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United States Department of Agriculture

Agricultural Research Service

Research Project: SYSTEMATICS, GENETIC DIVERSITY ASSESSMENT, AND ACQUISITION OF POTATOES, CARROTS, AND THEIR RELATED WILD RELATIVES

Location: Vegetable Crops Research Unit

Publications (Clicking on the reprint icon Reprint Icon will take you to the publication reprint.)

Linking the potato genome to the Conserved Ortholog Set (COS) markers     Reprint Icon - (Peer Reviewed Journal)
Lindqvist-Kreuze, H., Cho, K., Portal, L., Rodriguez, F., Simon, R., Mueller, L., Spooner, D.M., Bonierbale, M. 2013. Linking the potato genome to the Conserved Ortholog Set (COS) markers. BioMed Central (BMC) Genetics. Available: http://www.biomedcentral.com/1471-2156/14/51/abstract.
A new R function, exsic, to assist taxonomists in creating indices     Reprint Icon - (Peer Reviewed Journal)
Simon, R., Spooner, D.M. 2013. A new R function, exsic, to assist taxonomists in creating indices. Applications in Plant Sciences. 1(6):1-4.
Reassessment of practical subspecies identifications of the USDA Daucus carota L. germplasm collection: Morphological data     Reprint Icon - (Peer Reviewed Journal)
Spooner, D.M., Widrlechner, M.P., Reitsma, K., Palmquist, D.E., Rouz, S., Ghrabi-Gammar, Z., Neffati, M., Bouzbida, B., Ouabbou, H., El Koudrim, M., Simon, P.W. 2014. Reassessment of practical subspecies identifications of the USDA Daucus carota L. germplasm collection: Morphological data. Crop Science. 54(2):706-718.
Multiple nuclear ortholog next generation sequencing phylogeny of Daucus - (Abstract Only)
Arbizu, C., Ruess, H.M., Senalik, D.A., Simon, P.W., Spooner, D.M. 2013. Multiple nuclear ortholog next generation sequencing phylogeny of Daucus [abstract]. Botanical Society of America Abstracts. Paper No. 895.
Genetic structure and domestication of carrot (Daucus carota subsp. sativus L.) (Apiaceae) - (Abstract Only)
Iorizzo, M., Senalik, D.A., Ellison, S.L., Grzebelus, D., Cavagnaro, P.F., Allender, C., Brunet, J., Spooner, D.M., Van Deynze, A., Simon, P.W. 2013. Genetic structure and domestication of carrot (Daucus carota subsp. sativus L.) (Apiaceae) [abstract]. Botanical Society of America Abstracts. Paper No. 654.
Single copy nuclear gene analysis of polyploidy in wild potatoes (Solanum section Petota) - (Abstract Only)
Cai, D., Teng, Y., Ane, C., Bonierbale, M., Mueller, L.A., Spooner, D.M. 2013. Single copy nuclear gene analysis of polyploidy in wild potatoes (Solanum section Petota) [abstract]. Botanical Society of America Abstracts. Paper No. 616.
Molecular phylogeny of Daucus (Apiaceae)     Reprint Icon - (Peer Reviewed Journal)
Spooner, D.M., Srivistav, M., Rojas, P., Simon, P.W. 2013. Molecular phylogeny of Daucus (Apiaceae). Systematic Botany. 38(3):850-857.
Solanum stipuloideum Rusby, the correct name for Solanum circaeifolium Bitter     Reprint Icon - (Peer Reviewed Journal)
Spooner, D.M., Knapp, S.K. 2013. Solanum stipuloideum Rusby, the correct name for Solanum circaeifolium Bitter. American Journal of Potato Research. 90:301-305.
Genetic diversity and origin of cultivated potatoes based on plastid microsatellite polymorphism     Reprint Icon - (Peer Reviewed Journal)
Gavrileno, T., Antonova, O., Shuvalova, A., Krylova, E., Alpatyeva, N., Rogozina, E., Spooner, D.M., Novikova, L. 2013. Genetic diversity and origin of cultivated potatoes based on plastid microsatellite polymorphism. Genetic Resources and Crop Evolution. 60(7):1997-2015.
Daucus for the flora of North America - (Monograph)
(15-Jan-13)
Solanum Section Petota for the Flora of North America - (Monograph)
(15-Jan-13)
In silico mapping of Conserved Ortholog Set (COS) markers in the potato genome - (Abstract Only)
Lindqvist-Keuze, H., Portal, L., Rodriquez, F., Simon, R., Mueller, L., Spooner, D.M., Bonierbale, M. 2013. In silico mapping of Conserved Ortholog Set (COS) markers in the potato genome [abstract]. Plant and Animal Genome Conference. Paper No. P0412.
Characterization of resistance to Synchytrium endobioticum in cultivated potato accessions from the Vavilov Institute of Plant Industry (VIR) collection - (Peer Reviewed Journal)
Khiutti, A., Afanasenko, O., Antonova, O., Shuvalov, 0., Novikova, L., Krylova, E., Chalaya, N., Mironenko, N., Spooner, D.M., Gavrilenko, T. 2012. Characterization of resistance to Synchytrium endobioticum in cultivated potato accessions from the Vavilov Institute of Plant Industry (VIR) collection. Plant Breeding. 131:744-750.
Single copy nuclear gene analysis of polyploidy in wild potatoes (Solanum section Petota) - (Peer Reviewed Journal)
Cai, D., Rodriquez, F., Teng, Y., Ane, C., Bonierbale, M., Mueller, L., Spooner, D.M. 2012. Single copy nuclear gene analysis of polyploidy in wild potatoes (Solanum section Petota). BMC Evolutionary Biology. Available: http://www.biomedcentral.com/1471-2148/12/70.
Twenty-five years of collecting and taxonomy of wild potatoes - (Abstract Only)
Spooner, D.M. 2012. Twenty-five years of collecting and taxonomy of wild potatoes [abstract]. ASA-CSSA-SSSA Annual Meeting Abstracts. Paper No. 258-1.
Reflections on a lifetime of collecting germplasm – a childhood dream realized - (Abstract Only)
Spooner, D.M. 2012. Reflections on a lifetime of collecting germplasm – a childhood dream realized [abstract]. ASA-CSSA-SSSA Annual Meeting Abstracts. Paper No. 374-1.
Genomic in situ hybridization reveals both auto- and allopolyploid origins of different North and Central American hexaploid potato (Solanum sect. Petota) species - (Peer Reviewed Journal)
Pendinen, G., Spooner, D.M., Jiang, J., Gavrilenko, T. 2012. Genomic in situ hybridization reveals both auto- and allopolyploid origins of different North and Central American hexaploid potato (Solanum sect. Petota) species. Genome. 55:407-415.
Plant names and classification - (Book / Chapter)
Spooner, D.M. 2014. Plant names and classification. In: Bidlack, J.E, Jansky, S.H., editors. Stern’s Introductory Plant Biology. 13th edition. New York, NY:McGraw-Hill. p. 282-297
Research using biocultural collections - (Book / Chapter)
Spooner, D.M. 2014. Research using biocultural collections. In: Salick, J., Konchar, K., Nesbitt, M., editors. Curating Biocultural Collections: A Handbook. Chicago, IL:University of Chicago Press. p. 295-312.
Applications of next-generation sequencing techniques in plant biology - (Peer Reviewed Journal)
Egan, A., Schleiter, J., Spooner, D.M. 2012. Applications of next-generation sequencing techniques in plant biology. American Journal of Botany. 99(2):175-185.
The enigma of Solanum maglia in the origin of the Chilean cultivated potato, Solanum tuberosum Chilotanum group - (Peer Reviewed Journal)
Spooner, D.M., Jansky, S.H., Del Rosario Herrera, M., Montenegro, J.D., Nunez, J., Clausen, A., Ghislain, M. 2012. The enigma of Solanum maglia in the origin of the Chilean cultivated potato, Solanum tuberosum Chilotanum group. Economic Botany. 66(1):12-21.
Solanum tuberosum (Potato) - (Book / Chapter)
Spooner, D.M. 2013. Solanum tuberosum (Potato). Encyclopedia of Genetics. In: Maloy, S.,Hughes, K. editors. Encyclopedia of Genetics, 2nd Edition. Philadelphia, PA:Elsevier Press. p. 481-483.
Molecular evolution of Adh and LEAFY and the phylogenetic utility of their introns in Pyrus (Rosaceae) - (Peer Reviewed Journal)
Zheng, X., Hu, C., Spooner, D.M., Liu, J., Cao, J., Teng, Y. 2011. Molecular evolution of Adh and LEAFY and the phylogenetic utility of their introns in Pyrus (Rosaceae). BMC Evolutionary Biology. 11:255.
Biogeographic implications of the striking discovery of a 4000 kilometer disjunct population of the wild potato Solanum morelliforme in South America - (Peer Reviewed Journal)
Simon, R., Fuentes, A.F., Spooner, D.M. 2011. Biogeographic implications of the striking discovery of a 4000 kilometer disjunct population of the wild potato Solanum morelliforme in South America. Systematic Botany. 36(4):1062-1067.
Asymmetric single-strand polymorphism: an accurate and cost-effective method to amplify and sequence allelic variants - (Peer Reviewed Journal)
Rodriquez, F., Cai, D., Teng, Y., Spooner, D.M. 2011. Asymmetric single-strand polymorphism: an accurate and cost-effective method to amplify and sequence allelic variants. American Journal of Botany. 98:1061-1067.
A reassessment of Solanum maglia in the origin of Chilean landraces of cultivated potato (Solanum tuberosum Chilotanum Group) - (Abstract Only)
Spooner, D.M., Ghislain, M., Herrera, M., Montenegro, J., Clausen, A., Jansky, S.H. 2012. A reassessment of Solanum maglia in the origin of Chilean landraces of cultivated potato (Solanum tuberosum Chilotanum Group) [abstract]. Botany. Paper No. 310.
Genomic in situ hybridization (GISH) analysis of the North and Central American hexaploid wild potato species - (Abstract Only)
Pendinen, G., Spooner, D.M., Jiang, J., Gavrilenko, T. 2011. Genomic in situ hybridization (GISH) analysis of the North and Central American hexaploid wild potato species [abstract]. European Association for Potato Research. p. 83.
Wart (synchytrium endobioticum) resistance in cultivated potato species - (Abstract Only)
Antonova, O., Hutti, A., Shuvalov, O., Islamshina, A., Afanasenko, O., Spooner, D.M., Gavrilenko, T. 2011. Wart (synchytrium endobioticum) resistance in cultivated potato species [abstract]. European Association for Potato Research. p. 185.
The significance of field work in monographic studies - (Peer Reviewed Journal)
Spooner, D.M. 2011. The significance of field work in monographic studies. Journal of the International Association of Plant Taxonomy. 153:25-32.
Ecogeography of ploidy variation in cultivated potato (Solanum sect. Petota) - (Abstract Only)
Spooner, D.M. 2010. Ecogeography of ploidy variation in cultivated potato (Solanum sect. Petota) [abstract]. Potato Genetics Technical Committe.
Taxonomic changes in Solanum section Petota - (Abstract Only)
Spooner, D.M. 2010. Taxonomic changes in Solanum section Petota [abstract]. Plant and Animal Genome Conference. W526.
Taxonomy of cultivated potatoes (solanum section petota: solanaceae) - (Peer Reviewed Journal)
Ovchinnikova, A., Krilova, E., Gavrilenko, T., Smekalova, T., Dorofeev, V., Zhuk, M., Knapp, S., Spooner, D.M. 2011. Taxonomy of cultivated potatoes (solanum section petota: solanaceae). Botanical Journal of the Linnean Society. 165:107-155.
Ecogeography of Ploidy Variation in Cultivated Potato (Solanum Sect. Petota) - (Peer Reviewed Journal)
Spooner, D.M., Jansky, S.H., Gavrilenko, T., Ovchinnikova, A., Krilova, E., Simon, R. 2010. Ecogeography of Ploidy Variation in Cultivated Potato (Solanum Sect. Petota). American Journal of Botany. 97(12):2049-2060.
Phylogenetic relationships of Solanum series Conicibaccata and related species in Solanum section Petota inferred from five conserved ortholog sequences - (Peer Reviewed Journal)
Fajardo, D., Spooner, D.M. 2011. Phylogenetic relationships of Solanum series Conicibaccata and related species in Solanum section Petota inferred from five conserved ortholog sequences. Systematic Botany. 36(1):163-170.
Genetic Relationships Among Pyrus pyrifolia Cultivars from Southeastern China and Japan - (Peer Reviewed Journal)
Cai, D., Zheng, X., Teng, Y., Spooner, D.M. 2010. Genetic Relationships Among Pyrus pyrifolia Cultivars from Southeastern China and Japan. Acta Horticulturae. 859:89-92.
A Microsatellite and Morphological Assessment of the Russian National Potato Collection - (Peer Reviewed Journal)
Gavrilenko, T., Antonova, O., Ovchinnikova, A., Novikova, L., Krilova, E., Mironenko, N., Pendinen, G., Smekalova, T., Islamshina, A., Shvachko, N., Kiru, S., Kostina, L., Afanasenko, O., Spooner, D.M. 2010. A Microsatellite and Morphological Assessment of the Russian National Potato Collection. Genetic Resources and Crop Evolution. 57:1151-1164.
Phylogeny of Solanum Series Piurana and Putatively Related Species in Solanum Section Petota Based on Five Conserved Ortholog Sequences - (Peer Reviewed Journal)
Ames, M., Spooner, D.M. 2010. Phylogeny of Solanum Series Piurana and Putatively Related Species in Solanum Section Petota Based on Five Conserved Ortholog Sequences. Taxon. 59(4):1091-1101.
Complex Multiple Reticulate Origins of Potato Polyploids - (Abstract Only)
Cai, D., Teng, Y., Rodriguez, F., Ane, C., Mueller, L., Bonierbale, M., Spooner, D.M. 2010. Complex Multiple Reticulate Origins of Potato Polyploids [abstract]. Botany 2010.
Taxonomy of Cultivated Potatoes (Solanum section Petota: Solanaceae) - (Abstract Only)
Knapp, S., Ovchinnikova, A., Krilova, E., Gavrilenko, T., Smekalova, T., Dorofeyev, V., Zhuk, M., Spooner, D.M. 2010. Taxonomy of Cultivated Potatoes (Solanum section Petota: Solanaceae)[abstract]. Botany 2010.
Unraveling the Evolutionary History of Wild Potatoes and Tomatoes - (Abstract Only)
Rodriguez, F., Ane, C., Mueller, L., Bonierbale, M., Spooner, D.M. 2010. Unraveling the Evolutionary History of Wild Potatoes and Tomatoes[abstract]. Botany 2010.
Reticulate Phylogenetics of Wild Potato Polyploids Inferred From Multilocus Analysis - (Abstract Only)
Cai, D., Teng, Y., Rodriguez, F., Ane, C., Mueller, L., Bonierbale, M., Spooner, D.M. 2010. Reticulate Phylogenetics of Wild Potato Polyploids Inferred From Multilocus Analysis [abstract]. Evolution. Paper No. 075005.
Multiple Nuclear Ortholog (COSII) Phylogeny of Wild Potatoes and Tomatoes - (Abstract Only)
Spooner, D.M., Rodriguez, F. 2010. Multiple Nuclear Ortholog (COSII) Phylogeny of Wild Potatoes and Tomatoes. ASA-CSSA-SSSA Proceedings [abstract]. Paper No. 295-4.
Evolution of Chromosome 6 of Solanum Species Revealed by Comparative Fluorescence in Situ Hybridization Mapping - (Peer Reviewed Journal)
Luo, Q., Iovene, M., Spooner, D.M., Buell, C.R., Jiang, J. 2010. Evolution of Chromosome 6 of Solanum Species Revealed by Comparative Fluorescence in Situ Hybridization Mapping. Chromosoma. 119:435-442.
Cosii-Based Mapping and Diversity in Potato, Tomato, Sweet Potato and Carrot - (Abstract Only)
Rodriguez, F., Spooner, D.M. 2010. COSII-Based Mapping and Diversity in Potato, Tomato, Sweet Potato and Carrot [abstract]. Plant and Animal Genome Conference. p. 203.
Development of Asymmetric Single-Strand Sequence Polymorphism (SSCP) to Separate COSII Alleles in Potato, Tomato, Sweet Potato and Carrot - (Abstract Only)
(10-Nov-09)
Sandra Diane Knapp—Recipient of the 2008 Peter Raven Award - (Abstract Only)
Spooner, D.M. 2010. Sandra Diane Knapp—Recipient of the 2008 Peter Raven Award. Systematic Botany. 35(1):4-5.
Do potatoes and tomatoes have a single evolutionary history, and what proportion of the genome supports this history - (Peer Reviewed Journal)
Rodriguez, F., Tanksley, S., Wu, F., Spooner, D.M. 2009. Do potatoes and tomatoes have a single evolutionary history, and what proportion of the genome supports this history. BMC Evolutionary Biology. 9:191.
A New Species and Key to the Jaltomata (Solanaceae) of Mexico - (Peer Reviewed Journal)
Mione, T., Spooner, D.M. 2010. A New Species and Key to the Jaltomata (Solanaceae) of Mexico. Novon. 20(2):186-189.
Species Boundaries and Interrelationships of Solanum Sect. Petota (Wild and Cultivated Potatoes) are Drastically Altered as a Result of PBI-Funded Research - (Abstract Only)
Spooner, D.M., Ames, M., Fajardo, D., Rodriguez, F. 2009. Species Boundaries and Interrelationships of Solanum Sect. Petota (Wild and Cultivated Potatoes) are Drastically Altered as a Result of PBI-Funded Research [abstract]. ASA-CSSA-SSSA Annual Meeting Abstracts. Paper No. 54478.
Taxonomy of Wild Tomatoes and their Relatives(Solanum sect. Lycopersicoides, sect. Juglandifolia, sect. Lycopersicon; Solanaceae) - (Monograph)
Knapp, S., Spooner, D.M., Peralta, I. 2009. Taxonomy of Wild Tomatoes and their Relatives(Solanum sect. Lycopersicoides, sect. Juglandifolia, sect. Lycopersicon; Solanaceae). Systematic Botany Monographs. 84:1-186.
Genomic Origins of the Cultivated Potato Species: GBSSI Sequencing Data - (Peer Reviewed Journal)
Rodriguez, F., Ghislain, M., Spooner, D.M. 2009. Genomic Origins of the Cultivated Potato Species: GBSSI Sequencing Data. The Plant Genome. 48(S1):S27-S36.
Species Boundaries and Interrelationships of Solanum Series Piurana - (Abstract Only)
Ames, M., Spooner, D.M. 2009. Species Boundaries and Interrelationships of Solanum Series Piurana [abstract]. Botany & Mycology 2009. p. 23.
Species Boundaries and Interrelationships of Solanum Series Conicibaccata - (Abstract Only)
Fajardo, D., Spooner, D.M. 2009. Species Boundaries and Interrelationships of Solanum Series Conicibaccata [abstract]. Botany & Mycology 2009. p. 20.
Unraveling the Evolutionary History of Wild Potatoes and Tomatoes - (Abstract Only)
Rodriguez, F., Spooner, D.M. 2009. Unraveling the Evolutionary History of Wild Potatoes and Tomatoes [abstract]. Botany & Mycology 2009. p. 26.
Species Boundaries and Interrelationships of Solanum Sect. Petota (Wild and Cultivated Potatoes) are Drastically Altered as a Result of PBI-Funded Research - (Abstract Only)
Spooner, D.M., Ames, M., Fajardo, D., Rodriguez, F. 2009. Species Boundaries and Interrelationships of Solanum Sect. Petota (Wild and Cultivated Potatoes) are Drastically Altered as a Result of PBI-Funded Research [abstract]. Botany & Mycology 2009. p. 24.
Nitrate Reductase Phylogeny of Potato (Solanum sect. Petota) Genomes with Emphasis on the Origins of the Polyploid Species - (Peer Reviewed Journal)
Rodriguez, F., Spooner, D.M. 2009. Nitrate Reductase Phylogeny of Potato (Solanum sect. Petota) Genomes with Emphasis on the Origins of the Polyploid Species. Systematic Botany. 34:207-219.
Tests of Taxonomic and Biogeographic Predictivity: Resistance to Multiple Disease and Insect Pests in Wild Relatives of Cultivated Potato - (Peer Reviewed Journal)
Spooner, D.M., Jansky, S.H., Simon, R. 2009. Tests of Taxonomic and Biogeographic Predictivity: Resistance to Multiple Disease and Insect Pests in Wild Relatives of Cultivated Potato. Crop Science. 49:1367-1376.
The Single Andigenum Origin of Neo-Tuberosum Potato Materials is not Supported by Microsatellite and Plastid Marker Analyses - (Peer Reviewed Journal)
Ghislain, M., Nunez, J., Del Rosario Herrera, M., Bonierbale, M., Spooner, D.M. 2009. The Single Andigenum Origin of Neo-Tuberosum Potato Materials is not Supported by Microsatellite and Plastid Marker Analyses. Theoretical and Applied Genetics. 118(5):963-969.
Taxonomic Treatment of Solanum Section Petota (Wild Potatoes) in Catálogo de Plantas Vasculares del Cono Sur (Argentina, Chile, Paraguay, Uruguay, y sur del Brasil) - (Peer Reviewed Journal)
Spooner, D.M., Clausen, A., Peralta, I. 2009. Taxonomic Treatment of Solanum Section Petota (Wild Potatoes) in Catálogo de Plantas Vasculares del Cono Sur (Argentina, Chile, Paraguay, Uruguay, y sur del Brasil). Systematic Botany Monographs. 107:3011-3053.
Potato Science for the Poor, International Potato Center - (Proceedings)
(15-May-08)
Phylogeny of Solanum series Piurana and putatively related series based on morphological and molecular data - (Abstract Only)
Ames, M., Spooner, D.M. 2008. Phylogeny of Solanum series Piurana and putatively related series based on morphological and molecular data [abstract]. Botany without Borders. p. 145.
Preliminary phylogeny of Solanum series Conicibaccata based on morphological and molecular data - (Abstract Only)
Fajardo, D., Spooner, D.M. 2008. Preliminary phylogeny of Solanum series Conicibaccata based on morphological and molecular data [abstract]. Botany without Borders. p. 225.
Do potatoes and tomatoes have a single evolutionary history? What proportion of the genome supports this history - (Abstract Only)
Rodriguez, F., Spooner, D.M. 2008. Do potatoes and tomatoes have a single evolutionary history? What proportion of the genome supports this history [abstract]. Botany without Borders. p. 394.
Last Modified: 9/10/2014
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