{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,15]],"date-time":"2026-10-15T19:25:15Z","timestamp":1792092315255,"version":"4.4.0"},"reference-count":71,"publisher":"Springer Science and Business Media LLC","issue":"10","license":[{"start":{"date-parts":[[2010,8,29]],"date-time":"2010-08-29T00:00:00Z","timestamp":1283040000000},"content-version":"tdm","delay-in-days":0,"URL":"http:\/\/www.springer.com\/tdm"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Nat Genet"],"published-print":{"date-parts":[[2010,10]]},"DOI":"10.1038\/ng.654","type":"journal-article","created":{"date-parts":[[2010,8,27]],"date-time":"2010-08-27T12:58:20Z","timestamp":1282913900000},"page":"833-839","source":"Crossref","is-referenced-by-count":1893,"title":["The genome of the domesticated apple (Malus \u00d7 domestica Borkh.)"],"prefix":"10.1038","volume":"42","author":[{"given":"Riccardo","family":"Velasco","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Andrey","family":"Zharkikh","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jason","family":"Affourtit","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Amit","family":"Dhingra","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Alessandro","family":"Cestaro","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ananth","family":"Kalyanaraman","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Paolo","family":"Fontana","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Satish K","family":"Bhatnagar","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Michela","family":"Troggio","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Dmitry","family":"Pruss","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Silvio","family":"Salvi","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Massimo","family":"Pindo","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Paolo","family":"Baldi","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sara","family":"Castelletti","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Marina","family":"Cavaiuolo","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Giuseppina","family":"Coppola","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Fabrizio","family":"Costa","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Valentina","family":"Cova","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Antonio","family":"Dal Ri","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Vadim","family":"Goremykin","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Matteo","family":"Komjanc","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sara","family":"Longhi","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Pierluigi","family":"Magnago","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Giulia","family":"Malacarne","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mickael","family":"Malnoy","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Diego","family":"Micheletti","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Marco","family":"Moretto","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Michele","family":"Perazzolli","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Azeddine","family":"Si-Ammour","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Silvia","family":"Vezzulli","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Elena","family":"Zini","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Glenn","family":"Eldredge","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lisa M","family":"Fitzgerald","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Natalia","family":"Gutin","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jerry","family":"Lanchbury","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Teresita","family":"Macalma","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jeff T","family":"Mitchell","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Julia","family":"Reid","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Bryan","family":"Wardell","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Chinnappa","family":"Kodira","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zhoutao","family":"Chen","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Brian","family":"Desany","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Faheem","family":"Niazi","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Melinda","family":"Palmer","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Tyson","family":"Koepke","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Derick","family":"Jiwan","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Scott","family":"Schaeffer","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Vandhana","family":"Krishnan","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Changjun","family":"Wu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Vu T","family":"Chu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Stephen T","family":"King","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jessica","family":"Vick","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Quanzhou","family":"Tao","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Amy","family":"Mraz","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Aimee","family":"Stormo","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Keith","family":"Stormo","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Robert","family":"Bogden","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Davide","family":"Ederle","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Alessandra","family":"Stella","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Alberto","family":"Vecchietti","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Martin M","family":"Kater","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Simona","family":"Masiero","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Pauline","family":"Lasserre","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yves","family":"Lespinasse","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Andrew C","family":"Allan","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Vincent","family":"Bus","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"David","family":"Chagn\u00e9","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ross N","family":"Crowhurst","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Andrew P","family":"Gleave","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Enrico","family":"Lavezzo","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jeffrey A","family":"Fawcett","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sebastian","family":"Proost","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Pierre","family":"Rouz\u00e9","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lieven","family":"Sterck","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Stefano","family":"Toppo","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Barbara","family":"Lazzari","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Roger P","family":"Hellens","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Charles-Eric","family":"Durel","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Alexander","family":"Gutin","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Roger E","family":"Bumgarner","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Susan E","family":"Gardiner","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mark","family":"Skolnick","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Michael","family":"Egholm","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yves","family":"Van de Peer","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Francesco","family":"Salamini","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Roberto","family":"Viola","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2010,8,29]]},"reference":[{"key":"BFng654_CR1","doi-asserted-by":"publisher","first-page":"38","DOI":"10.1016\/j.jbiotec.2008.04.013","volume":"136","author":"A Zharkikh","year":"2008","unstructured":"Zharkikh, A. et al. Sequencing and assembly of highly heterozygous genome of Vitis vinifera L. cv Pinot Noir: problems and solutions. J. Biotechnol. 136, 38\u201343 (2008).","journal-title":"J. Biotechnol."},{"key":"BFng654_CR2","doi-asserted-by":"publisher","first-page":"e1326","DOI":"10.1371\/journal.pone.0001326","volume":"2","author":"R Velasco","year":"2007","unstructured":"Velasco, R. et al. A high quality draft consensus sequence of the genome of a heterozygous grapevine variety. PLoS ONE 2, e1326 (2007).","journal-title":"PLoS ONE"},{"key":"BFng654_CR3","doi-asserted-by":"crossref","unstructured":"Hummer, K.E. & Janick, J. Rosaceae: taxonomy, economic importance, genomics. in Genetics and Genomics of Rosaceae (eds. Folta, K.M. & Gardiner, S.E.) 1\u201317 (Springer, New York, 2009).","DOI":"10.1007\/978-0-387-77491-6_1"},{"key":"BFng654_CR4","doi-asserted-by":"publisher","first-page":"1478","DOI":"10.3732\/ajb.89.9.1478","volume":"89","author":"RC Evans","year":"2002","unstructured":"Evans, R.C. & Campbell, C.S. The origin of the apple subfamily (Maloideae; Rosaceae) is clarified by DNA sequence data from duplicated GBSSI genes. Am. J. Bot. 89, 1478\u20131484 (2002).","journal-title":"Am. J. Bot."},{"key":"BFng654_CR5","doi-asserted-by":"publisher","first-page":"5737","DOI":"10.1073\/pnas.0900906106","volume":"106","author":"JA Fawcett","year":"2009","unstructured":"Fawcett, J.A., Maere, S. & Van de Peer, Y. Plants with double genomes might have had a better chance to survive the Cretaceous-Tertiary extinction event. Proc. Natl. Acad. Sci. USA 106, 5737\u20135742 (2009).","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"BFng654_CR6","doi-asserted-by":"publisher","first-page":"1596","DOI":"10.1126\/science.1128691","volume":"313","author":"GA Tuskan","year":"2006","unstructured":"Tuskan, G.A. et al. The genome of black cottonwood, Populus trichocarpa (Torr. & Gray). Science 313, 1596\u20131604 (2006).","journal-title":"Science"},{"key":"BFng654_CR7","doi-asserted-by":"publisher","first-page":"463","DOI":"10.1038\/nature06148","volume":"449","author":"O Jaillon","year":"2007","unstructured":"Jaillon, O. et al. The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla. Nature 449, 463\u2013467 (2007).","journal-title":"Nature"},{"key":"BFng654_CR8","doi-asserted-by":"publisher","first-page":"486","DOI":"10.1126\/science.1153917","volume":"320","author":"H Tang","year":"2008","unstructured":"Tang, H. et al. Synteny and collinearity in plant genomes. Science 320, 486 (2008).","journal-title":"Science"},{"key":"BFng654_CR9","doi-asserted-by":"publisher","first-page":"680","DOI":"10.1016\/j.tplants.2009.09.001","volume":"14","author":"Y Van de Peer","year":"2009","unstructured":"Van de Peer, Y., Fawcett, J.A., Proost, S., Sterck, L. & Vandepoele, K. The flowering world: a tale of duplications. Trends Plant Sci. 14, 680\u2013688 (2009).","journal-title":"Trends Plant Sci."},{"key":"BFng654_CR10","doi-asserted-by":"publisher","first-page":"15780","DOI":"10.1073\/pnas.0908195106","volume":"106","author":"MC Luo","year":"2009","unstructured":"Luo, M.C. et al. Genome comparisons reveal a dominant mechanism of chromosome number reduction in grasses and accelerated genome evolution in Triticeae. Proc. Natl. Acad. Sci. USA 106, 15780\u201315785 (2009).","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"BFng654_CR11","doi-asserted-by":"publisher","first-page":"330","DOI":"10.1038\/nature05336","volume":"444","author":"RE Green","year":"2006","unstructured":"Green, R.E. et al. Analysis of one million base pairs of Neanderthal DNA. Nature 444, 330\u2013336 (2006).","journal-title":"Nature"},{"key":"BFng654_CR12","doi-asserted-by":"publisher","first-page":"5","DOI":"10.1007\/s00606-007-0539-9","volume":"266","author":"D Potter","year":"2007","unstructured":"Potter, D. et al. Phylogeny and classification of Rosaceae. Plant Syst. Evol. 266, 5\u201343 (2007).","journal-title":"Plant Syst. Evol."},{"key":"BFng654_CR13","unstructured":"Juniper, B.E. & Mabberley, D.J. The Story of the Apple (Timber Press, Portland, Oregon, USA, 2006)."},{"key":"BFng654_CR14","doi-asserted-by":"publisher","first-page":"2171","DOI":"10.1111\/j.1365-294X.2006.02924.x","volume":"15","author":"E Coart","year":"2006","unstructured":"Coart, E., Van Glabeke, S., De Loose, M., Larsen, A.S. & Roldan-Ruiz, I. Chloroplast diversity in the genus Malus: new insights into the relationship between the European wild apple (Malus sylvestris (L.) Mill.) and the domesticated apple (Malus domestica Borkh.). Mol. Ecol. 15, 2171\u20132182 (2006).","journal-title":"Mol. Ecol."},{"key":"BFng654_CR15","doi-asserted-by":"publisher","first-page":"773","DOI":"10.21273\/JASHS.121.5.773","volume":"121","author":"DAM Noiton","year":"1996","unstructured":"Noiton, D.A.M. & Alspach, P.A. Founding clones, inbreeding, coancestry, and status number of modern apple cultivars. J. Am. Soc. Hortic. Sci. 121, 773\u2013782 (1996).","journal-title":"J. Am. Soc. Hortic. Sci."},{"key":"BFng654_CR16","doi-asserted-by":"publisher","first-page":"254","DOI":"10.1093\/molbev\/msj030","volume":"23","author":"DH Huson","year":"2006","unstructured":"Huson, D.H. & Bryant, D. Application of phylogenetic networks in evolutionary studies. Mol. Biol. Evol. 23, 254\u2013267 (2006).","journal-title":"Mol. Biol. Evol."},{"key":"BFng654_CR17","unstructured":"Wright, S. Evolution and the Genetics of Populations Vol. 4 (University of Chicago Press, 1978)."},{"key":"BFng654_CR18","doi-asserted-by":"publisher","first-page":"739","DOI":"10.1105\/tpc.13.4.739","volume":"13","author":"M Ng","year":"2001","unstructured":"Ng, M. & Yanofsky, M.F. Activation of the Arabidopsis B class homeotic genes by APETALA1. Plant Cell 13, 739\u2013753 (2001).","journal-title":"Plant Cell"},{"key":"BFng654_CR19","doi-asserted-by":"publisher","first-page":"2229","DOI":"10.1093\/molbev\/msp129","volume":"26","author":"H Shan","year":"2009","unstructured":"Shan, H. et al. Evolution of plant MADS Box transcription factors: evidence for shifts in selection associated with early angiosperm diversification and concerted gene duplications. Mol. Biol. Evol. 26, 2229\u20132244 (2009).","journal-title":"Mol. Biol. Evol."},{"key":"BFng654_CR20","doi-asserted-by":"publisher","first-page":"16","DOI":"10.1186\/1471-2229-8-16","volume":"8","author":"BJ Janssen","year":"2008","unstructured":"Janssen, B.J. et al. Global gene expression analysis of apple fruit development from the floral bud to ripe fruit. BMC Plant Biol. 8, 16 (2008).","journal-title":"BMC Plant Biol."},{"key":"BFng654_CR21","doi-asserted-by":"publisher","first-page":"464","DOI":"10.1016\/S1055-7903(03)00207-0","volume":"29","author":"A Becker","year":"2003","unstructured":"Becker, A. & Theissen, G. The major clades of MADS-box genes and their role in the development and evolution of flowering plants. Mol. Phylogenet. Evol. 29, 464\u2013489 (2003).","journal-title":"Mol. Phylogenet. Evol."},{"key":"BFng654_CR22","doi-asserted-by":"publisher","first-page":"5981","DOI":"10.1242\/dev.01517","volume":"131","author":"S Masiero","year":"2004","unstructured":"Masiero, S. et al. INCOMPOSITA: a MADS-box gene controlling prophyll development and floral meristem identity in Antirrhinum. Development 131, 5981\u20135990 (2004).","journal-title":"Development"},{"key":"BFng654_CR23","doi-asserted-by":"publisher","first-page":"147","DOI":"10.1104\/pp.105.076208","volume":"141","author":"RD Newcomb","year":"2006","unstructured":"Newcomb, R.D. et al. Analyses of expressed sequence tags from apple. Plant Physiol. 141, 147\u2013166 (2006).","journal-title":"Plant Physiol."},{"key":"BFng654_CR24","doi-asserted-by":"crossref","unstructured":"Bieleski, R.L. Sugar alcohols. in Encyclopedia of Plant Physiology New Series Vol. 13 (eds. Loewus, F.A. & Tanner, W.) 158\u2013192 (Springer-Verlag, Berlin, 1982).","DOI":"10.1007\/978-3-642-68275-9_5"},{"key":"BFng654_CR25","doi-asserted-by":"publisher","first-page":"335","DOI":"10.1104\/pp.70.2.335","volume":"70","author":"WH Loescher","year":"1982","unstructured":"Loescher, W.H., Marlow, G.C. & Kennedy, R.A. Sorbitol metabolism and sink-source interconversions in developing apple leaves. Plant Physiol. 70, 335\u2013339 (1982).","journal-title":"Plant Physiol."},{"key":"BFng654_CR26","doi-asserted-by":"publisher","first-page":"1032","DOI":"10.1093\/pcp\/pch121","volume":"45","author":"J Watari","year":"2004","unstructured":"Watari, J. et al. Identification of sorbitol transporters expressed in the phloem of apple source leaves. Plant Cell Physiol. 45, 1032\u20131041 (2004).","journal-title":"Plant Cell Physiol."},{"key":"BFng654_CR27","doi-asserted-by":"publisher","first-page":"1566","DOI":"10.1104\/pp.102.016725","volume":"131","author":"Z Gao","year":"2003","unstructured":"Gao, Z. et al. Cloning, expression, and characterization of sorbitol transporters from developing sour cherry fruit and leaf sink tissues. Plant Physiol. 131, 1566\u20131575 (2003).","journal-title":"Plant Physiol."},{"key":"BFng654_CR28","doi-asserted-by":"publisher","first-page":"268","DOI":"10.1007\/BF00252066","volume":"71","author":"E Chevreau","year":"1985","unstructured":"Chevreau, E., Lespinasse, Y. & Gallet, M. Inheritance of pollen enzymes and polyploid origin of apple. (Malus x domestica Borkh.). Theor. Appl. Genet. 71, 268\u2013277 (1985).","journal-title":"Theor. Appl. Genet."},{"key":"BFng654_CR29","doi-asserted-by":"publisher","first-page":"303","DOI":"10.2307\/2419283","volume":"16","author":"JB Phipps","year":"1991","unstructured":"Phipps, J.B., Robertson, K.R., Rohrer, J.R. & Smith, P.G. Origins and evolution of subfam. Maloideae (Rosaceae). Syst. Bot. 16, 303\u2013332 (1991).","journal-title":"Syst. Bot."},{"key":"BFng654_CR30","doi-asserted-by":"publisher","first-page":"60","DOI":"10.1007\/s001220050867","volume":"97","author":"C Maliepaard","year":"1998","unstructured":"Maliepaard, C. et al. Aligning male and female linkage maps of apple (Malus pumila Mill.) using multi-allelic markers. Theor. Appl. Genet. 97, 60\u201373 (1998).","journal-title":"Theor. Appl. Genet."},{"key":"BFng654_CR31","doi-asserted-by":"publisher","first-page":"93","DOI":"10.1007\/s11295-008-0171-z","volume":"5","author":"JM Celton","year":"2009","unstructured":"Celton, J.M., Tustin, D.S., Chagne, D. & Gardiner, S.E. Construction of a dense genetic linkage map for apple rootstocks using SSRs developed from Malus ESTs and Pyrus genomic sequences. Tree Genet. Genomes 5, 93\u2013107 (2009).","journal-title":"Tree Genet. Genomes"},{"key":"BFng654_CR32","doi-asserted-by":"publisher","first-page":"177","DOI":"10.5642\/aliso.19881201.14","volume":"12","author":"J Wolfe","year":"1988","unstructured":"Wolfe, J. & Wehr, W.J.A. Rosaceous Chamaebatiaria-like foliage from the Paleogene of western North America. Aliso 12, 177\u2013200 (1988).","journal-title":"Aliso"},{"key":"BFng654_CR33","doi-asserted-by":"publisher","first-page":"11","DOI":"10.1105\/tpc.107.056309","volume":"20","author":"J Salse","year":"2008","unstructured":"Salse, J. et al. Identification and characterization of shared duplications between rice and wheat provide new insight into grass genome evolution. Plant Cell 20, 11\u201324 (2008).","journal-title":"Plant Cell"},{"key":"BFng654_CR34","doi-asserted-by":"publisher","first-page":"443","DOI":"10.1146\/annurev.genet.42.110807.091524","volume":"42","author":"JJ Doyle","year":"2008","unstructured":"Doyle, J.J. et al. Evolutionary genetics of genome merger and doubling in plants. Annu. Rev. Genet. 42, 443\u2013461 (2008).","journal-title":"Annu. Rev. Genet."},{"key":"BFng654_CR35","doi-asserted-by":"publisher","first-page":"741","DOI":"10.1126\/science.272.5262.741","volume":"272","author":"LH Rieseberg","year":"1996","unstructured":"Rieseberg, L.H., Sinervo, B., Linder, C.R., Ungerer, M.C. & Arias, D.M. Role of gene interactions in hybrid speciation: evidence from ancient and experimental hybrids. Science 272, 741\u2013745 (1996).","journal-title":"Science"},{"key":"BFng654_CR36","doi-asserted-by":"publisher","first-page":"51","DOI":"10.17660\/ActaHortic.2004.663.2","volume":"663","author":"T Yamamoto","year":"2004","unstructured":"Yamamoto, T. et al. Genetic linkage maps of Japanese and European pears aligned to the apple consensus map. Acta Hortic. 663, 51\u201356 (2004).","journal-title":"Acta Hortic."},{"key":"BFng654_CR37","doi-asserted-by":"publisher","first-page":"749","DOI":"10.1038\/nature04434","volume":"439","author":"S Griffiths","year":"2006","unstructured":"Griffiths, S. et al. Molecular characterization of Ph1 as a major chromosome pairing locus in polyploid wheat. Nature 439, 749\u2013752 (2006).","journal-title":"Nature"},{"key":"BFng654_CR38","unstructured":"Vavilov, N.I. Wild progenitors of the fruit trees of Turkestan and the Caucasus and the problem of the origin of fruit trees. in Proceedings of the 9th International Horticultural Congress 271\u2013286 (The Royal Horticultural Society, London, 1930)."},{"key":"BFng654_CR39","doi-asserted-by":"publisher","first-page":"35","DOI":"10.1007\/s006060170072","volume":"226","author":"JP Robinson","year":"2001","unstructured":"Robinson, J.P., Harris, S.A. & Juniper, B.E. Taxonomy of the genus Malus Mill. (Rosaceae) with emphasis on the cultivated apple, Malus domestica Borkh. Plant Syst. Evol. 226, 35\u201358 (2001).","journal-title":"Plant Syst. Evol."},{"key":"BFng654_CR40","first-page":"1","volume":"29","author":"PL Forsline","year":"2003","unstructured":"Forsline, P.L., Aldwinckle, H.S., Dickson, E.E., Luby, J.J. & Hokanson, S.C. Collection, maintenance, characterization, and utilization of wild apples of Central Asia. Hortic. Rev. (Am. Soc. Hortic. Sci.) 29, 1\u201361 (2003).","journal-title":"Hortic. Rev. (Am. Soc. Hortic. Sci.)"},{"key":"BFng654_CR41","unstructured":"Zohary, D. & Hopf, M. Domestication of Plants in the Old World: The Origin and Spread of Cultivated Plants in West Asia, Europe and the Nile Valley (Clarendon Press, Oxford, 1994)."},{"key":"BFng654_CR42","doi-asserted-by":"publisher","first-page":"829","DOI":"10.1007\/s10722-008-9404-0","volume":"56","author":"A Gharghani","year":"2009","unstructured":"Gharghani, A. et al. Genetic identity and relationships of Iranian apple (Malus x domestica Borkh.) cultivars and landraces, wild Malus species and representative old apple cultivars based on simple sequence repeat (SSR) marker analysis. Genet. Resour. Crop Evol. 56, 829\u2013842 (2009).","journal-title":"Genet. Resour. Crop Evol."},{"key":"BFng654_CR43","doi-asserted-by":"crossref","unstructured":"Luby, J. Taxonomy, classification and brief history. in Apples: Botany, Production and Uses (eds. Ferree, D.C. & Warrington, I.J.) 1\u201314 (CABI, Cambridge, Massachusetts, USA, 2003).","DOI":"10.1079\/9780851995922.0001"},{"key":"BFng654_CR44","doi-asserted-by":"publisher","first-page":"319","DOI":"10.1126\/science.187.4174.319","volume":"187","author":"D Zohary","year":"1975","unstructured":"Zohary, D. & Spiegelroy, P. Beginnings of fruit growing in the Old World. Science 187, 319\u2013327 (1975).","journal-title":"Science"},{"key":"BFng654_CR45","doi-asserted-by":"crossref","first-page":"41","DOI":"10.21273\/HORTSCI.21.1.41b","volume":"21","author":"SS Korban","year":"1986","unstructured":"Korban, S.S. Interspecific hybridization in Malus. HortScience 21, 41\u201348 (1986).","journal-title":"HortScience"},{"key":"BFng654_CR46","doi-asserted-by":"crossref","first-page":"177","DOI":"10.21273\/HORTSCI.19.2.177","volume":"19","author":"SS Korban","year":"1984","unstructured":"Korban, S.S. & Skirvin, R.M. Nomenclature of the cultivate apple. HortScience 19, 177\u2013180 (1984).","journal-title":"HortScience"},{"key":"BFng654_CR47","first-page":"49","volume":"538","author":"Y Lespinasse","year":"1999","unstructured":"Lespinasse, Y., Bouvier, L., Djulbic, M. & Chevreau, E. Haploidy in apple and pear. Acta Hortic. 538, 49\u201354 (1999).","journal-title":"Acta Hortic."},{"key":"BFng654_CR48","doi-asserted-by":"publisher","first-page":"1058","DOI":"10.1007\/s00122-002-1057-3","volume":"105","author":"Q Tao","year":"2002","unstructured":"Tao, Q., Wang, A. & Zhang, H.B. One large-insert plant-transformation-competent BIBAC library and three BAC libraries of Japonica rice for genome research in rice and other grasses. Theor. Appl. Genet. 105, 1058\u20131066 (2002).","journal-title":"Theor. Appl. Genet."},{"key":"BFng654_CR49","doi-asserted-by":"publisher","first-page":"249","DOI":"10.1007\/s001220050407","volume":"94","author":"P Guilford","year":"1997","unstructured":"Guilford, P. et al. Microsatellites in Malus X domestica (apple): abundance, polymorphism and cultivar identification. Theor. Appl. Genet. 94, 249\u2013254 (1997).","journal-title":"Theor. Appl. Genet."},{"key":"BFng654_CR50","doi-asserted-by":"publisher","first-page":"217","DOI":"10.1023\/A:1020525906332","volume":"10","author":"R Liebhard","year":"2002","unstructured":"Liebhard, R. et al. Development and characterisation of 140 new microsatellites in apple (Malus x domestica Borkh.). Mol. Breed. 10, 217\u2013241 (2002).","journal-title":"Mol. Breed."},{"key":"BFng654_CR51","doi-asserted-by":"publisher","first-page":"1069","DOI":"10.1007\/s001220050841","volume":"96","author":"L Gianfranceschi","year":"1998","unstructured":"Gianfranceschi, L., Seglias, N., Tarchini, R., Komjanc, M. & Gessler, C. Simple sequence repeats for the genetic analysis of apple. Theor. Appl. Genet. 96, 1069\u20131076 (1998).","journal-title":"Theor. Appl. Genet."},{"key":"BFng654_CR52","doi-asserted-by":"publisher","first-page":"202","DOI":"10.1007\/s11295-006-0045-1","volume":"2","author":"E Silfverberg-Dilworth","year":"2006","unstructured":"Silfverberg-Dilworth, E. et al. Microsatellite markers spanning the apple (Malus x domestica Borkh.) genome. Tree Genet. Genomes 2, 202\u2013224 (2006).","journal-title":"Tree Genet. Genomes"},{"key":"BFng654_CR53","doi-asserted-by":"publisher","first-page":"2521","DOI":"10.1534\/genetics.106.063982","volume":"176","author":"DA Cartwright","year":"2007","unstructured":"Cartwright, D.A., Troggio, M., Velasco, R. & Gutin, A. Genetic mapping in the presence of genotyping errors. Genetics 176, 2521\u20132527 (2007).","journal-title":"Genetics"},{"key":"BFng654_CR54","doi-asserted-by":"crossref","unstructured":"Uniprot Consortium. The universal protein resource (UniProt). Nucleic Acids Res. 36, D190\u2013D195 (2008).","DOI":"10.1093\/nar\/gkm895"},{"key":"BFng654_CR55","doi-asserted-by":"publisher","first-page":"973","DOI":"10.1038\/nrg2165","volume":"8","author":"T Wicker","year":"2007","unstructured":"Wicker, T. et al. A unified classification system for eukaryotic transposable elements. Nat. Rev. Genet. 8, 973\u2013982 (2007).","journal-title":"Nat. Rev. Genet."},{"key":"BFng654_CR56","doi-asserted-by":"publisher","first-page":"S10","DOI":"10.1186\/gb-2006-7-s1-s10","volume":"7","author":"V Solovyev","year":"2006","unstructured":"Solovyev, V., Kosarev, P., Seledsov, I. & Vorobyev, D. Automatic annotation of eukaryotic genes, pseudogenes and promoters. Genome Biol. 7, S10 (2006).","journal-title":"Genome Biol."},{"key":"BFng654_CR57","doi-asserted-by":"publisher","first-page":"S140","DOI":"10.1093\/bioinformatics\/17.suppl_1.S140","volume":"17","author":"I Korf","year":"2001","unstructured":"Korf, I., Flicek, P., Duan, D. & Brent, M.R. Integrating genomic homology into gene structure prediction. Bioinformatics 17, S140\u2013S148 (2001).","journal-title":"Bioinformatics"},{"key":"BFng654_CR58","doi-asserted-by":"publisher","first-page":"2878","DOI":"10.1093\/bioinformatics\/bth315","volume":"20","author":"WH Majoros","year":"2004","unstructured":"Majoros, W.H., Pertea, M. & Salzberg, S.L. TigrScan and GlimmerHMM: two open source ab initio eukaryotic gene-finders. Bioinformatics 20, 2878\u20132879 (2004).","journal-title":"Bioinformatics"},{"key":"BFng654_CR59","doi-asserted-by":"publisher","first-page":"988","DOI":"10.1101\/gr.1865504","volume":"14","author":"E Birney","year":"2004","unstructured":"Birney, E., Clamp, M. & Durbin, R. GeneWise and genomewise. Genome Res. 14, 988\u2013995 (2004).","journal-title":"Genome Res."},{"key":"BFng654_CR60","doi-asserted-by":"publisher","first-page":"e4619","DOI":"10.1371\/journal.pone.0004619","volume":"4","author":"P Fontana","year":"2009","unstructured":"Fontana, P., Cestaro, A., Velasco, R., Formentin, E. & Toppo, S. Rapid annotation of anonymous sequences from genome projects using semantic similarities and a weighting scheme in gene ontology. PLoS ONE 4, e4619 (2009).","journal-title":"PLoS ONE"},{"key":"BFng654_CR61","doi-asserted-by":"publisher","first-page":"59","DOI":"10.1007\/978-1-59745-515-2_5","volume":"396","author":"N Mulder","year":"2007","unstructured":"Mulder, N. & Apweiler, R. InterPro and InterProScan\u2014Tools for protein sequence classification and comparison. Methods Mol. Biol. 396, 59\u201370 (2007).","journal-title":"Methods Mol. Biol."},{"key":"BFng654_CR62","doi-asserted-by":"publisher","first-page":"3389","DOI":"10.1093\/nar\/25.17.3389","volume":"25","author":"SF Altschul","year":"1997","unstructured":"Altschul, S.F. et al. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25, 3389\u20133402 (1997).","journal-title":"Nucleic Acids Res."},{"key":"BFng654_CR63","doi-asserted-by":"publisher","first-page":"1575","DOI":"10.1093\/nar\/30.7.1575","volume":"30","author":"AJ Enright","year":"2002","unstructured":"Enright, A.J., Van Dongen, S. & Ouzounis, C.A. An efficient algorithm for large-scale detection of protein families. Nucleic Acids Res. 30, 1575\u20131584 (2002).","journal-title":"Nucleic Acids Res."},{"key":"BFng654_CR64","doi-asserted-by":"publisher","first-page":"127","DOI":"10.1093\/bioinformatics\/btm449","volume":"24","author":"C Simillion","year":"2008","unstructured":"Simillion, C., Janssens, K., Sterck, L. & Van de Peer, Y. i-ADHoRe 2.0: an improved tool to detect degenerated genomic homology using genomic profiles. Bioinformatics 24, 127\u2013128 (2008).","journal-title":"Bioinformatics"},{"key":"BFng654_CR65","doi-asserted-by":"publisher","first-page":"4673","DOI":"10.1093\/nar\/22.22.4673","volume":"22","author":"JD Thompson","year":"1994","unstructured":"Thompson, J.D., Higgins, D.G. & Gibson, T.J. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22, 4673\u20134680 (1994).","journal-title":"Nucleic Acids Res."},{"key":"BFng654_CR66","first-page":"555","volume":"13","author":"Z Yang","year":"1997","unstructured":"Yang, Z. PAML: a program package for phylogenetic analysis by maximum likelihood. Comput. Appl. Biosci. 13, 555\u2013556 (1997).","journal-title":"Comput. Appl. Biosci."},{"key":"BFng654_CR67","doi-asserted-by":"publisher","first-page":"205","DOI":"10.1006\/jmbi.2000.4042","volume":"302","author":"C Notredame","year":"2000","unstructured":"Notredame, C., Higgins, D.G. & Heringa, J. T-Coffee: a novel method for fast and accurate multiple sequence alignment. J. Mol. Biol. 302, 205\u2013217 (2000).","journal-title":"J. Mol. Biol."},{"key":"BFng654_CR68","doi-asserted-by":"publisher","first-page":"754","DOI":"10.1093\/bioinformatics\/17.8.754","volume":"17","author":"JP Huelsenbeck","year":"2001","unstructured":"Huelsenbeck, J.P. & Ronquist, F. MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 17, 754\u2013755 (2001).","journal-title":"Bioinformatics"},{"key":"BFng654_CR69","unstructured":"Janick, J., Cummins, J.N., Brown, S.K. & Hemmat, M. Apples. in Fruit Breeding Vol. 1 (eds. Janick, J., Moore, J.J.) 1\u201377 (Wiley, New York, 1996)."},{"key":"BFng654_CR70","doi-asserted-by":"publisher","first-page":"978","DOI":"10.1086\/319501","volume":"68","author":"M Stephens","year":"2001","unstructured":"Stephens, M., Smith, N.J. & Donnelly, P. A new statistical method for haplotype reconstruction from population data. Am. J. Hum. Genet. 68, 978\u2013989 (2001).","journal-title":"Am. J. Hum. Genet."},{"key":"BFng654_CR71","doi-asserted-by":"publisher","first-page":"47","DOI":"10.1177\/117693430500100003","volume":"1","author":"L Excoffier","year":"2005","unstructured":"Excoffier, L., Laval, G. & Schneider, S. Arlequin (version 3.0): an integrated software package for population genetics data analysis. Evol. Bioinform. Online 1, 47\u201350 (2005).","journal-title":"Evol. Bioinform. Online"}],"container-title":["Nature Genetics"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/www.nature.com\/articles\/ng.654.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/www.nature.com\/articles\/ng.654","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/www.nature.com\/articles\/ng.654.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,6,2]],"date-time":"2023-06-02T21:29:42Z","timestamp":1685741382000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.nature.com\/articles\/ng.654"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2010,8,29]]},"references-count":71,"journal-issue":{"issue":"10","published-print":{"date-parts":[[2010,10]]}},"alternative-id":["BFng654"],"URL":"https:\/\/doi.org\/10.1038\/ng.654","relation":{"has-review":[{"id-type":"doi","id":"10.3410\/f.5107956.5067054","asserted-by":"object"},{"id-type":"doi","id":"10.3410\/f.5107956.5043054","asserted-by":"object"}]},"ISSN":["1061-4036","1546-1718"],"issn-type":[{"value":"1061-4036","type":"print"},{"value":"1546-1718","type":"electronic"}],"subject":[],"published":{"date-parts":[[2010,8,29]]}}}