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 | 2009 2008 2007 2006 2005 2004 2003 2002 2001 2000 1999 1998 19972009Reininga-Craven,J., Nielsen,D. and M.D. Purugganan (In press). Functional and geographic differentiation of candidate balanced polymorphisms in Arabidopsis thaliana. Mol. Ecol. Note: This paper will be accompanied by a News and Views article.Purugganan,M.D.(In press). Complexitites in genome structure and evolution:Vignettes and challenges. In :The Vienna Series in Theoretical Biology: Extending the Evolutionary Synthesis (G. Muller and M. Pigliucci, eds). MIT Press, Cambridge, MA. Caicedo,A., Richards, C.L., Ehrenreich,I.M. and M.D. Purugganan. Complex rearrangements lead to novel chimeric gene fusion polymorphisms at the Arabidopsis MAF2-5 flowering time gene cluster. Mol. Biol. Evol. 26:699-711 Download Purugganan,M.D. and D. Fuller. The nature of selection during plant domestication.Nature 457:843-848 Download Richards,C.L., Hanzawa,Y., Katari,M., Ehrenreich,I., Englemann,K. and M.D. Purugganan (In Press). Perspectives on ecological and evolutionary systems biology.In : Systems Biology, Annual Plant Reviews vol. 35 (R.A. Gutierrez and G.M. Coruzzi, eds.) Blackwell Publishing, New York. Back to the top2008Flowers,J.M. and M.D.Purugganan (2008). The evolution of plant genomes - scaling up from a population perspective.Curr. Op. Genetics Dev. 18:565-570.Download Boualem,A., Fergany,M., Fernandez,R., Troadex, C., Martin,A., Morin,H., Sari,M.A., Flowers,J.M., Pitrat,M., Purugganan,M.D., Dogimont,C. and Bendahmane, A. (2008). A conserved mutation in an ethylene biosynthesis enzyme leads to andromonoecy in melons. Science 321:836-838. Download Ehrenreich, I. and M.D. Purugganan (2008). Sequence variation of Arabidopsis microRNAs and their binding sites.Plant Physiol. 146:1974-1982. Download Shimizu K.K., Shimizu-Inatsugi R., Tsuchimatsu T., and Purugganan M.D. (2008) Independent origins of self-compatibility in Arabidopsis thaliana. Molecular Ecology 17:704-714. Download Back to the top2007Saisho D. and Purugganan M.D. (2007). Molecular phylogeography of domesticated barley traces expansion of agriculture in the old world. Genetics 177: 1765-1776.Download Hall M.C., Dworkin I., Ungerer M.C. and Purugganan M.D. (2007). Genetics of microenvironmental canalization in Arabidopsis thaliana. Proceedings of the National Academy of Sciences USA 104 (34): 13717-13722. Download Mather M.A., Caicedo A.L., Polato N.R., Olsen K.M., McCouch S., and Purugganan M.D. The extent of linkage disequilibrium in rice (Oryza sativa L.). Genetics 177: 2223-2232. Download Lawton-Rauh A., Robichaux R.H., and Purugganan M.D. (2007). 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 (19): 3995-4013. Download Caicedo A.L., Williamson S.H., Hernandez R.D., Boyko A., Fledel-Alon A., York T.L., Polato N.R., Olsen K.M., Nielsen R., McCouch S.R., Bustamante C.D., Purugganan M.D. (2007). Genome-wide patterns of nucleotide polymorphism in domesticated ricePLOS Genetics 3: 1745-1756. Download Ehrenreich, I.M., Stafford, P.A., and Purugganan, M.D. (2007).The Genetic Architecture of Shoot Branching in Arabidopsis thaliana: A Comparative Assessment of Candidate Gene Associations vs. Quantitative Trait Locus Mapping.Genetics 176: 1223-1236. Download Korves, T.M., Schmid, K.J., Caicedo, A.L., Mays, C., Stinkchcombe, J.R., Purugganan, M.D., and Schmitt, J. (2007). Fitness effects associated with the major flowering time gene FRIGIDA in Arabidopsis thaliana in the field.American Naturalist 169: electronically published. Download Back to the top2006Tang, T., Lu, J., Huang, J.Z., He, J.H., McCouch, S.R., Shen, Y., Kai, Z., Purugganan, M.D., Shi, S.H., and Wu, C.I. (2006). Genomic variation in rice: Genesis of highly polymorphic linkage blocks during domestication.PLOS Genetics 2: 1824-1833Ehrenreich, I.M. and Purugganan, M.D. (2006). The molecular genetic basis of plant adaptation.American J. Botany 93: 953-962. Download Olsen, K.M., Caicedo, A.L., Polato, N., McClung, A., McCouch, S., and Purugganan, M.D. (2006). Selection under domestication: Evidence for a sweep in the rice Waxy genomic region. Genetics 173: 975-983. Download Shimizu, K.K. and Purugganan, M.D. (2006). Evolutionary and ecological genomics - Darwinian selection on a selfing locus in Arabidopsis thaliana.Plant and Cell Physiology 47: S13-S13. Jackson, S., Rounsley, S., and Purugganan, M.D. (2006). Comparative sequencing of plant genomes: Choices to make. Plant Cell 18: 1100-1104. Download Miller, S.R., Purugganan, M.D., and Curtis, S.E. (2006). Molecular population genetics and phenotypic diversification of two populations of the thermophilic cyanobacterium Mastigocladus laminosus. Appl. Environ. Micro. 72: 2793-2800. Back to the top2005Engelmann, K. E. and Purugganan, M.D. (In press). The molecular evolutionary ecology of plant development: Flowering time in Arabidopsis thaliana.Advances in Botanical Research.Cork, J.M. and Purugganan, M.D. (2005). High-diversity genes in the Arabidopsis genome.Genetics 170: 1897-1911. Download Shimizu, K.K. and Purugganan, M.D. (2005). Evolutionary and ecological genomics of Arabidopsis.Plant Physiology 138: 578-584. Download Caicedo, A.L. and Purugganan, M.D. (2005). Comparative plant genomics. Frontiers and Prospects.Plant Physiology 138: 545-547. Download Robichaux, R.H. and Purugganan, M.D. (2005). Adaptive radiation and regulatory gene evolution in the Hawaiian silversword alliance (Asteraceae).Annals Missouri Bot. Garden 92: 28-35. Moore, R.C., and Purugganan, M.D. (2005). The evolutionary dynamics of plant duplicate genes.Curr. Op. in Plant Biol. 8: 122-128. Download Tsompana, M., Abad, J., Purugganan, M.D., and Moyer, J.W. (2005). The molecular population genetics of the Tomato spotted wilt virus (TSWV) genome.Mol. Ecol. 14: 53-66. Download Moore, R.C., Grant, S.R., and Purugganan, M.D. (2005). Molecular Population Genetics of Redundant Floral-Regulatory Genes in Arabidopsis thaliana.Molecular Biology and Evolution 22: 91-103. Download Back to the top2004Fan, C.Z., Purugganan, M.D., Thomas, D.T., Wiegmann, B.M., and Xiang, Q.Y. (2004). Heterogeneous Evolution of the Myc-like Anthocyanin Regulatory Gene and its Phylogenetic Utility in Cornus L. (Cornaceae).Molecular Phylogenetics and Evolution 33: 580-594.Download Caicedo, A.L., Stinchcombe, J.R., Olsen, K.M., Schmitt J., and Purugganan, M.D. (2004). 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 USA. 101: 15670-15675. Download Friedman W.E., Moore R.C., and Purugganan M.D. (2004).The Evolution of Plant Development.American Journal of Botany 91: 1726-1741. Download Olsen, K.M., Haldorsdottir, S., Stinchcombe, J., Weinig, C., Schmitt, J. and Purugganan, M.D. (2004). Linkage disequilibrium mapping of Arabidopsis CRY2 flowering time alleles.Genetics 167: 1361-1369. Download Cork, J.M. and Purugganan, M.D. (2004). The evolution of molecular genetic pathways and networks. Bioessays 26: 479-484. Download Kalisz, S. M. and Purugganan, M.D. (2004). Epialleles via methylation - plant population epigenetic consequences.Trends in Ecology and Evolution 19: 309-314 Download Stinchcombe, J.R., Weinig, C., Ungerer, M., Olsen, K.M., Mays, C., Halldorsdottir, S., Purugganan, M.D. and Schmitt, J. (2004). A latitudinal cline in flowering time in Arabidopsis thaliana modulated by the flowering time gene FRIGIDA.Proc. Natl. Acad. Sci. USA. 101: 4712-4717. Download Back to the top2003Moore, R.C. and Purugganan, M.D. (2003). The early stages of duplicate gene evolution.Proc. Natl. Acad. Sci. USA. 100: 15682-15687.Download Ungerer, M.C., Halldorsdottir, S., Purugganan, M.D. and Mackay, T.F.C. (2003). Genotype-environment interactions at quantitative trait loci affecting inflorescence development in Arabidopsis thaliana.Genetics 165: 353-365 Download Xie, J.H., Wehner, T.C., Wollenberg, K., Purugganan, M.D. and Conkling, M.A. (2003). Intron and polypeptide evolution of conserved NPA-to-NPA motif regions in plant aquaporins. J. Amer. Hort. Soc. 128: 591-597. Weinig, C., Dorn, L.A., Kane, N.C., Ungerer, M.C., Halldorsdottir, S., German, Z., Toyonaga, Y., Mackay, T.F.C., Purugganan, M.D. and Schmitt, J. (2003). Heterogeneous selection at specific loci in natural environments in Arabidopsis thaliana.Genetics 165: 321-329. Download Lawton-Rauh, A., Robichaux, R.H. and Purugganan, M.D. (2003). Patterns of nucleotide variation in homoeologous regulatory genes in the allotetraploid Hawaiian silversword alliance (Asteraceae).Molecular Ecology. 12: 1301-1313. Download Remington, D.L. and Purugganan, M.D. (2003). The genetics of functional trait evolution.Int. J. Plant Sci. 164: S7-S20. Download shepard, K.A. and Purugganan, M.D. (2003). Molecular population genetics of the Arabidopsis CLAVATA2 genomic region: The genomic scale of balanced polymorphisms in a selfing species.Genetics 163: 1083-1095. Download Barrier, M., Bustamante, C., Yu, J. and Purugganan, M.D. (2003). Selection on rapidly-eVolving proteins in the Arabidopsis genome.Genetics 163: 723-733. Download Purugganan, M.D., Remington, D.L. and Robichaux, R.H. (2003). Molecular evolution of regulatory genes in the silversword alliance.In Madiinae (Carlquist, S.H. and Baldwin, B.G., ed.). Missouri Botanical Garden Press. Back to the top2002Weinig, C., Ungerer, M.C., Dorn, L.A., Kane, N.C., Toyonaga, Y., Halldorsdottir, S.S., Mackay, T.F.C., Purugganan, M.D. and Schmitt, J. (2002). Novel loci control variation in reproductive timing in Arabidopsis thaliana in natural environments.Genetics 162: 1875-1884.Download Olsen, K.M. and Purugganan, M.D. (2002). Molecular evidence on the origin and evolution of glutinous rice. Genetics 162: 941-950. Download Remington, D.L. and Purugganan, M.D. (2002). GAI homologues in the Hawaiian silversword alliance: Molecular evolution of growth regulators in a rapidly diversifying plant lineage. Mol. Biol. Evol. 19: 1563-1574. Download Jackson, R.B., Linder, C.R., Lynch, M., Purugganan, M., Somerville, S. and Thayer, S.S. (2002). Linking molecular insight and ecological research.Trends in Ecology and Evolution 17: 409-414. Download Olsen, K.M., Womack, A., Garret, A.R., Suddith, J.I. and Purugganan, M.D. (2002). Contrasting evolutionary forces in the Arabidopsis floral developmental pathway. Genetics 160: 1641-1650. Download Bustamante, C., Nielsen, R., Sawyer, S., Olsen, K.M., Purugganan, M.D. and Hartl, D.L. The cost of inbreeding in Arabidopsis. Nature. 416: 531 - 534. Download Ungerer, M.C., Halldorsdottir, S., Modliszewski, J., Mackay, T.F.C. and Purugganan, M.D. (2002). Quantitative trait loci for inflorescence development in Arabidopsis thaliana. Genetics 160: 1133 - 1151. Download Shepard, K.A. and Purugganan, M.D. (2002). The genetics of plant morphological evolution.Curr. Op. Plant Biol. 5: 49 - 55. Download Back to the top2001Remington, D.L., Ungerer, M.C. and Purugganan, M.D. (2001). Map-based cloning of quantitative trait loci: Progress and prospects.Genet. Res. 78: 213 - 218.Barrier, M., Robichaux, R.H. and Purugganan, M.D. (2001). Accelerated regulatory gene evolution in a plant adaptive radiation.Proc. Natl. Acad. Sci. USA 98: 10208 - 10213. Download Back to the top2000Barrier, M., Friar, E.A., Robichaux, R.H. and Purugganan, M.D. (2000). Interspecific evolution in plant microsatellite structure.Gene 241: 101 - 105. Download Purugganan, M.D. (2000). Molecular population genetics of regulatory genes.Mol. Ecol. 9: 1451 - 1461. Download Lawton-Rauh, A.L., Alvarez-Buylla, E.A. and Purugganan, M.D. (2000). Molecular evolution of flower development.Trends Ecol. Evol. 15: 144 - 149 Download Juenger, T.E., Purugganan, M.D. and Mackay, T.F.C. (2000). Quantitative trait loci for floral morphology in Arabidopsis thaliana. Genetics 156: 1379 - 1392. Download Purugganan, M.D., Boyles, A.L. and Suddith, J.I. (2000). Variation and selection at the CAULIFLOWER floral homeotic gene accompanying the evolution of domesticated Brassica oleracea.Genetics 155: 855 - 862. Download Back to the top1999Lowman, A.C. and Purugganan, M.D. (1999). Duplication of the Brassica oleracea APETALA1 floral homeotic gene and the evolution of domesticated cauliflower.J. Heredity 90: 514 - 520.Download Purugganan, M.D. and Suddith, J. I. (1999). 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 - 848. Download Barrier, M., Baldwin, B., Robichaux, R.H., and Purugganan, M.D. (1999). Interspecific hybrid ancestry of a plant adaptive radiation: Allopolyploidy of the Hawaiian silversword alliance inferred from duplicated floral homeotic genes.Molecular Biology and Evolution 16: 1105 - 1113. Download Lawton-Rauh, A., Buckler, E., and Purugganan, M.D. (1999). Patterns of molecular evolution among paralogous floral homeotic genes. Molecular Biology and Evolution 16: 1037-1045. Download Back to the top1998Purugganan, M.D. and Suddith, J.I. (1998).Molecular population genetics of the Arabidopsis CAULIFLOWER regulatory gene: Nonneutral evolution and naturally occurring variation on floral homeotic function. Proc. Natl. Acad. Sci. USA 95: 8130 - 8134. Download Purugganan, M.D. (1998). The molecular evolution of development.BioEssays 20: 700 - 711. Download Purugganan. M.D. (1998). The splicing of transposable elements: evolution of a nuclear defense against genomic invasions? In Horizontal Gene Transfer (M. Syvanen, C.I. Kado, ed.). Chapman-Hall, London. Back to the top1997Swaffield, J.C. and Purugganan, M.D. (1997). The evolution of the conserved ATPase domain (CAD): Reconstructing the history of an ancient protein module.J. Mol. Evol. 45: 549 - 563.Download Purugganan, M.D. (1997). The MADS-box floral homeotic gene lineages predate the origin of the seed plants: Phylogenetic and molecular clock estimates.J. Mol. Evol. 45: 392 - 396. Download |