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A common genetic mechanism underlies morphological diversity in fruits and other plant organs.

Wu S, Zhang B, Keyhaninejad N, Rodríguez GR, Kim HJ, Chakrabarti M, Illa-Berenguer E, Taitano NK, Gonzalo MJ, Díaz A, Pan Y, Leisner CP, Halterman D, Buell CR, Weng Y, Jansky SH, van Eck H, Willemsen J, Monforte AJ, Meulia T, van der Knaap E.

Nat Commun. 2018 Nov 9;9(1):4734. doi: 10.1038/s41467-018-07216-8.


Rewiring of the Fruit Metabolome in Tomato Breeding.

Zhu G, Wang S, Huang Z, Zhang S, Liao Q, Zhang C, Lin T, Qin M, Peng M, Yang C, Cao X, Han X, Wang X, van der Knaap E, Zhang Z, Cui X, Klee H, Fernie AR, Luo J, Huang S.

Cell. 2018 Jan 11;172(1-2):249-261.e12. doi: 10.1016/j.cell.2017.12.019.


Shaping a fruit: Developmental pathways that impact growth patterns.

van der Knaap E, Østergaard L.

Semin Cell Dev Biol. 2018 Jul;79:27-36. doi: 10.1016/j.semcdb.2017.10.028. Epub 2017 Oct 31. Review.


Fruit weight is controlled by Cell Size Regulator encoding a novel protein that is expressed in maturing tomato fruits.

Mu Q, Huang Z, Chakrabarti M, Illa-Berenguer E, Liu X, Wang Y, Ramos A, van der Knaap E.

PLoS Genet. 2017 Aug 17;13(8):e1006930. doi: 10.1371/journal.pgen.1006930. eCollection 2017 Aug.


Bypassing Negative Epistasis on Yield in Tomato Imposed by a Domestication Gene.

Soyk S, Lemmon ZH, Oved M, Fisher J, Liberatore KL, Park SJ, Goren A, Jiang K, Ramos A, van der Knaap E, Van Eck J, Zamir D, Eshed Y, Lippman ZB.

Cell. 2017 Jun 1;169(6):1142-1155.e12. doi: 10.1016/j.cell.2017.04.032. Epub 2017 May 18.


Interspecific reproductive barriers between sympatric populations of wild tomato species (Solanum section Lycopersicon).

Baek YS, Royer SM, Broz AK, Covey PA, López-Casado G, Nuñez R, Kear PJ, Bonierbale M, Orillo M, van der Knaap E, Stack SM, McClure B, Chetelat RT, Bedinger PA.

Am J Bot. 2016 Nov;103(11):1964-1978. Epub 2016 Nov 18.


The control of tomato fruit elongation orchestrated by sun, ovate and fs8.1 in a wild relative of tomato.

Wu S, Clevenger JP, Sun L, Visa S, Kamiya Y, Jikumaru Y, Blakeslee J, van der Knaap E.

Plant Sci. 2015 Sep;238:95-104. doi: 10.1016/j.plantsci.2015.05.019. Epub 2015 Jun 9.


Candidate gene selection and detailed morphological evaluations of fs8.1, a quantitative trait locus controlling tomato fruit shape.

Sun L, Rodriguez GR, Clevenger JP, Illa-Berenguer E, Lin J, Blakeslee JJ, Liu W, Fei Z, Wijeratne A, Meulia T, van der Knaap E.

J Exp Bot. 2015 Oct;66(20):6471-82. doi: 10.1093/jxb/erv361. Epub 2015 Jul 14.


Comprehensive Tissue-Specific Transcriptome Analysis Reveals Distinct Regulatory Programs during Early Tomato Fruit Development.

Pattison RJ, Csukasi F, Zheng Y, Fei Z, van der Knaap E, Catalá C.

Plant Physiol. 2015 Aug;168(4):1684-701. doi: 10.1104/pp.15.00287. Epub 2015 Jun 22.


A cascade of arabinosyltransferases controls shoot meristem size in tomato.

Xu C, Liberatore KL, MacAlister CA, Huang Z, Chu YH, Jiang K, Brooks C, Ogawa-Ohnishi M, Xiong G, Pauly M, Van Eck J, Matsubayashi Y, van der Knaap E, Lippman ZB.

Nat Genet. 2015 Jul;47(7):784-92. doi: 10.1038/ng.3309. Epub 2015 May 25.


Network Analyses Reveal Shifts in Transcript Profiles and Metabolites That Accompany the Expression of SUN and an Elongated Tomato Fruit.

Clevenger JP, Van Houten J, Blackwood M, Rodríguez GR, Jikumaru Y, Kamiya Y, Kusano M, Saito K, Visa S, van der Knaap E.

Plant Physiol. 2015 Jul;168(3):1164-78. doi: 10.1104/pp.15.00379. Epub 2015 May 4.


Rapid and reliable identification of tomato fruit weight and locule number loci by QTL-seq.

Illa-Berenguer E, Van Houten J, Huang Z, van der Knaap E.

Theor Appl Genet. 2015 Jul;128(7):1329-42. doi: 10.1007/s00122-015-2509-x. Epub 2015 Apr 18.


Genomic variation in tomato, from wild ancestors to contemporary breeding accessions.

Blanca J, Montero-Pau J, Sauvage C, Bauchet G, Illa E, Díez MJ, Francis D, Causse M, van der Knaap E, Cañizares J.

BMC Genomics. 2015 Apr 1;16:257. doi: 10.1186/s12864-015-1444-1.


What lies beyond the eye: the molecular mechanisms regulating tomato fruit weight and shape.

van der Knaap E, Chakrabarti M, Chu YH, Clevenger JP, Illa-Berenguer E, Huang Z, Keyhaninejad N, Mu Q, Sun L, Wang Y, Wu S.

Front Plant Sci. 2014 May 27;5:227. doi: 10.3389/fpls.2014.00227. eCollection 2014.


Down-regulation of AUXIN RESPONSE FACTORS 6 and 8 by microRNA 167 leads to floral development defects and female sterility in tomato.

Liu N, Wu S, Van Houten J, Wang Y, Ding B, Fei Z, Clarke TH, Reed JW, van der Knaap E.

J Exp Bot. 2014 Jun;65(9):2507-20. doi: 10.1093/jxb/eru141. Epub 2014 Apr 10.


The genetic basis of fruit morphology in horticultural crops: lessons from tomato and melon.

Monforte AJ, Diaz A, Caño-Delgado A, van der Knaap E.

J Exp Bot. 2014 Aug;65(16):4625-37. doi: 10.1093/jxb/eru017. Epub 2014 Feb 11. Review.


A cytochrome P450 regulates a domestication trait in cultivated tomato.

Chakrabarti M, Zhang N, Sauvage C, Muños S, Blanca J, Cañizares J, Diez MJ, Schneider R, Mazourek M, McClead J, Causse M, van der Knaap E.

Proc Natl Acad Sci U S A. 2013 Oct 15;110(42):17125-30. doi: 10.1073/pnas.1307313110. Epub 2013 Sep 30.


Cell number regulator genes in Prunus provide candidate genes for the control of fruit size in sweet and sour cherry.

De Franceschi P, Stegmeir T, Cabrera A, van der Knaap E, Rosyara UR, Sebolt AM, Dondini L, Dirlewanger E, Quero-Garcia J, Campoy JA, Iezzoni AF.

Mol Breed. 2013;32:311-326. Epub 2013 Apr 30.


Agriculture: Feeding the future.

McCouch S, Baute GJ, Bradeen J, Bramel P, Bretting PK, Buckler E, Burke JM, Charest D, Cloutier S, Cole G, Dempewolf H, Dingkuhn M, Feuillet C, Gepts P, Grattapaglia D, Guarino L, Jackson S, Knapp S, Langridge P, Lawton-Rauh A, Lijua Q, Lusty C, Michael T, Myles S, Naito K, Nelson RL, Pontarollo R, Richards CM, Rieseberg L, Ross-Ibarra J, Rounsley S, Hamilton RS, Schurr U, Stein N, Tomooka N, van der Knaap E, van Tassel D, Toll J, Valls J, Varshney RK, Ward J, Waugh R, Wenzl P, Zamir D.

Nature. 2013 Jul 4;499(7456):23-4. doi: 10.1038/499023a. No abstract available.


Mapping of two suppressors of OVATE (sov) loci in tomato.

Rodríguez GR, Kim HJ, van der Knaap E.

Heredity (Edinb). 2013 Sep;111(3):256-64. doi: 10.1038/hdy.2013.45. Epub 2013 May 15.


Longer sleep--slimmer kids: the ENERGY-project.

Altenburg TM, Chinapaw MJ, van der Knaap ET, Brug J, Manios Y, Singh AS.

PLoS One. 2013;8(3):e59522. doi: 10.1371/journal.pone.0059522. Epub 2013 Mar 19.


Genome-wide identification, phylogeny and expression analysis of SUN, OFP and YABBY gene family in tomato.

Huang Z, Van Houten J, Gonzalez G, Xiao H, van der Knaap E.

Mol Genet Genomics. 2013 Apr;288(3-4):111-29. doi: 10.1007/s00438-013-0733-0. Epub 2013 Jan 31.


The chemical interactions underlying tomato flavor preferences.

Tieman D, Bliss P, McIntyre LM, Blandon-Ubeda A, Bies D, Odabasi AZ, Rodríguez GR, van der Knaap E, Taylor MG, Goulet C, Mageroy MH, Snyder DJ, Colquhoun T, Moskowitz H, Clark DG, Sims C, Bartoshuk L, Klee HJ.

Curr Biol. 2012 Jun 5;22(11):1035-9. doi: 10.1016/j.cub.2012.04.016. Epub 2012 May 24.


Fine mapping of fw3.2 controlling fruit weight in tomato.

Zhang N, Brewer MT, van der Knaap E.

Theor Appl Genet. 2012 Jul;125(2):273-84. doi: 10.1007/s00122-012-1832-8. Epub 2012 Mar 10.


SUN regulates vegetative and reproductive organ shape by changing cell division patterns.

Wu S, Xiao H, Cabrera A, Meulia T, van der Knaap E.

Plant Physiol. 2011 Nov;157(3):1175-86. doi: 10.1104/pp.111.181065. Epub 2011 Sep 15.


Function and evolution of a MicroRNA that regulates a Ca2+-ATPase and triggers the formation of phased small interfering RNAs in tomato reproductive growth.

Wang Y, Itaya A, Zhong X, Wu Y, Zhang J, van der Knaap E, Olmstead R, Qi Y, Ding B.

Plant Cell. 2011 Sep;23(9):3185-203. doi: 10.1105/tpc.111.088013. Epub 2011 Sep 13.


Tomato fruit weight 11.3 maps close to fasciated on the bottom of chromosome 11.

Huang Z, van der Knaap E.

Theor Appl Genet. 2011 Aug;123(3):465-74. doi: 10.1007/s00122-011-1599-3. Epub 2011 May 4.


Distribution of SUN, OVATE, LC, and FAS in the tomato germplasm and the relationship to fruit shape diversity.

Rodríguez GR, Muños S, Anderson C, Sim SC, Michel A, Causse M, Gardener BB, Francis D, van der Knaap E.

Plant Physiol. 2011 May;156(1):275-85. doi: 10.1104/pp.110.167577. Epub 2011 Mar 25.


Comparative analysis of rosaceous genomes and the reconstruction of a putative ancestral genome for the family.

Illa E, Sargent DJ, Lopez Girona E, Bushakra J, Cestaro A, Crowhurst R, Pindo M, Cabrera A, van der Knaap E, Iezzoni A, Gardiner S, Velasco R, Arús P, Chagné D, Troggio M.

BMC Evol Biol. 2011 Jan 12;11:9. doi: 10.1186/1471-2148-11-9.


Mapping and linkage disequilibrium analysis with a genome-wide collection of SNPs that detect polymorphism in cultivated tomato.

Robbins MD, Sim SC, Yang W, Van Deynze A, van der Knaap E, Joobeur T, Francis DM.

J Exp Bot. 2011 Mar;62(6):1831-45. doi: 10.1093/jxb/erq367. Epub 2010 Dec 30.


Interspecific reproductive barriers in the tomato clade: opportunities to decipher mechanisms of reproductive isolation.

Bedinger PA, Chetelat RT, McClure B, Moyle LC, Rose JK, Stack SM, van der Knaap E, Baek YS, Lopez-Casado G, Covey PA, Kumar A, Li W, Nunez R, Cruz-Garcia F, Royer S.

Sex Plant Reprod. 2011 Sep;24(3):171-87. doi: 10.1007/s00497-010-0155-7. Epub 2010 Nov 14. Review.


solQTL: a tool for QTL analysis, visualization and linking to genomes at SGN database.

Tecle IY, Menda N, Buels RM, van der Knaap E, Mueller LA.

BMC Bioinformatics. 2010 Oct 21;11:525. doi: 10.1186/1471-2105-11-525.


Multiple features that distinguish unilateral incongruity and self-incompatibility in the tomato clade.

Covey PA, Kondo K, Welch L, Frank E, Sianta S, Kumar A, Nuñez R, Lopez-Casado G, van der Knaap E, Rose JK, McClure BA, Bedinger PA.

Plant J. 2010 Nov;64(3):367-78. doi: 10.1111/j.1365-313X.2010.04340.x. Epub 2010 Oct 1.


Tomato Analyzer: a useful software application to collect accurate and detailed morphological and colorimetric data from two-dimensional objects.

Rodríguez GR, Moyseenko JB, Robbins MD, Morejón NH, Francis DM, van der Knaap E.

J Vis Exp. 2010 Mar 16;(37). pii: 1856. doi: 10.3791/1856.


Development and bin mapping of a Rosaceae Conserved Ortholog Set (COS) of markers.

Cabrera A, Kozik A, Howad W, Arus P, Iezzoni AF, van der Knaap E.

BMC Genomics. 2009 Nov 29;10:562. doi: 10.1186/1471-2164-10-562.


Genome organization of the tomato sun locus and characterization of the unusual retrotransposon Rider.

Jiang N, Gao D, Xiao H, van der Knaap E.

Plant J. 2009 Oct;60(1):181-93. doi: 10.1111/j.1365-313X.2009.03946.x. Epub 2009 Jun 6.


Integration of tomato reproductive developmental landmarks and expression profiles, and the effect of SUN on fruit shape.

Xiao H, Radovich C, Welty N, Hsu J, Li D, Meulia T, van der Knaap E.

BMC Plant Biol. 2009 May 7;9:49. doi: 10.1186/1471-2229-9-49.


A retrotransposon-mediated gene duplication underlies morphological variation of tomato fruit.

Xiao H, Jiang N, Schaffner E, Stockinger EJ, van der Knaap E.

Science. 2008 Mar 14;319(5869):1527-30. doi: 10.1126/science.1153040.


A comparative analysis into the genetic bases of morphology in tomato varieties exhibiting elongated fruit shape.

Gonzalo MJ, van der Knaap E.

Theor Appl Genet. 2008 Mar;116(5):647-56. doi: 10.1007/s00122-007-0698-7. Epub 2008 Jan 9.


Diversity in conserved genes in tomato.

Van Deynze A, Stoffel K, Buell CR, Kozik A, Liu J, van der Knaap E, Francis D.

BMC Genomics. 2007 Dec 18;8:465.


Genetic and molecular regulation of fruit and plant domestication traits in tomato and pepper.

Paran I, van der Knaap E.

J Exp Bot. 2007;58(14):3841-52. Epub 2007 Nov 23. Review.


Morphological variation in tomato: a comprehensive study of quantitative trait loci controlling fruit shape and development.

Brewer MT, Moyseenko JB, Monforte AJ, van der Knaap E.

J Exp Bot. 2007;58(6):1339-49. Epub 2007 Feb 5.


A Phytophthora infestans cystatin-like protein targets a novel tomato papain-like apoplastic protease.

Tian M, Win J, Song J, van der Hoorn R, van der Knaap E, Kamoun S.

Plant Physiol. 2007 Jan;143(1):364-77. Epub 2006 Nov 3.


Development of a controlled vocabulary and software application to analyze fruit shape variation in tomato and other plant species.

Brewer MT, Lang L, Fujimura K, Dujmovic N, Gray S, van der Knaap E.

Plant Physiol. 2006 May;141(1):15-25.


The making of a bell pepper-shaped tomato fruit: identification of loci controlling fruit morphology in Yellow Stuffer tomato.

van der Knaap E, Tanksley SD.

Theor Appl Genet. 2003 Jun;107(1):139-47. Epub 2003 Mar 21.


Extremely elongated tomato fruit controlled by four quantitative trait loci with epistatic interactions.

Van Der Knaap E, Lippman ZB, Tanksley SD.

Theor Appl Genet. 2002 Feb;104(2-3):241-247.


A novel gibberellin-induced gene from rice and its potential regulatory role in stem growth.

van der Knaap E, Kim JH, Kende H.

Plant Physiol. 2000 Mar;122(3):695-704.


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