Abstract
We report herein the mapping of 115 PCR-based orthologous markers, including 110 conserved ortholog set or COSII markers, on the reference RFLP map of eggplant. The result permitted inference of a detailed syntenic relationship between the eggplant and tomato genomes. Further, the position of additional 522 COSII markers was inferred in the eggplant map via eggplant-tomato synteny, bringing the total number of markers in the eggplant genome to 869. Since divergence from their last common ancestor approximately 12 million years ago, the eggplant and tomato genomes have become differentiated by a minimum number of 24 inversions and 5 chromosomal translocations, as well as a number of single gene transpositions possibly triggered by transposable elements. Nevertheless, the two genomes share 37 conserved syntenic segments (CSSs) within which gene/marker order is well preserved. The high-resolution COSII synteny map described herein provides a platform for cross-reference of genetic and genomic information (including the tomato genome sequence) between eggplant and tomato and therefore will facilitate both applied and basic research in eggplant.
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References
Daunay MC, Janick J (2007) History and iconography of eggplant. Chron Horticult 47:16–22
Daunay MC, Dalmon A, Lester RN (1999) Management of a collection of Solanum species for eggplant (Solanum melongena) breeding purposes. In: Nee M, Symon DE, Lester RN, Jessop JP (eds) Solanaceae IV. Royal Botanic Gardens/Kew, London, pp 369–383
Daunay MC, Lester RN, Gebhardt G, Hennart JW, Jahn M, Frary A, Doganlar S (2001) Genetic resources of eggplant (Solanum melongena L.) and allied species: a new challenge for molecular geneticists and eggplant breeders. In: Van den berg RG, Barendse GW, Mariani C (eds) Solanaceae V. Nijmegen University Press, Nijmegen, pp 251–274
Doganlar S, Frary A, Daunay MC, Lester RN, Tanksley SD (2002a) A comparative genetic linkage map of eggplant (Solanum melongena) and its implications for genome evolution in the Solanaceae. Genetics 161:1697–1711
Doganlar S, Frary A, Daunay MC, Lester RN, Tanksley SD (2002b) Conservation of gene function in the solanaceae as revealed by comparative mapping of domestication traits in eggplant. Genetics 161:1713–1726
Frary A, Xu YM, Liu JP, Mitchell S, Tedeschi E, Tanksley S (2005) Development of a set of PCR-based anchor markers encompassing the tomato genome and evaluation of their usefulness for genetics and breeding experiments. Theor Appl Genet 111:291–312
Fulton TM, Van der Hoeven R, Eannetta NT, Tanksley SD (2002) Identification, analysis, and utilization of conserved ortholog set markers for comparative genomics in higher plants. Plant Cell 14:1457–1467
Konieczny A, Ausubel FM (1993) A procedure for mapping Arabidopsis mutations using codominant ecotype-specific pcr-based markers. Plant J 4:403–410
Kosambi DD (1944) The estimation of map distances from recombination values. Ann Eugen 12:172–175
Lander ES, Green P, Abrahamson J, Barlow A, Daly MJ, Lincoln SE, Newburg L (1987) MAPMAKER: an interactive computer package for constructing primary genetic linkage maps of experimental and natural populations. Genomics 1:174–181
Nadeau JH, Taylor BA (1984) Lengths of chromosomal segments conserved since divergence of man and mouse. Proc Natl Acad Sci U S A 81:814–818
Neff MM, Neff JD, Chory J, Pepper AE (1998) dCAPS, a simple technique for the genetic analysis of single nucleotide polymorphisms: experimental applications in Arabidopsis thaliana genetics. Plant J 14:387–392
Neff MM, Turk E, Kalishman M (2002) Web-based primer design for single nucleotide polymorphism analysis. Trends Genet 18:613–615
Tanksley SD, Bernatzky R, Lapitan NL, Prince JP (1988) Conservation of gene repertoire but not gene order in pepper and tomato. Proc Natl Acad Sci USA 85:6419–6423
Tanksley SD, Ganal MW, Prince JP, Devicente MC, Bonierbale MW, Broun P, Fulton TM, Giovannoni JJ, Grandillo S, Martin GB, Messeguer R, Miller JC, Miller L, Paterson AH, Pineda O, Roder MS, Wing RA, Wu W, Young ND (1992) High-density molecular linkage maps of the tomato and potato genomes. Genetics 132:1141–1160
Wu FN, Mueller LA, Crouzillat D, Petiard V, Tanksley SD (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 clade. Genetics 174:1407–1420
Wu FN, Eannetta NT, Xu YM, Durrett R, Mazourek M, Jahn M, Tanksley S. A high density COSII map of the pepper genome provides a detailed picture of Synteny with tomato and new insights into recent chromosome evolution in the genus Capsicum. (submitted)
Acknowledgments
We thank Dr. Anne Frary and Dr. Sami Doganlar (Izmir Institute of Technology, Urla, Izmir Turkey) for providing genomic DNA and genotype data of the mapping population. We also thank Dr. Lukas Muller (Boyce Thompson Institute for Plant Research, Ithaca, NY, USA) and his bioinformatics group for hosting the maps and the marker data in Solanaceae Genomics Network (http://www.sgn.cornell.edu). This work was supported by NSF Plant Genome Award DBI-0421634 (ST).
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Communicated by M. Xu.
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Wu, F., Eannetta, N.T., Xu, Y. et al. A detailed synteny map of the eggplant genome based on conserved ortholog set II (COSII) markers. Theor Appl Genet 118, 927–935 (2009). https://doi.org/10.1007/s00122-008-0950-9
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DOI: https://doi.org/10.1007/s00122-008-0950-9