Publications
2022
Morales-Briones, D.F., B. Gehrke, C.H. Huang, A. Liston, H. Ma, H.E. Marx, D.C. Tank, Y. Yang. 2022. Analysis of paralogs in target enrichment data pinpoints multiple ancient polyploidy events in Alchemilla s.l. (Rosaceae). Systematic Biology 71(1):190–207. Open Access Data
Sun, Q.H., D.F. Morales-Briones, H.X. Wang, J.B. Landis, J. Wen & H.F. Wang. 2022. Phylogenomic analyses of the East Asian endemic Abelia (Caprifoliaceae) shed insights into the temporal and spatial diversification history with widespread hybridization. Annals of Botany 129(2):201–216. Link Data
Ke, X.R., D.F. Morales-Briones, H.X. Wang, Q.H., Sun, J.B. Landis, J. Wen & H.F. Wang. 2022. Nuclear and plastid phylogenomic analyses provide insights into the reticulate evolution, species delimitation, and biogeography of the Sino-Japanese disjunctive Diabelia (Caprifoliaceae). Journal of Systematics and Evolution 60(6):1331–1343. Link Data
Tefarikis, D.T., D.F. Morales-Briones, Y. Yang, G. Edwards & G. Kadereit. 2022. On the hybrid origin of the C2 Salsola divaricata agg. (Amaranthaceae) from C3 and C4 parental lineages. New Phytologist 234(5):1876–1890. Open Access Data
Chen, L.Y.*, B. Liu*, D.F. Morales-Briones*, M.L. Moody, F. Liu, G.W. Hu, C.H. Huang, J.M. Chen, Q.F. Wang. 2022. Phylogenomic analyses of Alismatales shed light into adaptations to aquatic environments. Molecular Biology and Evolution 39(5):msac079. *equal contribution. Open Access Data
Morales-Briones, D.F., N. Lin, E.Y. Huang, D.L. Grossenbacher, J.M, Sobel, C.D. Gilmore, D.C. Tank, Y. Yang. 2022. Phylogenomic analyses in Phrymaceae reveal extensive gene tree discordance in relationships among major clades. American Journal of Botany 109(6):1035– 1046. Open Access Data
2021
Morales-Briones, D.F., G. Kadereit, D.T. Tefarikis, M.J. Moore, S.A. Smith, S.F. Brockington, A.Timoneda, W.C. Yim, J.C. Cushman, Y. Yang. 2021. Disentangling Sources of Gene Tree Discordance in Phylogenomic Data Sets: Testing Ancient Hybridizations in Amaranthaceae s.l. Systematic Biology 70(2): 219-235. Open Access Data
Wang, H.X.*, D.F. Morales-Briones*, M.J. Moore, J. Wen, H.F. Wang. 2021. A phylogenomic perspective on gene tree conflict and character evolution in Caprifoliaceae using target enrichment data, with Zabelioideae recognized as a new subfamily. Journal of Systematics and Evolution 59(5):897–914. *equal contribution. Link Data
2019
Morales-Briones, D.F., T. Arias, V.S. Di Stilio, D.C Tank. 2019. Chloroplast Primers for Clade-Wide Phylogenetic Studies of Thalictrum. Applications in Plant Sciences 7(10): e11294. Open Access Data
Chen, L-Y., D.F. Morales-Briones, C.N. Passow, Y. Yang. 2019. Performance of gene expression analyses using de novo assembled transcripts in polyploid species. Bioinformatics 35(21): 4314–4320. Link Data
Morales-Briones, D.F., K. Romoleroux, D.C. Tank. 2019. Three new species of Lachemilla (Rosaceae) from South America. PhytoKeys 127: 93–119. Open Access Data
Morales-Briones, D.F., D.C Tank. 2019. Extensive allopolyploidy in the neotropical genus Lachemilla (Rosaceae) revealed by PCR‐based target enrichment of the nuclear ribosomal DNA cistron and plastid phylogenomics. American Journal of Botany 106(3): 415–437. Link Data
2018
Morales-Briones, D.F., A. Liston, D.C. Tank. 2018. Phylogenomic analyses reveal a deep history of hybridization and polyploidy in the Neotropical genus Lachemilla (Rosaceae). New Phytologist 218(4): 1668–1684. Link Data
Morales-Briones, D.F., K. Romoleroux, F. Kolář, D.C. Tank. 2018. Phylogeny and evolution of the neotropical radiation of Lachemilla (Rosaceae): Uncovering a history of reticulate evolution and implications for infrageneric classification. Systematic Botany 43(1): 17–34. Link Data. 2020 American Society of Plant Taxonomist Grady L. and Barbara D. Webster Plant Systematics Publication Award
Blischak, P.D., M. Latvis, D.F. Morales-Briones, J.C. Johnson, V.S. Di Stilio, A.D Wolfe, D.C. Tank. 2018. Fluidigm2PURC: automated processing and haplotype inference for double-barcoded PCR amplicons. Applications in Plant Sciences 6(6): e1156. Open Access Data
2017
Latvis, M., S.M. Mortimer, D.F. Morales-Briones, S. Torpey, S. Uribe-Convers, S.J. Jacobs, S. Mathews, D.C Tank. 2017. Targeting the most variable parts of the plastome using genomic data: primers for Castilleja and their utility across Orobanchaceae. Applications in Plant Sciences 5(9): 1700020. Open Access
2016
Morales-Briones, D.F. 2016. Lachemilla mexiquense (Rosaceae), a new species from Mexico. PhytoKeys 62: 25–32. Open Access
2012
Romoleroux, K., D.F. Morales-Briones. 2012. Lachemilla jaramilloi and L. talamanquensis spp. nov. (Rosaceae) from Ecuador and Costa Rica. Nordic Journal of Botany 30(6): 732–736. Link
In press:
Morales-Briones, D.F., G. Kadereit. Exploring the possible role of hybridization in the evolution of photosynthetic pathways in Flaveria (Asteraceae), the prime model of C4 photosynthesis evolution. Link
Under review:
Sun, Q.H., D.F. Morales-Briones, H.X. Wang, J.B. Landis, J. Wen & H.F. Wang. Target sequence capture data shed light on the deeper evolutionary relationship on the subgenus Chamaecerasus of Lonicera (Caprifoliaceae). Link
Wang, H.X., D.F. Morales-Briones, J.B. Landis, J. Wen & H.F. Wang. Biogeographic analysis reveals multiple ancient and recent dispersals in Linnaeoideae (Caprifoliaceae).
Zhang, L.*, D.F. Morales-Briones*, H. Wang, C.H. Huang, F. Shang, Y. Wang & H. Ma. Nuclear phylogenomics reveals rapid diversification and morphological innovations in the apple tribe (Maleae, Rosaceae). *Equal contribution.
Yang, L., X. Ma, Z. Yang, Q. Wang, H. Wang, Y. Yang, D.F. Morales-Briones & B. Zhong. Phylogenomic analyses reveal deep reticulation and incomplete lineage sorting obscuring the phylogeny of Mesangiospermae.
Ma, X., D. Ru, D.F. Morales-Briones, F. Mei, J. Wu, J. Liu & S. Wu. Genome sequence and salinity adaptation of the desert shrub Nitraria sibirica (Nitrariaceae, Sapindales).
Yang, X.L., Q.H. Sun, D.F. Morales-Briones, J.B. Landis, D.J. Chen, H.X. Wang, J. Wen & H.F. Wang. New insights into intergeneric relationships of Lonicera (Caprifoliaceae) revealed by nuclear ribosomal DNA cistron data and plastid phylogenomics.