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The tomato genome sequence provides insights into fleshy fruit evolution
Sato, Shusei1; Tabata, Satoshi1; Hirakawa, Hideki1; Asamizu, Erika1; Shirasawa, Kenta1; Isobe, Sachiko1; Kaneko, Takakazu1; Nakamura, Yasukazu1; Shibata, Daisuke1; Aoki, Koh1; Egholm, Michael2; Knight, James2; Bogden, Robert3; Li, Changbao4,6; Shuang, Yang5; Xu, Xun5; Pan, Shengkai5; Cheng, Shifeng5; Liu, Xin5; Ren, Yuanyuan5; Wang, Jun5; Albiero, Alessandro7; Dal Pero, Francesca7; Todesco, Sara7; Van Eck, Joyce8; Buels, Robert M.8; Bombarely, Aureliano8; Gosselin, Joseph R.8; Huang, Minyun8; Leto, Jonathan A.8; Menda, Naama8; Strickler, Susan8; Mao, Linyong8; Gao, Shan8; Tecle, Isaak Y.8; York, Thomas8; Zheng, Yi8; Vrebalov, Julia T.8; Lee, JeMin8; Zhong, Silin8; Mueller, Lukas A.8; Stiekema, Willem J.9; Ribeca, Paolo10; Alioto, Tyler10; Yang, Wencai11; Huang, Sanwen12; Du, Yongchen12; Zhang, Zhonghua12; Gao, Jianchang12; Guo, Yanmei12; Wang, Xiaoxuan12; Li, Ying12; He, Jun12; Li, Chuanyou13,14; Cheng, Zhukuan13,14; Zuo, Jianru13,14; Ren, Jianfeng13,14; Zhao, Jiuhai13,14; Yan, Liuhua13,14; Jiang, Hongling13,14; Wang, Bao13,14; Li, Hongshuang13,14; Li, Zhenjun13,14; Fu, Fuyou13,14; Chen, Bingtang13,14; Han, Bin6; Feng, Qi6; Fan, Danlin6; Wang, Ying15; Ling, Hongqing14,16; Xue, Yongbiao14,17; Ware, Doreen18; McCombie, W. Richard18; Lippman, Zachary B.18; Chia, Jer-Ming18; Jiang, Ke18; Pasternak, Shiran18; Gelley, Laura18; Kramer, Melissa18; Anderson, Lorinda K.19; Chang, Song-Bin20; Royer, Suzanne M.19; Shearer, Lindsay A.19; Stack, Stephen M.19; Rose, Jocelyn K. C.21; Xu, Yimin21; Eannetta, Nancy21; Matas, Antonio J.21; McQuinn, Ryan21; Tanksley, Steven D.21; Camara, Francisco22; Guigo, Roderic22; Rombauts, Stephane23; Fawcett, Jeffrey23; Van de Peer, Yves23; Zamir, Dani24; Liang, Chunbo25; Spannagl, Manuel26; Gundlach, Heidrun26; Bruggmann, Remy26; Mayer, Klaus26; Jia, Zhiqi27; Zhang, Junhong28; Ye, Zhibiao28; Bishop, Gerard J.29; Butcher, Sarah29; Lopez-Cobollo, Rosa29; Buchan, Daniel29; Filippis, Ioannis29; Abbott, James29; Dixit, Rekha30; Singh, Manju30; Singh, Archana30; Pal, Jitendra Kumar30; Pandit, Awadhesh30; Singh, Pradeep Kumar30; Mahato, Ajay Kumar30; Dogra, Vivek30; Gaikwad, Kishor30; Sharma, Tilak Raj30; Mohapatra, Trilochan30; Singh, Nagendra Kumar30; Causse, Mathilde31; Rothan, Christophe32; Schiex, Thomas33; Noirot, Celine33; Bellec, Arnaud34; Klopp, Christophe35; Delalande, Corinne36; Berges, Helene34; Mariette, Jerome35; Frasse, Pierre36; Vautrin, Sonia34; Zouine, Mohamed36; Latche, Alain36; Rousseau, Christine36; Regad, Farid36; Pech, Jean-Claude36; Philippot, Murielle36; Bouzayen, Mondher36; Pericard, Pierre37; Osorio, Sonia37; Fernandez del Carmen, Asuncion37; Monforte, Antonio37; Granell, Antonio37; Fernandez-Munoz, Rafael38; Conte, Mariana(); Lichtenstein, Gabriel(); Carrari, Fernando(); De Bellis, Gianluca39; Fuligni, Fabio39; Peano, Clelia39; Grandillo, Silvana40; Termolino, Pasquale40; Pietrella, Marco41,42; Fantini, Elio41; Falcone, Giulia41; Fiore, Alessia41; Giuliano, Giovanni41; Lopez, Loredana43; Facella, Paolo43; Perrotta, Gaetano43; Daddiego, Loretta43; Bryan, Glenn44; Orozco, Modesto45,46; Pastor, Xavier45; Torrents, David45,47; van Schriek, Keygene N. V. Marco G. M.48; Feron, Richard M. C.48; van Oeveren, Jan48; de Heer, Peter48; daPonte, Lorena48; Jacobs-Oomen, Saskia48; Cariaso, Mike48; Prins, Marcel48; van Eijk, Michiel J. T.48; Janssen, Antoine48; van Haaren, Mark J. J.48; Jo, Sung-Hwan49; Kim, Jungeun49; Kwon, Suk-Yoon49; Kim, Sangmi49; Koo, Dal-Hoe49; Lee, Sanghyeob49; Hur, Cheol-Goo49; Clouser, Christopher50; Rico, Alain51; Hallab, Asis52; Gebhardt, Christiane52; Klee, Kathrin52; Joecker, Anika52; Warfsmann, Jens52; Goebel, Ulrike52; Kawamura, Shingo53; Yano, Kentaro53; Sherman, Jamie D.54; Fukuoka, Hiroyuki55; Negoro, Satomi55; Bhutty, Sarita56; Chowdhury, Parul56; Chattopadhyay, Debasis56; Datema, Erwin48,57; Smit, Sandra57; Schijlen, Eliog. W. M.57; van de Belt, Jose57; van Haarst, Jan C.57; Peters, Sander A.57; van Staveren, Marjo J.57; Henkens, Marleen H. C.57; Mooyman, Paul J. W.57; Hesselink, Thamara57; van Ham, Roeland C. H. J.48,57; Jiang, Guoyong58; Droege, Marcus59; Choi, Doil60,61; Kang, Byung-Cheol60,61; Kim, Byung Dong60,61; Park, Minkyu60,61; Kim, Seungill60,61; Yeom, Seon-In60,61; Lee, Yong-Hwan62; Choi, Yang-Do63; Li, Guangcun64; Gao, Jianwei65; Liu, Yongsheng66; Huang, Shengxiong66; Fernandez-Pedrosa, Victoria67; Collado, Carmen67; Zuniga, Sheila67; Wang, Guoping68; Cade, Rebecca69; Dietrich, Robert A.69; Rogers, Jane70; Knapp, Sandra71; Fei, Zhangjun8,72; White, Ruth A.8,72; Thannhauser, Theodore W.8,72; Giovannoni, James J.8,21,72; Angel Botella, Miguel73; Gilbert, Louise73; Gonzalez, Ramon74; Goicoechea, Jose Luis75; Yu, Yeisoo75; Kudrna, David75; Collura, Kristi75; Wissotski, Marina75; Wing, Rod75; Schoof, Heiko76; Meyers, Blake C.77,78; Gurazada, Aishwarya Bala77,78; Green, Pamela J.77,78; Mathur, Saloni79,80; Vyas, Shailendra79,80; Solanke, Amolkumar U.79,80; Kumar, Rahul79,80; Gupta, Vikrant79,80; Sharma, Arun K.79,80; Khurana, Paramjit79,80; Khurana, Jitendra P.79,80; Tyagi, Akhilesh K.79,80; Dalmay, Tamas81; Mohorianu, Irina82; Walts, Brandon83,84; Chamala, Srikar83,84; Barbazuk, W. Brad83,84; Li, Jingping85; Guo, Hui85; Lee, Tae-Ho85; Wang, Yupeng85; Zhang, Dong85; Paterson, Andrew H.85; Wang, Xiyin85,86,87; Tang, Haibao85,88; Barone, Amalia89; Chiusano, Maria Luisa89; Ercolano, Maria Raffaella89; D'Agostino, Nunzio89; Di Filippo, Miriam89; Traini, Alessandra89; Sanseverino, Walter89; Frusciante, Luigi89; Seymour, Graham B.90; Elharam, Mounir91; Fu, Ying91; Hua, Axin91; Kenton, Steven91; Lewis, Jennifer91; Lin, Shaoping91; Najar, Fares91; Lai, Hongshing91; Qin, Baifang91; Qu, Chunmei91; Shi, Ruihua91; White, Douglas91; White, James91; Xing, Yanbo91; Yang, Keqin91; Yi, Jing91; Yao, Ziyun91; Zhou, Liping91; Roe, Bruce A.91; Vezzi, Alessandro92; D'Angelo, Michela92; Zimbello, Rosanna92; Schiavon, Riccardo92; Caniato, Elisa92; Rigobello, Chiara92; Campagna, Davide92; Vitulo, Nicola92; Valle, Giorgio92; Nelson, David R.93; De Paoli, Emanuele94; Szinay, Dora95,96; de Jong, Hans H.95; Bai, Yuling96; Visser, Richard G. F.96; Lankhorst, Rene M. Klein(); Beasley, Helen97; McLaren, Karen97; Nicholson, Christine97; Riddle, Claire97; Gianese, Giulio98
2012
发表期刊NATURE
ISSN0028-0836
卷号485期号:7400页码:635-641
摘要Tomato (Solanum lycopersicum) is a major crop plant and a model system for fruit development. Solanum is one of the largest angiosperm genera(1) and includes annual and perennial plants from diverse habitats. Here we present a high-quality genome sequence of domesticated tomato, a draft sequence of its closest wild relative, Solanum pimpinellifolium(2), and compare them to each other and to the potato genome (Solanum tuberosum). The two tomato genomes show only 0.6% nucleotide divergence and signs of recent admixture, but show more than 8% divergence from potato, with nine large and several smaller inversions. In contrast to Arabidopsis, but similar to soybean, tomato and potato small RNAs map predominantly to gene-rich chromosomal regions, including gene promoters. The Solanum lineage has experienced two consecutive genome triplications: one that is ancient and shared with rosids, and a more recent one. These triplications set the stage for the neofunctionalization of genes controlling fruit characteristics, such as colour and fleshiness.
学科领域Multidisciplinary Sciences ; Multidisciplinary Sciences
DOI10.1038/nature11119
收录类别SCI
语种英语
WOS记录号WOS:000304608000047
出版者NATURE PUBLISHING GROUP
nyguid3c4b17e2-d109-4576-8198-fcbeb2ac7a5d
引用统计
被引频次:1156[WOS]   [WOS记录]     [WOS相关记录]
文献类型期刊论文
条目标识符http://ir.nais.net.cn/handle/2HMLN22E/149308
专题蔬菜花卉研究所
蔬菜花卉研究所_职能部门
蔬菜花卉研究所_生物技术研究室
蔬菜花卉研究所_茄科研究室
通讯作者Sato, Shusei
作者单位1.Kazusa DNA Res Inst, Kisarazu, Chiba 2920818, Japan;
2.454 Life Sci, Branford, CT 06405 USA;
3.Amplicon Express Inc, Pullman, WA 99163 USA;
4.Beijing Acad Agr & Forestry Sci, Beijing Vegetable Res Ctr, Beijing 100097, Peoples R China;
5.BGI Shenzhen, Shenzhen 518083, Peoples R China;
6.Chinese Acad Sci, Natl Ctr Gene Res, Shanghai 200233, Peoples R China;
7.BMR Genom SrL, I-35131 Padua, Italy;
8.Cornell Univ, Boyce Thompson Inst Plant Res, Ithaca, NY 14853 USA;
9.Ctr BioSyst Genom, NL-6700 AB Wageningen, Netherlands;
10.CNAG, Barcelona 08028, Spain;
11.China Agr Univ, Coll Agron & Biotechnol, Dept Vegetable Sci, Beijing 100193, Peoples R China;
12.Chinese Acad Agr Sci, Inst Vegetables & Flowers, Sinodutch Joint Lab Hort Genom Technol, Key Lab Hort Crops Genet Improvement,Minist Agr, Beijing 100081, Peoples R China;
13.Chinese Acad Sci, Inst Genet & Dev Biol, State Key Lab Plant Genom, Beijing 100101, Peoples R China;
14.Chinese Acad Sci, Inst Genet & Dev Biol, Natl Ctr Plant Gene Res, Beijing 100101, Peoples R China;
15.Chinese Acad Sci, Wuhan Bot Garden, Wuhan 430074, Peoples R China;
16.Chinese Acad Sci, Inst Genet & Dev Biol, State Key Lab Plant Cell & Chromosome Engn, Beijing 100101, Peoples R China;
17.Chinese Acad Sci, Inst Genet & Dev Biol, Mol & Dev Biol Lab, Beijing 100080, Peoples R China;
18.Cold Spring Harbor Lab, Cold Spring Harbor, NY 11724 USA;
19.Colorado State Univ, Dept Biol, Ft Collins, CO 80523 USA;
20.Natl Taiwan Univ, Dept Agron, Taipei 107, Taiwan;
21.Cornell Univ, Dept Plant Biol, Ithaca, NY 14853 USA;
22.Univ Pompeu Fabra, CRG, Genome Bioinformat Lab, GRIB IMIM, Barcelona 08003, Spain;
23.Univ Ghent VIB, Dept Plant Biotechnol & Bioinformat, Dept Plant Syst Biol, B-9052 Ghent, Belgium;
24.Hebrew Univ Jerusalem, Fac Agr, IL-76100 Rehovot, Israel;
25.Heilongjiang Acad Agr Sci, Inst Ind Crops, Harbin 150086, Peoples R China;
26.Helmholtz Ctr Hlth & Environm, Inst Bioinformat & Syst Biol MIPS, D-85764 Neuherberg, Germany;
27.Henan Agr Univ, Coll Hort, Zhengzhou 450002, Peoples R China;
28.Huazhong Agr Univ, Natl Key Lab Crop Genet Improvement, Wuhan 430070, Peoples R China;
29.Univ London Imperial Coll Sci Technol & Med, Dept Life Sci, London SW7 1AZ, England;
30.Indian Agr Res Inst, NRC Plant Biotechnol, New Delhi 110012, India;
31.INRA, Genet & Ameliorat Fruits & Legumes UR1052, F-84143 Montfavet, France;
32.INRA, F-33883 Villenave Dornon, France;
33.INRA, Unite Biometrie & Intelligence Artificielle UR 87, F-31320 Castanet Tolosan, France;
34.INRA CNRGV, F-31326 Castanet Tolosan, France;
35.INRA, Biometrie & Intelligence Artificielle UR875, F-31326 Castanet Tolosan, France;
36.Univ Toulouse, Inst Natl Polytech Toulouse ENSAT, F-31326 Castanet Tolosan, France;
37.Inst Biol Mol & Celular Plantas CSIC UPV, Valencia 46022, Spain;
38.Univ Malaga, CSIC, UMA, IHSM,Inst Hortofruticultura Subtrop & Mediterrane, Algarrobo Costa 29750, Malaga, Spain;
39.Natl Res Council Italy, Inst Biomed Technol, I-20090 Milan, Italy;
40.Natl Res Council Italy, Inst Plant Genet, Res Div Portici, I-80055 Naples, Italy;
41.ENEA, Casaccia Res Ctr, I-00123 Rome, Italy;
42.Scuola Super Sant Anna, I-56127 Pisa, Italy;
43.ENEA, Trisaia Res Ctr, I-75026 Rotondella, Matera, Italy;
44.James Hutton Inst, Dundee DD2 5DA, Scotland;
45.Barcelona Supercomp Ctr, Barcelona 08034, Spain;
46.Inst Biomed Res, Barcelona 08028, Spain;
47.Pg Lluis Co, ICREA, Barcelona 08010, Spain;
48.Keygene NV, NL-6708 PW Wageningen, Netherlands;
49.Korea Res Inst Biosci & Biotechnol, Plant Syst Engn Res Ctr, Taejon 305806, South Korea;
50.Life Technol, Beverly, MA 01915 USA;
51.Life Technol, F-91943 Courtaboeuf 3, France;
52.Max Planck Inst Plant Breeding Res, D-50829 Cologne, Germany;
53.Meiji Univ, Sch Agr, Tama Ku, Kawasaki, Kanagawa 2148571, Japan;
54.Montana State Univ, Dept Plant Sci & Plant Pathol, Bozeman, MT 59717 USA;
55.NARO Inst Vegetable & Tea Sci, Tsu, Mie 5142392, Japan;
56.Natl Inst Plant Genome Res, New Delhi 110067, India;
57.Plant Res Int, Business Unit Biosci, NL-6708 PB Wageningen, Netherlands;
58.Qingdao Agr Univ, Inst Plant Genet Engn, Qingdao 266109, Peoples R China;
59.Roche Appl Sci, D-82377 Penzberg, Germany;
60.Seoul Natl Univ, Dept Plant Sci, Seoul 151921, South Korea;
61.Seoul Natl Univ, Plant Genom & Breeding Inst, Seoul 151921, South Korea;
62.Seoul Natl Univ, Dept Agr Biotechnol, Seoul 151921, South Korea;
63.Seoul Natl Univ, Crop Funct Genom Ctr, Coll Agr & Life Sci, Seoul 151921, South Korea;
64.Shandong Acad Agr Sci, High Tech Res Ctr, Jinan 250000, Shandong, Peoples R China;
65.Shandong Acad Agr Sci, Inst Vegetables, Jinan 250100, Shandong, Peoples R China;
66.Sichuan Univ, Sch Life Sci, Chengdu 610064, Sichuan, Peoples R China;
67.Sistemas Genom, Paterna 46980, Valencia, Spain;
68.S China Agr Univ, Coll Hort, Guangzhou 510642, Guangdong, Peoples R China;
69.Syngenta Biotechnol Inc, Res Triangle Pk, NC 27709 USA;
70.Genome Anal Ctr, Norwich NR4 7UH, Norfolk, England;
71.Nat Hist Museum, Dept Bot, London SW7 5BD, England;
72.USDA ARS, Robert W Holley Ctr, Ithaca, NY 14853 USA;
73.Inst Hortofruticultura Subtrop & Mediterranea, Dept Biol Mol & Bioquim, Malaga 29071, Spain;
74.Univ Pompeu Fabra, Ctr Regulacio Genom, E-08003 Barcelona, Spain;
75.Univ Arizona, Sch Plant Sci, Inst Collaborat Res BIO 5, Arizona Genom Inst, Tucson, AZ 85721 USA;
76.Univ Bonn, Inst Crop Sci & Resource Conservat, D-53115 Bonn, Germany;
77.Univ Delaware, Dept Plant & Soil Sci, Newark, DE 19711 USA;
78.Univ Delaware, Delaware Biotechnol Inst, Newark, DE 19711 USA;
79.Univ Delhi S Campus, Interdisciplinary Ctr Plant Genom, New Delhi 110021, India;
80.Univ Delhi S Campus, Dept Plant Mol Biol, New Delhi 110021, India;
81.Univ E Anglia, Sch Biol Sci, Norwich NR4 7TJ, Norfolk, England;
82.Univ E Anglia, Sch Comp Sci, Norwich NR4 7TJ, Norfolk, England;
83.UF Genet Inst, Gainesville, FL 32610 USA;
84.Dept Biol, Gainesville, FL 32610 USA;
85.Univ Georgia, Plan Genome Mapping Lab, Athens, GA 30602 USA;
86.Hebei United Univ, Sch Life Sci, Ctr Genom & Computat Biol, Tangshan 063000, Hebei, Peoples R China;
87.Hebei United Univ, Sch Sci, Tangshan 063000, Hebei, Peoples R China;
88.J Craig Venter Inst, Rockville, MD 20850 USA;
89.Univ Naples Federico II, Dept Soil Plant Environm & Anim Prod Sci, I-80055 Naples, Italy;
90.Univ Nottingham, Div Plant & Crop Sci, Loughborough LE12 5RD, Leics, England;
91.Univ Oklahoma, Dept Chem & Biochem, Stephenson Res & Technol Ctr, Norman, OK 73019 USA;
92.Univ Padua, CRIBI, I-35131 Padua, Italy;
93.Univ Tennessee, Hlth Sci Ctr, Dept Microbiol Immunol & Biochem, Memphis, TN 38163 USA;
94.Univ Udine, Dept Agr & Environm Sci, I-33100 Udine, Italy;
95.Wageningen Univ, Genet Lab, NL-6708 PB Wageningen, Netherlands;
96.Wageningen Univ, Lab Plant Breeding, NL-6708 PB Wageningen, Netherlands;
97.Wellcome Trust Sanger Inst Hinxton, Cambridge CB10 1SA, England;
98.Ylichron SrL, Casaccia Res Ctr, I-00123 Rome, Italy
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Sato, Shusei,Tabata, Satoshi,Hirakawa, Hideki,et al. The tomato genome sequence provides insights into fleshy fruit evolution[J]. NATURE,2012,485(7400):635-641.
APA Sato, Shusei.,Tabata, Satoshi.,Hirakawa, Hideki.,Asamizu, Erika.,Shirasawa, Kenta.,...&Gianese, Giulio.(2012).The tomato genome sequence provides insights into fleshy fruit evolution.NATURE,485(7400),635-641.
MLA Sato, Shusei,et al."The tomato genome sequence provides insights into fleshy fruit evolution".NATURE 485.7400(2012):635-641.
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