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links to the PubMed entry
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2008 -- Publications from Project Participants.
2008 -- Publications from Other Researchers.
    -- 2016 --
  • Jayasena AS, Franke B, Rosengren J, Mylne JS. A tripartite approach identifies the major sunflower seed albumins. Theor Appl Genet 2016 Jan 14     
    -- 2015 --
  • Christopoulou M, McHale L, Kozik A, Reyes-Chin Wo S, Wroblewski T, Michelmore RW. Dissection of Two Complex Clusters of Resistance Genes in Lettuce (Lactuca sativa) Mol Plant Microbe Interact. 2015 Feb 4.     
  • Simko I, Ochoa O, Pel MA, Tsuchida C, Font I Forcada C, Hayes RJ, Truco MJ, Antonise R, Galeano CH, Michelmore R. Resistance to downy mildew in lettuce cv. La Brillante is conferred by Dm50 gene and multiple QTLs. Phytopathology. 2015 Apr 27.     
  • Christopoulou M, Wo SR, Kozik A, McHale LK, Truco MJ, Wroblewski T, Michelmore RW. Genome-Wide Architecture of Disease Resistance Genes in Lettuce G3 (Bethesda) 2015 Oct 8;5(12):2655-69.     
    -- 2014 --
  • Hodgins KA, Lai Z, Oliveira LO, Still DW, Scascitelli M, Barker MS, Kane NC, Dempewolf H, Kozik A, Kesseli RV, Burke JM, Michelmore RW, Rieseberg LH. Genomics of Compositae crops: reference transcriptome assemblies and evidence of hybridization with wild relatives Mol Ecol Resour. 2014 Jan;14(1):166-77.     
  • Mandel JR, Dikow RB, Funk VA, Masalia RR, Staton SE, Kozik A, Michelmore RW, Rieseberg LH, Burke JM4. A target enrichment method for gathering phylogenetic information from hundreds of loci: An example from the Compositae. Appl Plant Sci. 2014 Feb 6;2(2).     
  • Pearl SA, Bowers JE, Reyes-Chin-Wo S, Michelmore RW, Burke JM1. Genetic analysis of safflower domestication. BMC Plant Biol. 2014 Feb 6;14:43.     
    -- 2013 --
  • Matvienko M, Kozik A, Froenicke L, Lavelle D, Martineau B, Perroud B, Michelmore R. Consequences of normalizing transcriptomic and genomic libraries of plant genomes using a duplex-specific nuclease and tetramethylammonium chloride. PLoS One. 2013 8(2), e55913.     
  • Bushakra JM, Krieger C, Deng D, Stephens MJ, Allan AC, Storey R, Symonds VV, Stevenson D, McGhie T, Chagn? D, Buck EJ, Gardiner SE. QTL involved in the modification of cyanidin compounds in black and red raspberry fruit. Theor Appl Genet. 2013 Mar;126(3):847-65.     
  • Cao S, Zhou XR, Wood CC, Green AG, Singh SP, Liu L, Liu Q. A large and functionally diverse family of Fad2 genes in safflower (Carthamus tinctorius L.). BMC Plant Biol. 2013 Jan 7;13:5.     
  • Truco, M. J., Ashrafi, H., Kozik, A., van Leeuwen, H., Bowers, J., Wo, S. R. C., Stoffel, K., Xu, H., Hill, T., Deynze, A. V., & Michelmore, R. W.  An Ultra High-Density, Transcript-Based, Genetic Map of Lettuce G3: Genes| Genomes| Genetics. 2013      
  • Jenni S, Truco MJ, Michelmore RW. Quantitative trait loci associated with tipburn, heat stress-induced physiological disorders, and maturity traits in crisphead lettuce. Theor Appl Genet 2013 Sep 28. [Epub ahead of print]     
  • Atkinson LD, McHale LK, Truco MJ, Hilton HW, Lynn J, Schut JW, Michelmore RW, Hand P, Pink DA. An intra-specific linkage map of lettuce (Lactuca sativa) and genetic analysis of postharvest discolouration traits. Theor Appl Genet. 2013 Aug 20. [Epub ahead of print]     
  • Hill TA, Ashrafi H, Reyes-Chin-Wo S, Yao J, Stoffel K, Truco MJ, Kozik A, Michelmore RW, Van Deynze A. Characterization of Capsicum annuum genetic diversity and population structure based on parallel polymorphism discovery with a 30K unigene pepper GeneChip PLoS One 2013 Feb 8. [Epub]     
  • Nandety RS, Caplan JL, Cavanaugh K, Perroud B, Wroblewski T, Michelmore RW, Meyers BC. The role of TIR-NBS and TIR-X proteins in plant basal defense responses. Plant Physiol. 2013 Jul;162(3):1459-72.     
  • Michelmore RW, Christopoulou M, Caldwell KS. Impacts of resistance gene genetics, function, and evolution on a durable future. Annu Rev Phytopathol. 2013 May 15.[Epub]     
  • Simko I, Atallah AJ, Ochoa OE, Antonise R, Galeano CH, Truco MJ, Michelmore RW. Identification of QTLs conferring resistance to downy mildew in legacy cultivars of lettuce. Sci Rep. 2013 Oct 7;3:2875     
  • De Cremer K, Mathys J, Vos C, Froenicke L, Michelmore RW, Cammue BP, De Coninck B. RNAseq-based transcriptome analysis of Lactuca sativa infected by the fungal necrotroph Botrytis cinerea. Plant Cell Environ. 2013 Nov;36(11):1992-2007     
    -- 2012 --
  • Stassen JH, Seidl MF, Vergeer PW, Nijman IJ, Snel B, Cuppen E, VAN DEN Ackerveken G. Effector identification in the lettuce downy mildew Bremia lactucae by massively parallel transcriptome sequencing. Mol Plant Pathol. 2012 Feb 1     
  • David N. Kuhn, Don Livingstone, Dorrie Main, Ping Zheng, Chris Saski, F. Alex Feltus, Keithanne Mockaitis, Andrew D. Farmer, Gregory D. May and Raymond J. Schnell, et al. Identification and mapping of conserved ortholog set (COS) II sequences of cacao and their conversion to SNP markers for marker-assisted selection in Theobroma cacao and comparative genomics studies Tree Genetics & Genomes  2012 8:97–111     
  • Sala CA, Bulos M. Inheritance and molecular characterization of broad range tolerance to herbicides targeting acetohydroxyacid synthase in sunflower. Theor Appl Genet.  2012 Feb;124(2):355-64.     
  • Lai, Z., Kane, N.C., Kozik, A., Hodgins, K.A., Dlugosch, K.M., Barker, M.S., Matvienko, M., Yu, Q., Pearl, S.A., Bell, G.D.M., Turner, K.G., Zou, Y., Guggisberg, A., Adams, K.L., Anderson, J.V., Horvath, D.P., Kesseli, R.V., Burke, J.M., Michelmore, R.W.  Genomics of Compositae weeds: EST libraries, microarrays, and evidence of introgression. Am. J. Bot. 2012 99: 209?218.     
  • Stoffel, K., van Leeuwen, H., Kozik, A., Caldwell, D., Ashrafi, H., Cui, X., Tan, X., Hill, Reyes Chin-Wo, M.J., Truco, Michelmore, R.W., Van Deynze, A.  Development and application of a 6.6 Million Feature Affymetrix GeneChip? for massively parallel discovery of single position polymorphisms in lettuce (Lactuca spp.). BMC Genomics. 2012 13:185. doi: 10.1186/1471-2164-13-185.     
  • Ashrafi, H., Hill, T., Stoffel, K., Kozik, A., Yao, J., Chin-Wo, S. R., & Van Deynze, A.  De novo assembly of the pepper transcriptome (Capsicum annuum): a benchmark for in silico discovery of SNPs, SSRs and candidate genes.  BMC genomics 2012 13(1), 571.     
  • Bachlava, E., Taylor, C. A., Tang, S., Bowers, J. E., Mandel, J. R., Burke, J. M., & Knapp, S. J. SNP discovery and development of a high-density genotyping array for sunflower. PLoS One. 2012 ;7(1):e29814.     
  • Moody ML, Rieseberg LH. Sorting through the chaff, nDNA gene trees for phylogenetic inference and hybrid identification of annual sunflowers (Helianthus sect. Helianthus). Mol Phylogenet Evol. 2012 Jul;64(1):145-55.     
  • Hartman, Y., Hooftman, D. A., Uwimana, B., van de Wiel, C., Smulders, M. J., Visser, R. G., & van Tienderen, P. H. Genomic regions in crop?wild hybrids of lettuce are affected differently in different environments: implications for crop breeding.  Evol Appl. 2012 Sep;5(6):629-40.     
  • Mitsui Y, Setoguchi H. Demographic histories of adaptively diverged riparian and non-riparian species of Ainsliaea (Asteraceae) inferred from coalescent analyses using multiple nuclear loci. BMC Evol Biol.  2012 Dec 28;12:254.     
  • Hartman, Y., Hooftman, D. A., Schranz, M. E., & van Tienderen, P. H.  QTL analysis reveals the genetic architecture of domestication traits in Crisphead lettuce. Genetic Resources and Crop Evolution 2012 1-14.     
  • Dhandapani, V., Choi, S. R., Paul, P., Kim, Y. K., Ramchiary, N., Hur, Y., & Lim, Y. P. Development of EST database and transcriptome analysis in the leaves of Brassica rapa using a newly developed pipeline.  Genes & Genomics. 2012 34(6), 671-679.     
    -- 2011 --
  • Blackman BK, Rasmussen DA, Strasburg JL, Raduski AR, Burke JM, Knapp SJ, Michaels SD, Rieseberg LH. Contributions of flowering time genes to sunflower domestication and improvement. Genetics. 2011 187(1):271-87.     
  • Strasburg JL, Kane NC, Raduski AR, Bonin A, Michelmore R, Rieseberg LH. Effective population size is positively correlated with levels of adaptive divergence among annual sunflowers. Mol Biol Evol. 2011 [Epub ahead of print]     
  • Argyris J, Truco MJ, Ochoa O, McHale L, Dahal P, Van Deynze A, Michelmore RW, Bradford KJ. A gene encoding an abscisic acid biosynthetic enzyme (LsNCED4) collocates with the high temperature germination locus Htg6.1 in lettuce (Lactuca sp.). Theor Appl Genet. 2011 122(1):95-108.     
  • Matthew J. Moscou, Nick Lauter, Brian Steffenson, Roger P. Wise Quantitative and Qualitative Stem Rust Resistance Factors in Barley Are Associated with Transcriptional Suppression of Defense Regulons PLoS Genet.  2011 7(7)     
  • Song BH, Mitchell-Olds T. Evolutionary and Ecological Genomics of Non-Model Plants. J Syst Evol. 2011 49(1):17-24.     
  • García-Moreno MJ, Fernández-Martínez JM, Velasco L, Pérez-Vich B Molecular tagging and candidate gene analysis of the high gamma-tocopherol trait in safflower (Carthamus tinctorius L.) Mol Breed. 2011 28:367–379      
  • Talia P, Greizerstein EJ, Hopp HE, Paniego N, Poggio L, Heinz RA. Detection of single copy sequences using BAC-FISH and C-PRINS techniques in sunflower chromosomes Biocell. 2011 Apr;35(1):19-28.     
  • Riar DS, Rustgi S, Burke IC, Gill KS, Yenish JP. EST-SSR development from 5 Lactuca species and their use in studying genetic diversity among L. serriola biotypes. J Hered. 2011 ;102(1):17-28.     
  • Fulda S, Mikkat S, Stegmann H, Horn R. Physiology and proteomics of drought stress acclimation in sunflower (Helianthus annuus L.). Plant Biol (Stuttg). 2011 Jul;13(4):632-42.     
  • Muñoz-Amatriaín, M., Moscou, M.J., Bhat, P.R., Svensson, J.T., Bartoš, J., Suchánková, P., Šimková, H., Endo, T.R., Fenton, R.D., Lonardi, S., Castillo, A.M., Chao, S., Cistué, L., Cuesta-Marcos, A., Forrest, K.L., Hayden, M.J., Hayes, P.M., Horsley, R.D., An improved consensus linkage map of barley based on flow-sorted chromosomes and single nucleotide polymorphism markers. THE PLANT GENOME 2011 4 (3): 238-249.     
  • Bazin J, Langlade N, Vincourt P, Arribat S, Balzergue S, El-Maarouf-Bouteau H, Bailly C. Targeted mRNA oxidation regulates sunflower seed dormancy alleviation during dry after-ripening.  Plant Cell. 2011 Jun;23(6):2196-208.     
    -- 2010 --
  • Nguyen DT, Goepfert JC, Ikezawa N, Macnevin G, Kathiresan M, Conrad J, Spring O, Ro DK. Biochemical conservation and evolution of germacrene A oxidase in Asteraceae. J Biol Chem. 2010 Epub ahead of print        
  • Dempewolf, H; Kane, NC; Ostevik, KL; Geleta, M; Barker, MS; Lai, Z; Stewart, ML; Bekele, E; Engels, JMM; Cronk, QCB; Rieseberg, LH. Establishing genomic tools and resources for Guizotia abyssinica (L.f.) Cass.-the development of a library of expressed sequence tags. Establishing genomic tools and resources for Guizotia abyssinica (L.f.) Cass.-the development of a library of expressed sequence tags, microsatellite loci, and the sequencing of its chloroplast genome MOLECULAR ECOLOGY RESOURCES 2010 10.1111/j.1755-0998.2010.02859.     
  • Rieseberg, LH; Blackman, BK Speciation genes in plants ANNALS OF BOTANY 2010 p. 439, vol. 106.     
  • Blackman, BK; Strasburg, JL; Raduski, AR; Michaels, SD; Rieseberg, LH. The Role of Recently Derived FT Para logs in Sunflower The Role of Recently Derived FT Para logs in Sunflower Domestication CURRENT BIOLOGY 2010 p. 629, vol. 20.     
  • Dempewolf, H; Bordoni, P; Rieseberg, LH; Engels, JMM. Food Security: Crop Species Diversity  2010 p. 169, vol. 328.     
  • Chapman, MA; Hvala, J; Strever, J; Burke, JM, POPULATION GENETIC ANALYSIS OF SAFFLOWER (CARTHAMUS TINCTORIUS; ASTERACEAE) REVEALS A NEAR EASTERN ORIGIN AND FIVE CENTERS OF DIVERSITY AMERICAN JOURNAL OF BOTANY 2010 p. 831, vol. 97     
  • Wills DM, Abdel-Haleem H, Knapp SJ, Burke JM. Genetic architecture of novel traits in the hopi sunflower. J Hered. 2010 101(6):727-36     
  • Wieckhorst S, Bachlava E, Dussle CM, Tang S, Gao W, Saski C, Knapp SJ, Schön CC, Hahn V, Bauer E. Fine mapping of the sunflower resistance locus Pl(ARG) introduced from the wild species Helianthus argophyllus. Theor Appl Genet. 2010 121(8):1633-44.     
  • Bachlava E, Tang S, Pizarro G, Schuppert GF, Brunick RK, Draeger D, Leon A, Hahn V, Knapp SJ. Pleiotropy of the branching locus (B) masks linked and unlinked quantitative trait loci affecting seed traits in sunflower. Theor Appl Genet. 2010 120(4):829-42.     
  • Barker MS, Dlugosch KM, Dinh L, Challa RS, Kane NC, King MG, Rieseberg LH. EvoPipes.net: Bioinformatic Tools for Ecological and Evolutionary Genomics. Evol Bioinform Online. 2010 6:143-9.     
  • Dlugosch KM, Barker MS, Rieseberg LH. NU-IN: Nucleotide evolution and input module for the EvolSimulator genome simulation platform. BMC Res Notes. 2010 Aug 2;3:217.     
  • Schwember AR, Bradford KJ. Quantitative trait loci associated with longevity of lettuce seeds under conventional and controlled deterioration storage conditions. J Exp Bot. 2010 61(15):4423-36.     
  • Miller JK, Bradford KJ. The regulatory bottleneck for biotech specialty crops. Nat Biotechnol. 2010 28(10):1012-4.     
  • Schwember AR, Bradford KJ. A genetic locus and gene expression patterns associated with the priming effect on lettuce seed germination at elevated temperatures Plant Mol Biol. 2010 73(1-2):105-18.     
  • Gonthier L, Bellec A, Blassiau C, Prat E, Helmstetter N, Rambaud C, Huss B, Hendriks T, Bergès H, Quillet MC. Construction and characterization of two BAC libraries representing a deep-coverage of the genome of chicory (Cichorium intybus L., Asteraceae) BMC Res Notes. 2010 11;3:225.     
  • Mayerhofer R, Archibald C, Bowles V, Good AG. Development of molecular markers and linkage maps for the Carthamus species C. tinctorius and C. oxyacanthus Genome. 2010 Apr;53(4):266-76.     
  • Talia, P.; Nishinakamasu, V.; Hopp, H.; Heinz, R.; Paniego, N.. Genetic mapping of EST-SSR, SSR and InDel to improve saturation of genomic regions in a previously developed sunflower map. Electronic Journal of Biotechnology 2010 Vol 13, No 6      
  • Yue, B., Vick, B. A., Cai, X. and Hu, J.  Genetic mapping for the Rf1 (fertility restoration) gene in sunflower (Helianthus annuus L.) by SSR and TRAP markers. Plant Breeding. 2010 129: 24–28.     
  • Bowles VG, Mayerhofer R, Davis C, Good AG, Hall JC  A phylogenetic investigation of Carthamus combining sequence and microsatellite data  Plant Syst Evol  2010 287:85–97.     
  • Lucau-Danila A, Laborde L, Legrand S, Huot L, Hot D, Lemoine Y, Hilbert JL, Hawkins S, Quillet MC, Hendriks T, Blervacq AS. Identification of novel genes potentially involved in somatic embryogenesis in chicory (Cichorium intybus L.). BMC Plant Biol. 2010 Jun 22;10:122.     
    -- 2009 --
  • Wroblewski T, Caldwell KS, Piskurewicz U, Cavanaugh KA, Xu H, Kozik A, Ochoa O, McHale LK, Lahre K, Jelenska J, Castillo JA, Blumenthal D, Vinatzer BA, Greenberg JT and Michelmore RW Comparative large-scale analysis of interactions between several crop species and the effector repertoires from multiple pathovars of Pseudomonas and Ralstonia. Plant Physiology. 2009 10.1104/pp.109.     
  • Chapman MA, Hvala J, Strever J, Matvienko M, Kozik A, Michelmore RW, Tang S, Knapp SJ, Burke JM. Development, polymorphism, and cross-taxon utility of EST-SSR markers from safflower (Carthamus tinctorius L.). Theor Appl Genet. 2009 120(1):85-91.     
  • Kane NC, King MG, Barker MS, Raduski A, Karrenberg S, Yatabe Y, Knapp SJ, Rieseberg LH. Comparative genomic and population genetic analyses indicate highly porous genomes and high levels of gene flow between divergent helianthus species. Evolution. 2009 63(8):2061-75.     
  • Barker MS, Dlugosch KM, Reddy AC, Amyotte SN, Rieseberg LH. SCARF: maximizing next-generation EST assemblies for evolutionary and population genomic analyses. Bioinformatics. 2009 25(4):535-6.     
  • Strasburg JL, Scotti-Saintagne C, Scotti I, Lai Z, Rieseberg LH. Genomic patterns of adaptive divergence between chromosomally differentiated sunflower species. Mol Biol Evol. 2009 26(6):1341-55.     
  • Heesacker, A., E. Bachlava, R.L. Brunick, J.M. Burke, L.H. Rieseberg, and S.J. Knapp. Chromosomal rearrangements and unbalanced segmental duplications underlying the evolution of the silverleaf and common sunflower genomes. Plant Genome 2009 p. 233-246, vol. 2,  
  • Scaglione D, Acquadro A, Portis E, Taylor CA, Lanteri S, Knapp SJ. Ontology and diversity of transcript-associated microsatellites mined from a globe artichoke EST database. BMC Genomics. 2009 Sep 28;10:454.     
  • Stewart, CN; Tranel, PJ; Horvath, DP; Anderson, JV; Rieseberg, LH; Westwood, JH; Mallory-Smith, CA; Zapiola, ML; Dlugosch, KM. Evolution of Weediness and Invasiveness: Charting the Course for Weed Genomics. WEED SCIENCE 2009 p. 451, vol. 57.     
  • Wood TE, Takebayashi N, Barker MS, Mayrose I, Greenspoon PB, Rieseberg LH. The frequency of polyploid speciation in vascular plants. Proc Natl Acad Sci U S A. 2009 106(33):13875-9.     
  • Oracz K, El-Maarouf-Bouteau H, Kranner I, Bogatek R, Corbineau F, Bailly C. The mechanisms involved in seed dormancy alleviation by hydrogen cyanide unravel the role of reactive oxygen species as key factors of cellular signaling during germination. Plant Physiol. 2009 150(1):494-505.      
  • Simko I. Development of EST-SSR markers for the study of population structure in lettuce (Lactuca sativa L.). J Hered.  2009 100(2):256-62.     
  • Dauchot N, Mingeot D, Purnelle B, Muys C, Watillon B, Boutry M, Van Cutsem P. Construction of 12 EST libraries and characterization of a 12,226 EST dataset for chicory (Cichorium intybus) root, leaves and nodules in the context of carbohydrate metabolism investigation BMC Plant Biol. 2009 Jan 28;9:14.     
  • Yue B, Cai X, Vick B, Hu J. Genetic characterization and molecular mapping of a chlorophyll deficiency gene in sunflower (Helianthus annuus). J Plant Physiol.  2009 Apr 1;166(6):644-51.     
  • Acquadro A, Lanteri S, Scaglione D, Arens P, Vosman B, Portis E. Genetic mapping and annotation of genomic microsatellites isolated from globe artichoke. Theor Appl Genet. 2009 May;118(8):1573-87.     
  • Oracz K, El-Maarouf-Bouteau H, Kranner I, Bogatek R, Corbineau F, Bailly C. The mechanisms involved in seed dormancy alleviation by hydrogen cyanide unravel the role of reactive oxygen species as key factors of cellular signaling during germination. Plant Physiol. 2009 May;150(1):494-505.     
  • Opik M, Metsis M, Daniell TJ, Zobel M, Moora M. Large-scale parallel 454 sequencing reveals host ecological group specificity of arbuscular mycorrhizal fungi in a boreonemoral forest. New Phytol. 2009 Oct;184(2):424-37.     
  • Drost DR, Novaes E, Boaventura-Novaes C, Benedict CI, Brown RS, Yin T, Tuskan GA, Kirst M. A microarray-based genotyping and genetic mapping approach for highly heterozygous outcrossing species enables localization of a large fraction of the unassembled Populus trichocarpa genome sequence. Plant J. 2009 Jun;58(6):1054-67.     
  • Yonekura-Sakakibara K, Saito K. Functional genomics for plant natural product biosynthesis. Nat Prod Rep.  2009 Nov;26(11):1466-87.     
    -- 2008 --
  • Kuang H, Caldwell KS, Meyers BC, Michelmore RW. Frequent sequence exchanges between homologs of RPP8 in Arabidopsis are not necessarily associated with genomic proximity. Plant J. 2008 54(1):69-80.     
  • Radwan O, Gandhi S, Heesacker A, Whitaker B, Taylor C, Plocik A, Kesseli R, Kozik A, Michelmore RW, Knapp SJ. Genetic diversity and genomic distribution of homologs encoding NBS-LRR disease resistance proteins in sunflower. Mol Genet Genomics. 2008 280(2):111-125     
  • Barker MS, Kane NC, Matvienko M, Kozik A, Michelmore RW, Knapp SJ, Rieseberg LH. Multiple paleopolyploidizations during the evolution of the Compositae reveal parallel patterns of duplicate gene retention after millions of years. Mol Biol Evol. 2008 25(11):2445-55.     
  • Tomilov AA, Tomilova NB, Wroblewski T, Michelmore R, Yoder JI. Trans-specific gene silencing between host and parasitic plants. Plant J. 2008 Nov;56(3):389-97.      
  • Mingai Li et al. Development of COS genes as universally amplifiable markers for phylogenetic reconstructions of closely related plant species. Cladistics 2008      
  • Jeuken MJ, Pelgrom K, Stam P, Lindhout P. Efficient QTL detection for nonhost resistance in wild lettuce: backcross inbred lines versus F(2) population. Theor Appl Genet. 2008 116(6):845-57.     
  • Rojas-Barros P, Hu J, Jan CC. Molecular mapping of an apical branching gene of cultivated sunflower (Helianthus annuus L.). Theor Appl Genet. 2008 117(1):19-28.     
  • Zeng Q, Qiu F, Yuan L. Production of artemisinin by genetically-modified microbes. Biotechnol Lett. 2008 30(4):581-92.     
  • Oracz K, El-Maarouf-Bouteau H, Bogatek R, Corbineau F, Bailly C. Release of sunflower seed dormancy by cyanide: cross-talk with ethylene signalling pathway. J Exp Bot. 2008 59(8):2241-51.     
  • Kuang, H., van Eck, H.J., Sicard, D., Michelmore, R.W., Nevo, E. Evolution and genetic population structure of prickly lettuce (Lactuca serriola) and its RGC2 resistance gene cluster.  Genetics 2008 178: 1547-1558.     
  • Argyris J, Dahal P, Hayashi E, Still DW, Bradford KJ. Genetic variation for lettuce seed thermoinhibition is associated with temperature-sensitive expression of abscisic Acid, gibberellin, and ethylene biosynthesis, metabolism, and response genes. Plant Physiol. 2008 148(2):926-47.     
  • Lai Z, Kane NC, Zou Y, Rieseberg LH. Natural variation in gene expression between wild and weedy populations of Helianthus annuus. Genetics. 2008 Aug;179(4):1881-90     
  • Chapman, M.A., J.L. Leebens-Mack, and J.M. Burke. Positive selection and expression divergence following gene duplication in the sunflower CYCLOIDEA family. Mol. Biol. Evol. 2008 25(7):1260-73.     
  • Dempewolf, H; Rieseberg, LH; Cronk, QC. Crop domestication in the Compositae: a family-wide trait assessment GENETIC RESOURCES AND CROP EVOLUTION 2008 55: 1141.     
    -- 2007 --
  • Chen, J., Agrawal, V., Rattray, M., West, M.A.L., St.Clair, D.A., Michelmore, R.W., Coughlan, S.J., Meyers, B.C.  A comparison of microarray and MPSS technology platforms for expression analysis of Arabidopsis. BMC Genomics. 2007 8:414     
  • Truco MJ, Antonise R, Lavelle D, Ochoa O, Kozik A, Witsenboer H, Fort SB, Jeuken MJ, Kesseli RV, Lindhout P, Michelmore RW, Peleman J. A high-density, integrated genetic linkage map of lettuce (Lactuca spp.). Theor Appl Genet. 2007 115(6):735-46     
  • Rose, L.E., Michelmore, R.W. & Langley, C.H.  Natural variation in the Pto disease resistance gene within species of wild tomato (Lycopersicon) II. Population genetics of Pto. Genetics.  2007 175:1307-1319     
  • Wroblewski T, Piskurewicz U, Tomczak A, Ochoa O, Michelmore RW. Silencing of the major family of NBS-LRR-encoding genes in lettuce results in the loss of multiple resistance specificities. Plant J. 2007 51(5):803-18.     
  • Church SA, Livingstone K, Lai Z, Kozik A, Knapp SJ, Michelmore RW, Rieseberg LH. Using Variable Rate Models to Identify Genes Under Selection in Sequence Pairs: Their Validity and Limitations for EST Sequences. Journal of Molecular Evolution 2007 64(2):171-80.     
  • Ruth E. Timme, Jennifer V. Kuehl, Jeffrey L. Boore and Robert K. Jansen. A comparative analysis of the Lactuca and Helianthus (Asteraceae) plastid genomes: identification of divergent regions and categorization of shared repeats. American Journal of Botany.  2007 ;94:302-312.     
  • Terol J, Conesa A, Colmenero JM, Cercos M, Tadeo F, Agust?? J, Al??s E, Andres F, Soler G, Brumos J, Iglesias DJ, G??tz S, Legaz F, Analysis of 13000 unique Citrus clusters associated with fruit quality, production and salinity tolerance. BMC Genomics. 2007 Jan 25;8:31.     
  • Yue, B., Miller, J.F., Hu, J.  Experimenting with marker-assisted selection in confection sunflower germplasm enhancement. 29th Sunflower Research Workshop 2007 Jan, Fargo, ND.     
  • Fierro AC, Thuret R, Coen L, Perron M, Demeneix BA, Wegnez M, Gyapay G, Weissenbach J, Wincker P, Mazabraud A, Pollet N. Exploring nervous system transcriptomes during embryogenesis and metamorphosis in Xenopus tropicalis using EST analysis. BMC Genomics. 2007 May 16;8:118.     
  • Letousey, P.;??de Z??licourt, A.;??Vieira Dos Santos, C.;??Thoiron, S.;??Monteau, F.;??Simier, P.;??Thalouarn, P.;??Delavault, P. Molecular analysis of resistance mechanisms to Orobanche cumana in sunflower. Plant Pathology 2007 Jun, Volume 56,??Number 3, pp. 536-546(11)     
  • Oracz K, Bouteau HE-M, Farrant JM, Cooper K, Belghazi M, Job C, Job D, Corbineau F, Bailly C  ROS production and protein oxidation as a novel mechanism for seed dormancy alleviation. The Plant Journal  2007 50: 452-465     
  • Mazier M, Botton E, Flamain F, Bouchet JP, Courtial B, Chupeau MC, Chupeau Y, Maisonneuve B, Lucas H. Successful gene tagging in lettuce using the Tnt1 retrotransposon from tobacco. Plant Physiol 2007 May;144(1):18-31     
  • Chapman, M.A. and J.M. Burke. DNA sequence diversity and the origin of cultivated safflower (Carthamus tinctorius L.; Asteraceae). BMC Plant Biol. 2007 7(1):60     
  • Brouillette, L.C., D.M. Rosenthal, L.H. Rieseberg, C. Lexer, R.L. Malmberg, L.A. Donovan. Genetic architecture of leaf ecophysiological traits in Helianthus. Journal of Heredity 2007 98:142-146.     
  • Rieseberg, L.H., Kim, S.-C. R.A. Randell, K.D. Whitney, B.L. Gross, C. Lexer, and K. Clay. Hybridization and the colonization of novel habitats by annual sunflowers. Genetica 2007 p. 149, vol. 129     
  • Wills, D.M. and J.M. Burke. Quantitative trait locus analysis of the early domestication of sunflower. Genetics. 2007 176(4):2589-99     
  • Yatabe, Y., N.C. Kane, C. Scotti-Saintagne, and L.H. Rieseberg. Rampant gene exchange across a strong reproductive barrier between the annual sunflowers, Helianthus annuus and H. petiolaris. Genetics 2007 175:1883-1893.     
  • Kane, N.C., and L.H. Rieseberg. Selective sweeps reveal candidate genes for adaptation to drought and salt tolerance in common sunflower, Helianthus annuus. Genetics 2007 175:1803-1812.     
  • Kolkman JM, Berry ST, Leon AJ, Slabaugh MB, Tang S, Gao W, Shintani DK, Burke JM, and Knapp SJ. Single nucleotide polymorphisms and linkage disequilibrium in sunflower. Genetics. 2007 177(1):457-68.     
    -- 2006 --
  • West MA, van Leeuwen H, Kozik A, Kliebenstein DJ, Doerge RW, St Clair DA, Michelmore RW. High-density haplotyping with microarray-based expression and single feature polymorphism markers in Arabidopsis. Genome Res 2006 Jun;16(6):787-95.     
  • Kuang, H., Ochoa, O.E., Nevo, E., Michelmore, R.W.  The disease resistance gene Dm3 is infrequent in natural populations of Lactuca serriola due to deletions and frequent gene conversions at the RGC2 locus. Plant J. 2006 47(1):38-48        
  • Syed NH, Sorensen AP, Antonise R, van de Wiel C, van der Linden CG, van 't Westende W, Hooftman DA, den Nijs HC, Flavell AJ. A detailed linkage map of lettuce based on SSAP, AFLP and NBS markers. Theor Appl Genet. 2006 Feb;112(3):517-527.      
  • Tate JA, Ni Z, Scheen AC, Koh J, Gilbert CA, Lefkowitz D, Chen ZJ, Soltis PS, Soltis DE. Evolution and expression of homeologous loci in Tragopogon miscellus (Asteraceae), a recent and reciprocally formed allopolyploid. Genetics. 2006 Jul;173(3):1599-1611.        
  • Phillip N. Miklasa, Jinguo Hub, Niklaus J. Gr??nwaldc and Karen M. Larsen. Potential Application of TRAP (Targeted Region Amplified Polymorphism) Markers for Mapping and Tagging Disease Resistance Traits in Common Bean. Crop Science. 2006 46: 910-916.     
  • Daniel J. Kliebenstein, Marilyn A.L. West, Hans van Leeuwen, Kyunga Kim, R.W. Doerge, Richard W. Michelmore, Dina A. St.Clair  Genomic survey of gene expression diversity in Arabidopsis thaliana. Genetics 2006 172: 1179-1189.     
  • Konstantin??V.??Krutovsky, Christine??G.??Elsik, Marta??Matvienko, Alex??Kozik and David??B.??Neale. Conserved ortholog sets in forest trees. Tree Genetics & Genomes 2006 3:61-70     
  • Lai, Z., B. Gross, Y. Zou, J. Andrews, and L. H. Rieseberg. Detecting differential gene expression in homoploid hybrid sunflower species using microarrays. Molecular Ecology 2006 15:1213-1227.  
  • Pashley CH, Ellis JR, McCauley DE, Burke JM. EST databases as a source for molecular markers: lessons from Helianthus. J Hered. 2006 Jul-Aug;97(4):381-388.      
  • Ellis JR, Pashley CH, Burke JM, McCauley DE. High genetic diversity in a rare and endangered sunflower as compared to a common congener. Mol Ecol. 2006 Aug;15(9):2345-2355.      
  • Lai Z, Gross BL, Zou Y, Andrews J, Rieseberg LH. Microarray analysis reveals differential gene expression in hybrid sunflower species. Mol Ecol. 2006 Apr;15(5):1213-1227.      
  • Edelist, C., C. Lexer, C. Dillmann, D. Sicard, L.H. Rieseberg. Microsatellite signature of ecological selection for salt tolerance in a wild sunflower hybrid species, Helianthus paradoxus. Molecular Ecology 2006 15:4623-4634.     
  • Chen J, Hu J, Vick BA, Jan CC. Molecular mapping of a nuclear male-sterility gene in sunflower (Helianthus annuus L.) using TRAP and SSR markers. Theor Appl Genet. 2006 Jun;113(1):122-7.     
  • Liu A, Burke JM. Patterns of nucleotide diversity in wild and cultivated sunflower. Genetics. 2006 May;173(1):321-330.         
  • Tang, S., A. Leon, and S.J. Knapp Quantitative trait loci for genetically correlated seed traits are tightly linked to branching and pericarp pigment loci in sunflower. Crop Science 2006 p. 721, vol. 46.     
  • Hass CG, Tang S, Leonard S, Traber MG, Miller JF, Knapp SJ. Three non-allelic epistatically interacting methyltransferase mutations produce novel tocopherol (vitamin E) profiles in sunflower. Theor Appl Genet. 2006 Sep;113(5):767-782.      
    -- 2005 --
  • Wroblewski, T., Tomczak, A., and Michelmore, R. W.  Optimization of Agrobacterium-mediated transient assays of gene expression in lettuce, tomato and Arabidopsis. Plant Biotechnology Journal.  2005 3:259-273     
  • Argyris J, Truco MJ, Ochoa O, Knapp SJ, Still DW, Lenssen GM, Schut JW, Michelmore RW, Bradford KJ. Quantitative trait loci associated with seed and seedling traits in Lactuca. Theor Appl Genet. 2005 Nov;111(7):1365-1376.      
  • Mulvenna JP, Foley FM, Craik DJ. Discovery, structural determination, and putative processing of the precursor protein that produces the cyclic trypsin inhibitor sunflower trypsin inhibitor 1. J Biol Chem. 2005 Sep 16;280(37):32245-32253.         
  • Grube RC, Wintermantel WM, Hand P, Aburomia R, Pink DA, Ryder EJ. Genetic analysis and mapping of resistance to lettuce dieback: a soilborne disease caused by tombusviruses. Theor Appl Genet. 2005 Jan;110(2):259-68.     
  • McInnis SM, Costa LM, Gutierrez-Marcos JF, Henderson CA, Hiscock SJ. Isolation and characterization of a polymorphic stigma-specific class III peroxidase gene from Senecio squalidus L. (Asteraceae) Plant Mol Biol. 2005 Mar;57(5):659-677.      
  • Chase MW, Salamin N, Wilkinson M, Dunwell JM, Kesanakurthi RP, Haidar N, Savolainen V. Land plants and DNA barcodes: short-term and long-term goals. Philos Trans R Soc Lond B Biol Sci. 2005 Oct 29;360(1462):1889-1895. Review.     
  • Rojas-Barros, P., C.C. Jan, and J. Hu. Mapping of a recessive branching gene in RHA 271 using molecular markers. Proc. 27th Sunflower Research Forum 2005 Fargo, ND.     
  • Yang, W., Miller, S.A., Scott, J.W., Jones, J.B. and Francis, D.M. Mining tomato genome sequence databases for molecular markers: application to bacterial resistance and marker assisted selection. Acta Hort. (ISHS) 2005 695:241-250     
  • Torres M, Tomilov A, Tomilova N, Reagan R, Yoder J. Pscroph: a parasitic plant EST database enriched for parasite associated transcripts. BMC Plant Biology 2005 Nov 16;5:24     
  • JINGUO HU; OCHOA Oswaldo E.; TRUCO Maria Jos??; VICK Brady A. Application of the TRAP technique to lettuce (Lactuca sativa L.) genotyping. Euphytica. 2005 ; vol. 144, pp. 225-235  
  • Lai, Z., T. Nakazato, M. Salmaso, J. M. Burke, S. Tang, S. J. Knapp, and L.H. Rieseberg. Extensive chromosomal repatterning and the evolution of sterility barriers in hybrid sunflower species. Genetics 2005 171:291-303.     
  • Burke, J.M., S.J. Knapp, and L.H. Rieseberg. Genetic consequences of a recent selective sweep in cultivated sunflower. Genetics 2005 171:1933-1940     
  • Lexer, C., D.M. Rosenthal, O. Raymond, L. Donovan, and L.H. Rieseberg. Genetics of species differences in the wild annual sunflowers, Helianthus annuus and H. petiolaris. Genetics 2005 169: 2225-2239.     
  • Lai Z, Livingstone K, Zou Y, Church SA, Knapp SJ, Andrews J, Rieseberg LH. Identification and mapping of SNPs from ESTs in sunflower. Theor Appl Genet. 2005 Nov;111(8):1532-1544.      
  • Micic, Z., V. Hahn, E. Bauer, C.C. Schoen, S.J. Knapp, S. Tang, and A.E. Melchinger. Identification and validation of QTL for Sclerotinia midstalk rot resistance in sunflower by selective genotyping. Theoretical and Applied Genetics 2005 p. 233, vol. 111     
    -- 2004 --
  • Kolkman, J.M., M.B. Slabaugh, J.M. Bruniard, S.T. Berry, S.B. Bushman, G. Abratti, A. Zambelli, J.F. Miller, A. Leon, and S.J. K Acetohydroxyacid synthase mutations conferring resistance to imidazolinone or sulfonylurea herbicides in sunflower. Theor Appl Genet. 2004 Oct;109(6):1147-1159.      
  • Christian Lexer, Zhao Lai and Loren H. Rieseberg. Candidate gene polymorphisms associated with salt tolerance in wild sunflower hybrids: implications for the origin of Helianthus. New Phytologist 2004 Jan, Vol 161:225        
  • Burke, J.M., Z. Lai, M. Salmaso, T. Nakazato, S. Tang, A. Heesacker, S.J. Knapp, and L. H. Rieseberg. Comparative mapping and rapid karyotypic evolution in the genus Helianthus. Genetics 2004 167:449-457.     
  • Harter, A.V., K.A. Gardner, D. Falush, D.L. Lentz, R. Bye, L.H. Rieseberg. Origin of extant domesticated sunflowers in eastern North America. Nature 2004 430:201-205.     
    -- 2003 --
  • Moreno-Vaquez, S., Ochoa, O., Faber, N., Chao, S., Jacobs, J.M.E., Maisonneuve, B., Kesseli, R., Michelmore, R.W.  SNP-based codominant markers for a recessive gene conferring resistance to corky root rot (Rhizomonas suberifaciens) in lettuce (Lactuca sativa). Genome. 2003 46:1059-1069     
  • Fernández P, Paniego N, Lew S, Hopp HE, Heinz RA. Differential representation of sunflower ESTs in enriched organ-specific cDNA libraries in a small scale sequencing project. BMC Genomics. 2003 Sep 30;4(1):40     
  • Hu J, Vick BA. TRAP (target region amplification polymorphism), a novel marker technique for plant genotyping. Plant Mol Biol Rep 2003 21:289-294.     
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