Michael Donoghue, Ph.D. - Publications

Yale University, New Haven, CT 

150 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2023 Srivastav M, Clement WL, Landrein S, Zhang J, Howarth DG, Donoghue MJ. A phylogenomic analysis of Lonicera and its bearing on the evolution of organ fusion. American Journal of Botany. PMID 36807121 DOI: 10.1002/ajb2.16143  0.76
2022 Donoghue MJ, Eaton DAR, Maya-Lastra CA, Landis MJ, Sweeney PW, Olson ME, Cacho NI, Moeglein MK, Gardner JR, Heaphy NM, Castorena M, Rivas AS, Clement WL, Edwards EJ. Publisher Correction: Replicated radiation of a plant clade along a cloud forest archipelago. Nature Ecology & Evolution. PMID 35927318 DOI: 10.1038/s41559-022-01864-2  0.56
2022 Donoghue MJ, Eaton DAR, Maya-Lastra CA, Landis MJ, Sweeney PW, Olson ME, Cacho NI, Moeglein MK, Gardner JR, Heaphy NM, Castorena M, Rivas AS, Clement WL, Edwards EJ. Replicated radiation of a plant clade along a cloud forest archipelago. Nature Ecology & Evolution. PMID 35851851 DOI: 10.1038/s41559-022-01823-x  0.644
2021 Lee AK, Gilman IS, Srivastav M, Lerner AD, Donoghue MJ, Clement WL. Reconstructing Dipsacales phylogeny using Angiosperms353: issues and insights. American Journal of Botany. PMID 34254290 DOI: 10.1002/ajb2.1695  0.3
2021 Penagos Zuluaga JC, van der Werff H, Park B, Eaton DAR, Comita LS, Queenborough SA, Donoghue MJ. Resolved phylogenetic relationships in the Ocotea complex (Supraocotea) facilitate phylogenetic classification and studies of character evolution. American Journal of Botany. PMID 33818757 DOI: 10.1002/ajb2.1632  0.311
2020 Moeglein MK, Chatelet DS, Donoghue MJ, Edwards EJ. Evolutionary dynamics of genome size in a radiation of woody plants. American Journal of Botany. PMID 33079383 DOI: 10.1002/ajb2.1544  0.567
2020 Nürk NM, Linder HP, Onstein RE, Larcombe MJ, Hughes CE, Piñeiro Fernández L, Schlüter PM, Valente L, Beierkuhnlein C, Cutts V, Donoghue MJ, Edwards EJ, Field R, Flantua SGA, Higgins SI, et al. Diversification in evolutionary arenas-Assessment and synthesis. Ecology and Evolution. 10: 6163-6182. PMID 32607221 DOI: 10.1002/Ece3.6313  0.6
2020 Landis MJ, Edwards EJ, Donoghue MJ. Modeling phylogenetic biome shifts on a planet with a past. Systematic Biology. PMID 32514540 DOI: 10.1093/Sysbio/Syaa045  0.613
2020 Landis MJ, Eaton DAR, Clement WL, Park B, Spriggs EL, Sweeney PW, Edwards EJ, Donoghue MJ. Joint phylogenetic estimation of geographic movements and biome shifts during the global diversification of Viburnum. Systematic Biology. PMID 32267945 DOI: 10.1093/Sysbio/Syaa027  0.648
2019 Sundaram M, Donoghue MJ, Farjon A, Filer D, Mathews S, Jetz W, Leslie AB. Accumulation over evolutionary time as a major cause of biodiversity hotspots in conifers. Proceedings. Biological Sciences. 286: 20191887. PMID 31594500 DOI: 10.1098/Rspb.2019.1887  0.368
2019 Spriggs EL, Schlutius C, Eaton DA, Park B, Sweeney PW, Edwards EJ, Donoghue MJ. Differences in flowering time maintain species boundaries in a continental radiation of Viburnum. American Journal of Botany. PMID 31124135 DOI: 10.1002/Ajb2.1292  0.801
2019 Donoghue MJ, Edwards EJ. Model clades are vital for comparative biology, and ascertainment bias is not a problem in practice: a response to Beaulieu and O'Meara (2018). American Journal of Botany. PMID 30882894 DOI: 10.1002/Ajb2.1255  0.49
2019 Park B, Donoghue MJ. Phylogeography of a widespread eastern North American shrub, Viburnum lantanoides. American Journal of Botany. PMID 30860611 DOI: 10.1002/ajb2.1248  0.316
2018 Spriggs EL, Eaton DAR, Sweeney PW, Schlutius C, Edwards EJ, Donoghue MJ. RAD-seq data reveal a cryptic Viburnum species on the North American Coastal Plain. Systematic Biology. PMID 30521050 DOI: 10.1093/Sysbio/Syy084  0.663
2018 Olson ME, Soriano D, Rosell JA, Anfodillo T, Donoghue MJ, Edwards EJ, León-Gómez C, Dawson T, Camarero Martínez JJ, Castorena M, Echeverría A, Espinosa CI, Fajardo A, Gazol A, Isnard S, et al. Plant height and hydraulic vulnerability to drought and cold. Proceedings of the National Academy of Sciences of the United States of America. PMID 29967148 DOI: 10.1073/Pnas.1721728115  0.591
2018 Li M, An H, Angelovici R, Bagaza C, Batushansky A, Clark L, Coneva V, Donoghue MJ, Edwards E, Fajardo D, Fang H, Frank MH, Gallaher T, Gebken S, Hill T, et al. Topological Data Analysis as a Morphometric Method: Using Persistent Homology to Demarcate a Leaf Morphospace. Frontiers in Plant Science. 9: 553. PMID 29922307 DOI: 10.3389/Fpls.2018.00553  0.591
2018 Federman S, Donoghue MJ, Daly DC, Eaton DAR. Reconciling species diversity in a tropical plant clade (Canarium, Burseraceae). Plos One. 13: e0198882. PMID 29906281 DOI: 10.1371/journal.pone.0198882  0.376
2018 Spriggs EL, Schmerler SB, Edwards EJ, Donoghue MJ. Leaf Form Evolution in Viburnum Parallels Variation within Individual Plants. The American Naturalist. 191: 235-249. PMID 29351013 DOI: 10.1086/695337  0.641
2017 Edwards EJ, Chatelet DS, Chen BC, Ong JY, Tagane S, Kanemitsu H, Tagawa K, Teramoto K, Park B, Chung KF, Hu JM, Yahara T, Donoghue MJ. Convergence, Consilience, and the Evolution of Temperate Deciduous Forests. The American Naturalist. 190: S87-S104. PMID 28731827 DOI: 10.1086/692627  0.727
2017 Edwards EJ, Chatelet DS, Spriggs EL, Johnson ES, Schlutius C, Donoghue MJ. Correlation, causation, and the evolution of leaf teeth: A reply to Givnish and Kriebel. American Journal of Botany. PMID 28428198 DOI: 10.3732/Ajb.1700075  0.543
2017 Baker TR, Pennington RT, Dexter KG, Fine PV, Fortune-Hopkins H, Honorio EN, Huamantupa-Chuquimaco I, Klitgård BB, Lewis GP, de Lima HC, Ashton P, Baraloto C, Davies S, Donoghue MJ, Kaye M, et al. Maximising Synergy among Tropical Plant Systematists, Ecologists, and Evolutionary Biologists. Trends in Ecology & Evolution. PMID 28214038 DOI: 10.1016/J.Tree.2017.01.007  0.318
2017 Forrestel EJ, Donoghue MJ, Edwards EJ, Jetz W, du Toit JC, Smith MD. Different clades and traits yield similar grassland functional responses. Proceedings of the National Academy of Sciences of the United States of America. PMID 28074042 DOI: 10.1073/Pnas.1612909114  0.613
2016 Barish S, Arakaki M, Edwards EJ, Donoghue MJ, Clement WL. Characterization of 16 microsatellite markers for the Oreinotinus clade of Viburnum (Adoxaceae). Applications in Plant Sciences. 4. PMID 28101437 DOI: 10.3732/Apps.1600103  0.591
2016 Eaton DA, Spriggs EL, Park B, Donoghue MJ. Misconceptions on Missing Data in RAD-seq Phylogenetics with a Deep-scale Example from Flowering Plants. Systematic Biology. PMID 27798402 DOI: 10.1093/sysbio/syw092  0.764
2016 Scoffoni C, Chatelet DS, Pasquet-Kok J, Rawls M, Donoghue MJ, Edwards EJ, Sack L. Hydraulic basis for the evolution of photosynthetic productivity. Nature Plants. 2: 16072. PMID 27255836 DOI: 10.1038/Nplants.2016.72  0.632
2016 Edwards EJ, Spriggs EL, Chatelet DS, Donoghue MJ. Unpacking a century-old mystery: Winter buds and the latitudinal gradient in leaf form. American Journal of Botany. PMID 27221280 DOI: 10.3732/Ajb.1600129  0.544
2015 Edwards EJ, de Vos JM, Donoghue MJ. Doubtful pathways to cold tolerance in plants. Nature. 521: E5-6. PMID 25993970 DOI: 10.1038/Nature14393  0.545
2015 Beaulieu JM, O'Meara BC, Crane P, Donoghue MJ. Heterogeneous Rates of Molecular Evolution and Diversification Could Explain the Triassic Age Estimate for Angiosperms. Systematic Biology. PMID 25944476 DOI: 10.1093/Sysbio/Syv027  0.711
2015 Leslie AB, Beaulieu JM, Crane PR, Knopf P, Donoghue MJ. Integration and macroevolutionary patterns in the pollination biology of conifers. Evolution; International Journal of Organic Evolution. 69: 1573-83. PMID 25903435 DOI: 10.1111/Evo.12670  0.568
2015 Donoghue MJ, Sanderson MJ. Confluence, synnovation, and depauperons in plant diversification. The New Phytologist. 207: 260-74. PMID 25778694 DOI: 10.1111/Nph.13367  0.59
2015 Spriggs EL, Clement WL, Sweeney PW, Madriñán S, Edwards EJ, Donoghue MJ. Temperate radiations and dying embers of a tropical past: the diversification of Viburnum. The New Phytologist. 207: 340-54. PMID 25644136 DOI: 10.1111/Nph.13305  0.624
2014 Clement WL, Arakaki M, Sweeney PW, Edwards EJ, Donoghue MJ. A chloroplast tree for Viburnum (Adoxaceae) and its implications for phylogenetic classification and character evolution. American Journal of Botany. 101: 1029-1049. PMID 24928633 DOI: 10.3732/Ajb.1400015  0.678
2014 Leslie AB, Beaulieu JM, Crane PR, Donoghue MJ. Cone size is related to branching architecture in conifers. The New Phytologist. 203: 1119-27. PMID 24889934 DOI: 10.1111/Nph.12864  0.58
2014 Geeta R, Lohmann LG, Magallon S, Faith DP, Hendry A, Crandall K, De Meester L, Webb CO, Prieur-Richard AH, Mimura M, Conti E, Cracraft J, Forest F, Jaramillo C, Donoghue M, et al. Biodiversity only makes sense in the light of evolution. Journal of Biosciences. 39: 333-7. PMID 24845496 DOI: 10.1007/S12038-014-9427-Y  0.357
2014 Davis CC, Schaefer H, Xi Z, Baum DA, Donoghue MJ, Harmon LJ. Long-term morphological stasis maintained by a plant-pollinator mutualism. Proceedings of the National Academy of Sciences of the United States of America. 111: 5914-9. PMID 24706921 DOI: 10.1073/Pnas.1403157111  0.76
2014 Donoghue MJ, Edwards EJ. Biome shifts and niche evolution in plants Annual Review of Ecology, Evolution, and Systematics. 45: 547-572. DOI: 10.1146/Annurev-Ecolsys-120213-091905  0.61
2014 Edwards EJ, Chatelet DS, Sack L, Donoghue MJ. Leaf life span and the leaf economic spectrum in the context of whole plant architecture Journal of Ecology. 102: 328-336. DOI: 10.1111/1365-2745.12209  0.627
2013 Morgan CC, Mc Cartney AM, Donoghue MT, Loughran NB, Spillane C, Teeling EC, O'Connell MJ. Molecular adaptation of telomere associated genes in mammals. Bmc Evolutionary Biology. 13: 251. PMID 24237966 DOI: 10.1186/1471-2148-13-251  0.304
2013 Beaulieu JM, Donoghue MJ. Fruit evolution and diversification in campanulid angiosperms. Evolution; International Journal of Organic Evolution. 67: 3132-44. PMID 24151998 DOI: 10.1111/evo.12180  0.601
2013 Leslie AB, Beaulieu JM, Crane PR, Donoghue MJ. Explaining the distribution of breeding and dispersal syndromes in conifers. Proceedings. Biological Sciences / the Royal Society. 280: 20131812. PMID 24026822 DOI: 10.1098/Rspb.2013.1812  0.617
2013 Edwards EJ, Donoghue MJ. Is it easy to move and easy to evolve? Evolutionary accessibility and adaptation. Journal of Experimental Botany. 64: 4047-52. PMID 23913955 DOI: 10.1093/Jxb/Ert220  0.632
2013 Beaulieu JM, O'Meara BC, Donoghue MJ. Identifying hidden rate changes in the evolution of a binary morphological character: the evolution of plant habit in campanulid angiosperms. Systematic Biology. 62: 725-37. PMID 23676760 DOI: 10.1093/Sysbio/Syt034  0.773
2013 Beaulieu JM, Tank DC, Donoghue MJ. A Southern Hemisphere origin for campanulid angiosperms, with traces of the break-up of Gondwana. Bmc Evolutionary Biology. 13: 80. PMID 23565668 DOI: 10.1186/1471-2148-13-80  0.758
2013 Chatelet DS, Clement WL, Sack L, Donoghue MJ, Edwards EJ. The evolution of photosynthetic anatomy in Viburnum (Adoxaceae) International Journal of Plant Sciences. 174: 1277-1291. DOI: 10.1086/673241  0.549
2013 Donoghue MJ, Sanderson MJ. Complexity and Homology in Plants Homology: the Hierarchical Basis of Comparative Biology. 393-421. DOI: 10.1016/B978-0-08-057430-1.50018-4  0.485
2012 Leslie AB, Beaulieu JM, Rai HS, Crane PR, Donoghue MJ, Mathews S. Hemisphere-scale differences in conifer evolutionary dynamics. Proceedings of the National Academy of Sciences of the United States of America. 109: 16217-21. PMID 22988083 DOI: 10.1073/Pnas.1213621109  0.608
2012 Weber MG, Clement WL, Donoghue MJ, Agrawal AA. Phylogenetic and experimental tests of interactions among mutualistic plant defense traits in Viburnum (adoxaceae). The American Naturalist. 180: 450-63. PMID 22976009 DOI: 10.1086/667584  0.306
2012 Schmerler SB, Clement WL, Beaulieu JM, Chatelet DS, Sack L, Donoghue MJ, Edwards EJ. Evolution of leaf form correlates with tropical-temperate transitions in Viburnum (Adoxaceae). Proceedings. Biological Sciences / the Royal Society. 279: 3905-13. PMID 22810426 DOI: 10.1098/Rspb.2012.1110  0.717
2012 Clement WL, Donoghue MJ. Barcoding success as a function of phylogenetic relatedness in Viburnum, a clade of woody angiosperms. Bmc Evolutionary Biology. 12: 73. PMID 22646220 DOI: 10.1186/1471-2148-12-73  0.368
2012 Lo EY, Donoghue MJ. Expanded phylogenetic and dating analyses of the apples and their relatives (Pyreae, Rosaceae). Molecular Phylogenetics and Evolution. 63: 230-43. PMID 22293154 DOI: 10.1016/j.ympev.2011.10.005  0.357
2012 Beaulieu JM, Ree RH, Cavender-Bares J, Weiblen GD, Donoghue MJ. Synthesizing phylogenetic knowledge for ecological research Ecology. 93: S4-S13. DOI: 10.1890/11-0638.1  0.751
2012 Carlson SE, Linder HP, Donoghue MJ. The historical biogeography of Scabiosa (Dipsacaceae): Implications for Old World plant disjunctions Journal of Biogeography. 39: 1086-1100. DOI: 10.1111/J.1365-2699.2011.02669.X  0.609
2012 Boyden GS, Donoghue MJ, Howarth DG. Duplications and expression of radialis-like genes in dipsacales International Journal of Plant Sciences. 173: 971-983. DOI: 10.1086/667626  0.724
2011 Goff SA, Vaughn M, McKay S, Lyons E, Stapleton AE, Gessler D, Matasci N, Wang L, Hanlon M, Lenards A, Muir A, Merchant N, Lowry S, Mock S, Helmke M, ... ... Donoghue MJ, et al. The iPlant Collaborative: Cyberinfrastructure for Plant Biology. Frontiers in Plant Science. 2: 34. PMID 22645531 DOI: 10.3389/Fpls.2011.00034  0.768
2011 Carlson SE, Howarth DG, Donoghue MJ. Diversification of CYCLOIDEA-like genes in Dipsacaceae (Dipsacales): implications for the evolution of capitulum inflorescences. Bmc Evolutionary Biology. 11: 325. PMID 22054400 DOI: 10.1186/1471-2148-11-325  0.801
2011 Soltis DE, Smith SA, Cellinese N, Wurdack KJ, Tank DC, Brockington SF, Refulio-Rodriguez NF, Walker JB, Moore MJ, Carlsward BS, Bell CD, Latvis M, Crawley S, Black C, Diouf D, ... ... Donoghue MJ, et al. Angiosperm phylogeny: 17 genes, 640 taxa. American Journal of Botany. 98: 704-30. PMID 21613169 DOI: 10.3732/Ajb.1000404  0.784
2011 Smith SA, Beaulieu JM, Stamatakis A, Donoghue MJ. Understanding angiosperm diversification using small and large phylogenetic trees. American Journal of Botany. 98: 404-14. PMID 21613134 DOI: 10.3732/Ajb.1000481  0.705
2011 Desurmont GA, Donoghue MJ, Clement WL, Agrawal AA. Evolutionary history predicts plant defense against an invasive pest. Proceedings of the National Academy of Sciences of the United States of America. 108: 7070-4. PMID 21482779 DOI: 10.1073/Pnas.1102891108  0.315
2011 Howarth DG, Martins T, Chimney E, Donoghue MJ. Diversification of CYCLOIDEA expression in the evolution of bilateral flower symmetry in Caprifoliaceae and Lonicera (Dipsacales). Annals of Botany. 107: 1521-32. PMID 21478175 DOI: 10.1093/Aob/Mcr049  0.72
2011 Evans ME, Hearn DJ, Theiss KE, Cranston K, Holsinger KE, Donoghue MJ. Extreme environments select for reproductive assurance: evidence from evening primroses (Oenothera). The New Phytologist. 191: 555-63. PMID 21449951 DOI: 10.1111/J.1469-8137.2011.03697.X  0.747
2011 Clement WL, Donoghue MJ. Dissolution of Viburnum section Megalotinus (Adoxaceae) of Southeast Asia and its implications for morphological evolution and biogeography International Journal of Plant Sciences. 172: 559-573. DOI: 10.1086/658927  0.372
2011 Greenberg AK, Donoghue MJ. Molecular systematics and character evolution in caryophyllaceae Taxon. 60: 1637-1652. DOI: 10.1002/Tax.606009  0.725
2010 Smith SA, Donoghue MJ. Combining historical biogeography with niche modeling in the Caprifolium clade of Lonicera (Caprifoliaceae, Dipsacales). Systematic Biology. 59: 322-41. PMID 20525639 DOI: 10.1093/Sysbio/Syq011  0.522
2010 Smith SA, Beaulieu JM, Donoghue MJ. An uncorrelated relaxed-clock analysis suggests an earlier origin for flowering plants. Proceedings of the National Academy of Sciences of the United States of America. 107: 5897-902. PMID 20304790 DOI: 10.1073/Pnas.1001225107  0.671
2010 Tank DC, Donoghue MJ. Phylogeny and Phylogenetic Nomenclature of the Campanulidae Based on an Expanded Sample of Genes and Taxa Systematic Botany. 35: 425-441. DOI: 10.1600/036364410791638306  0.668
2010 Yahara T, Donoghue M, Zardoya R, Faith DP, Cracraft J. Genetic diversity assessments in the century of genome science Current Opinion in Environmental Sustainability. 2: 43-49. DOI: 10.1016/J.Cosust.2010.03.008  0.367
2009 Howarth DG, Donoghue MJ. Duplications and expression of DIVARICATA-like genes in dipsacales. Molecular Biology and Evolution. 26: 1245-58. PMID 19289599 DOI: 10.1093/Molbev/Msp051  0.76
2009 Moore BR, Donoghue MJ. A Bayesian approach for evaluating the impact of historical events on rates of diversification. Proceedings of the National Academy of Sciences of the United States of America. 106: 4307-12. PMID 19251663 DOI: 10.1073/Pnas.0807230106  0.556
2009 Smith SA, Beaulieu JM, Donoghue MJ. Mega-phylogeny approach for comparative biology: an alternative to supertree and supermatrix approaches. Bmc Evolutionary Biology. 9: 37. PMID 19210768 DOI: 10.1186/1471-2148-9-37  0.687
2009 Evans ME, Smith SA, Flynn RS, Donoghue MJ. Climate, niche evolution, and diversification of the "bird-cage" evening primroses (Oenothera, sections Anogra and Kleinia). The American Naturalist. 173: 225-40. PMID 19072708 DOI: 10.1086/595757  0.416
2009 Cellinese N, Smith SA, Edwards EJ, Kim ST, Haberle RC, Avramakis M, Donoghue MJ. Historical biogeography of the endemic Campanulaceae of Crete Journal of Biogeography. 36: 1253-1269. DOI: 10.1111/J.1365-2699.2008.02077.X  0.711
2009 Carlson SE, Mayer V, Donoghue MJ. Phylogenetic relationships, taxonomy, and morphological evolution in Dipsacaceae (Dipsacales) inferred by DNA sequence data Taxon. 58: 1075-1091. DOI: 10.1002/Tax.584003  0.644
2008 Kim ST, Donoghue MJ. Incongruence between cpDNA and nrITS trees indicates extensive hybridization within Eupersicaria (Polygonaceae). American Journal of Botany. 95: 1122-35. PMID 21632431 DOI: 10.3732/Ajb.0700008  0.559
2008 Smith SA, Donoghue MJ. Rates of molecular evolution are linked to life history in flowering plants. Science (New York, N.Y.). 322: 86-9. PMID 18832643 DOI: 10.1126/Science.1163197  0.477
2008 Smith SA, Tank DC, Boulanger LA, Bascom-Slack CA, Eisenman K, Kingery D, Babbs B, Fenn K, Greene JS, Hann BD, Keehner J, Kelley-Swift EG, Kembaiyan V, Lee SJ, Li P, ... ... Donoghue MJ, et al. Bioactive endophytes warrant intensified exploration and conservation. Plos One. 3: e3052. PMID 18725962 DOI: 10.1371/Journal.Pone.0003052  0.713
2008 Kim ST, Sultan SE, Donoghue MJ. Allopolyploid speciation in Persicaria (Polygonaceae): insights from a low-copy nuclear region. Proceedings of the National Academy of Sciences of the United States of America. 105: 12370-5. PMID 18711129 DOI: 10.1073/Pnas.0805141105  0.525
2008 Donoghue MJ. Colloquium paper: a phylogenetic perspective on the distribution of plant diversity. Proceedings of the National Academy of Sciences of the United States of America. 105: 11549-55. PMID 18695216 DOI: 10.1073/pnas.0801962105  0.382
2008 Winkworth RC, Bell CD, Donoghue MJ. Mitochondrial sequence data and Dipsacales phylogeny: mixed models, partitioned Bayesian analyses, and model selection. Molecular Phylogenetics and Evolution. 46: 830-43. PMID 18255318 DOI: 10.1016/j.ympev.2007.11.021  0.493
2008 Kim ST, Donoghue MJ. Molecular phylogeny of Persicaria (Persicarieae, Polygonaceae) Systematic Botany. 33: 77-86. DOI: 10.1600/036364408783887302  0.559
2007 Moore BR, Donoghue MJ. Correlates of diversification in the plant clade Dipsacales: geographic movement and evolutionary innovations. The American Naturalist. 170: S28-55. PMID 17874383 DOI: 10.1086/519460  0.612
2007 Edwards EJ, Still CJ, Donoghue MJ. The relevance of phylogeny to studies of global change. Trends in Ecology & Evolution. 22: 243-9. PMID 17296242 DOI: 10.1016/J.Tree.2007.02.002  0.587
2007 Schmid R, Judd WS, Campbell CS, Kellogg EA, Stevens PF, Donoghue MJ, Judd WS, Nickrent DL, Robertson KR, Abbott JR, Campbell CS, Carlsward BS, Donoghue MJ, Kellogg EA. Plant Systematics: A Phylogenetic Approach Taxon. 56: 1316. DOI: 10.2307/25065934  0.585
2007 Cantino PD, Doyle JA, Graham SW, Judd WS, Olmstead RG, Soltis DE, Soltis PS, Donoghue MJ. Towards a phylogenetic nomenclature of Tracheophyta Taxon. 56: 822-846. DOI: 10.2307/25065864  0.715
2007 Körner C, Donoghue M, Fabbro T, Häuse C, Nogués-Bravo D, Arroyo MTK, Soberon J, Speers L, Spehn EM, Sun H, Tribsch A, Tykarski P, Zbinden N. Creative Use of Mountain Biodiversity Databases: The Kazbegi Research Agenda of GMBA-DIVERSITAS Mountain Research and Development. 27: 276-281. DOI: 10.1659/Mrd.0880  0.321
2006 Moore BR, Smith SA, Donoghue MJ. Increasing data transparency and estimating phylogenetic uncertainty in supertrees: Approaches using nonparametric bootstrapping. Systematic Biology. 55: 662-76. PMID 16969942 DOI: 10.1080/10635150600920693  0.613
2006 Howarth DG, Donoghue MJ. Phylogenetic analysis of the "ECE" (CYC/TB1) clade reveals duplications predating the core eudicots. Proceedings of the National Academy of Sciences of the United States of America. 103: 9101-6. PMID 16754863 DOI: 10.1073/Pnas.0602827103  0.749
2006 Edwards EJ, Donoghue MJ. Pereskia and the origin of the cactus life-form. The American Naturalist. 167: 777-93. PMID 16649155 DOI: 10.1086/504605  0.627
2005 Winkworth RC, Donoghue MJ. Viburnum phylogeny based on combined molecular data: implications for taxonomy and biogeography. American Journal of Botany. 92: 653-66. PMID 21652443 DOI: 10.3732/ajb.92.4.653  0.379
2005 Bell CD, Donoghue MJ. Dating the Dipsacales: comparing models, genes, and evolutionary implications. American Journal of Botany. 92: 284-96. PMID 21652406 DOI: 10.3732/ajb.92.2.284  0.539
2005 Edwards EJ, Nyffeler R, Donoghue MJ. Basal cactus phylogeny: implications of Pereskia (Cactaceae) paraphyly for the transition to the cactus life form. American Journal of Botany. 92: 1177-88. PMID 21646140 DOI: 10.3732/Ajb.92.7.1177  0.663
2005 Ree RH, Moore BR, Webb CO, Donoghue MJ. A likelihood framework for inferring the evolution of geographic range on phylogenetic trees. Evolution; International Journal of Organic Evolution. 59: 2299-311. PMID 16396171 DOI: 10.1111/J.0014-3820.2005.Tb00940.X  0.769
2005 Davis CC, Webb CO, Wurdack KJ, Jaramillo CA, Donoghue MJ. Explosive radiation of Malpighiales supports a mid-cretaceous origin of modern tropical rain forests. The American Naturalist. 165: E36-65. PMID 15729659 DOI: 10.1086/428296  0.554
2005 Howarth DG, Donoghue MJ. Duplications in CYC-like genes from dipsacales correlate with floral form International Journal of Plant Sciences. 166: 357-370. DOI: 10.1086/428634  0.744
2005 Bell CD, Donoghue MJ. Phylogeny and biogeography of Valerianaceae (Dipsacales) with special reference to the South American valerians Organisms Diversity and Evolution. 5: 147-159. DOI: 10.1016/j.ode.2004.10.014  0.396
2004 Wiens JJ, Donoghue MJ. Historical biogeography, ecology and species richness. Trends in Ecology & Evolution. 19: 639-44. PMID 16701326 DOI: 10.1016/J.Tree.2004.09.011  0.312
2004 Donoghue MJ, Smith SA. Patterns in the assembly of temperate forests around the Northern Hemisphere. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences. 359: 1633-44. PMID 15519978 DOI: 10.1098/Rstb.2004.1538  0.52
2004 Winkworth RC, Donoghue MJ. Viburnum phylogeny: evidence from the duplicated nuclear gene GBSSI. Molecular Phylogenetics and Evolution. 33: 109-26. PMID 15324842 DOI: 10.1016/j.ympev.2004.05.006  0.314
2004 Feild TS, Arens NC, Doyle JA, Dawson TE, Donoghue MJ. Dark and disturbed: A new image of early angiosperm ecology Paleobiology. 30: 82-107. DOI: 10.1666/0094-8373(2004)030<0082:Dadani>2.0.Co;2  0.348
2003 Donoghue MJ, Moore BR. Toward an integrative historical biogeography. Integrative and Comparative Biology. 43: 261-70. PMID 21680431 DOI: 10.1093/Icb/43.2.261  0.519
2003 Piel WH, Sanderson MJ, Donoghue MJ. The small-world dynamics of tree networks and data mining in phyloinformatics. Bioinformatics (Oxford, England). 19: 1162-8. PMID 12801879 DOI: 10.1093/Bioinformatics/Btg131  0.487
2003 Bell CD, Donoghue MJ. Phylogeny and biogeography of Morinaceae (Dipsacales) based on nuclear and chloroplast DNA sequences Organisms Diversity and Evolution. 3: 227-237. DOI: 10.1078/1439-6092-00077  0.424
2003 Donoghue MJ, Bell CD, Winkworth RC. The evolution of reproductive characters in Dipsacales International Journal of Plant Sciences. 164: S453-S464.  0.464
2002 Chang BS, Jönsson K, Kazmi MA, Donoghue MJ, Sakmar TP. Recreating a functional ancestral archosaur visual pigment. Molecular Biology and Evolution. 19: 1483-9. PMID 12200476 DOI: 10.1093/Oxfordjournals.Molbev.A004211  0.642
2002 Zanis MJ, Soltis DE, Soltis PS, Mathews S, Donoghue MJ. The root of the angiosperms revisited. Proceedings of the National Academy of Sciences of the United States of America. 99: 6848-53. PMID 12011443 DOI: 10.1073/Pnas.092136399  0.305
2002 Davis CC, Bell CD, Mathews S, Donoghue MJ. Laurasian migration explains Gondwanan disjunctions: evidence from Malpighiaceae. Proceedings of the National Academy of Sciences of the United States of America. 99: 6833-7. PMID 11983870 DOI: 10.1073/Pnas.102175899  0.668
2001 Davis CC, Anderson WR, Donoghue MJ. Phylogeny of Malpighiaceae: evidence from chloroplast ndhF and trnl-F nucleotide sequences. American Journal of Botany. 88: 1830-46. PMID 21669617 DOI: 10.2307/3558360  0.615
2001 Hibbett DS, Donoghue MJ. Analysis of character correlations among wood decay mechanisms, mating systems, and substrate ranges in homobasidiomycetes. Systematic Biology. 50: 215-42. PMID 12116929 DOI: 10.1080/10635150121079  0.561
2001 Manos PS, Donoghue MJ. Progress in Northern Hemisphere phytogeography: An introduction International Journal of Plant Sciences. 162: S1-S2. DOI: 10.1086/324421  0.365
2001 Donoghue MJ, Bell CD, Li J. Phylogenetic patterns in Northern Hemisphere plant geography International Journal of Plant Sciences. 162: S41-S52.  0.501
2000 Hibbett DS, Gilbert LB, Donoghue MJ. Evolutionary instability of ectomycorrhizal symbioses in basidiomycetes. Nature. 407: 506-8. PMID 11029000 DOI: 10.1038/35035065  0.589
2000 Chang BS, Donoghue MJ. Recreating ancestral proteins. Trends in Ecology & Evolution. 15: 109-114. PMID 10675926  0.507
2000 Urbatsch LE, Baldwin BG, Donoghue MJ. Phylogeny of the coneflowers and relatives (Heliantheae: Asteraceae) based on nuclear rDNA internal transcribed spacer (ITS) sequences and chlorplast DNA restriction site data Systematic Botany. 25: 539-565. DOI: 10.2307/2666695  0.308
2000 Donoghue MJ, Ree RH. Homoplasy and Developmental Constraint: A Model and an Example from Plants1 American Zoologist. 40: 759-769. DOI: 10.1668/0003-1569(2000)040[0759:Hadcam]2.0.Co;2  0.669
2000 Mathews S, Donoghue M. Basal Angiosperm Phylogeny Inferred from Duplicate Phytochromes A and C International Journal of Plant Sciences. 161: S41-S55. DOI: 10.1086/317582  0.343
1999 Cantino PD, Bryant HN, de Queiroz K, Donoghue MJ, Eriksson T, Hillis DM, Lee MS. Species names in phylogenetic nomenclature. Systematic Biology. 48: 790-807. PMID 12066299 DOI: 10.1080/106351599260012  0.305
1999 Mathews S, Donoghue MJ. The root of angiosperm phylogeny inferred from duplicate phytochrome genes Science. 286: 947-950. PMID 10542147 DOI: 10.1126/Science.286.5441.947  0.375
1999 Ree RH, Donoghue MJ. Inferring rates of change in flower symmetry in asterid angiosperms Systematic Biology. 48: 633-641. DOI: 10.1080/106351599260201  0.611
1999 Pine EM, Hibbett DS, Donoghue MJ. Phylogenetic relationships of cantharelloid and clavarioid homobasidiomycetes based on mitochondrial and nuclear rDNA sequences Mycologia. 91: 944-963. DOI: 10.1080/00275514.1999.12061105  0.607
1999 Harrington FA, Pfister DH, Potter D, Donoghue MJ. Phylogenetic studies within the Pezizales. I. 18S rRNA sequence data and classification Mycologia. 91: 41-50. DOI: 10.1080/00275514.1999.12060992  0.315
1998 Ree RH, Donoghue MJ. Step matrices and the interpretation of homoplasy. Systematic Biology. 47: 582-8. PMID 12066303 DOI: 10.1080/106351598260590  0.626
1998 Donoghue MJ, Mathews S. Duplicate Genes and the Root of Angiosperms, with an Example Using Phytochrome Sequences Molecular Phylogenetics and Evolution. 9: 489-500. PMID 9667997 DOI: 10.1006/Mpev.1998.0511  0.356
1998 Hibbett DS, Donoghue MJ. Integrating phylogenetic analysis and classification in fungi Mycologia. 90: 347-356. DOI: 10.1080/00275514.1998.12026917  0.553
1998 Hibbett DS, Hansen K, Donoghue MJ. Phylogeny and biogeography of Lentinula inferred from an expanded rDNA dataset Mycological Research. 102: 1041-1049. DOI: 10.1017/S0953756297005996  0.574
1998 Donoghue MJ, Ree RH, Baum DA. Phylogeny and the evolution of flower symmetry in the asteridae Trends in Plant Science. 3: 311-317. DOI: 10.1016/S1360-1385(98)01278-3  0.729
1997 Rice KA, Donoghue MJ, Olmstead RG. Analyzing large data sets: rbcL 500 revisited. Systematic Biology. 46: 554-63. PMID 11975333  0.425
1997 Hibbett DS, Pine EM, Langer E, Langer G, Donoghue MJ. Evolution of gilled mushrooms and puffballs inferred from ribosomal DNA sequences. Proceedings of the National Academy of Sciences of the United States of America. 94: 12002-6. PMID 9342352 DOI: 10.1073/Pnas.94.22.12002  0.613
1997 Sang T, Donoghue MJ, Zhang D. Evolution of alcohol dehydrogenase genes in peonies (Paeonia): Phylogenetic relationships of putative nonhybrid species Molecular Biology and Evolution. 14: 994-1007. PMID 9335140 DOI: 10.1093/oxfordjournals.molbev.a025716  0.31
1997 Hibbett DS, Donoghue MJ, Tomlinson PB. Is Phellinites digiustoi the oldest homobasidiomycete? American Journal of Botany. 84: 1005-1011. DOI: 10.2307/2446291  0.604
1997 Hibbett DS, Grimaldi D, Donoghue MJ. Fossil mushrooms from Miocene and Cretaceous ambers and the evolution of homobasidiomycetes American Journal of Botany. 84: 981-991. DOI: 10.2307/2446289  0.568
1996 Sanderson MJ, Donoghue MJ. Reconstructing shifts in diversification rates on phylogenetic trees. Trends in Ecology & Evolution. 11: 15-20. PMID 21237745 DOI: 10.1016/0169-5347(96)81059-7  0.535
1996 Baldwin BG, Sanderson MJ, Porter JM, Wojciechowski MF, Campbell CS, Donoghue MJ. Erratum: The ITS Region of Nuclear Ribosomal DNAZ: A Valuable Source of Evidence on Angiosperm Phylogeny Annals of the Missouri Botanical Garden. 83: 151. DOI: 10.2307/2399880  0.461
1996 Hibbett DS, Donoghue MJ. Implications of phylogenetic studies for conservation of genetic diversity in shiitake mushrooms | Implicaciones de estudios filogeneticos en la conservacion de la diversidad genetica de hongos shiitake Conservation Biology. 10: 1321-1327. DOI: 10.1046/J.1523-1739.1996.10051321.X  0.569
1995 Baum DA, Donoghue MJ. Choosing among Alternative "Phylogenetic" Species Concepts Systematic Botany. 20: 560. DOI: 10.2307/2419810  0.562
1995 Baldwin BG, Sanderson MJ, Porter JM, Wojciechowski MF, Campbell CS, Donoghue MJ. The its Region of Nuclear Ribosomal DNA: A Valuable Source of Evidence on Angiosperm Phylogeny Annals of the Missouri Botanical Garden. 82: 247. DOI: 10.2307/2399880  0.451
1995 Hibbett DS, Donoghue MJ. Progress toward a phylogenetic classification of the Polyporaceae through parsimony analysis of mitochondrial ribosomal DNA sequences Canadian Journal of Botany. 73: 853-861. DOI: 10.1139/B95-331  0.579
1995 Manchester SR, Donoghue MJ. Winged fruits of Linnaeeae (Caprifoliaceae) in the Tertiary of western North America: Diplodipelta gen. nov International Journal of Plant Sciences. 156: 709-722. DOI: 10.1086/297293  0.311
1995 Hibbett DS, Fukumasa-Nakai Y, Tsuneda A, Donoghue MJ. Phylogenetic diversity in shiitake inferred from nuclear ribosomal DNA sequences Mycologia. 87: 618-638. DOI: 10.1080/00275514.1995.12026578  0.555
1995 Hibbett DS, Grimaldi D, Donoghue MJ. Cretaceous mushrooms in amber Nature. 377: 487-487. DOI: 10.1038/377487A0  0.495
1994 Sanderson MJ, Donoghue MJ. Shifts in diversification rate with the origin of angiosperms. Science (New York, N.Y.). 264: 1590-3. PMID 17769604 DOI: 10.1126/Science.264.5165.1590  0.572
1994 Doyle JA, Donoghue MJ, Zimmer EA. Integration of morphological and ribosomal RNA data on the origin of angiosperms Annals of the Missouri Botanical Garden. 81: 419-450. DOI: 10.2307/2399899  0.336
1993 Sanderson MJ, Baldwin BG, Bharathan G, Campbell CS, Von Dohlen C, Ferguson D, Porter JM, Wojciechowski MF, Donoghue MJ. The growth of phylogenetic information and the need for a phylogenetic data base Systematic Biology. 42: 562-568. DOI: 10.1093/Sysbio/42.4.562  0.52
1993 Wojciechowski MF, Sanderson MJ, Baldwin BG, Donoghue MJ. MONOPHYLY OF ANEUPLOID ASTRAGALUS (FABACEAE): EVIDENCE FROM NUCLEAR RIBOSOMAL DNA INTERNAL TRANSCRIBED SPACER SEQUENCES American Journal of Botany. 80: 711-722. DOI: 10.1002/J.1537-2197.1993.Tb15241.X  0.564
1992 Doyle JA, Donoghue MJ. Fossils and seed plant phylogeny reanalyzed Brittonia. 44: 89-106. DOI: 10.2307/2806826  0.364
1992 Donoghue MJ, Olmstead RG, Smith JF, Palmer JD. Phylogenetic Relationships of Dipsacales Based on rbcL Sequences Annals of the Missouri Botanical Garden. 79: 333. DOI: 10.2307/2399772  0.503
1991 Donoghue MJ, Doyle JA. Angiosperm monophyly. Trends in Ecology & Evolution. 6: 407. PMID 21232523 DOI: 10.1016/0169-5347(91)90164-S  0.315
1989 Sanderson MJ, Donoghue MJ. PATTERNS OF VARIATION IN LEVELS OF HOMOPLASY. Evolution; International Journal of Organic Evolution. 43: 1781-1795. PMID 28564338 DOI: 10.1111/J.1558-5646.1989.Tb02626.X  0.562
1988 de Queiroz K, Donoghue MJ. PHYLOGENETIC SYSTEMATICS AND THE SPECIES PROBLEM. Cladistics : the International Journal of the Willi Hennig Society. 4: 317-338. PMID 34949064 DOI: 10.1111/j.1096-0031.1988.tb00518.x  0.302
1987 Doyle JA, Donoghue MJ. The importance of fossils in elucidating seed plant phylogeny and macroevolution Review of Palaeobotany and Palynology. 50: 63-95. DOI: 10.1016/0034-6667(87)90040-6  0.325
1986 Doyle JA, Donoghue MJ. Seed plant phylogeny and the origin of angiosperms: An experimental cladistic approach The Botanical Review. 52: 321-431. DOI: 10.1007/Bf02861082  0.378
1982 Mishler BD, Donoghue MJ. Species Concepts: A Case for Pluralism Systematic Biology. 31: 491-503. DOI: 10.1093/sysbio/31.4.491  0.58
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