Zhu, Q., L. Deng, J. Chen, G. R. Rodriguez, C. Sun, Z. Chang, T. Yang, H. Zhai, H. Jiang, Y. Topcu, D. Francis, S. Hutton, L. Sun, C. B. Li, E. van der Knaap, C. Li (2023). Redesigning the tomato fruit shape for mechanized production. Nat. Plants 9, 1659–1674
Goldman, I.L., Y. Wang, A. Vega Alfaro, S. Brainard, M.W Oravec, C.E. McGregor, E. van der Knaap (2023). Form and contour: breeding and genetics of organ shape from wild relatives to modern vegetable crops. Front Plant Sci 14:1257707
Sapkota, M., L. Pereira, Y. Wang, L. Zhang, Y. Topcu, D. Tieman, E. van der Knaap. (2023) Structural variation underlies functional diversity at methyl salicylate loci in tomato. PLOS Genet 19, e1010751.
Li, Q., S. Luo, L. Zhang, Q. Feng, L. Song, M. Sapkota, S. Xuan, Y. Wang, J. Zhao, E. van der Knaap, X. Chen, S. Shen. (2023) Molecular and genetic regulations of fleshy fruit shape and lessons from Arabidopsis and rice. Hort Res https://doi.org/10.1093/hr/uhad108.
Zhang, B., Q. Li, N. Keyhaninejad, N.K. Taitano, M. Sapkota, A. Snouffer, Esther van der Knaap. (2023) A combinatorial TRM-OFP module is required to fine-tune tomato fruit shape.New Phytologist 238, 2393-2409.
McGarry, R.C., H. Kaur, Y-T. Lin, G. Lopez Puc, L. Eshed Williams, E. van der Knaap, B.G. Ayre. (2023) Altered expression of SELF-PRUNING disrupts homeostasis and facilitates signal delivery to meristems. Plant Physiol 192,1517-1531.
Frick, E., M. Sapkota, L. Pereira, Y. Wang, A. Hermanns, J.J. Giovannoni, E. van der Knaap, D. Tieman, H.J. Klee. (2023) A family of methyl esterases convert methyl salicylate to salicylic acid in ripening tomato fruit. Plant Physiol 191, 110-124.
Van Eck, H., M.E.P Oortwijn, I.R. Terpstra, N.H.M. van Lieshout, E. van der Knaap, J.H. Willemsen, C.W.B. Bachem. (2022) Engineering of tuber shape in potato (Solanum tuberosum) with marker assisted breeding or genetic modification using StOFP20. Research Square doi.org/10.21203/rs.3.rs-1807189/v1.
Pérez-Martínez, A.L., L.E. Eguiarte, K.L. Mercer, N.E. Martínez-Ainsworth, L. McHale, E. van der Knaap, L. Jardón-Barbolla. (2022) Genetic diversity, gene flow and differentiation among wild, semiwild and landrace chile pepper (Capsicum annuum) populations in Oaxaca, Mexico. Am J Bot 109, 1157-1176.
Singh, J., E. van der Knaap (2022) Unintended Consequences of Plant Domestication. Pl Cell Physiol 63, 1573-1583.
Qing, Y., Y. Zheng, S. Mlotshwa, H.N. Smith, X. Wang, X. Zhai, E. van der Knaap, Y. Wang, Z. Fei (2022) Dynamically expressed small RNAs, substantially driven bygenomic structural variants, contribute to transcriptomicchanges during tomato domestication. Plant J 110, 1536-1550.
Blanca, J., D. Sanchez-Matarredona, P. Ziarsolo, J. Montero-Pau, E. van der Knaap, M.J. Diez, J. Canizares (2022) Haplotype analyses reveal novel insights into tomato history and domestication driven by long-distance migrations and latitudinal adaptations. Hort Research 9, uhac030.
Li, Q., Q. Feng, A. Snouffer, B. Zhang, G.R. Rodriguez, E. van der Knaap (2022) Increasing fruit weight by editing a cis-regulatory element in tomato KLUH promoter using CRISPR/Cas9. Frontiers in Plant Science 13, 879642.
Topcu, Y., S.U. Nambeesan, E. van der Knaap (2022) Blossom-end rot; a century-old problem in tomato (Solanum lycopersicum L.) and other vegetables. Mol Horticulture 2, 1.
Pereira, L., L. Zhang, M. Sapkota, A. Ramos, H. Razifard, A.L. Caicedo, E. van der Knaap (2021) Unraveling the genetics of tomato fruit weight during crop domestication and diversification. Theor Appl Genet 134, 3362-3378.
Topcu, Y., M. Sapkota, E. Illa-Berenguer, S.U. Nambeesan, E. van der Knaap (2021) Identification of blossom end rot loci using joint QTL-seq and linkage-based QTL mapping in tomato. Theor Appl Genet 134, 2931-2945.
Sierra-Orozco, E., R. Shekastaband, E. Illa-Berenguer, A. Snouffer, E. van der Knaap, T. Geon Lee, S.F. Hutton (2021) Identification and characterization of GLOBE, a major gene controlling fruit shape and impacting fruit size and marketability in tomato. Hort Res 8,138.
Pereira, L., M. Sapkota, M. Alonge, Y. Zheng, Y. Zhang, H. Razifard, N.K. Taitano, M.C. Schatz, A.R. Fernie, Y. Wang, Z. Fei, A.L. Caicedo, D.M. Tieman, E. van der Knaap (2021) Natural Genetic Diversity in Tomato Flavor Genes. Front Plant Sci 12, 642828.
Li, Q., M. Chakrabarti, N.K. Taitano, Y. Okazaki, K. Saito, A.M. Al-Abdallat, E. van der Knaap (2020) Differential expression of SlKLUH controlling fruit and seed weight is associated with changes in lipid metabolism and photosynthesis related genes. J Exp Botany 72, 1225-1244.
McGarry, R., X. Rao, Q. Li, E. van der Knaap, B. Ayre (2020) SINGLE FLOWER TRUSS and SELF-PRUNING signal developmental and metabolic networks to guide cotton architectures. J Exp Botany 71, 5911-5923.
Alonge, M., X. Wang, M. Benoit, S. Soyk, L. Pereira, L. Zhang, H. Suresh, S. Ramakrishnan, F. Maumus, D. Ciren, Y. Levy, T. Hai Harel, G. Shalev-Schlosser, Z. Amsellem, H. Razifard, A.L Caicedo, D.M. Tieman, H. Klee, M. Kirsche, S. Aganezov, T.R. Ranallo-Benavidez, Z.H. Lemmon, J. Kim, G. Robitaille, M. Kramer, S. Goodwin, W.R. McCombie, S. Hutton, J. Van Eck, J. Gillis, Y. Eshed, F.J. Sedlazeck, E. van der Knaap, M.C. Schatz, Z.B. Lippman (2020) Major Impacts of Widespread Structural Variation on Gene Expression and Crop Improvement in Tomato. Cell 182, 145-161.
Li, Q., M. Sapkota, E. van der Knaap (2020) Perspectives of CRISPR/Cas-mediated cis-engineering in horticulture: unlocking the neglected potential for crop improvement. Hort Research 7, 36.
Mata-Nicolas, E., J. Montero-Pau, E. Gimeno-Paez, V. Garcia-Carpintero, P. Ziarsolo, N. Menda, L. Mueller, J. Blanca, J. Canizares, E. van der Knaap, and M. J. Diez. (2020) Exploiting the diversity of tomato: The development of phenotypically and genetically detailed germplasm collection. Hort Research 7, 66.
Snouffer, A., C. Kraus, E. van der Knaap (2020) The shape of things to come: ovate family proteins regulate plant organ shape. Current Opin Pl Biol 53, 98-105.
Razifard, H., A. Ramos, A.L. Della Valle, C. Bodary, E. Goetz, E.J. Manser, X. Li, L. Zhang, S. Visa, D. Tieman, E. van der Knaap, A.L. Caicedo. (2020) Genomic Evidence for Complex Domestication History of the Cultivated Tomato in Latin America. Mol Biol Evol 10.1093/molbev/msz297.
Chu, Y-H., J-C. Jang, Z. Huang, E. van der Knaap (2019) Tomato locule number and fruit size controlled by natural alleles of lc and fas. Plant Direct 3, 1-20.
Wang, Y., J.P. Clevenger, E. Illa-Berenguer, T. Meulia, E. van der Knaap, L. Sun (2019) A comparison of sun, ovate, fs8.1 and auxin application on tomato fruit shape and gene expression. Plant Cell Physiol 60, 1067-1081.
Gao, L., Gonda, I., Sun, H., Ma, Q., Bao, K., Tieman, D.M., Burzynski-Chang, E.A., Fish, T.L., Stromberg, K.A., Sacks, G.L., Thannhouser, T.W., Foolad, M.R., Diez, M.J., Blanca, J., Canizares, J., Xu, Y., van der Knaap, E., Huang, S., Klee, H.J., Giovannoni, J.J., Fei, Z. (2019) The tomato pan-genome uncovers new genes and a rare allele regulating fruit flavor. Nat Genet 51, 1044-1051.
Perez-Alquicira, J., E. van der Knaap, K. Mercer, L. McHale, T. Mitchell, J. Luna-Ruiz, E. Texocotitla-Vazquez, O. Vargas-Ponce and A. Michel (2019) Genetic structure of Liriomyza trifolii (Diptera: Agromyzidae) associated with host plants from Southeastern Mexico. Environ Entomol 48, 253-262.
Lazzaro, M.D., S. Wu, A. Snouffer, Y. Wang and E. van der Knaap (2018) Plant organ shapes are regulated by protein interactions and associations with microtubules. Front Plant Sci 9, 1766.
Wu, S., B. Zhang, N. Keyhaninejad, G. R. Rodríguez, H. J. Kim, M. Chakrabarti, E. Illa-Berenguer, N. K. Taitano, M. J. Gonzalo, A. Díaz, Y. Pan, C. P. Leisner, D. Halterman, C. R. Buell, Y. Weng, S. H. Jansky, H. van Eck, J. Willemsen, A. J. Monforte, T. Meulia and E. van der Knaap (2018) A common genetic mechanism underlies morphological diversity in fruits and other plant organs. Nat Communications 9, 4734.
Taitano N., Bernau V., Jardon L-Barbolla., Leckie B., Mazourek M., Mercer K., McHale L., Michel A., Baumler D., Kantar M., van der Knaap E. (2018) Genomewide genotyping of a novel Mexican Chile Pepper collection illuminates the history of landrace differentiation after Capsicum annuum L. domestication. Evol Applications DOI: 10.1111/eva.12651.
Zhu G., Wang S., Huang Z., Zhang S., Liao Q., Zhang C., Lin T., Qin M., Peng M., Yang C., Cao X., Wang X., van der Knaap E., Zhang Z., Cui X., Klee H., Fernie A.R., Luo J., Huang S. (2018) Rewiring of the fruit metabolome in tomato breeding. Cell 172, 249-261.
Van der Knaap E and Ostergaard L. (2017) Shaping a fruit: Developmental pathways that impact growth patterns. Semin Cell Dev Biol , doi: 10.1016/j.semcbd.2017.10.028.
Mu Q., Huang Z., Chakrabarti M., Illa-Berenguer E., Liu X., Wang Y., Ramos A., van der Knaap, E. (2017) Fruit weight is controlled by Cell Size Regulator encoding a novel protein that is expressed in maturing tomato fruits. PLOS Genetics 13, e1006930.
Soyk S., Lemmon Z.H., Oved M., Fisher J., Liberatore K.L., Park S.J., Goren A., Jiang K., Ramos A., van der Knaap E., Van Eck J., Zamir D., Eshed Y., Lippman Z.B. (2017) Bypassing Negative Epistasis on Yield in Tomato Imposed by a Domestication Gene. Cell 169, 1142-1155.
Baek Y.S., Royer S.M., Broz A.K., Covey P.A., Lopez-Casado G., Nunez R., Kear P.J., Bonierbale M., Orillo M., van der Knaap E., Stack S.M., McClure B., Chetelat R.T., Bedinger P.A. (2016) Interspecific reproductive barriers between sympatric populations of wild tomato species (Solanum section Lycopersicon). Am J Botany 103, 1964-1978.
Sun L., Rodriguez G.R., Clevenger J.P., Illa-Berenguer E., Lin J., Blakeslee J.J., Liu W., Fei Z., Wijeratne A., Meulia T., van der Knaap, E. (2015) Candidate gene selection and detailed morphological evaluations of fs8.1, a quantitative trait locus controlling tomato fruit shape. J Exp Botany 66, 6471-6482.
Pattison R.J., Csukasi F., Zheng Y., Fei Z., van der Knaap E., Catala C. (2015) Comprehensive tissue-specific transcriptome analysis reveals distinct regulatory programs during early tomato fruit development. Plant Physiol 168, 1684-1701.
Wu, S., Clevenger, J.P., Sun, L., Visa, S., Kamiya, Y., Jikamaru, Y., Blakeslee, J., van der Knaap, E. (2015) The control of tomato fruit elongation orchestrated by sun, ovate and fs8,1 in a wild relative of tomato. Plant Science 238, 95-104.
Clevenger, J.P., Van Houten, J., Blackwood, M., Rodriguez, G.R., Jikumaru, Y., Kamiya, Y., Kusano, M., Saito, K., Visa, S., van der Knaap, E. (2015) Network analyses reveal shifts in transcript profiles and metabolites that accompany the expression of SUN and an elongated tomato fruit. Plant Physiol 168, 1164-1178.
Xu, C., Liberatore, K.L., MacAlister, C.A., Huang, Z., Chu, Y.H., Jiang, K., Brooks, C., Ogawa-Ohnishi, M., Xiong, G., Pauly, M., Van Eck, J., Matsubayashi, Y., van der Knaap, E.,Lippman, Z.B. (2015) A cascade of arabinosyltransferases controls shoot meristem size in tomato. Nat Genet 47, 784-792.
Illa-Berenguer, E., Van Houten, J., Huang, Z., van der Knaap, E. (2015) Rapid and reliable identification of tomato fruit weight and locule number loci by QTL-seq. Theor Appl Genet 128, 1329-1342.
Blanca, J., Montero-Pau, J., Sauvage, C., Bauchet, G., Illa, E., Diez, M.J., Francis, D., Causse, M., van der Knaap, E., Canizares, J. (2015) Genomic variation in tomato, from wild ancestors to contemporary breeding accessions. BMC Genomics 16, 257.
Visa, S., Cao, C., McSpadden Gardener, B., van der Knaap, E. (2014) Modeling of tomato fruits into nine shape categories using elliptic fourier shape modeling and Bayesian classification of contour morphometric data. Euphytica 200, 429-439.
Van der Knaap, E., Chakrabarti, M., Chu, Y.H., Clevenger, J.P., Illa-Berenguer, E., Huang, Z., Keyhaninejad, N., Mu, Q., Sun, L., Wang, Y., and Wu, S. (2014) What lies beyond the eye: the molecular mechanisms regulation tomato fruit weight and shape. Frontiers in Plant Science 5, 227. doi:10.3389/fpls.2014.00227.
Liu, N., Wu, S., Van Houten, J., Wang, Y., Ding, B., Fei, Z., Clarke, T.H., Reed, J.W., and van der Knaap, E. (2014) Downregulation of AUXIN RESPONSE FACTORS 6 and 8 by microRNA 167 leads to floral development defects and female sterility in tomato. J of Exp Botany 65, 2507-2520.
Monforte, A.J., Diaz, A., Cano-Delgado, A., and van der Knaap, E. (2014) The genetic basis of fruit morphology in horticultural crops: lessons from tomato and melon J of Exp Botany x, doi:10.1093/jxb/eru017.
Van der Knaap (2013) Morphology Matters. International Innovation 116, 81-83
*Chakrabarti, M., *Zhang, N., Sauvage, C., Munos, S., Blanca, J., Canizares, J., Diez, M.J., Schneider, R., Mazourek, M., McClead, J., Causse, M., and van der Knaap, E. (2013) A cytochrome P450 regulates a domestication trait in cultivated tomato. Proc Natl Acad Sci USA. 110, 17125-17130. *Equal contribution.
McCouch et al. (2013) Feeding the future. Nature 499, 23-24
Rodríguez, G.R., Kim, H.J. and van der Knaap, E. (2013) Mapping of Two Suppressors of OVATE (sov) Loci in Tomato. Heredity. 111, 256-264.
De Franceschi, P., Stegmeir, T., Cabrera, A., van der Knaap, E., Rosyara, U.R., Sebolt, A.M., Dondini, L., Dirlewanger, E., Quero-Garcia, J., Campoy, J.A. and Iezzoni, A.F. (2013) Cell Number Regulator Genes in Prunus Provide Candidate Genes for the Control of Fruit Size in Sweet and Sour Cherry. Mol Breed. 32, 311-326.
Huang, Z., Van Houten, J., Gonzalez, G., Xiao, H., and van der Knaap E. (2013) Genome-wide identification, phylogeny, and expression analysis of SUN, OFP and YABBY gene family in tomato. Mol Genet Genomics. 288, 111-129.
Jiang, N., Visa, S., Wu, S., and van der Knaap, E. (2012) Rider Transposon Insertions and Phenotypic Change in Tomato. Plant Transposable Elements, Topics in Current Genetics. 24, Chapter 15, 297-312.
Tieman, D., Blis, P., McIntyre, L.M., Blando-Ubeda, A., Bies, D., Odabasi, A.Z., Rodriquez, G.R., van der Knaap, E., Taylor, M.G., Goulet, C., Mageroy, M.H., Snyder, D.J., Colquhoun, T., Moskowitz, H., Clark, D.G., Sims, C., Bartoshuk, L., and Klee, H.J. (2012) The Chemical Interactions Underlying Tomato Flavor Preferences. Current Biology 22, 1035-1039.
Cabrera, A., Rosyara, U.R., De Franceschi, P., Sebolt, A., Sooriyapathirana, S.S., Dirlewanger, E., Quero-Garcia, J., Schuster, M., Iezzoni, A.F., and van der Knaap, E. (2012) Rosaceae Conserved Orthologous Sequences Marker Polymorphism in Sweet Cherry Germplasm and Construction of a SNP-based Map. Tree Genetics & Genomes 8: 237-247.
Zhang, N., Talbot Brewer, M., and van der Knaap, E. (2012) Fine Mapping of fw3.2 Controlling Fruit Weight in Tomato. Theor Appl Genet 125: 273-284.
Panthee, D.R., Cao, C., Debenport, S.J., Rodríguez, G.R., Labate, J.A., Robertson, L.D., Breksa III, A.P., van der Knaap, E., and McSpadden Gardener, B.B. (2012) Magnitude of Genotype X Environment Interactions Affecting Tomato Fruit Quality. HortScience 47(6): 721-726.
Huang, Z. and van der Knaap, E. (2011) Tomato fruit weight 11.3 maps close to fasciated on the bottom of chromosome 11. Theor Appl Genet 123: 465-474.
Wu, S., Xiao, H., Cabrera, A., Meulia, T., and van der Knaap, E. (2011) SUN Regulates Vegetative and Reproductive Organ Shape by Changing Cell Division Patterns. Plant Physiol 157: 1175-1186.
Wang, Y., Itaya, A., Zhong, X., Wu, Y., Zhang, J., van der Knaap, E., Olmstead, R., Qi, Y., and Ding, B. (2011) Function and Evolution of a MicroRNA That Regulates a Ca2+-ATPase and Triggers the Formation of Phased Small Interfering RNAs in Tomato Reproductive Growth. The Plant Cell 23: 3185-3203.
Rodriguez, G.R., Munos, S., Anderson, C., Sim, S-C., Michel, A., Causse, M., McSpadden Gardener, B.B., Francis, D., and van der Knaap, E. (2011) Distribution of SUN, OVATE, LC, and FAS in the Tomato Germplasm and the Relationship to Fruit Shape Diversity. Plant Physiol 156: 275-285.
Visa, S., Ramsay, B., Ralescu, A., and van der Knaap, E. (2011). Confusion Matrix-based Feature Selection. Proceedings of The 22nd Midwest Artificial Intelligence and Cognitive Science Conference Cincinnati, USA, April 16-17, 2011.
Rodriguez, G.R., Francis, D., van der Knaap, E., Strecker, J., Njanji, I., Thomas, J., and Jack, A. (2011). New Features and Many Improvements to Analyze Morphology and Color of Digitalized Plant Organs Are Available in Tomato Analyzer 3.0. Proceedings of The 22nd Midwest Artificial Intelligence and Cognitive Science Conference Cincinnati, USA, April 16-17, 2011.
Bedinger, P.A., Chetelat, R.T., McClure, B., Moyle, L.C., Rose, J.K.C., Stack, S.M., van der Knaap, E., Baek, Y.S., Lopez-Casado, G., Covey, P.A., Kumar, A., Li, W., Nunez, R., Cruz-Garcia, F., and Royer, S. (2010). Interspecific reproductive barriers in the tomato clade: opportunities to decipher mechanisms of reproductive isolation. Sex Plant Reprod 24 171-187
Illa, E., Sargent, D.J., Girona, E.L., Bushakra, J., Cestaro, A., Crowhurst, R., Pindo, M., Cabrera, A., van der Knaap, E., Iezzoni, A., Gardiner, S., Velasco, R., Arús, P., Chagné, D., and Troggio, M. (2011). Comparative analysis of rosaceous genomes and the reconstruction of putative ancestral genome for the family. BMC Evolutionary Biology 11:9
Robbins, M.D., Sim, S-C., Yang, W., Van Deynze, A., van der Knaap, E., Joobeur, T., and Francis, D. (2010) Mapping and linkage disequilibrium analysis with genome-wide collection of SNPs that detect polymorphism in cultivated tomato. J of Exp Botany 62 (6): 1831-285.
Tecle, I.Y., Menda, N., Buels, R.M., van der Knaap, E., and Mueller, L.A. (2010). solQTL: a tool for QTL analysis, visualization and linking to genomes at SGN database. BMC Bioinfomatics 11, 525.
Covey, P.A., Kondo, K., Welch, L., Frank, E., Sianta, S., Kumar, A., Nunez, R., Lopez-Casado, G., van der Knaap, E., Rose, J.K.C., McClure, B.A., and Bedinger, P.A. (2010). Multiple features that distinguish unilateral incongruity and self-incompatibility in the tomato clade. Plant Journal 64, 367-378.
Rodríguez, G.R., Moyseenko, J.B., Robbins, M.D., Huarachi Morejón, N., Francis, D.M., van der Knaap, E. (2010). Tomato Analyzer: A Useful Software Application to Collect Accurate and Detailed Morphological and Colorimetric Data from Two-dimensional Objects. JoVE 37.
Cabrera, A., Kozik, A., Howad, W., Arus, P., Iezzoni, A.F., van der Knaap, E. (2009). Development and bin mapping of a Rosaceae Conserved Ortholog Set (COS) of markers. BMC Genomics 10, 562.
Jiang, N., Gao, D., Xiao, H., and van der Knaap, E. (2009). Genome organization of the tomato sun locus and characterization of the unusual retrotransposon Rider. Plant Journal 60, 181-193.
Xiao, H., Radovich, C., Welty, N., Hsu, J., Li, D., Meulia, T., and van der Knaap, E. (2009) Integration of tomato reproductive developmental landmarks and expression profiles, and the effect of SUN on fruit shape. BMC Plant Biology 9, 49.
Gonzalo, M.J., Brewer, M.T., Anderson, C., Sullivan, D., Gray, S., and van der Knaap, E. (2009) Tomato Fruit Shape Analysis Using Morphometric and Morphology Attributes Implemented in Tomato Analyzer Software Program. J. Am. Soc. of Hort. Sci. 134, 77-87.
Darrigues, A., Hall, J., van der Knaap, E. and Francis, D.M. (2008) Tomato Analyzer-Color Test: a new tool for efficient digital phenotyping. J. Am. Soc. of Hort. Sci. 133, 579-586.
Xiao, H., Jiang, N., Schaffner, E., Stockinger, E.J., and van der Knaap, E. (2008) A Retrotransposon-Mediated Gene Duplication Underlies Morphological Variation of Tomato Fruit. Science 319 no. 5869, 1527-1530.
Gonzalo, M.J., and van der Knaap, E. (2008) A comparative analysis into the genetic bases of morphology in tomato varieties exhibiting elongated fruit shape. Theor. Appl. Genet. 116, 647-656.
Olmstead ,J.W., Sebolt, A.M., Cabrera, A., Sooriyapathirana, S.S., Hammar, S., Iriarte, G., Wang, D., Chen, C.Y., van der Knaap, E. and Iezzoni, A.F. (2008) Construction of an intra-specific sweet cherry (Prunus avium L.) genetic linkage map and synteny analysis with the Prunus reference map. Tree Genetics & Genomes 4, 897-910.
Paran, I. and van der Knaap, E. (2007) Genetic and molecular regulation of fruit and plant domestication traits in tomato and pepper. J. Exp. Bot. 58, 3841-3852.
Van Deynze, A., Stoffel, K., Buell, C.R., Kozik, A., Liu, J., van der Knaap, E., and Francis D. (2007) Diversity in conserved genes in tomato. BMC Genomics 8, 465.
Welty, N., C. Radovich, T. Meulia, and E. van der Knaap. (2007) Inflorescence development in two tomato species. Can. J. Bot. 85, 111-118.
Labate J.A., M.J. Gonzalo, D.M. Francis, W.Yang, E. van der Knaap et al. (2007) Tomato. In: Kole C (ed) Genome Mapping and Molecular Breeding in Plants. Springer, Berlin, Heidelberg, New York.
Tian, M., J. Win, J. Song, R. van der Hoorn, E. van der Knaap and S. Kamoun. (2007) A Phytophthora infestans cystatin-like protein targets a novel tomato papain-like apoplastic protease. Plant Physiol. 143, 364-377.
Eduardo, I., J Obando, J.A. Martínez, A. Alarcón, P. Arús, J.M. Álvarez, E. van der Knaap, J.P Fernández-Trujillo, and A.J. Monforte. (2007) Estimating the Genetic Architecture of Fruit Quality Traits in Melon Using a Genomic Library of Near Isogenic Lines. J. Am. Soc. of Hort. Sci. 132, 80-89.
Brewer, M.T., J.B. Moyseenko, A.J. Monforte, and E. van der Knaap. (2007) Morphological Variation in Tomato: A Comprehensive Study of Quantitative Trait Loci Controlling Fruit Shape and Development. J. Exp. Bot. 58, 1339-1349.
Brewer, M.T., Lang, L., Fujimura, K., Dujmovic, N., Gray, S., and van der Knaap, E. (2006) Development of a controlled vocabulary and software application to analyze fruit shape variation in tomato and other plant species. Plant Physiol. 141, 15-25.
Van der Knaap, E., Sanyal, A., Jackson, S.A. and Tanksley, S.D. (2004) High-resolution fine mapping and fluorescence in situ hybridization analysis of sun, a locus controlling tomato fruit shape, reveals a region of the tomato genome prone to DNA rearrangements. Genetics 168, 2127-2140.
Van der Knaap, E. and Tanksley, S.D. (2003) The making of a bell pepper-shaped tomato fruit: identification of loci controlling fruit morphology in Yellow Stuffer tomato. Theor. Appl. Genet. 107, 139-147.
Van der Knaap, E., Lippman, Z.B. and Tanksley, S.D. (2002) Extremely elongated tomato fruit controlled by four quantitative trait loci with epistatic interactions. Theor. Appl. Genet. 104, 241-247.
Van der Knaap, E. and Tanksley, S.D. (2001) Identification and characterization of a novel locus controlling early fruit development in tomato. Theor. Appl. Genet. 103, 353-358.
Yang, W., Bai, X., Kabelka, E., Eaton, C., Kamoun, S., van der Knaap, E. and Francis, D. (2004). Discovery of single nucleotide polymorphisms in Lycopersicon esculentum by computer aided analysis of expressed sequence tags. Mol. Breeding, 14, 21-34.