Origin of the Domesticated Horticultural Species and Molecular Bases of Fruit Shape and Size Changes during the Domestication, Taking Tomato as an Example

Abstract Domestication of crop plants is the foundation of modern agriculture, which brings forth desirable changes in cultivated species that distinguish them from their wild relatives. This resulted in the origin of crop species at known geographical locations coinciding with the transition of human societies from hunter-gather to agrarian civilizations. Fruit size and shape are very important traits for horticulture industry, as well as for studying the domestication of the horticultural species. In this review, we have summarized the origin of some widely-grown horticultural crops and also the molecular bases of the fruit size and shape changes of the horticultural crops during the domestication, taking tomato as an example.

[1]  Katia Belcram,et al.  The function of TONNEAU1 in moss reveals ancient mechanisms of division plane specification and cell elongation in land plants , 2010, Development.

[2]  T. Giraud,et al.  The domestication and evolutionary ecology of apples. , 2014, Trends in genetics : TIG.

[3]  Nu Genome analysis in Brassica with special reference to the experimental formation of B. napus and peculiar mode of fertilization. , 1935 .

[4]  M. Koornneef,et al.  Genetic relationships within Brassica rapa as inferred from AFLP fingerprints , 2005, Theoretical and Applied Genetics.

[5]  S. Clark,et al.  Cell signalling at the shoot meristem , 2001, Nature Reviews Molecular Cell Biology.

[6]  Mingfang Zhang,et al.  Genetic Diversity of Traditional Chinese Mustard Crops Brassica juncea as Revealed by Phenotypic differences and RAPD Markers , 2006, Genetic Resources and Crop Evolution.

[7]  G. Lu,et al.  Genetic diversity in oil and vegetable mustard (Brassicajuncea) landraces revealed by SRAP markers , 2009, Genetic Resources and Crop Evolution.

[8]  T. C. Nesbitt,et al.  Comparative sequencing in the genus Lycopersicon. Implications for the evolution of fruit size in the domestication of cultivated tomatoes. , 2002, Genetics.

[9]  Klaus Richter,et al.  A central role of Arabidopsis thaliana ovate family proteins in networking and subcellular localization of 3-aa loop extension homeodomain proteins. , 2005, Proceedings of the National Academy of Sciences of the United States of America.

[10]  C. Camilleri,et al.  The Arabidopsis TONNEAU2 Gene Encodes a Putative Novel Protein Phosphatase 2A Regulatory Subunit Essential for the Control of the Cortical Cytoskeleton Article, publication date, and citation information can be found at www.plantcell.org/cgi/doi/10.1105/tpc.010402. , 2002, The Plant Cell Online.

[11]  S. Tanksley,et al.  Regulatory change in YABBY-like transcription factor led to evolution of extreme fruit size during tomato domestication , 2008, Nature Genetics.

[12]  J. Hammer,et al.  Linking molecular motors to membrane cargo. , 2010, Current opinion in cell biology.

[13]  Han Xiao,et al.  SUN Regulates Vegetative and Reproductive Organ Shape by Changing Cell Division Patterns1[C][W][OA] , 2011, Plant Physiology.

[14]  Geoffrey Richard Dixon,et al.  Vegetable Brassicas and Related Crucifers , 2006 .

[15]  Y. Matsubayashi,et al.  A glycopeptide regulating stem cell fate in Arabidopsis thaliana. , 2009, Nature chemical biology.

[16]  K. Verhey,et al.  Kinesin assembly and movement in cells. , 2011, Annual review of biophysics.

[17]  Mingfang Zhang,et al.  Molecular phylogeny of Chinese vegetable mustard (Brassica juncea) based on the internal transcribed spacers (ITS) of nuclear ribosomal DNA , 2007, Genetic Resources and Crop Evolution.

[18]  P. Kirti,et al.  Brassica and Its Close Allies: Cytogenetics and Evolution , 2009 .

[19]  E. van der Knaap,et al.  What lies beyond the eye: the molecular mechanisms regulating tomato fruit weight and shape , 2014, Front. Plant Sci..

[20]  R. W. Robinson,et al.  Cucumbers, melons and water-melons: Cucumis and Citrullus (Cucurbitaceae) , 1995 .

[21]  Cecil H. Brown,et al.  Multiple lines of evidence for the origin of domesticated chili pepper, Capsicum annuum, in Mexico , 2014, Proceedings of the National Academy of Sciences.

[22]  New stable QTLs for berry weight do not colocalize with QTLs for seed traits in cultivated grapevine (Vitis vinifera L.) , 2013, BMC Plant Biology.

[23]  S. Tanksley,et al.  Natural alleles at a tomato fruit size quantitative trait locus differ by heterochronic regulatory mutations , 2002, Proceedings of the National Academy of Sciences of the United States of America.

[24]  Kui Lin,et al.  Genomic analyses provide insights into the history of tomato breeding , 2014, Nature Genetics.

[25]  N. Hirokawa,et al.  Kinesin superfamily motor proteins and intracellular transport , 2009, Nature Reviews Molecular Cell Biology.

[26]  S. Kanrar,et al.  Arabidopsis inflorescence architecture requires the activities of KNOX-BELL homeodomain heterodimers , 2006, Planta.

[27]  D. Weigel,et al.  A Molecular Link between Stem Cell Regulation and Floral Patterning in Arabidopsis , 2001, Cell.

[28]  A. Michel,et al.  Distribution of SUN, OVATE, LC, and FAS in the Tomato Germplasm and the Relationship to Fruit Shape Diversity1[C][W][OA] , 2011, Plant Physiology.

[29]  G. Stacey,et al.  A member of the highly conserved FWL (tomato FW2.2-like) gene family is essential for soybean nodule organogenesis. , 2010, The Plant journal : for cell and molecular biology.

[30]  Hong Ma,et al.  The protein encoded by the Arabidopsis homeotic gene agamous resembles transcription factors , 1990, Nature.

[31]  S. Tanksley,et al.  Evaluating the genetic basis of multiple-locule fruit in a broad cross section of tomato cultivars , 2004, Theoretical and Applied Genetics.

[32]  A. Iezzoni,et al.  Cell number regulator genes in Prunus provide candidate genes for the control of fruit size in sweet and sour cherry , 2013, Molecular Breeding.

[33]  S. Tanksley,et al.  Dissecting the genetic pathway to extreme fruit size in tomato using a cross between the small-fruited wild species Lycopersicon pimpinellifolium and L. esculentum var. Giant Heirloom. , 2001, Genetics.

[34]  J. Cañizares,et al.  Variation Revealed by SNP Genotyping and Morphology Provides Insight into the Origin of the Tomato , 2012, PloS one.

[35]  Robert L. Bettinger,et al.  Introduction: The Domestication of Plants and Animals: Ten Unanswered Questions , 2012 .

[36]  C. Camilleri,et al.  Arabidopsis TONNEAU1 Proteins Are Essential for Preprophase Band Formation and Interact with Centrin[W] , 2008, The Plant Cell Online.

[37]  S. Tanksley,et al.  FW2.2 and cell cycle control in developing tomato fruit: a possible example of gene co-option in the evolution of a novel organ , 2006, Plant Molecular Biology.

[38]  M. Causse,et al.  Genetic Diversity in Tomato (Solanum lycopersicum) and Its Wild Relatives , 2012 .

[39]  N. Ranc,et al.  Bmc Plant Biology , 2022 .

[40]  I. Peralta History, origin and early cultivation of tomato (Solanaceae) , 2005 .

[41]  S. Tanksley,et al.  Identification and characterization of a novel locus controlling early fruit development in tomato , 2001, Theoretical and Applied Genetics.

[42]  Alphonse de Candolle The origin of cultivated plants , 2011 .

[43]  D. Piperno,et al.  Starch Fossils and the Domestication and Dispersal of Chili Peppers (Capsicum spp. L.) in the Americas , 2007, Science.

[44]  E. Stockinger,et al.  A Retrotransposon-Mediated Gene Duplication Underlies Morphological Variation of Tomato Fruit , 2008, Science.

[45]  Mingfang Zhang,et al.  AFLP-based genetic diversity assessment among Chinese vegetable mustards (Brassica juncea (L.) Czern.) , 2008, Genetic Resources and Crop Evolution.

[46]  S. Renner,et al.  Gourds afloat: a dated phylogeny reveals an Asian origin of the gourd family (Cucurbitaceae) and numerous oversea dispersal events , 2009, Proceedings of the Royal Society B: Biological Sciences.

[47]  S. Imazio,et al.  Evidence of a secondary grapevine domestication centre detected by SSR analysis , 2003, Theoretical and Applied Genetics.

[48]  M. Tsiantis,et al.  KNOX genes: versatile regulators of plant development and diversity , 2010, Development.

[49]  S. Renner,et al.  Cucumber (Cucumis sativus) and melon (C. melo) have numerous wild relatives in Asia and Australia, and the sister species of melon is from Australia , 2010, Proceedings of the National Academy of Sciences.

[50]  S. Takuno,et al.  Phylogenetic relationships among cultivated types of Brassica rapa L. em. Metzg. as revealed by AFLP analysis , 2007, Genetic Resources and Crop Evolution.

[51]  M. Lenhard,et al.  Termination of Stem Cell Maintenance in Arabidopsis Floral Meristems by Interactions between WUSCHEL and AGAMOUS , 2001, Cell.

[52]  Z. Fei,et al.  Candidate gene selection and detailed morphological evaluations of fs8.1, a quantitative trait locus controlling tomato fruit shape , 2015, Journal of experimental botany.

[53]  Heiko Schoof,et al.  Role of WUSCHEL in Regulating Stem Cell Fate in the Arabidopsis Shoot Meristem , 1998, Cell.

[54]  New Insights into Fruit Firmness and Weight Control in Sweet Cherry , 2015, Plant Molecular Biology Reporter.

[55]  T. Giraud,et al.  New Insight into the History of Domesticated Apple: Secondary Contribution of the European Wild Apple to the Genome of Cultivated Varieties , 2012, PLoS genetics.

[56]  J. Poulain,et al.  The genome of the mesopolyploid crop species Brassica rapa , 2011, Nature Genetics.

[57]  Xiaoming Wu,et al.  History, Evolution, and Domestication of Brassica Crops , 2011 .

[58]  Heiko Schoof,et al.  The Stem Cell Population of Arabidopsis Shoot Meristems Is Maintained by a Regulatory Loop between the CLAVATA and WUSCHEL Genes , 2000, Cell.

[59]  Maria Hopf,et al.  Domestication of Plants in the Old World: The origin and spread of domesticated plants in Southwest Asia, Europe, and the Mediterranean Basin , 2012 .

[60]  Z. Lippman,et al.  A cascade of arabinosyltransferases controls shoot meristem size in tomato , 2015, Nature Genetics.

[61]  V. Bus,et al.  Field resistance to fire blight in a diverse apple (Malus sp.) germplasm collection , 2002 .

[62]  Yuling Bai,et al.  Domestication and Breeding of Tomatoes: What have We Gained and What Can We Gain in the Future? , 2007, Annals of botany.

[63]  S. Tanksley,et al.  Generation and Analysis of an Artificial Gene Dosage Series in Tomato to Study the Mechanisms by Which the Cloned Quantitative Trait Locus fw2.2 Controls Fruit Size1 , 2003, Plant Physiology.

[64]  Zhenglin Hou,et al.  Cell Number Regulator1 Affects Plant and Organ Size in Maize: Implications for Crop Yield Enhancement and Heterosis[C][W] , 2010, Plant Cell.

[65]  S. Tanksley,et al.  Patterns of genetic variation of the genusCapsicum (Solanaceae) in Mexico , 1989, Plant Systematics and Evolution.

[66]  S. Tsunoda,et al.  A PLANT EXPLORATION IN BRASSICA AND ALLIED GENERA , 1967 .

[67]  S. Harris,et al.  Genetic clues to the origin of the apple. , 2002, Trends in genetics : TIG.

[68]  D. Bouchez,et al.  The Arabidopsis TRM1–TON1 Interaction Reveals a Recruitment Network Common to Plant Cortical Microtubule Arrays and Eukaryotic Centrosomes[C][W] , 2012, Plant Cell.

[69]  K. Hinata,et al.  Taxonomy, cytogenetics and origin of crop brassicas, a review. , 1980 .

[70]  T. C. Nesbitt,et al.  fw2.2: a quantitative trait locus key to the evolution of tomato fruit size. , 2000, Science.

[71]  N. Zhang,et al.  A cytochrome P450 regulates a domestication trait in cultivated tomato , 2013, Proceedings of the National Academy of Sciences.

[72]  S. Tanksley,et al.  A new class of regulatory genes underlying the cause of pear-shaped tomato fruit , 2002, Proceedings of the National Academy of Sciences of the United States of America.

[73]  Brassica taxonomy based on nuclear restriction fragment length polymorphisms (RFLPs) , 1988, TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik.

[74]  Roger E Bumgarner,et al.  The genome of the domesticated apple (Malus × domestica Borkh.) , 2010, Nature Genetics.

[75]  K. Hammer,et al.  Die Gaterslebener Brassica‐Kollektion – Brassica juncea, B. napus, B. nigra und B. rapa , 1992 .

[76]  Dongyuan Liu,et al.  Subgenome parallel selection is associated with morphotype diversification and convergent crop domestication in Brassica rapa and Brassica oleracea , 2016, Nature Genetics.

[77]  V. Irihimovitch,et al.  A proposed conserved role for an avocado fw2.2-like gene as a negative regulator of fruit cell division , 2010, Planta.

[78]  I. Al‐Shehbaz,et al.  A generic and tribal synopsis of the Brassicaceae (Cruciferae) , 2012 .

[79]  S. Abel,et al.  Arabidopsis IQD1, a novel calmodulin-binding nuclear protein, stimulates glucosinolate accumulation and plant defense. , 2005, The Plant journal : for cell and molecular biology.

[80]  Xiaowu Wang,et al.  Deciphering the Diploid Ancestral Genome of the Mesohexaploid Brassica rapa[C][W] , 2013, Plant Cell.

[81]  N. Ranc,et al.  Increase in Tomato Locule Number Is Controlled by Two Single-Nucleotide Polymorphisms Located Near WUSCHEL1[C][W] , 2011, Plant Physiology.

[82]  C. Gómez-Campo,et al.  2 Origin and domestication , 1999 .

[83]  P. Williams,et al.  Brassica taxonomy based on nuclear restriction fragment length polymorphisms (RFLPs) , 1990, Theoretical and Applied Genetics.