Abstract
An integrated map for lettuce comprising of 2,744 markers was developed from seven intra- and inter-specific mapping populations. A total of 560 markers that segregated in two or more populations were used to align the individual maps. 2,073 AFLP, 152 RFLP, 130 SSR, and 360 RAPD as well as 29 other markers were assigned to nine chromosomal linkage groups that spanned a total of 1,505 cM and ranged from 136 to 238 cM. The maximum interval between markers in the integrated map is 43 cM and the mean interval is 0.7 cM. The majority of markers segregated close to Mendelian expectations in the intra-specific crosses. In the two L. saligna × L. sativa inter-specific crosses, a total of 155 and 116 markers in 13 regions exhibited significant segregation distortion. Data visualization tools were developed to curate, display and query the data. The integrated map provides a framework for mapping ESTs in one core mapping population relative to phenotypes that segregate in other populations. It also provides large numbers of markers for marker assisted selection, candidate gene identification, and studies of genome evolution in the Compositae.
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Anonymous (2004) http://usda.mannlib.cornell.edu/usda/ers/Lettuce/tab61wrldprodn.xls; http://usda.mannlib.cornell.edu/reports/nassr/fruit/pvg-bban/vgan0105.pdf
Chetelat RT, Meglic V, Cisneros P (2000) A genetic map of tomato based on a BC1 Lycopersicon esculentum x Solanum lycopersicoides reveals overall synteny but suppressed recombination between these homeologous genomes. Genetics 154:857–867
Crute IR, Dickinson CH (1976) Behaviour of Bremia lactucae on cultivars of Lactuca sativa and other composites. Ann Appl Biol 82:433
De Vries IM (1990) Crossing experiments of lettuce cultivars and species (Lactuca sect. Lactuca, Compositae). Plant Syst Evol 171:233–248
De Vries IM (1997) Origin and domestication of Lactuca sativa L. Genet Resources Crop Evol 44:165–174
Dekkers JCM, Hospital F (2002) The use of molecular genetics in the improvement of agricultural populations. Nat Rev Genet 3:22–32
Dooner HK, Martínez-Férez IM (1997) Recombination occurs uniformly within the bronze gene, a meiotic recombination hotspot in the maize genome. Plant Cell 9:1633–1646
Gedil MA, Wye C, Berry S, Segers B, Peleman J, Jones R, Leon A, Slabaugh MB, Knapp S (2001) An integrated restriction fragment length polymorphism––amplified fragment length polymorphism linkage map for cultivated sunflower. Genome 44:213–221
Gupta PK, Rustgi S (2004) Molecular markers from the transcribed/expressed region of the genome in higher plants. Funct Integr Genomics 4:139–162
Haanstra JPW, Wye C, Verbakel H, Meijer-Dekens F, van denBerg P, Odinot P, van Heusden AW, Tanksley S, Lindhout P, Peleman J (1999) An integrated high-density RFLP-AFLP map of tomato based on two Lycopersicon esculentum x L. pennellii F2 populations. Theor Appl Genet 99:254–271
Jansen R, Geerlings H, van Oeveren AJ, van Schaik RC (2001) A comment on codominant scoring of AFLP markers. Genetics 158:925–926
Jenczewski E, Gherardi M, Bonnin I, Prosperi JM, Olivieri I, Huguet T (1997) Insight on segregation distortions in two intraspecific crosses between annual species of Medicago (Leguminosae). Theor Appl Genet 94:682–691
Jeuken MJW, Lindhout P (2004) The development of lettuce backcross inbred lines (BILs) for exploitation of the Lactuca saligna (wild lettuce) germplasm. Theor Appl Genet 109:394–401
Jeuken M, van Wijk R, Peleman J, Lindhout P (2001) An integrated interspecific AFLP map of lettuce (Lactuca) based on two L. sativa x L. saligna F2 populations. Theor Appl Genet 103:638–647
Johnson WC, Jackson LE, Ochoa O, Peleman J, van Wijk R, St.Clair DA, Michelmore RW (2000) A shallow-rooted crop and its wild progenitor differ at loci determining root architecture and deep soil water exploitation. Theor Appl Genet 101:1066–1073
Kesseli R, Ochoa O, Michelmore R (1991) Variation at RFLP loci in Lactuca sps. and origin of cultivated lettuce (L. sativa). Genome 34:430–436
Kesseli RV, Paran I, Michelmore RW (1994) Analysis of a detailed genetic linkage map of Lactuca sativa (lettuce) constructed from RFLP and RAPD markers. Genetics 136:1435–1446
Koopman WJM, Guetta E, van de Wiel CCM, Vosman B, van den Berg RG (1998) Phylogenetic relationships among Lactuca (Asteraceae) species and related genera based on ITS-1 DNA sequences. Am J Bot 85:1517–1530
Kosambi DD (1943) The estimation of map distances from recombination values. Ann Eugen 12:172–175
Lefebvre V, Pflieger S, Thabuis A, Caranta C, Blattes A, Chauvet JC, Daubeze AM, Palloix A (2002) Towards the saturation of the pepper linkage map by alignment of three intraspecific maps including known-function genes. Genome 45:839–854
Lombard V, Delourme R (2001) A consensus linkage map for rapeseed (Brassica napus L.): construction and integration of three individual maps from DH populations. Theor Appl Genet 103:491–507
Mayerhofer R, Wilde K, Mayerhofer M, Lydiate D, Bansal VK, Good AG, Parkin IAP (2005) Complexities of chromosome landing in a highly duplicated genome: toward map-based cloning of a gene controlling blackleg resistance in Brassica napus. Genetics 171:1977–1988
Michelmore RW, Paran I, Kesseli RV (1991) Identification of markers linked to disease-resistance genes by bulked segregant analysis: A rapid method to detect markers in specific genomic regions by using segregating popultions. Proc Natl Acad Sci USA 88:9828–9832
Moyle LC, Graham EB (2006) Genome-wide associations between hybrid sterility QTL and marker transmission ratio distortion. Mol Biol Evol 23:973–980
Opperman R, Emmanuel E, Levy AA (2004) The effect of sequence divergence on recombination between direct repeats in Arabidopsis. Genetics 168:2207–2215
Paterson AH, Bowers JE, Burow MD, Draye X, Elsik CG, Jiang CX, Katsar CS, Lan TH, Lin YR, Ming RG, Wright RJ (2000) Comparative genomics of plant chromosomes. Plant Cell 12:1523–1539
Paran I, van der Voort JR, Lefebvre V, Jahn M, Landry L, van Schhriek M, Tanyolac B, Caranta C, Ben Chaim A, Livingstone K, Palloix A, Peleman J (2004) An integrated genetic linkage map of pepper (Capsicum spp.). Mol Breed 13:251–261
Peleman J, van Wijk R, van Oeveren J, van Schaik R (2000) Linkage map integration: an integrated genetic map of Zea mays L. Poster P472. Plant and animal genome conference VIII, San Diego, California USA
Périn C, Hagen LS, De Conto V, Katzir N, Danin-Poleg Y, Portnoy V, Baudracco-Arnas S, Chadoeuf J, Dogimont C, Pitrat M (2002) A reference map of Cucumis melo based on two recombinant inbred line populations. Theor Appl Genet 104:1017–1034
Peters JL, Cnudde F, Gerats T (2003) Forward genetics and map-based cloning approaches. Trends Pl Sci 8:484–491
Qi X, Stam P, Lindhout P (1996) Comparison and integration of four barley RFLP-maps. Genome 39:379–394
Rick CM (1966) Abortion of male and female gametes in the tomato determined by allelic interaction. Genetics 53:85–96
Rouppe van der Voort JNAM, van Zandvoort HJ, van Eck HJ, Folkertsma RT, Hutten RCB, Draaistra J, Gommers FJ, Jacobsen E, Helder J, Bakker J (1997) Use of allele specificity of comigrating AFLP markers to align genetic maps from different potato genotypes. Mol Gen Genet 255:438–447
Salvi S, Tuberosa R (2005) To clone or not to clone plant QTLs: present and future challenges. Trends Plant Sci 10:297–304
Sano Y (1990) The genetic nature of gamete eliminator in rice. Genetics 125:183–191
Schnable PS, Hsia AP, Nikolau BJ (1998) Genetic recombination in plants. Curr Opin Plant Biol 1:123–129
Song QJ, Marek LF, Shoemaker RC, Lark KG, Concibido VC, Delannay X, Specht JE, Cregan PB (2004) A new integrated genetic linkage map of the soybean. Theor Appl Genet 109:122–128
Stam P (1993) Construction of integrated genetic-linkage maps by means of a new computer package–Joinmap. Plant J 3:739–744
Stam P (1995) JoinMap 2.0 deals with all types of plant mapping populations. Plant Genome III Abstracts, World Wide Web site: http://www.int-pag.org
Sweigart AL, Fishman L, Willis JH (2006) A simple genetic incompatibility causes hybrid male sterility in Mimulus. Genetics 172:2465–2479
Syed NH, Sorensen AP, Antonise R, van de Wiel C, van der Linden CG, van’t Westende W, Hooftman DA, den Nijs HC, Flavell AJ (2006) A detailed linkage map of lettuce based on SSAP, AFLP and NBS markers. Theor Appl Genet 112:517–527
Taylor DR, Ingvarsson PK (2003) Common features of segregation distortion in plants and animals. Genetica 117:27–35
Timms L, Jimenez R, Chase M, Lavelle D, McHale L, Kozik A, Lai Z, Heesacker A, Knapp S, Rieseberg L, Michelmore R, Kesseli R (2006) Analyses of synteny between Arabidopsis thaliana and species in the Asteraceae reveal a complex network of small syntenic segments and major chromosomal rearrangements. Genetics 173:2227–2235
van Os H, Andrzejewski S, Bakker E, Barrena I, Bryan GJ, Caromel B, Ghareeb B, Isidore E, de Jong W, van Koert P, Lefebvre V, Milbourne D, Ritter E, van der Voort JNAMR, Rousselle-Bourgeois F, van Vliet J, Waugh R, Visser RGF, Bakker J, van Eck HJ (2006) Construction of a 10,000-marker ultradense genetic recombination map of potato: providing a framework for accelerated gene isolation and a genomewide physical map. Genetics 173:1075–1087
Vos P, Hogers R, Bleeker M, Reijans M, Vandelee T, Hornes M, Frijters A, Pot J, Peleman J, Kuiper M, Zabeau M (1995) AFLP––a new technique for DNA-fingerprinting. Nucleic Acids Res 23:4407–4414
Waycott W, Fort SB, Ryder EJ, Michelmore RW (1999) Mapping morphological genes relative to molecular markers in lettuce (Lactuca sativa L.). Heredity 82:245–251
Witsenboer H, Vogel J, Michelmore RW (1997) Identification, genetic localization, and allelic diversity of selectively amplified microsatellite polymorphic loci in lettuce and wild relatives (Lactuca spp.). Genome 40:923–936
Zamir D (2001) Improving plant breeding with exotic libraries. Nat Rev Genet 2:983–989
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Truco, M.J., Antonise, R., Lavelle, D. et al. A high-density, integrated genetic linkage map of lettuce (Lactuca spp.). Theor Appl Genet 115, 735–746 (2007). https://doi.org/10.1007/s00122-007-0599-9
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DOI: https://doi.org/10.1007/s00122-007-0599-9