Michael Purugganan, PhD - Publications

Affiliations: 
Biology and center for Genomics and Systems Biology New York University, New York, NY, United States 
Area:
Genomics

153 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
2020 Hamann E, Pauli CS, Joly-Lopez Z, Groen SC, Rest JS, Kane NC, Purugganan MD, Franks SJ. Rapid evolutionary changes in gene expression in response to climate fluctuations. Molecular Ecology. PMID 32761923 DOI: 10.1111/mec.15583  0.48
2020 Shin D, Lee S, Kim TH, Lee JH, Park J, Lee J, Lee JY, Cho LH, Choi JY, Lee W, Park JH, Lee DW, Ito H, Kim DH, Tanaka A, ... ... Purugganan MD, et al. Natural variations at the Stay-Green gene promoter control lifespan and yield in rice cultivars. Nature Communications. 11: 2819. PMID 32499482 DOI: 10.1038/s41467-020-16573-2  0.6
2020 Gutaker RM, Groen SC, Bellis ES, Choi JY, Pires IS, Bocinsky RK, Slayton ER, Wilkins O, Castillo CC, Negrão S, Oliveira MM, Fuller DQ, Guedes JAD, Lasky JR, Purugganan MD. Genomic history and ecology of the geographic spread of rice. Nature Plants. 6: 492-502. PMID 32415291 DOI: 10.1038/s41477-020-0659-6  0.6
2020 Groen SC, Ćalić I, Joly-Lopez Z, Platts AE, Choi JY, Natividad M, Dorph K, Mauck WM, Bracken B, Cabral CLU, Kumar A, Torres RO, Satija R, Vergara G, Henry A, ... ... Purugganan MD, et al. The strength and pattern of natural selection on gene expression in rice. Nature. PMID 32051590 DOI: 10.1038/s41586-020-1997-2  0.6
2020 Joly-Lopez Z, Platts AE, Gulko B, Choi JY, Groen SC, Zhong X, Siepel A, Purugganan MD. An inferred fitness consequence map of the rice genome. Nature Plants. PMID 32042156 DOI: 10.1038/s41477-019-0589-3  0.6
2020 Choi JY, Lye ZN, Groen SC, Dai X, Rughani P, Zaaijer S, Harrington ED, Juul S, Purugganan MD. Nanopore sequencing-based genome assembly and evolutionary genomics of circum-basmati rice. Genome Biology. 21: 21. PMID 32019604 DOI: 10.1186/s13059-020-1938-2  0.6
2019 Choi JY, Purugganan M, Stacy EA. Divergent selection and primary gene flow shape incipient speciation of a riparian tree on Hawaii Island. Molecular Biology and Evolution. PMID 31693149 DOI: 10.1093/molbev/msz259  0.6
2019 Hazzouri KM, Gros-Balthazard M, Flowers JM, Copetti D, Lemansour A, Lebrun M, Masmoudi K, Ferrand S, Dhar MI, Fresquez ZA, Rosas U, Zhang J, Talag J, Lee S, Kudrna D, ... ... Purugganan MD, et al. Genome-wide association mapping of date palm fruit traits. Nature Communications. 10: 4680. PMID 31615981 DOI: 10.1038/s41467-019-12604-9  0.6
2019 Chen LY, VanBuren R, Paris M, Zhou H, Zhang X, Wai CM, Yan H, Chen S, Alonge M, Ramakrishnan S, Liao Z, Liu J, Lin J, Yue J, Fatima M, ... ... Purugganan MD, et al. The bracteatus pineapple genome and domestication of clonally propagated crops. Nature Genetics. PMID 31570895 DOI: 10.1038/s41588-019-0506-8  0.64
2019 Choi JY, Zaidem M, Gutaker R, Dorph K, Singh RK, Purugganan MD. The complex geography of domestication of the African rice Oryza glaberrima. Plos Genetics. 15: e1007414. PMID 30845217 DOI: 10.1371/journal.pgen.1007414  0.6
2019 Flowers JM, Hazzouri KM, Gros-Balthazard M, Mo Z, Koutroumpa K, Perrakis A, Ferrand S, Khierallah HSM, Fuller DQ, Aberlenc F, Fournaraki C, Purugganan MD. Cross-species hybridization and the origin of North African date palms. Proceedings of the National Academy of Sciences of the United States of America. PMID 30642962 DOI: 10.1073/pnas.1817453116  0.6
2018 Zaidem M, Groen SC, Purugganan MD. Evolutionary and ecological functional genomics, from lab to the wild. The Plant Journal : For Cell and Molecular Biology. PMID 30444573 DOI: 10.1111/tpj.14167  0.6
2018 Wing RA, Purugganan MD, Zhang Q. The rice genome revolution: from an ancient grain to Green Super Rice. Nature Reviews. Genetics. PMID 29872215 DOI: 10.1038/s41576-018-0024-z  0.48
2018 Choi JY, Purugganan MD. Multiple Origin but Single Domestication Led to Oryza sativa. G3 (Bethesda, Md.). PMID 29301862 DOI: 10.1534/g3.117.300334  0.6
2017 Choi JY, Purugganan MD. Evolutionary epigenomics of retrotransposon-mediated methylation spreading in rice by. Molecular Biology and Evolution. PMID 29126199 DOI: 10.1093/molbev/msx284  0.6
2017 Choi JY, Platts AE, Fuller DQ, Hsing YI, Wing RA, Purugganan MD. The rice paradox: Multiple origins but single domestication in Asian rice. Molecular Biology and Evolution. PMID 28087768 DOI: 10.1093/molbev/msx049  0.6
2016 Groen SC, Purugganan MD. Systems genetics of plant adaptation to environmental stresses. American Journal of Botany. PMID 27864265 DOI: 10.3732/ajb.1600340  0.4
2016 van Andel TR, Meyer RS, Aflitos SA, Carney JA, Veltman MA, Copetti D, Flowers JM, Havinga RM, Maat H, Purugganan MD, Wing RA, Schranz ME. Tracing ancestor rice of Suriname Maroons back to its African origin. Nature Plants. 2: 16149. PMID 27694825 DOI: 10.1038/nplants.2016.149  0.6
2016 Yuan W, Flowers JM, Sahraie DJ, Purugganan MD. Cryptic Genetic Variation for Arabidopsis thaliana Seed Germination Speed in a Novel Salt Stress Environment. G3 (Bethesda, Md.). PMID 27543295 DOI: 10.1534/g3.116.033944  0.6
2016 Meyer RS, Choi JY, Sanches M, Plessis A, Flowers JM, Amas J, Dorph K, Barretto A, Gross B, Fuller DQ, Bimpong IK, Ndjiondjop MN, Hazzouri KM, Gregorio GB, Purugganan MD. Domestication history and geographical adaptation inferred from a SNP map of African rice. Nature Genetics. PMID 27500524 DOI: 10.1038/ng.3633  0.6
2016 Yuan W, Flowers JM, Sahraie DJ, Ehrenreich IM, Purugganan MD. Extreme QTL mapping of germination speed in Arabidopsis thaliana. Molecular Ecology. PMID 27454560 DOI: 10.1111/mec.13768  1
2016 Joly-Lopez Z, Flowers JM, Purugganan MD. Developing maps of fitness consequences for plant genomes. Current Opinion in Plant Biology. 30: 101-107. PMID 26950251 DOI: 10.1016/j.pbi.2016.02.008  0.6
2016 Rest JS, Wilkins O, Yuan W, Purugganan MD, Gurevitch J. Meta-analysis and meta-regression of transcriptomic response to water stress in Arabidopsis. The Plant Journal : For Cell and Molecular Biology. PMID 26756945 DOI: 10.1111/tpj.13124  1
2015 Plessis A, Hafemeister C, Wilkins O, Gonzaga ZJ, Meyer RS, Pires I, Müller C, Septiningsih EM, Bonneau R, Purugganan M. Multiple abiotic stimuli are integrated in the regulation of rice gene expression under field conditions. Elife. 4. PMID 26609814 DOI: 10.7554/eLife.08411  1
2015 Hazzouri KM, Flowers JM, Visser HJ, Khierallah HS, Rosas U, Pham GM, Meyer RS, Johansen CK, Fresquez ZA, Masmoudi K, Haider N, El Kadri N, Idaghdour Y, Malek JA, Thirkhill D, ... ... Purugganan MD, et al. Whole genome re-sequencing of date palms yields insights into diversification of a fruit tree crop. Nature Communications. 6: 8824. PMID 26549859 DOI: 10.1038/ncomms9824  0.6
2015 Flowers JM, Hazzouri KM, Pham GM, Rosas U, Bahmani T, Khraiwesh B, Nelson DR, Jijakli K, Abdrabu R, Harris EH, Lefebvre PA, Hom EF, Salehi-Ashtiani K, Purugganan MD. Whole-Genome Resequencing Reveals Extensive Natural Variation in the Model Green Alga Chlamydomonas reinhardtii. The Plant Cell. PMID 26392080 DOI: 10.1105/tpc.15.00492  1
2015 Pires IS, Negrão S, Oliveira MM, Purugganan MD. Comprehensive phenotypic analysis of rice (Oryza sativa) response to salinity stress. Physiologia Plantarum. PMID 26082319 DOI: 10.1111/ppl.12356  1
2015 Rosas U, Cibrian-Jaramillo A, Ristova D, Banta JA, Gifford ML, Fan AH, Zhou RW, Kim GJ, Krouk G, Birnbaum KD, Purugganan MD, Coruzzi GM. Correction: Integration of responses within and across Arabidopsis natural accessions uncovers loci controlling root systems architecture (Proceedings of the National Academy of Sciences of the United States of America (2015) 110 (15133-15138) DOI: 0.1073/pnas.1305883110) Proceedings of the National Academy of Sciences of the United States of America. 112: E2555. DOI: 10.1073/pnas.1507065112  1
2014 Purugganan MD. An evolutionary genomic tale of two rice species. Nature Genetics. 46: 931-2. PMID 25162803 DOI: 10.1038/ng.3071  1
2014 Li SI, Buttery NJ, Thompson CR, Purugganan MD. Sociogenomics of self vs. non-self cooperation during development of Dictyostelium discoideum. Bmc Genomics. 15: 616. PMID 25048306 DOI: 10.1186/1471-2164-15-616  1
2014 Larson G, Piperno DR, Allaby RG, Purugganan MD, Andersson L, Arroyo-Kalin M, Barton L, Climer Vigueira C, Denham T, Dobney K, Doust AN, Gepts P, Gilbert MT, Gremillion KJ, Lucas L, et al. Current perspectives and the future of domestication studies. Proceedings of the National Academy of Sciences of the United States of America. 111: 6139-46. PMID 24757054 DOI: 10.1073/pnas.1323964111  1
2014 Fuller DQ, Denham T, Arroyo-Kalin M, Lucas L, Stevens CJ, Qin L, Allaby RG, Purugganan MD. Convergent evolution and parallelism in plant domestication revealed by an expanding archaeological record. Proceedings of the National Academy of Sciences of the United States of America. 111: 6147-52. PMID 24753577 DOI: 10.1073/pnas.1308937110  1
2014 Gerbault P, Allaby RG, Boivin N, Rudzinski A, Grimaldi IM, Pires JC, Climer Vigueira C, Dobney K, Gremillion KJ, Barton L, Arroyo-Kalin M, Purugganan MD, Rubio de Casas R, Bollongino R, Burger J, et al. Storytelling and story testing in domestication. Proceedings of the National Academy of Sciences of the United States of America. 111: 6159-64. PMID 24753572 DOI: 10.1073/pnas.1400425111  1
2014 Rosas U, Mei Y, Xie Q, Banta JA, Zhou RW, Seufferheld G, Gerard S, Chou L, Bhambhra N, Parks JD, Flowers JM, McClung CR, Hanzawa Y, Purugganan MD. Variation in Arabidopsis flowering time associated with cis-regulatory variation in CONSTANS. Nature Communications. 5: 3651. PMID 24736505 DOI: 10.1038/ncomms4651  1
2014 Molina J, Hazzouri KM, Nickrent D, Geisler M, Meyer RS, Pentony MM, Flowers JM, Pelser P, Barcelona J, Inovejas SA, Uy I, Yuan W, Wilkins O, Michel CI, Locklear S, ... ... Purugganan MD, et al. Possible loss of the chloroplast genome in the parasitic flowering plant Rafflesia lagascae (Rafflesiaceae). Molecular Biology and Evolution. 31: 793-803. PMID 24458431 DOI: 10.1093/molbev/msu051  1
2014 Hazzouri KM, Purugganan MD, Flowers JM. Population Genomics of Plant Species Advances in Botanical Research. 69: 311-334. DOI: 10.1016/B978-0-12-417163-3.00012-3  1
2013 Sotowa M, Ootsuka K, Kobayashi Y, Hao Y, Tanaka K, Ichitani K, Flowers JM, Purugganan MD, Nakamura I, Sato YI, Sato T, Crayn D, Simon B, Waters DL, Henry RJ, et al. Molecular relationships between Australian annual wild rice, Oryza meridionalis, and two related perennial forms. Rice (New York, N.Y.). 6: 26. PMID 24280095 DOI: 10.1186/1939-8433-6-26  1
2013 Meyer RS, Purugganan MD. Evolution of crop species: genetics of domestication and diversification. Nature Reviews. Genetics. 14: 840-52. PMID 24240513 DOI: 10.1038/nrg3605  1
2013 Gifford ML, Banta JA, Katari MS, Hulsmans J, Chen L, Ristova D, Tranchina D, Purugganan MD, Coruzzi GM, Birnbaum KD. Plasticity regulators modulate specific root traits in discrete nitrogen environments. Plos Genetics. 9: e1003760. PMID 24039603 DOI: 10.1371/journal.pgen.1003760  1
2013 Li YH, Zhao SC, Ma JX, Li D, Yan L, Li J, Qi XT, Guo XS, Zhang L, He WM, Chang RZ, Liang QS, Guo Y, Ye C, Wang XB, ... ... Purugganan M, et al. Molecular footprints of domestication and improvement in soybean revealed by whole genome re-sequencing. Bmc Genomics. 14: 579. PMID 23984715 DOI: 10.1186/1471-2164-14-579  1
2013 Rosas U, Cibrian-Jaramillo A, Ristova D, Banta JA, Gifford ML, Fan AH, Zhou RW, Kim GJ, Krouk G, Birnbaum KD, Purugganan MD, Coruzzi GM. Integration of responses within and across Arabidopsis natural accessions uncovers loci controlling root systems architecture. Proceedings of the National Academy of Sciences of the United States of America. 110: 15133-8. PMID 23980140 DOI: 10.1073/pnas.1305883110  1
2013 Pires IS, Negrão S, Pentony MM, Abreu IA, Oliveira MM, Purugganan MD. Different evolutionary histories of two cation/proton exchanger gene families in plants. Bmc Plant Biology. 13: 97. PMID 23822194 DOI: 10.1186/1471-2229-13-97  1
2013 Thanawala SU, Rister J, Goldberg GW, Zuskov A, Olesnicky EC, Flowers JM, Jukam D, Purugganan MD, Gavis ER, Desplan C, Johnston RJ. Regional modulation of a stochastically expressed factor determines photoreceptor subtypes in the Drosophila retina. Developmental Cell. 25: 93-105. PMID 23597484 DOI: 10.1016/j.devcel.2013.02.016  1
2013 Shaffer HB, Purugganan MD. Introduction to theme "genomics in ecology, evolution, and systematics" Annual Review of Ecology, Evolution, and Systematics. 44: 1-4. DOI: 10.1146/annurev-ecolsys-081913-123118  1
2012 Samis KE, Murren CJ, Bossdorf O, Donohue K, Fenster CB, Malmberg RL, Purugganan MD, Stinchcombe JR. Longitudinal trends in climate drive flowering time clines in North American Arabidopsis thaliana. Ecology and Evolution. 2: 1162-80. PMID 22833792 DOI: 10.1002/ece3.262  1
2012 Huang P, Molina J, Flowers JM, Rubinstein S, Jackson SA, Purugganan MD, Schaal BA. Phylogeography of Asian wild rice, Oryza rufipogon: a genome-wide view. Molecular Ecology. 21: 4593-604. PMID 22646149 DOI: 10.1111/j.1365-294X.2012.05625.x  1
2012 Banta JA, Ehrenreich IM, Gerard S, Chou L, Wilczek A, Schmitt J, Kover PX, Purugganan MD. Climate envelope modelling reveals intraspecific relationships among flowering phenology, niche breadth and potential range size in Arabidopsis thaliana. Ecology Letters. 15: 769-77. PMID 22583905 DOI: 10.1111/j.1461-0248.2012.01796.x  1
2012 Richards CL, Rosas U, Banta J, Bhambhra N, Purugganan MD. Genome-wide patterns of Arabidopsis gene expression in nature. Plos Genetics. 8: e1002662. PMID 22532807 DOI: 10.1371/journal.pgen.1002662  1
2012 Pentony MM, Winters P, Penfold-Brown D, Drew K, Narechania A, DeSalle R, Bonneau R, Purugganan MD. The plant proteome folding project: structure and positive selection in plant protein families. Genome Biology and Evolution. 4: 360-71. PMID 22345424 DOI: 10.1093/gbe/evs015  1
2012 Flowers JM, Molina J, Rubinstein S, Huang P, Schaal BA, Purugganan MD. Natural selection in gene-dense regions shapes the genomic pattern of polymorphism in wild and domesticated rice. Molecular Biology and Evolution. 29: 675-87. PMID 21917724 DOI: 10.1093/molbev/msr225  1
2012 Fuller DQ, Asouti E, Purugganan MD. Cultivation as slow evolutionary entanglement: Comparative data on rate and sequence of domestication Vegetation History and Archaeobotany. 21: 131-145. DOI: 10.1007/s00334-011-0329-8  1
2011 Xie X, Molina J, Hernandez R, Reynolds A, Boyko AR, Bustamante CD, Purugganan MD. Levels and patterns of nucleotide variation in domestication QTL regions on rice chromosome 3 suggest lineage-specific selection. Plos One. 6: e20670. PMID 21674010 DOI: 10.1371/journal.pone.0020670  1
2011 Molina J, Sikora M, Garud N, Flowers JM, Rubinstein S, Reynolds A, Huang P, Jackson S, Schaal BA, Bustamante CD, Boyko AR, Purugganan MD. Molecular evidence for a single evolutionary origin of domesticated rice. Proceedings of the National Academy of Sciences of the United States of America. 108: 8351-6. PMID 21536870 DOI: 10.1073/pnas.1104686108  1
2011 Li SI, Purugganan MD. The cooperative amoeba: Dictyostelium as a model for social evolution. Trends in Genetics : Tig. 27: 48-54. PMID 21167620 DOI: 10.1016/j.tig.2010.11.003  1
2011 Purugganan MD, Fuller DQ. Archaeological data reveal slow rates of evolution during plant domestication. Evolution; International Journal of Organic Evolution. 65: 171-83. PMID 20666839 DOI: 10.1111/j.1558-5646.2010.01093.x  1
2011 Molina J, Sikora M, Garud N, Flowers JM, Rubinstein S, Reynolds A, Huang P, Jackson SA, Schaal BA, Bustamante CD, Boyko AR, Purugganan MD. Reply to Ge and Sang: A single origin of domesticated rice Proceedings of the National Academy of Sciences of the United States of America. 108: E756. DOI: 10.1073/pnas.1112466108  1
2011 Molina J, Sikora M, Garud N, Flowers JM, Rubinstein S, Reynolds A, Huang P, Jackson SA, Schaal BA, Bustamante CD, Boyko AR, Purugganan MD. Reply to Ge and Sang: A single origin of domesticated rice Proceedings of the National Academy of Sciences of the United States of America. 108: E756. DOI: 10.1073/pnas.1112466108  0.6
2010 Nicotra AB, Atkin OK, Bonser SP, Davidson AM, Finnegan EJ, Mathesius U, Poot P, Purugganan MD, Richards CL, Valladares F, van Kleunen M. Plant phenotypic plasticity in a changing climate. Trends in Plant Science. 15: 684-92. PMID 20970368 DOI: 10.1016/j.tplants.2010.09.008  1
2010 Mather KA, Molina J, Flowers JM, Rubinstein S, Rauh BL, Lawton-Rauh A, Caicedo AL, McNally KL, Purugganan MD. Migration, isolation and hybridization in island crop populations: the case of Madagascar rice. Molecular Ecology. 19: 4892-905. PMID 20964753 DOI: 10.1111/j.1365-294X.2010.04845.x  1
2010 Flowers JM, Li SI, Stathos A, Saxer G, Ostrowski EA, Queller DC, Strassmann JE, Purugganan MD. Variation, sex, and social cooperation: molecular population genetics of the social amoeba Dictyostelium discoideum. Plos Genetics. 6: e1001013. PMID 20617172 DOI: 10.1371/journal.pgen.1001013  1
2010 Purugganan MD. Bio Evolution and Development. 12: 3-4. DOI: 10.1111/j.1525-142X.2009.00385.x  1
2010 Purugganan MD. The evolution of rice: Molecular vignettes on its origins and spread Archaeological and Anthropological Sciences. 2: 61-68. DOI: 10.1007/s12520-010-0026-z  1
2009 Flowers JM, Hanzawa Y, Hall MC, Moore RC, Purugganan MD. Population genomics of the Arabidopsis thaliana flowering time gene network. Molecular Biology and Evolution. 26: 2475-86. PMID 19625391 DOI: 10.1093/molbev/msp161  1
2009 Kover PX, Valdar W, Trakalo J, Scarcelli N, Ehrenreich IM, Purugganan MD, Durrant C, Mott R. A Multiparent Advanced Generation Inter-Cross to fine-map quantitative traits in Arabidopsis thaliana. Plos Genetics. 5: e1000551. PMID 19593375 DOI: 10.1371/journal.pgen.1000551  1
2009 Ehrenreich IM, Hanzawa Y, Chou L, Roe JL, Kover PX, Purugganan MD. Candidate gene association mapping of Arabidopsis flowering time. Genetics. 183: 325-35. PMID 19581446 DOI: 10.1534/genetics.109.105189  1
2009 Reininga JM, Nielsen D, Purugganan MD. Functional and geographical differentiation of candidate balanced polymorphisms in Arabidopsis thaliana. Molecular Ecology. 18: 2844-55. PMID 19457201 DOI: 10.1111/j.1365-294X.2009.04206.x  1
2009 Purugganan MD, Fuller DQ. The nature of selection during plant domestication. Nature. 457: 843-8. PMID 19212403 DOI: 10.1038/nature07895  1
2009 Caicedo AL, Richards C, Ehrenreich IM, Purugganan MD. Complex rearrangements lead to novel chimeric gene fusion polymorphisms at the Arabidopsis thaliana MAF2-5 flowering time gene cluster. Molecular Biology and Evolution. 26: 699-711. PMID 19139056 DOI: 10.1093/molbev/msn300  1
2009 Richards CL, Hanzawa Y, Katari MS, Ehrenreich IM, Engelmann KE, Purugganan MD. Perspectives on Ecological and Evolutionary Systems Biology Annual Plant Reviews. 35: 331-349. DOI: 10.1002/9781444312249.ch12  1
2008 Ehrenreich IM, Purugganan M. MicroRNAs in plants: Possible contributions to phenotypic diversity. Plant Signaling & Behavior. 3: 829-30. PMID 19704512 DOI: 10.4161/psb.3.10.5914  1
2008 Flowers JM, Purugganan MD. The evolution of plant genomes: scaling up from a population perspective. Current Opinion in Genetics & Development. 18: 565-70. PMID 19131240 DOI: 10.1016/j.gde.2008.11.005  1
2008 Boualem A, Fergany M, Fernandez R, Troadec C, Martin A, Morin H, Sari MA, Collin F, Flowers JM, Pitrat M, Purugganan MD, Dogimont C, Bendahmane A. A conserved mutation in an ethylene biosynthesis enzyme leads to andromonoecy in melons. Science (New York, N.Y.). 321: 836-8. PMID 18687965 DOI: 10.1126/science.1159023  1
2008 Shimizu KK, Reininga JM, Caicedo AL, Mays CA, Moore RC, Olsen KM, Ruzsa S, Coop G, Bustamante CD, Purugganan MD. Retraction. Science (New York, N.Y.). 320: 176. PMID 18403691 DOI: 10.1126/science.320.5873.176a  1
2008 Ehrenreich IM, Purugganan MD. Sequence variation of MicroRNAs and their binding sites in Arabidopsis. Plant Physiology. 146: 1974-82. PMID 18305205 DOI: 10.1104/pp.108.116582  1
2008 Shimizu KK, Shimizu-Inatsugi R, Tsuchimatsu T, Purugganan MD. Independent origins of self-compatibility in Arabidopsis thaliana. Molecular Ecology. 17: 704-14. PMID 18179433 DOI: 10.1111/j.1365-294X.2007.03605.x  1
2007 Saisho D, Purugganan MD. Molecular phylogeography of domesticated barley traces expansion of agriculture in the Old World. Genetics. 177: 1765-76. PMID 17947416 DOI: 10.1534/genetics.107.079491  1
2007 Mather KA, Caicedo AL, Polato NR, Olsen KM, McCouch S, Purugganan MD. The extent of linkage disequilibrium in rice (Oryza sativa L.). Genetics. 177: 2223-32. PMID 17947413 DOI: 10.1534/genetics.107.079616  1
2007 Caicedo AL, Williamson SH, Hernandez RD, Boyko A, Fledel-Alon A, York TL, Polato NR, Olsen KM, Nielsen R, McCouch SR, Bustamante CD, Purugganan MD. Genome-wide patterns of nucleotide polymorphism in domesticated rice. Plos Genetics. 3: 1745-56. PMID 17907810 DOI: 10.1371/journal.pgen.0030163  1
2007 Lawton-Rauh A, Robichaux RH, Purugganan MD. Diversity and divergence patterns in regulatory genes suggest differential gene flow in recently derived species of the Hawaiian silversword alliance adaptive radiation (Asteraceae). Molecular Ecology. 16: 3995-4013. PMID 17784920 DOI: 10.1111/j.1365-294X.2007.03445.x  1
2007 Hall MC, Dworkin I, Ungerer MC, Purugganan M. Genetics of microenvironmental canalization in Arabidopsis thaliana. Proceedings of the National Academy of Sciences of the United States of America. 104: 13717-22. PMID 17698961 DOI: 10.1073/pnas.0701936104  1
2007 Ehrenreich IM, Stafford PA, Purugganan MD. The genetic architecture of shoot branching in Arabidopsis thaliana: a comparative assessment of candidate gene associations vs. quantitative trait locus mapping. Genetics. 176: 1223-36. PMID 17435248 DOI: 10.1534/genetics.107.071928  1
2007 Korves TM, Schmid KJ, Caicedo AL, Mays C, Stinchcombe JR, Purugganan MD, Schmitt J. Fitness effects associated with the major flowering time gene FRIGIDA in Arabidopsis thaliana in the field. The American Naturalist. 169: E141-57. PMID 17427127 DOI: 10.1086/513111  1
2007 Fan C, Xiang QY, Remington DL, Purugganan MD, Wiegmann BM. Evolutionary patterns in the antR-Cor gene in the dwarf dogwood complex (Cornus, Cornaceae). Genetica. 130: 19-34. PMID 16924407 DOI: 10.1007/s10709-006-0016-3  1
2006 Ehrenreich IM, Purugganan MD. The molecular genetic basis of plant adaptation. American Journal of Botany. 93: 953-62. PMID 21642159 DOI: 10.3732/ajb.93.7.953  1
2006 Tang T, Lu J, Huang J, He J, McCouch SR, Shen Y, Kai Z, Purugganan MD, Shi S, Wu CI. Genomic variation in rice: genesis of highly polymorphic linkage blocks during domestication. Plos Genetics. 2: e199. PMID 17112320 DOI: 10.1371/journal.pgen.0020199  1
2006 Jackson S, Rounsley S, Purugganan M. Comparative sequencing of plant genomes: choices to make. The Plant Cell. 18: 1100-4. PMID 16670439 DOI: 10.1105/tpc.106.042192  1
2006 Miller SR, Purugganan MD, Curtis SE. Molecular population genetics and phenotypic diversification of two populations of the thermophilic cyanobacterium Mastigocladus laminosus. Applied and Environmental Microbiology. 72: 2793-800. PMID 16597984 DOI: 10.1128/AEM.72.4.2793-2800.2006  1
2006 Olsen KM, Caicedo AL, Polato N, McClung A, McCouch S, Purugganan MD. Selection under domestication: evidence for a sweep in the rice waxy genomic region. Genetics. 173: 975-83. PMID 16547098 DOI: 10.1534/genetics.106.056473  1
2006 Engelmann K, Purugganan M. The Molecular Evolutionary Ecology of Plant Development: Flowering Time in Arabidopsis thaliana Advances in Botanical Research. 44: 507-526. DOI: 10.1016/S0065-2296(06)44013-1  1
2005 Stinchcombe JR, Caicedo AL, Hopkins R, Mays C, Boyd EW, Purugganan MD, Schmitt J. Vernalization sensitivity in Arabidopsis thaliana (Brassicaceae): the effects of latitude and FLC variation. American Journal of Botany. 92: 1701-7. PMID 21646087 DOI: 10.3732/ajb.92.10.1701  1
2005 Shimizu KK, Purugganan MD. Evolutionary and ecological genomics of Arabidopsis. Plant Physiology. 138: 578-84. PMID 15955921 DOI: 10.1104/pp.105.061655  1
2005 Caicedo AL, Purugganan MD. Comparative plant genomics. Frontiers and prospects. Plant Physiology. 138: 545-7. PMID 15955910 DOI: 10.1104/pp.104.900148  1
2005 Cork JM, Purugganan MD. High-diversity genes in the Arabidopsis genome. Genetics. 170: 1897-911. PMID 15911589 DOI: 10.1534/genetics.104.036152  1
2005 Moore RC, Purugganan MD. The evolutionary dynamics of plant duplicate genes. Current Opinion in Plant Biology. 8: 122-8. PMID 15752990 DOI: 10.1016/j.pbi.2004.12.001  1
2005 Tsompana M, Abad J, Purugganan M, Moyer JW. The molecular population genetics of the Tomato spotted wilt virus (TSWV) genome. Molecular Ecology. 14: 53-66. PMID 15643950 DOI: 10.1111/j.1365-294X.2004.02392.x  1
2005 Moore RC, Grant SR, Purugganan MD. Molecular population genetics of redundant floral-regulatory genes in Arabidopsis thaliana. Molecular Biology and Evolution. 22: 91-103. PMID 15371526 DOI: 10.1093/molbev/msh261  1
2005 Purugganan MD, Robichaux RH. Adaptive radiation and regulatory gene evolution in the Hawaiian silversword alliance (Asteraceae) Annals of the Missouri Botanical Garden. 92: 28-35.  1
2005 Purugganan MD, Robichaux RH. Adaptive radiation and regulatory gene evolution in the Hawaiian silversword alliance (Asteraceae) Annals of the Missouri Botanical Garden. 92: 28-35.  0.4
2004 Friedman WE, Moore RC, Purugganan MD. The evolution of plant development. American Journal of Botany. 91: 1726-41. PMID 21652320 DOI: 10.3732/ajb.91.10.1726  1
2004 Kalisz S, Purugganan MD. Epialleles via DNA methylation: consequences for plant evolution. Trends in Ecology & Evolution. 19: 309-14. PMID 16701276 DOI: 10.1016/j.tree.2004.03.034  1
2004 Shimizu KK, Cork JM, Caicedo AL, Mays CA, Moore RC, Olsen KM, Ruzsa S, Coop G, Bustamante CD, Awadalla P, Purugganan MD. Darwinian selection on a selfing locus. Science (New York, N.Y.). 306: 2081-4. PMID 15604405 DOI: 10.1126/science.1103776  1
2004 Fan C, Purugganan MD, Thomas DT, Wiegmann BM, Xiang JQ. Heterogeneous evolution of the Myc-like Anthocyanin regulatory gene and its phylogenetic utility in Cornus L. (Cornaceae). Molecular Phylogenetics and Evolution. 33: 580-94. PMID 15522789 DOI: 10.1016/j.ympev.2004.08.002  1
2004 Caicedo AL, Stinchcombe JR, Olsen KM, Schmitt J, Purugganan MD. Epistatic interaction between Arabidopsis FRI and FLC flowering time genes generates a latitudinal cline in a life history trait. Proceedings of the National Academy of Sciences of the United States of America. 101: 15670-5. PMID 15505218 DOI: 10.1073/pnas.0406232101  1
2004 Olsen KM, Halldorsdottir SS, Stinchcombe JR, Weinig C, Schmitt J, Purugganan MD. Linkage disequilibrium mapping of Arabidopsis CRY2 flowering time alleles. Genetics. 167: 1361-9. PMID 15280248 DOI: 10.1534/genetics.103.024950  1
2004 Cork JM, Purugganan MD. The evolution of molecular genetic pathways and networks. Bioessays : News and Reviews in Molecular, Cellular and Developmental Biology. 26: 479-84. PMID 15112228 DOI: 10.1002/bies.20026  1
2004 Stinchcombe JR, Weinig C, Ungerer M, Olsen KM, Mays C, Halldorsdottir SS, Purugganan MD, Schmitt J. A latitudinal cline in flowering time in Arabidopsis thaliana modulated by the flowering time gene FRIGIDA. Proceedings of the National Academy of Sciences of the United States of America. 101: 4712-7. PMID 15070783 DOI: 10.1073/pnas.0306401101  1
2003 Moore RC, Purugganan MD. The early stages of duplicate gene evolution. Proceedings of the National Academy of Sciences of the United States of America. 100: 15682-7. PMID 14671323 DOI: 10.1073/pnas.2535513100  1
2003 Ungerer MC, Halldorsdottir SS, Purugganan MD, Mackay TF. Genotype-environment interactions at quantitative trait loci affecting inflorescence development in Arabidopsis thaliana. Genetics. 165: 353-65. PMID 14504242  1
2003 Weinig C, Dorn LA, Kane NC, German ZM, Halldorsdottir SS, Ungerer MC, Toyonaga Y, Mackay TF, Purugganan MD, Schmitt J. Heterogeneous selection at specific loci in natural environments in Arabidopsis thaliana. Genetics. 165: 321-9. PMID 14504239  1
2003 Lawton-Rauh A, Robichaux RH, Purugganan MD. Patterns of nucleotide variation in homoeologous regulatory genes in the allotetraploid Hawaiian silversword alliance (Asteraceae). Molecular Ecology. 12: 1301-13. PMID 12694292 DOI: 10.1046/j.1365-294X.2003.01814.x  1
2003 Purugganan M, Gibson G. Merging ecology, molecular evolution, and functional genetics. Molecular Ecology. 12: 1109-12. PMID 12694275 DOI: 10.1046/j.1365-294X.2003.01851.x  1
2003 Shepard KA, Purugganan MD. Molecular population genetics of the Arabidopsis CLAVATA2 region. The genomic scale of variation and selection in a selfing species. Genetics. 163: 1083-95. PMID 12663546  1
2003 Barrier M, Bustamante CD, Yu J, Purugganan MD. Selection on rapidly evolving proteins in the Arabidopsis genome. Genetics. 163: 723-33. PMID 12618409  1
2003 Xie J, Wehner TC, Wollenberg K, Purugganan MD, Conkling MA. Intron and polypeptide evolution of conserved NPA to NPA motif regions in plant aquaporins Journal of the American Society For Horticultural Science. 128: 591-597.  1
2003 Xie J, Wehner TC, Wollenberg K, Purugganan MD, Conkling MA. Intron and polypeptide evolution of conserved NPA to NPA motif regions in plant aquaporins Journal of the American Society For Horticultural Science. 128: 591-597.  0.32
2003 Remington DL, Purugganan MD. Candidate genes, quantitative trait loci, and functional trait evolution in plants International Journal of Plant Sciences. 164: S7-S20.  1
2003 Remington DL, Purugganan MD. Candidate genes, quantitative trait loci, and functional trait evolution in plants International Journal of Plant Sciences. 164: S7-S20.  0.96
2002 Weinig C, Ungerer MC, Dorn LA, Kane NC, Toyonaga Y, Halldorsdottir SS, Mackay TF, Purugganan MD, Schmitt J. Novel loci control variation in reproductive timing in Arabidopsis thaliana in natural environments. Genetics. 162: 1875-84. PMID 12524356  1
2002 Olsen KM, Purugganan MD. Molecular evidence on the origin and evolution of glutinous rice. Genetics. 162: 941-50. PMID 12399401  1
2002 Remington DL, Purugganan MD. GAI homologues in the Hawaiian silversword alliance (Asteraceae-Madiinae): molecular evolution of growth regulators in a rapidly diversifying plant lineage. Molecular Biology and Evolution. 19: 1563-74. PMID 12200483  1
2002 Olsen KM, Womack A, Garrett AR, Suddith JI, Purugganan MD. Contrasting evolutionary forces in the Arabidopsis thaliana floral developmental pathway. Genetics. 160: 1641-50. PMID 11973317  1
2002 Bustamante CD, Nielsen R, Sawyer SA, Olsen KM, Purugganan MD, Hartl DL. The cost of inbreeding in Arabidopsis. Nature. 416: 531-4. PMID 11932744 DOI: 10.1038/416531a  1
2002 Ungerer MC, Halldorsdottir SS, Modliszewski JL, Mackay TF, Purugganan MD. Quantitative trait loci for inflorescence development in Arabidopsis thaliana. Genetics. 160: 1133-51. PMID 11901129  1
2002 Shepard KA, Purugganan MD. The genetics of plant morphological evolution. Current Opinion in Plant Biology. 5: 49-55. PMID 11788308 DOI: 10.1016/S1369-5266(01)00227-8  1
2002 Jackson RB, Linder CR, Lynch M, Purugganan M, Somerville S, Thayer SS. Linking molecular insight and ecological research Trends in Ecology and Evolution. 17: 409-414. DOI: 10.1016/S0169-5347(02)02571-5  1
2001 Remington DL, Ungerer MC, Purugganan MD. Map-based cloning of quantitative trait loci: progress and prospects. Genetical Research. 78: 213-8. PMID 11865710  1
2001 Barrier M, Robichaux RH, Purugganan MD. Accelerated regulatory gene evolution in an adaptive radiation. Proceedings of the National Academy of Sciences of the United States of America. 98: 10208-13. PMID 11517318 DOI: 10.1073/pnas.181257698  1
2000 Juenger T, Purugganan M, Mackay TF. Quantitative trait loci for floral morphology in Arabidopsis thaliana. Genetics. 156: 1379-92. PMID 11063709  1
2000 Purugganan MD. The molecular population genetics of regulatory genes. Molecular Ecology. 9: 1451-61. PMID 11050541 DOI: 10.1046/j.1365-294X.2000.01016.x  1
2000 Purugganan MD, Boyles AL, Suddith JI. Variation and selection at the CAULIFLOWER floral homeotic gene accompanying the evolution of domesticated Brassica oleracea. Genetics. 155: 855-62. PMID 10835404  1
2000 Lawton-Rauh AL, Alvarez-Buylla ER, Purugganan MD. Molecular evolution of flower development. Trends in Ecology & Evolution. 15: 144-149. PMID 10717683 DOI: 10.1016/S0169-5347(99)01816-9  1
2000 Barrier M, Friar E, Robichaux R, Purugganan M. Interspecific evolution in plant microsatellite structure. Gene. 241: 101-5. PMID 10607903 DOI: 10.1016/S0378-1119(99)00463-1  1
1999 Lowman AC, Purugganan MD. Duplication of the Brassica oleracea APETALA1 floral homeotic gene and the evolution of domesticated cauliflower. The Journal of Heredity. 90: 514-20. PMID 10544496 DOI: 10.1093/jhered/90.5.514  1
1999 Barrier M, Baldwin BG, Robichaux RH, Purugganan MD. Interspecific hybrid ancestry of a plant adaptive radiation: allopolyploidy of the Hawaiian silversword alliance (Asteraceae) inferred from floral homeotic gene duplications. Molecular Biology and Evolution. 16: 1105-13. PMID 10474905  1
1999 Lawton-Rauh AL, Buckler ES, Purugganan MD. Patterns of molecular evolution among paralogous floral homeotic genes. Molecular Biology and Evolution. 16: 1037-45. PMID 10474900 DOI: 10.1093/OXFORDJOURNALS.MOLBEV.A026193  1
1999 Purugganan MD, Suddith JI. Molecular population genetics of floral homeotic loci. Departures from the equilibrium-neutral model at the APETALA3 and PISTILLATA genes of Arabidopsis thaliana. Genetics. 151: 839-48. PMID 9927474  1
1998 Purugganan MD. The molecular evolution of development. Bioessays : News and Reviews in Molecular, Cellular and Developmental Biology. 20: 700-11. PMID 9819559 DOI: 10.1002/(SICI)1521-1878(199809)20:9<700::AID-BIES3>3.0.CO;2-K  1
1998 Purugganan MD, Suddith JI. Molecular population genetics of the Arabidopsis CAULIFLOWER regulatory gene: nonneutral evolution and naturally occurring variation in floral homeotic function. Proceedings of the National Academy of Sciences of the United States of America. 95: 8130-4. PMID 9653152 DOI: 10.1073/pnas.95.14.8130  1
1997 Swaffield JC, Purugganan MD. The evolution of the conserved ATPase domain (CAD): reconstructing the history of an ancient protein module. Journal of Molecular Evolution. 45: 549-63. PMID 9342402 DOI: 10.1007/PL00006259  1
1997 Purugganan MD. The MADS-box floral homeotic gene lineages predate the origin of seed plants: phylogenetic and molecular clock estimates. Journal of Molecular Evolution. 45: 392-6. PMID 9321418 DOI: 10.1007/PL00006244  1
1996 Purugganan MD. Evolution of development: molecules, mechanisms and phylogenetics. Trends in Ecology & Evolution. 11: 5-7. PMID 21237741 DOI: 10.1016/0169-5347(96)81055-X  1
1995 Purugganan MD, Wessler SR. Transposon signatures: species-specific molecular markers that utilize a class of multiple-copy nuclear DNA. Molecular Ecology. 4: 265-9. PMID 7735530  1
1995 Purugganan MD, Rounsley SD, Schmidt RJ, Yanofsky MF. Molecular evolution of flower development: diversification of the plant MADS-box regulatory gene family. Genetics. 140: 345-56. PMID 7635298  1
1994 Purugganan MD, Wessler SR. Molecular evolution of magellan, a maize Ty3/gypsy-like retrotransposon. Proceedings of the National Academy of Sciences of the United States of America. 91: 11674-8. PMID 7972122 DOI: 10.1073/pnas.91.24.11674  1
1994 Purugganan MD, Wessler SR. Molecular evolution of the plant R regulatory gene family. Genetics. 138: 849-54. PMID 7851779  1
1993 Purugganan MD. Transposable elements as introns: evolutionary connections. Trends in Ecology & Evolution. 8: 239-43. PMID 21236158 DOI: 10.1016/0169-5347(93)90198-X  1
1993 Purugganan MD. Scale-invariant spatial patterns in genome organization Physics Letters A. 175: 252-256. DOI: 10.1016/0375-9601(93)90836-O  1
1993 Purugganan MD. Environment, resources and conflict: The changing context of international security Development. 36: 28-32.  1
1992 Purugganan M, Wessler S. The splicing of transposable elements and its role in intron evolution. Genetica. 86: 295-303. PMID 1334914 DOI: 10.1007/BF00133728  1
1992 Varagona MJ, Purugganan M, Wessler SR. Alternative splicing induced by insertion of retrotransposons into the maize waxy gene. The Plant Cell. 4: 811-20. PMID 1327340 DOI: 10.1105/tpc.4.7.811  1
1990 Wessler S, Tarpley A, Purugganan M, Spell M, Okagaki R. Filler DNA is associated with spontaneous deletions in maize. Proceedings of the National Academy of Sciences of the United States of America. 87: 8731-5. PMID 2247441  1
1989 Purugganan MD. The fractal nature of RNA secondary structure. Die Naturwissenschaften. 76: 471-3. PMID 2479842 DOI: 10.1007/BF00366226  1
1988 Purugganan MD, Kumar CV, Turro NJ, Barton JK. Accelerated electron transfer between metal complexes mediated by DNA. Science (New York, N.Y.). 241: 1645-9. PMID 3420416 DOI: 10.1126/science.3420416  1
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