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Extensive macrosynteny between Medicago truncatula and Lens culinaris ssp. culinaris

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Abstract

The first predominantly gene-based genetic linkage map of lentil (Lens culinaris ssp. culinaris) was constructed using an F5 population developed from a cross between the cultivars Digger (ILL5722) and Northfield (ILL5588) using 79 intron-targeted amplified polymorphic (ITAP) and 18 genomic simple sequence repeat (SSR) markers. Linkage analysis revealed seven linkage groups (LGs) comprised of 5–25 markers that varied in length from 80.2 to 274.6 cM. The genome map spanned a total length of 928.4 cM. Clear evidence of a simple and direct macrosyntenic relationship between lentil and Medicago truncatula was observed. Sixty-six out of the 71 gene-based markers, which were previously assigned to M. truncatula genetic and physical maps, were found in regions syntenic between the Lens c. ssp. culinaris and M. truncatula genomes. However, there was evidence of moderate chromosomal rearrangements which may account for the difference in chromosome numbers between these two legume species. Eighteen common SSR markers were used to connect the current map with the most comprehensive and recent map that exists for lentil, providing the syntenic context of four important domestication traits. The composite map presented, anchored with orthologous markers mapped in M. truncatula, provides a strong foundation for the future use of genomic and genetic information in lentil genetic analysis and breeding.

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References

  • Armstead IP, Skot L, Turner LB, Skot K, Donnison IS, Humphreys MO, King IP (2005) Identification of perennial ryegrass (Lolium perenne (L.)) and meadow fescue (Festuca pratensis (Huds.)) candidate orthologous sequences to the rice Hd1(Se1) and barley HvCO1 CONSTANS-like genes through comparative mapping and microsynteny. New Phytol 167:239–247

    Article  PubMed  CAS  Google Scholar 

  • Arumuganathan K, Earle ED (1991) Nuclear DNA content of some important plant species. Plant Mol Biol 9:208–218

    CAS  Google Scholar 

  • Aubert G, Morin J, Jacquin F, Loridon K, Quillet M, Petit A, Rameau C, Lejeune-Henaut I, Huguet T, Burstin J (2006) Functional mapping in pea, as an aid to the candidate gene selection and for investigating synteny with the model legume Medicago truncatula. Theor Appl Genet 112:1024–1041

    Article  PubMed  CAS  Google Scholar 

  • Barzen E, Mechelke W, Ritter E, Schulte-Kappert E, Salamini F (1995) An extended map of the sugar beet genome containing RFLP and RFLP loci. Theor Appl Genet 90:189–193

    Article  CAS  Google Scholar 

  • Berry ST, Leon AJ, Hanfrey CC, Challis P, Burkholz A, Barnes SJ, Rufener GK, Lee M, Caligari PDS (1995) Molecular marker analysis of Helianthus annuus L. 2. Construction of an RFLP linkage map for cultivated sunflower. Theor Appl Genet 91:195–199

    Article  CAS  Google Scholar 

  • Börner A, Korzun V, Worland AJ (1998) Comparative genetic mapping of loci effecting plant height and development in cereals. Euphytica 100:245–248

    Article  Google Scholar 

  • Brouwer JB (1995) Lens culinaris (lentil) cv. Digger. Aust J Exp Agric 35:116

    Article  Google Scholar 

  • Choi H-K, Kim D, Uhm T, Limpens E, Lim H, Mun J-H, Kalo P, Penmetsa RV, Seres A, Kulikova O, Roe BA, Bisseling T, Kiss GB, Cook DR (2004a) A sequence-based genetic map of Medicago truncatula and comparison of marker colinearity with M. sativa. Genetics 166:1463–1502

    Article  CAS  Google Scholar 

  • Choi H-K, Mun J-H, Kim D-J, Zhu H, Baek J-M, Mudge J, Roe B, Ellis N, Doyle J, Kiss GB, Young ND, Cook DR (2004b) Estimating genome conservation between crop and model legume species. PNAS 101:15289–15294

    Article  CAS  Google Scholar 

  • Choi HK, Luckow MA, Doyle J, Cook DR (2006) Development of nuclear gene-derived molecular markers linked to legume genetic maps. Mol Genet Genomics 276:56–70

    Article  PubMed  CAS  Google Scholar 

  • Delye C, Calmes E, Matejicek A (2002) SNP markers for black-grass (Alopecurus myosuroides Huds.) genotypes resistant to acetyl CoA-carboxylase inhibiting herbicides. Theor Appl Genet 104:1114–1120

    Article  PubMed  CAS  Google Scholar 

  • Dirlewanger E, Graziano E, Joobeur T, Garriga-Caldere F, Cosson P, Howad W, Arus P (2004) Comparative mapping and marker-assisted selection in Rosaceae fruit crops. PNAS 101:9891–9896

    Article  PubMed  CAS  Google Scholar 

  • Durán Y, Fratini R, Garcia P, Perez de la Vega M (2004) An intersubspecific genetic map of Lens. Theor Appl Genet 108:1265–1273

    Article  PubMed  CAS  Google Scholar 

  • Ellwood SR, D’Souza NK, Kamphuis LG, Burgess TI, Nair RM, Oliver RP (2006) SSR analysis of the Medicago truncatula SARDI core collection reveals substantial diversity and unusual genotype dispersal throughout the Mediterranean basin. Theor Appl Genet 112:977–983

    Article  PubMed  CAS  Google Scholar 

  • Erskine W (1996) Lessons for breeders from land races of lentil. Euphytica 93:107–112

    Article  Google Scholar 

  • Eujayl I, Baum M, Erskine W, Pehu E, Muehlbauer FJ (1997) The use of RAPD markers for lentil genetic mapping and the evaluation of distorted F2 segregation. Euphytica 96:405–412

    Article  CAS  Google Scholar 

  • Ford R, Pang ECK, Taylor PWJ (1999) Genetics of resistance to ascochyta blight (Ascochyta lentis) of lentil and identification of closely linked molecular markers. Theor Appl Genet 98:93–98

    Article  CAS  Google Scholar 

  • Gualtieri G, Kulikova O, Limpens E, Kim D-J, Cook DR, Bisseling T, Geurts R (2002) Microsynteny between pea and Medicago truncatula in the SYM2 region. Plant Mol Biol 50:225–235

    Article  PubMed  CAS  Google Scholar 

  • Hamwieh A, Udupa SM, Choumane W, Sarker A, Dreyer F, Jung C, Baum M (2005) A genetic linkage map of Lens sp. based on microsatellite and AFLP markers and the localization of fusarium vascular wilt resistance. Theor Appl Genet 110:669–677

    Article  PubMed  CAS  Google Scholar 

  • Havey MH, Muehlbauer FJ (1989) Linkages between restriction fragment length, isozyme, and morphological markers in lentil. Theor Appl Genet 77:395–401

    Article  CAS  Google Scholar 

  • Huang S, van der Vossen EA, Kuang H, Vleeshouwers VG, Zhang N, Borm TJ, van Eck HJ, Baker B, Jacobsen E, Visser RG (2005) Comparative genomics enabled the isolation of the R3a late blight resistance gene in potato. Plant J 42:251–261

    Article  PubMed  CAS  Google Scholar 

  • Humphry M, Konduri V, Lambrides C, Magner T, McIntyre C, Aitken E, Liu C (2002) Development of a mungbean (Vigna radiata) RFLP linkage map and its comparison with lablab (Lablab purpureus) reveals a high level of colinearity between the two genomes. Theor Appl Genet 105:160–166

    Article  PubMed  CAS  Google Scholar 

  • Jenczewski E, Gherardi M, Bonnin I, Prosperi J, 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

    Article  Google Scholar 

  • Kalo P, Seres A, Taylor S, Jakab J, Kevei Z, Kereszt A, Endre G, Ellis T, Kiss G (2004) Comparative mapping between Medicago sativa and Pisum sativum. Mol Genet Genomics 272:235–246

    Article  PubMed  CAS  Google Scholar 

  • King GJ (2002) Through a genome, darkly: comparative analysis of plant chromosomal DNA. Plant Mol Biol 48:5–20

    Article  PubMed  CAS  Google Scholar 

  • Laucou V, Haurogné K, Ellis N, Rameau C (1998) Genetic mapping in pea. 1. RAPD-based genetic linkage map of Pisum sativum. Theor Appl Genet 97:905–915

    Article  CAS  Google Scholar 

  • Mammadov J, Steffenson B, Maroof M (2005) High-resolution mapping of the barley leaf rust resistance gene Rph5 using barley expressed sequence tags (ESTs) and synteny with rice. Theor Appl Genet 111:1651–1660

    Article  PubMed  CAS  Google Scholar 

  • Menancio-Hautea D, Fatokun CA, Kumar L, Danesh D, Young ND (1993) Comparative analysis of mungbean (Vigna radiata (L.) Wilczek) and cowpea (V. unguiculate (L.) Walpers) using RFLP mapping data. Theor Appl Genet 86:797–810

    Article  CAS  Google Scholar 

  • Muehlbauer FJ, Cho S, Sarker A, McPhee KE, Coyne CJ, Rajesh PN, Ford R (2006) Application of biotechnology in breeding lentil for resistance to biotic and abiotic stress. Euphytica 147:149–165

    Article  Google Scholar 

  • Nelson M, Phan H, Ellwood S, Moolhuijzen P, Hane J, Williams A, O’Lone C, Fosu-Nyarko J, Scobie M, Cakir M, Jones M, Bellgard M, Książkiewicz M, Wolko B, Barker S, Oliver R, Cowling W (2006) The first gene-based map of Lupinus angustifolius L.-location of domestication genes and conserved synteny with Medicago truncatula. Theor Appl Genet 113:225–238

    Article  PubMed  CAS  Google Scholar 

  • Paran I, Goldman I, Tanksley SD, Zamir D (1995) Recombinant inbred lines for genetic mapping in tomato. Theor Appl Genet 90:542–548

    Article  CAS  Google Scholar 

  • Paterson AH, Bowers JE, Burow MD, Draye X, Elsik CG, Jiang C-X, Katsar CS, Lan T-H, Lin Y-R, Ming R, Wright RJ (2000) Comparative genomics of plant chromosomes. Plant Cell 12:1523–1540

    Article  PubMed  CAS  Google Scholar 

  • Purcell S (2001) Statistical methods in quantitative genetics, 4th edn. Worth Publishers, New York

    Google Scholar 

  • Quillet MC, Madjidian N, Griveau Y, Serieys H, Tersac M, Lorieux M, Bervillé A (1995) Mapping genetic factors controlling pollen viability in an interspecific cross in Helianthus sect. Helianthus. TAG Theor Appl Genet 91:1195–1202

    CAS  Google Scholar 

  • Rubeena, Ford R, Taylor PWJ (2003) Construction of an intraspecific linkage map of lentil (Lens culinaris ssp. culinaris). Theor Appl Genet 107:910–916

  • Simon CJ, Muehlbauer FJ (1997) Construction of a chickpea linkage map and its comparison with maps of pea and lentil. J Hered 88:115–119

    CAS  Google Scholar 

  • Tadmor Y, Zamir D, Ladizinsky G (1987) Genetic mapping of an ancient translocation in the genus Lens. Theor Appl Genet 73:883–892

    Article  Google Scholar 

  • Tahir M, Simon C, Muehlbauer FJ (1993) Gene map of lentil: a review. Lens Newsl 20:3–10

    Google Scholar 

  • Vavilov NI (1922) The law of homologous series in variation. J Genet 12:47–88

    Article  Google Scholar 

  • Weeden NF, Muehlbauer FJ, Ladizinsky G (1992) Extensive conservation of linkage relationships between pea and lentil genetic maps. J Hered 83:123–129

    Google Scholar 

  • Winter P, Benko-Iseppon AM, Hüttel B, Ratnaparkhe M, Tullu A, Sonnante G, Pfaff T, Tekeoglu M, Santra D, Sant VJ, Rajesh PN, Kahl G, Muehlbauer FJ (2000) A linkage map of the chickpea (Cicer arietinum L.) genome based on recombinant inbred lines from a C. arietinum × C. reticulatum cross: localization of resistance genes for fusarium wilt races 4 and 5. Theor Appl Genet 101:1155–1163

    Article  CAS  Google Scholar 

  • Xu Y, Zhu L, Xiao J, Huang N, McCouch SR (1997) Chromosomal regions associated with segregation distortion of molecular markers in F2, backcross, doubled haploid, and recombinant inbred populations in rice (Oryza sativa L.). Mol Genet Genomics 253:535–545

    Article  CAS  Google Scholar 

  • Zhu H, Choi H-K, Cook DR, Shoemaker RC (2005) Bridging model and crop legumes through comparative genomics. Plant Physiol 137:1189–1196

    Article  PubMed  CAS  Google Scholar 

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Acknowledgments

This research was supported by an ARC Linkage project LP0454871 and both the New South Wales and Victorian Departments of Primary Industry.

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Authors and Affiliations

  1. Australian Centre for Nectrotropic Fungal Pathogens, State Agricultural Biotechnology Centre, Department of Health Sciences, Murdoch University, Perth, WA, 6150, Australia

    Huyen T. T. Phan, Simon R. Ellwood, James K. Hane & Richard P. Oliver

  2. BioMarka, School of Agriculture and Food Systems, ILFR, University of Melbourne, Parkville, VIC, 3010, Australia

    Rebecca Ford

  3. The Victorian Department of Primary Industries, Private bag 260, Horsham, VIC, 3401, Australia

    Michael Materne

Authors
  1. Huyen T. T. Phan
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  2. Simon R. Ellwood
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  3. James K. Hane
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  4. Rebecca Ford
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  5. Michael Materne
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  6. Richard P. Oliver
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Correspondence to Simon R. Ellwood.

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Communicated by D. Hoisington.

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Phan, H.T.T., Ellwood, S.R., Hane, J.K. et al. Extensive macrosynteny between Medicago truncatula and Lens culinaris ssp. culinaris . Theor Appl Genet 114, 549–558 (2007). https://doi.org/10.1007/s00122-006-0455-3

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  • DOI: https://doi.org/10.1007/s00122-006-0455-3

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