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L. Mueller, Teri Solow, N. Taylor, Beth Skwarecki, Robert Buels, J. Binns, Chenwei Lin, Mark Wright, R. Ahrens, Y. Wang, Evan Herbst, E. Keyder, Naama Menda, D. Zamir, S. Tanksley (2005)
The SOL Genomics Network. A Comparative Resource for Solanaceae Biology and Beyond1Plant Physiology, 138
Chenwei Lin, L. Mueller, J. Carthy, D. Crouzillat, V. Pétiard, S. Tanksley (2005)
Coffee and tomato share common gene repertoires as revealed by deep sequencing of seed and cherry transcriptsTAG. Theoretical and Applied Genetics. Theoretische Und Angewandte Genetik, 112
A. Kilian, J. Chen, F. Han, B. Steffenson, A. Kleinhofs (2004)
Towards map-based cloning of the barley stem rust resistance genes Rpg1 and rpg4 using rice as an intergenomic cloning vehiclePlant Molecular Biology, 35
N. Wikström, V. Savolainen, M. Chase (2001)
Evolution of the angiosperms: calibrating the family treeProceedings of the Royal Society of London. Series B: Biological Sciences, 268
D. Grant, P. Cregan, R. Shoemaker (2000)
Genome organization in dicots: genome duplication in Arabidopsis and synteny between soybean and Arabidopsis.Proceedings of the National Academy of Sciences of the United States of America, 97 8
JW Ooijen (2006)
JoinMap®4.0 software for the calculation of genetic linkage maps in experimental populations
J. Van, Ooijen Wageningen, Kyazma V (2001)
Software for the calculation of genetic linkage maps
Zhanyou Xu, R. Kohel, G. Song, Jaemin Cho, Jing Yu, Shuxun Yu, J. Tomkins, John Yu (2008)
An integrated genetic and physical map of homoeologous chromosomes 12 and 26 in Upland cotton (G. hirsutum L.)BMC Genomics, 9
P. Stam (1993)
Construction of integrated genetic linkage maps by means of a new computer package: JOINMAP.Plant Journal, 3
H. Ku, T. Vision, Jiping Liu, S. Tanksley (2000)
Comparing sequenced segments of the tomato and Arabidopsis genomes: large-scale duplication followed by selective gene loss creates a network of synteny.Proceedings of the National Academy of Sciences of the United States of America, 97 16
L. Mueller, R. Lankhorst, S. Tanksley, J. Giovannoni, Ruth White, J. Vrebalov, Z. Fei, J. Eck, Robert Buels, A. Mills, Naama Menda, I. Tecle, A. Bombarely, S. Stack, S. Royer, Song-Bin Chang, L. Shearer, Byung-Dong Kim, Sung-Hwan Jo, Cheol-Goo Hur, D. Choi, Changbao Li, Jiuhai Zhao, Hongling Jiang, Y. Geng, Yuanyuan Dai, Huajie Fan, Jinfeng Chen, Fei Lu, Jinfeng Shi, Shouhong Sun, Jianjun Chen, Xiaohui Yang, Chen Lu, Mingsheng Chen, Zhukuan Cheng, Chuanyou Li, H. Ling, Yongbiao Xue, Ying Wang, G. Seymour, G. Bishop, G. Bryan, J. Rogers, S. Sims, S. Butcher, Daniel Buchan, J. Abbott, H. Beasley, C. Nicholson, C. Riddle, S. Humphray, K. McLaren, S. Mathur, S. Vyas, A. Solanke, Rahul Kumar, Vikrant Gupta, A. Sharma, P. Khurana, J. Khurana, A. Tyagi, Sarita, Parul Chowdhury, S. Shridhar, D. Chattopadhyay, A. Pandit, Pradeep Singh, Ajay Kumar, Rekha Dixit, Archana Singh, S. Praveen, V. Dalal, M. Yadav, I. Ghazi, K. Gaikwad, T. Sharma, T. Mohapatra, N. Singh, D. Szinay, H. Jong, S. Peters, M. Staveren, E. Datema, M. Fiers, R. Ham, P. Lindhout, Murielle Philippot, P. Frasse, F. Regad, M. Zouine, M. Bouzayen, E. Asamizu, Shusei Sato, H. Fukuoka, S. Tabata, D. Shibata, M. Botella, M. Perez-Alonso, V. Fernández-Pedrosa, Sonia Osorio, A. Mico, A. Granell, Zhonghua Zhang, Jun He, Sanwen Huang, Yong-chen Du, D. Qu, Long-Xiang Liu, Dongyuan Liu, Jun Wang, Z. Ye, Wencai Yang, Guoping Wang, A. Vezzi, S. Todesco, G. Valle, G. Falcone, M. Pietrella, G. Giuliano, S. Grandillo, Alessandra Traini, N. D’Agostino, M. Chiusano, M. Ercolano, A. Barone, L. Frusciante, H. Schoof, Anika Jöcker, R. Bruggmann, M. Spannagl, K. Mayer, R. Guigó, F. Camara, S. Rombauts, Jeffrey Fawcett, Y. Peer, S. Knapp, D. Zamir, W. Stiekema (2009)
A Snapshot of the Emerging Tomato Genome SequenceThe Plant Genome, 2
William Wilson, Sandra Harrington, W. Woodman, Michael Lee, M. Sorrells, S. McCouch (1999)
Inferences on the genome structure of progenitor maize through comparative analysis of rice, maize and the domesticated panicoids.Genetics, 153 1
Feinan Wu, L. Mueller, D. Crouzillat, V. Pétiard, S. Tanksley (2006)
Combining Bioinformatics and Phylogenetics to Identify Large Sets of Single-Copy Orthologous Genes (COSII) for Comparative, Evolutionary and Systematic Studies: A Test Case in the Euasterid Plant CladeGenetics, 174
Feinan Wu, N. Eannetta, Yimin Xu, S. Tanksley (2009)
A detailed synteny map of the eggplant genome based on conserved ortholog set II (COSII) markersTheoretical and Applied Genetics, 118
Anne-Marie Dodeweerd, Caroline Hall, E. Bent, Samantha Johnson, M. Bevan, I. Bancroft (1999)
Identification and analysis of homoeologous segments of the genomes of rice and Arabidopsis thaliana.Genome, 42 5
M. Bevan, Sean Walsh (2005)
The Arabidopsis genome: a foundation for plant research.Genome research, 15 12
E. Dirlewanger, E. Graziano, T. Joobeur, F. Garriga-Calderé, P. Cosson, W. Howad, P. Arús (2004)
Comparative mapping and marker-assisted selection in Rosaceae fruit crops.Proceedings of the National Academy of Sciences of the United States of America, 101 26
S. Altschul, Thomas Madden, A. Schäffer, Jinghui Zhang, Zheng Zhang, W. Miller, D. Lipman (1997)
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs.Nucleic acids research, 25 17
Lee Timms, Rosmery Jimenez, M. Chase, D. Lavelle, Leah McHale, A. Kozik, Zhao Lai, Adam Heesacker, S. Knapp, L. Rieseberg, R. Michelmore, R. Kesseli (2006)
Analyses of Synteny Between Arabidopsis thaliana and Species in the Asteraceae Reveal a Complex Network of Small Syntenic Segments and Major Chromosomal RearrangementsGenetics, 173
R. Guyot, Marion Mare, Véronique Viader, P. Hamon, Olivier Coriton, José Bustamante-Porras, V. Poncet, C. Campa, Serge Hamon, A. Kochko, J. Bustamante, Poncet-Valerie Valérie, Campa-Claudine Claudine, Fr Serge (2003)
Bmc Plant Biology
R. Voorrips (2002)
MapChart: software for the graphical presentation of linkage maps and QTLs.The Journal of heredity, 93 1
K. Mysore, R. Tuori, G. Martin (2001)
Arabidopsis genome sequence as a tool for functional genomics in tomatoGenome Biology, 2
S. Tanksley, M. Ganal, J. Prince, M. Vicente, M. Bonierbale, P. Broun, T. Fulton, J. Giovannoni, S. Grandillo, G. Martin (1992)
High density molecular linkage maps of the tomato and potato genomes.Genetics, 132 4
K. Livingstone, V. Lackney, J. Blauth, Rik Wijk, M. Jahn (1999)
Genome mapping in capsicum and the evolution of genome structure in the solanaceae.Genetics, 152 3
L. Mueller, S. Tanksley, J. Giovannoni, J. Eck, S. Stack, D. Choi, Byung Kim, Mingsheng Chen, Zhukuan Cheng, Chuanyou Li, H. Ling, Yongbiao Xue, G. Seymour, G. Bishop, G. Bryan, Rameshwar Sharma, J. Khurana, A. Tyagi, D. Chattopadhyay, N. Singh, W. Stiekema, P. Lindhout, T. Jesse, R. Lankhorst, M. Bouzayen, D. Shibata, S. Tabata, A. Granell, M. Botella, G. Giuliano, L. Frusciante, M. Causse, D. Zamir (2005)
The Tomato Sequencing Project, the First Cornerstone of the International Solanaceae Project (SOL)Comparative and Functional Genomics, 6
L. Mahé, M. Combes, P. Lashermes (2007)
Comparison between a coffee single copy chromosomal region and Arabidopsis duplicated counterparts evidenced high level synteny between the coffee genome and the ancestral Arabidopsis genomePlant Molecular Biology, 64
(2009)
Coffee second only to oil? Tea Coffee Trade J
M Pendergrast (2009)
Coffee second only to oil?Tea Coffee Trade J, 181
Feinan Wu, N. Eannetta, Yimin Xu, J. Plieske, M. Ganal, C. Pozzi, Nicolas Bakaher, S. Tanksley (2010)
COSII genetic maps of two diploid Nicotiana species provide a detailed picture of synteny with tomato and insights into chromosome evolution in tetraploid N. tabacumTheoretical and Applied Genetics, 120
R Guyot, M Mare, V Viader, P Hamon, O Coriton, J Bustamante-Porras, V Poncet, C Campa, S Hamon, A Kochko (2009)
Microcollinearity in na ethylene receptor coding gene region of the Coffea canephora genome is extensively conserved with Vitis vinifera and other distantdicotyledonous sequenced genomesBMC Plant Biol, 9
C Lin, LA Mueller, J McCarthy, D Crouzillat, V Pétiard, SD Tanksley (2005)
Coffee and tomato share common gene repertoires as revealed by deep sequencing of seed and cherry transcriptsTheor Appl Genet, 112
Feinan Wu, N. Eannetta, Yimin Xu, R. Durrett, M. Mazourek, M. Jahn, S. Tanksley (2009)
A COSII genetic map of the pepper genome provides a detailed picture of synteny with tomato and new insights into recent chromosome evolution in the genus CapsicumTheoretical and Applied Genetics, 118
Ying Wang, Adam Diehl, Feinan Wu, J. Vrebalov, J. Giovannoni, A. Siepel, S. Tanksley (2008)
Sequencing and Comparative Analysis of a Conserved Syntenic Segment in the SolanaceaeGenetics, 180
V. Poncet, Myriam Rondeau, C. Tranchant, A. Cayrel, S. Hamon, A. Kochko, P. Hamon (2006)
SSR mining in coffee tree EST databases: potential use of EST–SSRs as markers for the Coffea genusMolecular Genetics and Genomics, 276
A. Davis, R. Govaerts, D. Bridson, P. Stoffelen (2006)
An annotated taxonomic conspectus of the genus Coffea (Rubiaceae)Botanical Journal of the Linnean Society, 152
Srinivasachary, M. Dida, M. Gale, K. Devos (2007)
Comparative analyses reveal high levels of conserved colinearity between the finger millet and rice genomesTheoretical and Applied Genetics, 115
C. Gomez, S. Dussert, P. Hamon, S. Hamon, A. Kochko, V. Poncet (2009)
Current genetic differentiation of Coffea canephora Pierre ex A. Froehn in the Guineo-Congolian African zone: cumulative impact of ancient climatic changes and recent human activitiesBMC Evolutionary Biology, 9
Tomato (Solanum lycopersicum) and coffee (Coffea canephora) belong to the sister families Solanaceae and Rubiaceae, respectively. We report herein the mapping of a common set of 257 Conserved Ortholog Set II genes in the genomes of both species. The mapped markers are well distributed across both genomes allowing the first syntenic comparison between species from these two families. The majority (75%) of the synteny blocks are short (<4 cM); however, some extend up to 50 cM. In an effort to further characterize the synteny between these two genomes, we took advantage of the available sequence for the tomato genome to show that tomato chromosome 7 is syntenic to half of the two coffee linkage groups E and F with the putative break point in tomato localized to the boundary of the heterochromatin and euchromatin on the long arm. In addition to the new insight on genome conservation and evolution between the plant families Solanaceae and Rubiaceae, the comparative maps presented herein provide a translational tool by which coffee researchers may take benefit of DNA sequence and genetic information from tomato and vice versa. It is thus expected that these comparative genome information will help to facilitate and expedite genetic and genomic research in coffee.
Tree Genetics & Genomes – Springer Journals
Published: Feb 17, 2010
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