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PUBLICATIONS

The following list represents just some of the most recent publications from our lab. The links provided should allow you access to PDFs if you have permission to access the journal sites.

Floral Genome Project | Polyploid Evolution | Population-level Studies | Systematics

Floral genome project

Chanderbali, A. S., V. Albert, V. E. T. M. Ashworth, M. T. Clegg, R. E. Litz, D. E. Soltis, P. S. Soltis. 2007. Persea americana (avocado): bringing ancient flowers to fruit in the genomics era. Bioessays, submitted.

Soltis, D., H. Ma, M. Frohlich, P. Soltis, V. Albert, D. Oppenheimer, N. Altman, C. dePamphilis, J. Leebens-Mack. The Floral Genome: An Evolutionary History of Polyploidy and Shifting Patterns of Gene Expression. Trends in Plant Science 12: 352-357.

Soltis, D.E., Chanderbali, A.S., Kim, S., Buzgo, M., Soltis, P.S. 2007. The ABC model and its applicability to basal angiosperms. Annals of Botany (in press)

Buzgo, M., Chanderbali A.S., Kim, S., Zheng, Z., Oppenheimer, D., Soltis, P.S.,Soltis, D.E. 2007. Floral developmental morphology of Persea americana (avocado, Lauraceae): the oddities of male organ identity. International Journal of Plant Sciences 168 (3): 261-284.

Chanderbali, A.S., Kim, S., Buzgo, M., Zheng, Z., Oppenheimer, D.G., Soltis, D.E., Soltis, P.S. 2006. Genetic footprints of stamen ancestors guide perianth evolution in Persea (Lauraceae). International Journal of Plant Sciences 167 (6): 1075-1089.

Soltis, P.S., Soltis, D.E., Kim, S., Chanderbali, A., Buzgo, M. 2006.
Expression of floral regulators in basal angiosperms and the origin and evolution of ABC function. pp. 483-506. In: Soltis, D.E., Leebens-Mack, J.H., Soltis, P.S. [eds.], Advances in Botanical Research, Vol. 44, Developmental Genetics of The Flower. Elsevier Ltd., London, UK (Academic Press, San Diego CA, USA)

Buzgo, M., Liang, H., Schlarbaum, S.E., DiLoreto, D.S., Carlson, J., Soltis, P.S., Soltis, D.E. 2006. Floral development in Liriodendron tulipifera L. (Magnoliaceae) and other basal angoisperms. Botany 2006, California State University, Chico, CA, USA, July 28-August 3, 2006; Presentation 617

Yoo, M-J, V. A. Albert, P. S. Soltis, D. E. Soltis. 2006. Diversification of glycogen synthase kinase 3/ SHAGGY-like kinase in plants. BMC Plant Biology 6: 3-9.

Buzgo, M., Soltis, P.S., Kim, S., Soltis, D.E. 2005. The making of the flower. The Biologist 52: 149-154.

Buzgo, M., D. E. Soltis, P. S. Soltis, S. Kim, H. Ma, J. Leebens-Mack,
B. W. Hauser, C. W. dePamphilis. 2005. Perianth development in basal monocots.
in Monocots: comparative biology and evolution, Columbus, J.T., Friar, E.A., Porter, J.M., Prince, L.M., Simpson, M.G. (eds), 2 vols. Claremont, CA, USA: Rancho Santa Ana Botanic Garden (in press).

Buzgo, M., P. S. Soltis, D. E. Soltis. 2004. Floral developmental morphology of Amborella trichopoda (Amborellaceae). International Journal of Plant Sciences 165: 925-947.

Buzgo, M., D. E. Soltis, P. S. Soltis, H. Ma. 2004. Towards a comprehensive integration of morphological and genetic studies of floral development. Trends in Plant Science 9: 164-173.

Albert, V. A., D. E. Soltis, J. E. Carlson, W.G. Farmerie, P. K. Wall, D. C. Ilut, L.A. Mueller, L. L. Landherr, Y. Hu, M. Buzgo, S. Kim, M. Yoo, M. W. Frohlich, R. Perl-Treves, S. E. Schlarbaum, B. Bliss, X. Zhang, S. Tanksley, D. G. Oppenheimer, P. S. Soltis, H. Ma, C. W. dePamphilis, and J. H. Leebens-Mack. 2005. Floral gene resources from basal angiosperms for comparative genomics research. BMC Plant Biology 5: 5-16.

Leebens-Mack, J., D. E. Soltis, P. S. Soltis. 2005. Plant reproductive genomics at the Plant and Animal Genome Conference. Comparative and Functional Genomics 6: 159-169.

Kim, Sangtae, Jin Koh, Hong Ma, Yi Hu, Peter K. Endress, Bernard A. Hauser, Matyas Buzgo, Pamela S. Soltis, and Douglas E. Soltis. 2005. Sequence and expression studies of A-, B-, and E-class MADS-box genes in Eupomatia (Eupomatiaceae): support for the bracteate origin of the calyptra. International Journal of Plant Sciences 166(2): 185-198.

Kim, Sangtae, Mi-Jeong Yoo, Victor A. Albert, James S. Farris, Pamela S. Soltis, Douglas E. Soltis. 2004. Phylogeny and diversification of B-function MADS-box genes in angiosperms: evolutionary and functional implications of a 260-million-year-old duplication. American Journal of Botany 91: 2102-2118.

Kim, Sangtae, Douglas E. Soltis, Pamela S. Soltis, Michael J. Zanis, and Youngbae Suh. 2004. Phylogenetic relationships among early-diverging eudicots based on four genes: Were the eudicots ancestrally woody? Molecular Phylogenetics and Evolution. 31: 16-30.

Polyploidy evolution

Soltis, D. E., E. V. Mavrodiev, J. J. Doyle, and P. S. Soltis. ITS and ETS sequence data and phylogeny reconstruction in allopolyploids and hybrids. Systematic Botany, in press.

Mavrodiev, E., P. S. Soltis, and D. E. Soltis. Parentage of six old world polyploids in Tragopogon L. (Asteraceae: Scorzonerinae) based on ITS, ETS and plastid sequence data. Biological Journal of the Linnean Society, submitted.

Mavrodiev E., I. Nawchoo, P. Solits, and D. Soltis. 2006. Molecular data reveal that the tetraploid Tragopogon kashmirianus Singh (Asteraceae: Scorzonerinae), a narrow endemic of Kashmir, is distinct from the North American T. mirus. Taxon, submitted.

Arakaki, M., Soltis, D. and Speranza, P. 2007. New chromosome counts and evidence of polyploidy in Haageocereus and other taxa of tribe Trichocereeae (Cactaceae). Brittonia in press.

Chen J., M. Ha, and D. Soltis. 2007. Polyploidy: Genome obesity and its consequences. New Phytologist 174: 705–707.

Kovarik, A., R. Matyasek, J. Tate, D. Soltis and P. Soltis. 2007. Enhanced expression for low copy rDNA type in recently polyploids undergoing concerted evolution. Genetics, in press.

Mavrodiev, E., P. S. Soltis, M. A. Gitzendanner, and D. E. Soltis. 2007. Molecular data reveal that Tragopogon porrifolius, one of the diploid parents of T. mirus, is polyphyletic.. International Journal of Plant Sciences 168: 889–904.

Soltis, D. E., P. S. Soltis, D. Schemske, J. Hancock, J. Thompson, B. Husband, and W. S. Judd. 2007. Autopolyploidy and sympatric speciation in angiosperms: have we grossly underestimated the number of species? Taxon 56: 13-30.

Tate, J. A., Z. Ni, A. C. Scheen, J. Koh, C. A. Gilbert, Z. J. Chen, P. S. Soltis and D. E. Soltis. 2006. Evolution and expression of homoeologous loci in Tragopogon miscellus (Asteraceae), a recent and reciprocally formed allopolyploid. Genetics 173: 1599-1611.

Cui, L., P. K. Wall, J. Leebens-Mack, B. G. Lindsay, D. Soltis, J. J. Doyle, P. Soltis, J. Carlson, A. Arumuganathan, A. Barakat, V. Albert, H. Ma, and C. W. Depamphilis. 2006. Widespread genome duplications throughout the history of flowering plants. Genome Research 16:738-739.

Kovarik, A., C. Pires, A. Leitch, A. Sherwood, A. Matyasek, J. Rocca, D. Soltis and P. Soltis. 2005. Rapid concerted evolution in two allopolyploids of recent and recurrent evolution. Genetics 169: 931-944.

Zahn, L. M., H. Kong, J. H. Leebens-Mack, S. Kim, P. S. Soltis, L. L. Landherr, D. E. Soltis, C. W. dePamphilis, and H. Ma. 2005. The evolution of the SEPALLATA subfamily of MADS-box genes: multiple duplications throughout angiosperm history. Genetics 169: 2209-2223.

Leitch, I.J., D. E. Soltis, P. S. Soltis, and M. D. Bennett. 2005. Evolution of DNA amounts across land plants (Embryophyta). Annals of Botany 95: 207-217.

Pires, J. C., A. Kovarik, R. Matyasek, K. Y Lim, A. R. Leitch, I. J. Leitch, M. D. Bennett, P. S. Soltis, and D. E. Soltis. 2004. Isolation, characterization and localization of repetitive DNA sequences in chromosomes of diploid and tetraploid Tragopogon. American Journal of Botany 91; 1022-1035.

Soltis, D. E., P. S. Soltis, J. C. Pires, A. Kovarik, J. A. Tate, and E. Mavrodiev. 2004. Recent and recurrent polyploidy in Tragopogon (Asteraceae): Genetic, genomic, and cytogenetic comparisons. Biological Journal of the Linnean Society 82: 485-501.

Tate, J. A., D. E. Soltis, and P. S. Soltis. 2004. Polyploidy in Plants in The Evolution of the Genome, T. R. Gregory (ed.), pp. 371-425, Elsevier Inc.

Tate, J. A. and B. B. Simpson. 2004. Breeding system evolution in Tarasa (Malvaceae) and selection for reduced pollen grain size in the polyploid species. American Journal of Botany 91: 207-213.

Population-level studies

Edwards, C., Arakaki, M., Quintana-Ascencio, P., Soltis, D. and P. Soltis. 2007. Isolation and characterization of microsatellite loci from the endangered highlands scrub hypericum (Hypericum cumulicola). Molecular Ecology Notes, in press.

Arakaki, M., Soltis, D., Soltis, P. and Speranza, P. 2007. Isolation of polymorphic microsatellite loci in Haageocereus (Trichocereeae, Cactaceae) and their use in analyses of genetic diversity. Molecular Ecology Notes, submitted.

Lindqvist, C., A.-C. Scheen, M. –J. Yoo, M. Bendiksby, P. Grey, D. G. Oppenheimer, J. H Leebens-Mack, D. E Soltis, P. S Soltis, V, A Albert. 2006. An expressed sequence tag (EST) library from developing fruits of an Hawaiian endemic mint (Stenogyne rugosa, Lamiaceae): characterization and microsatellite markers. BMC Plant Biology 6: 16-21.

Soltis, D. E., A. Morris, J. McLachlan, P. Manos, and P. S. Soltis. 2006. Comparative phylogeography of eastern North America. Molecular Ecology 15: 4261-4293.

Melendez-Ackerman, E. J., P. Speranza, W. J. Kress, L. Rohena, E. Toledo, C. Corte´s, D. Treece, M. Gitzendanner, P. Soltis and D. Soltis. 2005. Microevolutionary processes inferred from AFLP and morphological variation in Helconia Bihai (Heliconiaceae). International Journal of Plant Sciences 166: 781–794.

Morris A. B., Small R. L., Cruzan M. B. 2004. Variation in frequency of clonal reproduction among populations of Fagus grandifolia Ehrh. in response to disturbance. Castanea 69(1): 38-51.

Vergara, R., White, T.L., Huber, D.A., Shiver, B.D. & Rockwood D.L. 2004. Estimated realized gains for first-generation slash pine (Pinus elliottii var. elliottii) tree improvement in the southeastern United States. Can. J. For. Res. 34:2587-2600.

Systematics

Kuzoff, R. K., L. Hufford, and D. E. Soltis. Phylogenetic relationships in the Heuchera group (Saxifragaceae) inferred from ITS and 2S rDNA sequences: implications for the evolution of floral characters. International Journal of Plant Sciences, submitted.

Wang, H-C., M. M. Moore, P. S. Soltis, C. D. Bell, S. R. Manchester, and D. E. Soltis. Phylogeny and diversification of the rosids inferred from nuclear and plastid genes. Evolution, submitted.

Brockington S. F., E. Marodviev, J. Ramdial, A. Dinghra, P. S. Soltis, D. E. Soltis. 2007. Keep the DNA Rolling: Multiple Displacement Amplification of Genomic DNA extracted from Herbarium Specimens. Taxon, submitted.

Moore, M., C. D. Bell, P. S. Soltis, and D. E. Soltis. 2007. Using plastid genome-scale data to resolve enigmatic relationships among basal angiosperm lineages. Proceedings of the National Academy of Sciences, accepted pending revision.

Edwards, E., D. Lefkowitz, D. Soltis, and P. Soltis. 2007. Combined phylogenetic analysis of heterozygous nuclear loci: An example using Conradina and related mints (Lamiaceae). Systematic Botany, in press.

Shuguang Jian, P. Soltis, M. Gitzendanner, M. Moore, R. Li, T. Hendry, Y. Qiu, A. Dhingra, C. Bell, and D. Soltis. 2007. Resolving an ancient, rapid radiation in Saxifragales. Systematic Biology, accepted pending revision.

Mort, M. E., D. E. Soltis, P. S. Soltis, J. Francisco-Oretga, and A. Santos-Guerra. Physiological and morphological evolution in Aeonium (Crassulaceae). Taxon 56: 453-464.

Soltis, D.E. and C. Freeman. 2007. Taxonomic Treatment of Mitella, Flora of North America, in press.

Morris AB, CD Bell, JW Clayton, WS Judd, DE Soltis, PS Soltis 2007 Phylogeny and divergence time estimation in Illicium with implications for New World biogeography. Systematic Botany 32:236–249.

Cantino, P., J. Doyle, S. Graham, W. Judd, R. Olmstead, D. Soltis, P. Soltis, and M. Donoghue. 2007. Towards a Phylogenetic Nomenclature of Tracheophyta. Taxon, 56 in press.

Soltis, D. E, P. Soltis, and W. Judd. 2007. Taxonomic Treatment of Tolmiea Flora of North America, in press.

Soltis, D. E. 2007. Taxonomic Treatment of Sullivantia, Flora of North America, in press.

Oliveira L. O., R. B. Huck, M. A. Gitzendanner, P. S. Soltis, and D. E. Soltis. 2007. Molecular phylogeny and biogeography of Dicerandra (Lamiaceae), a genus endemic to the southeastern United States. American Journal of Botany, in press.

Clayton, J. W., E. S. Fernando, P. S. Soltis and D. E. Soltis. 2007. Molecular phylogeny of the Simaroubaceae (Sapindales) based on chloroplast and nuclear markers. International Journal of Plant Sciences, in press.

Manos, P., P. S. Soltis, D. E. Soltis, S. R. Manchester, S.-H. Oh, C. D. Bell, D. L. Dilcher, and D. E. Stone. 2007. Juglandaceae: Integrating fossils into a phylogenetic framework. Systematic Biology 56: 412-430.

Soltis, D. E., J. W. Clayton, C. C. Davis, M. A. Gitzendanner, M. Cheek, V. Savolainen, A. M. Amorim, and P. S. Soltis. 2007. Phylogenetic relationships of the enigmatic amphitropical family Peridiscaceae. Taxon 56: 65-73.

Suárez-Santiago, V. N., M. J. Salinas, N. García-Jacas, P. S. Soltis, D. E. Soltis and G. Blanca. 2007. Reticulate evolution in the Acrolophus subgroup (Centaurea L., Compositae) from the Occidental Mediterranean: Origin and Diversification of section Willkommia Blanca. Molecular Phylogenetics and Evolution 43: 156–172.

Soltis, D. E., M. Gitzendanner, and P. S. Soltis. 2007. A Bayesian Analysis of the three-gene, 567-taxon data set for angiosperms. International Journal of Plant Sciences 168: 137-157.

Edwards, C., P. S. Soltis, D. E. Soltis. 2006. Phylogenetic relationships in Conradina (Lamiaceae): implications for conservation genetics. Systematic Botany 31:191-205.

Koontz, J. A., J. Lundberg, Soltis, D. E. Rousseaceae. 2006. A taxonomic treatment. In, K. Kubitzki (ed.) "The Families and Genera of Vascular Plants” Vol. 9, pp 611-613.

Soltis, D. E. Saxifragaceae. 2006. A taxonomic treatment. In, K. Kubitzki (ed.) "The Families and Genera of Vascular Plants” Vol 9., pp. 418-435.

Chase, M. W., M. F. Fay, D. E. Soltis, P. S. Soltis, K. T. Takahashi, and V. Savolainen. 2006. Simple phylogenetic tree searches easily “succeed” with large matrices of single genes. Taxon 55: 573-578.

Leebens-Mack, J., T. Vision, E Brenner, J. E. Bowers,S. Cannon, M J. Clement, C. W. Cunningham, C. Depamphilis, R Desalle, J J. Doyle, J. A. Eisen, X. Gu, J. Harshman, R. K. Jansen, E. A. Kellogg, E. V. Koonin, B D. Mishler, H. Philippe, C. J Pires, Y-L. Qiu, S Y. Rhee, K. Sjölander, D. E. Soltis, P. S. Soltis, D. W. Stevenson, K. Wall, T. Warnow, and C. Zmasek. 2006. Taking the First Steps towards a Standard for Reporting on Phylogenies: Minimum Information about a Phylogenetic Analysis (MIAPA). OMICS 10: 231-237.

Moore, M. J., A. Dhingra, P. S Soltis, R. Shaw, W. G Farmerie, K. M Folta, and D. E Soltis. 2006. Rapid and accurate pyrosequencing of angiosperm plastid genomes. BMC Plant Biol. 6:17-30.

Yoo, M. J., C. D. Bell, P. S. Soltis, D. E. Soltis. 2005. Divergence times and historical biogeography of Nymphaeales. Systematic Botany 30: 693-704.

Qiu, Y., O. Dombrovska, J. Lee, L. Li, B. A. Whitlock, F. Bernasconi-Quadroni, J. S. Rest, T. Borsch, K. W. Hilu, S. Renner, D. E. Soltis, P. S. Soltis, M. J. Zanis, J. Cannone, R. Gutell, M. Powell, V. Savolainen, L. W. Chatrou, and M. W. Chase. 2005. Phylogenetic analysis of basal angiosperms based nine plastid, mitochondrial, and nuclear genes. International Journal of Plant Sciences 166: 815-842.

Edwards, C. E., D. E. Soltis, and P. S. Soltis. 2006. Molecular phylogeny of Conradina and other scrub mints (Lamiaceae) from the southeastern USA using nuclear ribosomal and plastid markers: Evidence for hybridization in Pleistocene refugia? Systematic Botany 31: 193-207.

Kim, S.,P. S. Soltis, D. E. Soltis. 2006. Phylogeny and domain evolution in the APETALA2-like gene family.Molecular Biology and Evolution 23: 107-120.

Bell, C. D., D. E. Soltis, and P. S. Soltis. 2005. The age of the angiosperms: A molecular time-scale without a clock. Evolution 59: 1245-1258.

Kim, S., P. Endress, B. Hauser, P. S. Soltis, D. E. Soltis. 2005. Origin of the calyptra and characterization of B class genes in Eupomatia (Eupomatiaceae). International Journal of Plant Sciences 166: 185-198.

Mavrodiev, E. V., M. Tancig, A. M. Sherwood, M. A. Gitzendanner, J. Rocca, P. S. Soltis, and D. E. Soltis. 2005. Phylogeny of Tragopogon L. (Asteraceae) based on internal and external transcribed spacer sequence data. International Journal of Plant Sciences 166: 117-133.

Soltis, D. E., V. A. Albert, V. Savolainen, K. Hilu, Y-L. Qiu, M. W. Chase, J. S. Farris, J. D. Palmer, and P. S. Soltis. 2004. Genomic-scale data, angiosperm relationships, and ‘ending incongruence’: a cautionary tale in phylogenetics. Trends in Plant Science 9:477-483.

Palmer, J. D., D. E. Soltis, and P. S. Soltis. 2004. The plant tree of life: An overview and some points of view. American Journal of Botany. 91: 1437-1445.

Soltis, P. S. and D. E. Soltis. 2004. Phylogeny and evolution of the angiosperms. American Journal of Botany 91: 1614-1626.

Soltis, D. E. and P. S. Soltis. 2004. Amborella not a basal angiosperm? Not so fast. American Journal of Botany 91: 997-2001.

Fishbein M. and D. E. Soltis. 2004. Further resolution of the rapid radiation of Saxifragales supported by Bayesian analysis. Systematic Botany 29: 883-891.

Mavrodiev, E., C. Edwards, M. Gitzendanner, D. E. Soltis, and P. S. Soltis. Phylogenetic relationships in Scorzonereae (Asteraceae) based on ITS sequence data. Taxon 53: 699-712.

Chanderbali, A. S. (2004). Endlicheria (Lauraceae). Flora Neotropica Monograph 91: 1--141.

Guerrero A., W. S. Judd, A. B. Morris. 2004. A new species of Illicium subsection Parviflora (Illiciaceae) from the Massif de la Hotte, Haiti. Brittonia 56(4): 346-352.

Hilu, K. W., T. Borsch, K. Muller, D. E. Soltis, P. S. Soltis, V. Savolainen, M. W. Chase, M. Powell, L. A. Alice, R. Evans, H. Sauguet, C. Neinhaus, T. A Slotta, J. G. Rohwer, C. S. Campbell, and L. Chatrou. 2003. Angiosperm phylogeny based on matK sequence information. American Journal of Botany 90: 1758-1776.

Kim, Sangtae, Douglas E. Soltis, Pamela S. Soltis, and Youngbae Suh. 2004. DNA sequences from Miocene fossils: an ndhF sequence of Magnolia latahensis (Magnoliaceae) and an rbcL sequence of Persea pseudocarolinensis (Lauraceae). American Journal of Botany. 91: 615-620.

Mavrodiev, E. V., C. E. Edwards, D. C. Albach, M. A. Gitzendanner, P. S. Soltis, and D. E. Soltis. 2004. Phylogenetic relationships in subtribe Scorzonerinae (Asteraceae: Cichorioideae: Lactuceae) based on ITS sequence data. Taxon 53: 699-712.

Tate, J. A., J. Fuertes Aguilar, S. J. Wagstaff, J. C. La Duke, T. A. Bodo Slotta, and B. B. Simpson. 2005. Phylogenetic relationships within the tribe Malveae (subfamily Malvoideae, Malvaceae) as inferred from ITS sequence data. American Journal of Botany 92: 584-602.

Simpson, B. B., J. A. Tate, and A. Weeks. 2004. Phylogeny and character evolution of Hoffmannseggia (Caesalpinieae: Caesalpinioideae: Leguminosae). Systematic Botany 29: 933-946.

This page was last updated October 2, 2007.