A Snapshot of the Emerging Tomato Genome Sequence

Lukas A. Mueller; René Klein Lankhorst; Steven D. Tanksley; James J. Giovannoni; Ruth White; Julia Vrebalov; Zhangjun Fei; Joyce van Eck; Robert Buels; Adri A. Mills; Naama Menda; Isaak Y. Tecle; Aureliano Bombarely; Stephen Stack; Suzanne M. Royer; Song Bin Chang; Lindsay A. Shearer; Byung Dong Kim; Sung Hwan Jo; Cheol Goo Hur; Doil Choi; Chang Bao Li; Jiuhai Zhao; Hongling Jiang; Yu Geng; Yuanyuan Dai; Huajie Fan; Jinfeng Chen; Fei Lu; Jinfeng Shi; Shouhong Sun; Jianjun Chen; Xiaohua Yang; Chen Lu; Mingsheng Chen; Zhukuan Cheng; Chuanyou Li; Hongqing Ling; Yongbiao Xue; Ying Wang; Graham B. Seymour; Gerard J. Bishop; Glenn Bryan; Jane Rogers; Sarah Sims; Sarah Butcher; Daniel Buchan; James Abbott; Helen Beasley; Christine Nicholson; Clare Riddle; Sean Humphray; Karen McLaren; Saloni Mathur; Shailendra Vyas; Amolkumar U. Solanke; Rahul Kumar; Vikrant Gupta; Arun K. Sharma; Paramjit Khurana; Jitendra P. Khurana; Akhilesh Tyagi; Sarita; Parul Chowdhury; Smriti Shridhar; Debasis Chattopadhyay; Awadhesh Pandit; Pradeep Singh; Ajay Kumar; Rekha Dixit; Archana Singh; Sumera Praveen; Vivek Dalal; Mahavir Yadav; Irfan Ahmad Ghazi; Kishor Gaikwad; Tilak Raj Sharma; Trilochan Mohapatra; Nagendra Kumar Singh; Dóra Szinay; Hans de Jong; Sander Peters; Marjo van Staveren; Erwin Datema; Mark W.E.J. Fiers; Roeland C.H.J. van Ham; P. Lindhout; Murielle Philippot; Pierre Frasse; Farid Regad; Mohamed Zouine; Mondher Bouzayen; Erika Asamizu; Shusei Sato; Hiroyuki Fukuoka; Satoshi Tabata; Daisuke Shibata; Miguel A. Botella; M. Perez-Alonso; V. Fernandez-Pedrosa; Sonia Osorio; Amparo Mico; Antonio Granell; Zhonghua Zhang; Jun He; Sanwen Huang; Yongchen Du; Dongyu Qu; Longfei Liu,; Dongyuan Liu; Jun Wang; Zhibiao Ye; Wencai Yang; Guoping Wang; Alessandro Vezzi; Sara Todesco; Giorgio Valle; Giulia Falcone; Marco Pietrella; Giovanni Giuliano; Silvana Grandillo; Alessandra Traini; Nunzio D'Agostino; Maria Luisa Chiusano; Mara Ercolano; Amalia Barone; Luigi Frusciante; Heiko Schoof; Anika Jöcker; Rémy Bruggmann; Manuel Spannagl; Klaus X.F. Mayer; Roderic Guigó; Francisco Camara; Stephane Rombauts; Jeffrey A. Fawcett; Yves Van de Peer; Sandra Knapp; Dani Zamir; Willem Stiekema

doi:10.3835/plantgenome2008.08.0005

A Snapshot of the Emerging Tomato Genome Sequence

Lukas A. Mueller
, René Klein Lankhorst
, Steven D. Tanksley
, James J. Giovannoni
, Ruth White
, Julia Vrebalov
, Zhangjun Fei
, Joyce van Eck
, Robert Buels
, Adri A. Mills
, Naama Menda
, Isaak Y. Tecle
, Aureliano Bombarely
, Stephen Stack
, Suzanne M. Royer
, Song Bin Chang
, Lindsay A. Shearer
, Byung Dong Kim
, Sung Hwan Jo
, Cheol Goo Hur

Doil Choi, Chang Bao Li, Jiuhai Zhao, Hongling Jiang, Yu Geng, Yuanyuan Dai, Huajie Fan, Jinfeng Chen, Fei Lu, Jinfeng Shi, Shouhong Sun, Jianjun Chen, Xiaohua Yang, Chen Lu, Mingsheng Chen, Zhukuan Cheng, Chuanyou Li, Hongqing Ling, Yongbiao Xue, Ying Wang, Graham B. Seymour, Gerard J. Bishop, Glenn Bryan, Jane Rogers, Sarah Sims, Sarah Butcher, Daniel Buchan, James Abbott, Helen Beasley, Christine Nicholson, Clare Riddle, Sean Humphray, Karen McLaren, Saloni Mathur, Shailendra Vyas, Amolkumar U. Solanke, Rahul Kumar, Vikrant Gupta, Arun K. Sharma, Paramjit Khurana, Jitendra P. Khurana, Akhilesh Tyagi, Sarita, Parul Chowdhury, Smriti Shridhar, Debasis Chattopadhyay, Awadhesh Pandit, Pradeep Singh, Ajay Kumar, Rekha Dixit, Archana Singh, Sumera Praveen, Vivek Dalal, Mahavir Yadav, Irfan Ahmad Ghazi, Kishor Gaikwad, Tilak Raj Sharma, Trilochan Mohapatra, Nagendra Kumar Singh, Dóra Szinay, Hans de Jong, Sander Peters, Marjo van Staveren, Erwin Datema, Mark W.E.J. Fiers, Roeland C.H.J. van Ham, P. Lindhout, Murielle Philippot, Pierre Frasse, Farid Regad, Mohamed Zouine, Mondher Bouzayen, Erika Asamizu, Shusei Sato, Hiroyuki Fukuoka, Satoshi Tabata, Daisuke Shibata, Miguel A. Botella, M. Perez-Alonso, V. Fernandez-Pedrosa, Sonia Osorio, Amparo Mico, Antonio Granell, Zhonghua Zhang, Jun He, Sanwen Huang, Yongchen Du, Dongyu Qu, Longfei Liu,, Dongyuan Liu, Jun Wang, Zhibiao Ye, Wencai Yang, Guoping Wang, Alessandro Vezzi, Sara Todesco, Giorgio Valle, Giulia Falcone, Marco Pietrella, Giovanni Giuliano, Silvana Grandillo, Alessandra Traini, Nunzio D'Agostino, Maria Luisa Chiusano, Mara Ercolano, Amalia Barone, Luigi Frusciante, Heiko Schoof, Anika Jöcker, Rémy Bruggmann, Manuel Spannagl, Klaus X.F. Mayer, Roderic Guigó, Francisco Camara, Stephane Rombauts, Jeffrey A. Fawcett, Yves Van de Peer, Sandra Knapp, Dani Zamir, Willem Stiekema

Boyce Thompson Institute for Plant Research
International Tomato Genome Annotation Group (ITAG)
Centre for BioSystems Genomics
Cornell University
USDA NAA Robert Holley Center for Agriculture and Health
Colorado State University
Seoul National University
Korea Research Institute of Bioscience and Biotechnology
Institute of Genetics and Developmental Biology Chinese Academy of Sciences
University of Nottingham
Imperial College London
James Hutton Institute
Wellcome Sanger Institute
Illumina Cambridge Ltd
University of Delhi
National Institute of Plant Genome Research Aruna Asaf Ali Mar
IARI PUSA
Wageningen University and Research Centre
Plant Research International
Génomique et Biotechnologie des Fruits
Kazusa DNA Research Institutes
NARO Institute of Floricultural Science
University of Málaga
SL
Consejo Superior de Investigaciones Científicas-Universidad Politécnica de Valencia
Chinese Academy of Agricultural Sciences
BGI-Shenzhen
Freshwater Aquaculture Collaborative Innovation Center of Hubei Province
China Agricultural University
South China Agricultural University
University of Padova
ENEA Casaccia
IMM-CNR
Università di Napoli Federico II
Max-Planck-Institute for Plant Breeding Research
Waksman Institute of Microbiology
Helmholtz Zentrum München German Research Center for Environmental Health
Pompeu Fabra University (UPF)
Ghent University
Natural History Museum
The Hebrew University of Jerusalem

Research output: Contribution to journal › Article › peer-review

80 Scopus citations

Abstract

The genome of tomato (Solanum lycopersicum L.) is being sequenced by an international consortium of 10 countries (Korea, China, the United Kingdom, India, the Netherlands, France, Japan, Spain, Italy, and the United States) as part of the larger “International Solanaceae Genome Project (SOL): Systems Approach to Diversity and Adaptation” initiative. The tomato genome sequencing project uses an ordered bacterial artificial chromosome (BAC) approach to generate a high-quality tomato euchromatic genome sequence for use as a reference genome for the Solanaceae and euasterids. Sequence is deposited at GenBank and at the SOL Genomics Network (SGN). Currently, there are around 1000 BACs finished or in progress, representing more than a third of the projected euchromatic portion of the genome. An annotation effort is also underway by the International Tomato Annotation Group. The expected number of genes in the euchromatin is ∼40,000, based on an estimate from a preliminary annotation of 11% of finished sequence. Here, we present this first snapshot of the emerging tomato genome and its annotation, a short comparison with potato (Solanum tuberosum L.) sequence data, and the tools available for the researchers to exploit this new resource are also presented. In the future, whole-genome shotgun techniques will be combined with the BAC-by-BAC approach to cover the entire tomato genome. The high-quality reference euchromatic tomato sequence is expected to be near completion by 2010.

Original language	English
Article number	TPG2PLANTGENOME2008080005
Journal	Plant Genome
Volume	2
Issue number	1
DOIs	https://doi.org/10.3835/plantgenome2008.08.0005
State	Published - Mar 2009
Externally published	Yes

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10.3835/plantgenome2008.08.0005

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Mueller, L. A., Lankhorst, R. K., Tanksley, S. D., Giovannoni, J. J., White, R., Vrebalov, J., Fei, Z., van Eck, J., Buels, R., Mills, A. A., Menda, N., Tecle, I. Y., Bombarely, A., Stack, S., Royer, S. M., Chang, S. B., Shearer, L. A., Kim, B. D., Jo, S. H., ... Stiekema, W. (2009). A Snapshot of the Emerging Tomato Genome Sequence. Plant Genome, 2(1), Article TPG2PLANTGENOME2008080005. https://doi.org/10.3835/plantgenome2008.08.0005

@article{e78d157fa05f4b95b3d92fe0ded0fee0,

title = "A Snapshot of the Emerging Tomato Genome Sequence",

abstract = "The genome of tomato (Solanum lycopersicum L.) is being sequenced by an international consortium of 10 countries (Korea, China, the United Kingdom, India, the Netherlands, France, Japan, Spain, Italy, and the United States) as part of the larger “International Solanaceae Genome Project (SOL): Systems Approach to Diversity and Adaptation” initiative. The tomato genome sequencing project uses an ordered bacterial artificial chromosome (BAC) approach to generate a high-quality tomato euchromatic genome sequence for use as a reference genome for the Solanaceae and euasterids. Sequence is deposited at GenBank and at the SOL Genomics Network (SGN). Currently, there are around 1000 BACs finished or in progress, representing more than a third of the projected euchromatic portion of the genome. An annotation effort is also underway by the International Tomato Annotation Group. The expected number of genes in the euchromatin is ∼40,000, based on an estimate from a preliminary annotation of 11\% of finished sequence. Here, we present this first snapshot of the emerging tomato genome and its annotation, a short comparison with potato (Solanum tuberosum L.) sequence data, and the tools available for the researchers to exploit this new resource are also presented. In the future, whole-genome shotgun techniques will be combined with the BAC-by-BAC approach to cover the entire tomato genome. The high-quality reference euchromatic tomato sequence is expected to be near completion by 2010.",

author = "Mueller, \{Lukas A.\} and Lankhorst, \{Ren{\'e} Klein\} and Tanksley, \{Steven D.\} and Giovannoni, \{James J.\} and Ruth White and Julia Vrebalov and Zhangjun Fei and \{van Eck\}, Joyce and Robert Buels and Mills, \{Adri A.\} and Naama Menda and Tecle, \{Isaak Y.\} and Aureliano Bombarely and Stephen Stack and Royer, \{Suzanne M.\} and Chang, \{Song Bin\} and Shearer, \{Lindsay A.\} and Kim, \{Byung Dong\} and Jo, \{Sung Hwan\} and Hur, \{Cheol Goo\} and Doil Choi and Li, \{Chang Bao\} and Jiuhai Zhao and Hongling Jiang and Yu Geng and Yuanyuan Dai and Huajie Fan and Jinfeng Chen and Fei Lu and Jinfeng Shi and Shouhong Sun and Jianjun Chen and Xiaohua Yang and Chen Lu and Mingsheng Chen and Zhukuan Cheng and Chuanyou Li and Hongqing Ling and Yongbiao Xue and Ying Wang and Seymour, \{Graham B.\} and Bishop, \{Gerard J.\} and Glenn Bryan and Jane Rogers and Sarah Sims and Sarah Butcher and Daniel Buchan and James Abbott and Helen Beasley and Christine Nicholson and Clare Riddle and Sean Humphray and Karen McLaren and Saloni Mathur and Shailendra Vyas and Solanke, \{Amolkumar U.\} and Rahul Kumar and Vikrant Gupta and Sharma, \{Arun K.\} and Paramjit Khurana and Khurana, \{Jitendra P.\} and Akhilesh Tyagi and Sarita and Parul Chowdhury and Smriti Shridhar and Debasis Chattopadhyay and Awadhesh Pandit and Pradeep Singh and Ajay Kumar and Rekha Dixit and Archana Singh and Sumera Praveen and Vivek Dalal and Mahavir Yadav and Ghazi, \{Irfan Ahmad\} and Kishor Gaikwad and Sharma, \{Tilak Raj\} and Trilochan Mohapatra and Singh, \{Nagendra Kumar\} and D{\'o}ra Szinay and \{de Jong\}, Hans and Sander Peters and \{van Staveren\}, Marjo and Erwin Datema and Fiers, \{Mark W.E.J.\} and \{van Ham\}, \{Roeland C.H.J.\} and P. Lindhout and Murielle Philippot and Pierre Frasse and Farid Regad and Mohamed Zouine and Mondher Bouzayen and Erika Asamizu and Shusei Sato and Hiroyuki Fukuoka and Satoshi Tabata and Daisuke Shibata and Botella, \{Miguel A.\} and M. Perez-Alonso and V. Fernandez-Pedrosa and Sonia Osorio and Amparo Mico and Antonio Granell and Zhonghua Zhang and Jun He and Sanwen Huang and Yongchen Du and Dongyu Qu and Longfei Liu, and Dongyuan Liu and Jun Wang and Zhibiao Ye and Wencai Yang and Guoping Wang and Alessandro Vezzi and Sara Todesco and Giorgio Valle and Giulia Falcone and Marco Pietrella and Giovanni Giuliano and Silvana Grandillo and Alessandra Traini and Nunzio D'Agostino and Chiusano, \{Maria Luisa\} and Mara Ercolano and Amalia Barone and Luigi Frusciante and Heiko Schoof and Anika J{\"o}cker and R{\'e}my Bruggmann and Manuel Spannagl and Mayer, \{Klaus X.F.\} and Roderic Guig{\'o} and Francisco Camara and Stephane Rombauts and Fawcett, \{Jeffrey A.\} and \{Van de Peer\}, Yves and Sandra Knapp and Dani Zamir and Willem Stiekema",

note = "Publisher Copyright: {\textcopyright} 2009 The Authors.",

year = "2009",

month = mar,

doi = "10.3835/plantgenome2008.08.0005",

language = "English",

volume = "2",

journal = "Plant Genome",

issn = "1940-3372",

publisher = "John Wiley \& Sons Inc.",

number = "1",

}

Mueller, LA, Lankhorst, RK, Tanksley, SD, Giovannoni, JJ, White, R, Vrebalov, J, Fei, Z, van Eck, J, Buels, R, Mills, AA, Menda, N, Tecle, IY, Bombarely, A, Stack, S, Royer, SM, Chang, SB, Shearer, LA, Kim, BD, Jo, SH, Hur, CG, Choi, D, Li, CB, Zhao, J, Jiang, H, Geng, Y, Dai, Y, Fan, H, Chen, J, Lu, F, Shi, J, Sun, S, Chen, J, Yang, X, Lu, C, Chen, M, Cheng, Z, Li, C, Ling, H, Xue, Y, Wang, Y, Seymour, GB, Bishop, GJ, Bryan, G, Rogers, J, Sims, S, Butcher, S, Buchan, D, Abbott, J, Beasley, H, Nicholson, C, Riddle, C, Humphray, S, McLaren, K, Mathur, S, Vyas, S, Solanke, AU, Kumar, R, Gupta, V, Sharma, AK, Khurana, P, Khurana, JP, Tyagi, A, Sarita, Chowdhury, P, Shridhar, S, Chattopadhyay, D, Pandit, A, Singh, P, Kumar, A, Dixit, R, Singh, A, Praveen, S, Dalal, V, Yadav, M, Ghazi, IA, Gaikwad, K, Sharma, TR, Mohapatra, T, Singh, NK, Szinay, D, de Jong, H, Peters, S, van Staveren, M, Datema, E, Fiers, MWEJ, van Ham, RCHJ, Lindhout, P, Philippot, M, Frasse, P, Regad, F, Zouine, M, Bouzayen, M, Asamizu, E, Sato, S, Fukuoka, H, Tabata, S, Shibata, D, Botella, MA, Perez-Alonso, M, Fernandez-Pedrosa, V, Osorio, S, Mico, A, Granell, A, Zhang, Z, He, J, Huang, S, Du, Y, Qu, D, Liu, L, Liu, D, Wang, J, Ye, Z, Yang, W, Wang, G, Vezzi, A, Todesco, S, Valle, G, Falcone, G, Pietrella, M, Giuliano, G, Grandillo, S, Traini, A, D'Agostino, N, Chiusano, ML, Ercolano, M, Barone, A, Frusciante, L, Schoof, H, Jöcker, A, Bruggmann, R, Spannagl, M, Mayer, KXF, Guigó, R, Camara, F, Rombauts, S, Fawcett, JA, Van de Peer, Y, Knapp, S, Zamir, D & Stiekema, W 2009, 'A Snapshot of the Emerging Tomato Genome Sequence', Plant Genome, vol. 2, no. 1, TPG2PLANTGENOME2008080005. https://doi.org/10.3835/plantgenome2008.08.0005

TY - JOUR

T1 - A Snapshot of the Emerging Tomato Genome Sequence

AU - Mueller, Lukas A.

AU - Lankhorst, René Klein

AU - Tanksley, Steven D.

AU - Giovannoni, James J.

AU - White, Ruth

AU - Vrebalov, Julia

AU - Fei, Zhangjun

AU - van Eck, Joyce

AU - Buels, Robert

AU - Mills, Adri A.

AU - Menda, Naama

AU - Tecle, Isaak Y.

AU - Bombarely, Aureliano

AU - Stack, Stephen

AU - Royer, Suzanne M.

AU - Chang, Song Bin

AU - Shearer, Lindsay A.

AU - Kim, Byung Dong

AU - Jo, Sung Hwan

AU - Hur, Cheol Goo

AU - Choi, Doil

AU - Li, Chang Bao

AU - Zhao, Jiuhai

AU - Jiang, Hongling

AU - Geng, Yu

AU - Dai, Yuanyuan

AU - Fan, Huajie

AU - Chen, Jinfeng

AU - Lu, Fei

AU - Shi, Jinfeng

AU - Sun, Shouhong

AU - Chen, Jianjun

AU - Yang, Xiaohua

AU - Lu, Chen

AU - Chen, Mingsheng

AU - Cheng, Zhukuan

AU - Li, Chuanyou

AU - Ling, Hongqing

AU - Xue, Yongbiao

AU - Wang, Ying

AU - Seymour, Graham B.

AU - Bishop, Gerard J.

AU - Bryan, Glenn

AU - Rogers, Jane

AU - Sims, Sarah

AU - Butcher, Sarah

AU - Buchan, Daniel

AU - Abbott, James

AU - Beasley, Helen

AU - Nicholson, Christine

AU - Riddle, Clare

AU - Humphray, Sean

AU - McLaren, Karen

AU - Mathur, Saloni

AU - Vyas, Shailendra

AU - Solanke, Amolkumar U.

AU - Kumar, Rahul

AU - Gupta, Vikrant

AU - Sharma, Arun K.

AU - Khurana, Paramjit

AU - Khurana, Jitendra P.

AU - Tyagi, Akhilesh

AU - Sarita,

AU - Chowdhury, Parul

AU - Shridhar, Smriti

AU - Chattopadhyay, Debasis

AU - Pandit, Awadhesh

AU - Singh, Pradeep

AU - Kumar, Ajay

AU - Dixit, Rekha

AU - Singh, Archana

AU - Praveen, Sumera

AU - Dalal, Vivek

AU - Yadav, Mahavir

AU - Ghazi, Irfan Ahmad

AU - Gaikwad, Kishor

AU - Sharma, Tilak Raj

AU - Mohapatra, Trilochan

AU - Singh, Nagendra Kumar

AU - Szinay, Dóra

AU - de Jong, Hans

AU - Peters, Sander

AU - van Staveren, Marjo

AU - Datema, Erwin

AU - Fiers, Mark W.E.J.

AU - van Ham, Roeland C.H.J.

AU - Lindhout, P.

AU - Philippot, Murielle

AU - Frasse, Pierre

AU - Regad, Farid

AU - Zouine, Mohamed

AU - Bouzayen, Mondher

AU - Asamizu, Erika

AU - Sato, Shusei

AU - Fukuoka, Hiroyuki

AU - Tabata, Satoshi

AU - Shibata, Daisuke

AU - Botella, Miguel A.

AU - Perez-Alonso, M.

AU - Fernandez-Pedrosa, V.

AU - Osorio, Sonia

AU - Mico, Amparo

AU - Granell, Antonio

AU - Zhang, Zhonghua

AU - He, Jun

AU - Huang, Sanwen

AU - Du, Yongchen

AU - Qu, Dongyu

AU - Liu,, Longfei

AU - Liu, Dongyuan

AU - Wang, Jun

AU - Ye, Zhibiao

AU - Yang, Wencai

AU - Wang, Guoping

AU - Vezzi, Alessandro

AU - Todesco, Sara

AU - Valle, Giorgio

AU - Falcone, Giulia

AU - Pietrella, Marco

AU - Giuliano, Giovanni

AU - Grandillo, Silvana

AU - Traini, Alessandra

AU - D'Agostino, Nunzio

AU - Chiusano, Maria Luisa

AU - Ercolano, Mara

AU - Barone, Amalia

AU - Frusciante, Luigi

AU - Schoof, Heiko

AU - Jöcker, Anika

AU - Bruggmann, Rémy

AU - Spannagl, Manuel

AU - Mayer, Klaus X.F.

AU - Guigó, Roderic

AU - Camara, Francisco

AU - Rombauts, Stephane

AU - Fawcett, Jeffrey A.

AU - Van de Peer, Yves

AU - Knapp, Sandra

AU - Zamir, Dani

AU - Stiekema, Willem

PY - 2009/3

Y1 - 2009/3

N2 - The genome of tomato (Solanum lycopersicum L.) is being sequenced by an international consortium of 10 countries (Korea, China, the United Kingdom, India, the Netherlands, France, Japan, Spain, Italy, and the United States) as part of the larger “International Solanaceae Genome Project (SOL): Systems Approach to Diversity and Adaptation” initiative. The tomato genome sequencing project uses an ordered bacterial artificial chromosome (BAC) approach to generate a high-quality tomato euchromatic genome sequence for use as a reference genome for the Solanaceae and euasterids. Sequence is deposited at GenBank and at the SOL Genomics Network (SGN). Currently, there are around 1000 BACs finished or in progress, representing more than a third of the projected euchromatic portion of the genome. An annotation effort is also underway by the International Tomato Annotation Group. The expected number of genes in the euchromatin is ∼40,000, based on an estimate from a preliminary annotation of 11% of finished sequence. Here, we present this first snapshot of the emerging tomato genome and its annotation, a short comparison with potato (Solanum tuberosum L.) sequence data, and the tools available for the researchers to exploit this new resource are also presented. In the future, whole-genome shotgun techniques will be combined with the BAC-by-BAC approach to cover the entire tomato genome. The high-quality reference euchromatic tomato sequence is expected to be near completion by 2010.

AB - The genome of tomato (Solanum lycopersicum L.) is being sequenced by an international consortium of 10 countries (Korea, China, the United Kingdom, India, the Netherlands, France, Japan, Spain, Italy, and the United States) as part of the larger “International Solanaceae Genome Project (SOL): Systems Approach to Diversity and Adaptation” initiative. The tomato genome sequencing project uses an ordered bacterial artificial chromosome (BAC) approach to generate a high-quality tomato euchromatic genome sequence for use as a reference genome for the Solanaceae and euasterids. Sequence is deposited at GenBank and at the SOL Genomics Network (SGN). Currently, there are around 1000 BACs finished or in progress, representing more than a third of the projected euchromatic portion of the genome. An annotation effort is also underway by the International Tomato Annotation Group. The expected number of genes in the euchromatin is ∼40,000, based on an estimate from a preliminary annotation of 11% of finished sequence. Here, we present this first snapshot of the emerging tomato genome and its annotation, a short comparison with potato (Solanum tuberosum L.) sequence data, and the tools available for the researchers to exploit this new resource are also presented. In the future, whole-genome shotgun techniques will be combined with the BAC-by-BAC approach to cover the entire tomato genome. The high-quality reference euchromatic tomato sequence is expected to be near completion by 2010.

UR - https://www.scopus.com/pages/publications/85208182111

U2 - 10.3835/plantgenome2008.08.0005

DO - 10.3835/plantgenome2008.08.0005

M3 - Article

AN - SCOPUS:85208182111

SN - 1940-3372

VL - 2

JO - Plant Genome

JF - Plant Genome

IS - 1

M1 - TPG2PLANTGENOME2008080005

ER -

A Snapshot of the Emerging Tomato Genome Sequence

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