foster, ME Alfaro. A quantitative workflow for modeling diversification in material culture. PLOS ONE 15(2):e0227579 doi:10.1371/journal.pone.0227579

  4. (2019) J Chang, DL Rabosky, ME Alfaro. Estimating diversification rates on incompletely sampled phylogenies: theoretical concerns and practical solutions. Systematic Biology 69(3):602-611 doi:10.1093/sysbio/syz081 [link]

  5. (2019) J Chang, DL Rabosky, SA Smith, ME Alfaro. An R package and online resource for macroevolutionary studies using the ray-finned fish tree of life. Methods in Ecology and Evolution 10(7):1118-1124 doi:10.1111/2041-210X.13182

  6. (2019) FF Roxo, LE Ochoa, MH Sabaj, NK Lujan, R Covain, GSC Silva, BF Melo, JS Albert, J Chang, F Foresti, ME Alfaro, C Oliveira. Phylogenomic reappraisal of the Neotropical catfish family Loricariidae (Teleostei: Siluriformes) using ultraconserved elements. Molecular Phylogenetics and Evolution 135:148-165 doi:10.1016/j.ympev.2019.02.017

  7. (2018) JD DiBattista, ME Alfaro, L Sorenson, JH Choat, JA Hobbs, TH Sinclair-Taylor, LA Rocha, J Chang, OJ Luiz, PF Cowman, M Friedman, ML Berumen. Ice ages and butterflyfishes: Phylogenomics elucidates the ecological and evolutionary history of reef fishes in an endemism hotspot. Ecology and Evolution 8(22):10989-11008 doi:10.1002/ece3.4566

  8. (2018) DL Rabosky, J Chang, PO Title, PF Cowman, L Sallan, M Friedman, K Kaschner, C Garilao, TJ Near, M Coll, ME Alfaro. An inverse latitudinal gradient in speciation rate for marine fishes. Nature 559(7714):392-395 doi:10.1038/s41586-018-0273-1

  9. (2018) G Burin, LRV de Alencar, J Chang, ME Alfaro, TB Quental. How well can we estimate diversity dynamics for clades in diversity decline?. Systematic Biology 68(1):47-62 doi:10.1093/sysbio/syy037 [link]

  10. (2018) SV Liu, B Frédérich, S Lavoué, J Chang, MV Erdmann, GN Mahardika, PH Barber. Buccal venom gland associates with increased of diversification rate in the fang blenny fish Meiacanthus (Blenniidae; Teleostei). Molecular Phylogenetics and Evolution 125:138-146 doi:10.1016/j.ympev.2018.03.027

  11. (2018) MGM Lima, J de Sousa e Silva-Júnior, D Černý, JC Buckner, A Aleixo, J Chang, J Zheng, ME Alfaro, A Di Fiore, JP Boubli, JW Lynch Alfaro. A phylogenomic perspective on the robust capuchin monkey (Sapajus) radiation: First evidence for extensive population admixture across South America. Molecular Phylogenetics and Evolution 214:137-150 doi:10.1016/j.ympev.2018.02.023

  12. (2017) DL Rabosky, JS Mitchell, J Chang. Is BAMM flawed? Theoretical and practical concerns in the analysis of multi-rate diversification models. Systematic Biology 66(4):477-498 doi:10.1093/sysbio/syx037

  13. (2016) E Gjesfjeld, J Chang, D Silvestro, C Kelty, ME Alfaro. Competition and extinction explain the evolution of diversity in American automobiles. Palgrave Communications 2(1):16019 doi:10.1057/palcomms.2016.19

  14. (2015) J Chang, ME Alfaro. Crowdsourced geometric morphometrics enable rapid large-scale collection and analysis of phenotypic data. Methods in Ecology and Evolution 7(4):472-482 doi:10.1111/2041-210x.12508

  15. (2015) PS Gilbert, J Chang, E Sobel, JS Sinsheimer, BC Faircloth, ME Alfaro. Genome-wide ultraconserved elements exhibit higher phylogenetic informativeness than traditional gene markers for the fish series Percomorpha. Molecular Phylogenetics and Evolution 92:140-146 doi:10.1016/j.ympev.2015.05.027

  16. (2013) DL Rabosky, F Santini, JM Eastman, SA Smith, BL Sidlauskas, J Chang, ME Alfaro. Rates of speciation and morphological evolution are correlated across the largest vertebrate radiation. Nature Communications 4:1958 doi:10.1038/ncomms2958

Other manuscripts

  1. (2012) BC Faircloth, J Chang, ME Alfaro. TAPIR enables high-throughput estimation and comparison of phylogenetic informativeness incorporating locus-specific substitution models. [arXiv:1202.1215]