QTLs position of some important ornamental traits in recently developed OO lily population

  • Younes Pourbeyrami Hir
  • SuXia Yuan
  • Mousa Torabi Giglou
  • Ming JunEmail author
Research Article


Lilium L. is a perennial ornamental bulbous species, belonging to Liliaceae family, which consists of about 100 species. One of the most important hybrids in Lilium L. is the Oriental hybrid lily. Different cross combinations have been done in the lily family such as AA (Asiatic × Asiatic), AL (Asiatic × Longiflorum), and OT (Oriental × Trumpet). The OO (Oriental × Oriental) combination is a new one. SSR and AFLP markers were used to overlap each other and the genetic linkage groups were created according to the haploid number of lily chromosomes (12 linkage groups). In this experiment, the final F1 population, which creates a genetic linkage group, was 100 individuals. For map construction, JOINMAP 4.0 software by treating segregation data of markers as a CP (out breeder full-sib family) model was used. After evaluation of ornamental traits, MapQTL 4.0 software was also used to find possible QTLs on these linkage maps. A total of 940 primers were tested and the best ones, which were 172 primer pairs (96 AFLP and 76 SSR markers), were used for map construction and the total of 616 loci (465 loci for AFLP marker and 151 loci for SSR marker) were scored. The entire mapped length was 2144.2 cM. 8 QTLs were obtained for flower number which is an important trait in lily. Each QTL locus explained the phenotypic variation of 2.4–89.5%. The highest amount of LOD (35.21) was found in LG-F1P2 for FN4 QTL. For leaf number, one-QTL was mapped with LOD of 7.08 between 2 markers on the LG-M10 of maternal maps. The QTL for petal length was placed on the LG-F1P2 of the F1 hybrid maps on the E-CGC/M-CGC-4 primer combination. The petal width QTLs also were mapped on the E-CGC/M-CGC-4. Qualitative locus named LN was mapped on the LG-M10 of the maternal maps. PW2 QTL was also localized on the LG-F4 of the paternal maps. In this experiment, 5 QTLs also were mapped for spot number in all F1 hybrids and paternal and maternal maps, and spot size. Moreover, one QTL with the length of 51 cM was measured on the LG-M8 of the maternal maps. Plant height QTL with the LOD of 12.54 was mapped on the primer combination of E-CGC/M-CGC-4 on the LG-F1P2 of the F1 hybrid maps.


Chromosomes Linkage map Loci QTL Spot 



This study was supported by the National Natural Science Foundation of China (31801899, 31672196) and the Science and Technology Innovation Program of the Chinese Academy of Agricultural Sciences. This research was conducted at the Key Laboratory of Biology and Genetic Improvement of Horticultural Crops, Ministry of Agriculture, China.


  1. Abe H, Nakano M, Nakatsuka A, Nakayama M, Koshioka M, Yamagishi M (2002) Genetic analysis of floral anthocyanin pigmentation traits in Asiatic hybrid lily using molecular linkage maps. Theor Appl Genet 105:1175–1182CrossRefGoogle Scholar
  2. Cagas CC, Lee ON, Nemoto K, Sugiyama N (2008) Quantitative trait loci controlling flowering time and related traits in a Solanum lycopersicum × S.pimpinellifolium cross. Sci Hortic 116:144–151CrossRefGoogle Scholar
  3. Chardon F, Virlon B, Moreau L, Falque M, Joets J, Decousset L, Murigneux A, Charcosset A (2004) Genetic architecture of flowering time inmaize as inferred from quantitative trait loci meta-analysis and synteny conservation with the rice genome. Genetics 168:2169–2185CrossRefGoogle Scholar
  4. Chen DW, Chen LQ (2010) The first intraspecific genetic linkage maps of wintersweet [Chimonanthus praecox (L.) Link] based on AFLP and ISSR markers. Sci Hortic 124:88–94CrossRefGoogle Scholar
  5. Chen L, Li H, Sun S, Irfan M, Lin J, Zhong M, Ma H, Guo Z, Li T (2015) Construction of a genetic linkage map in Lilium using a RIL mapping population based on SRAP marker. Genetika 47(2):425–438CrossRefGoogle Scholar
  6. Crespel L, Chirollet M, Durel CE, Zhang D, Meynet J, Gudin S (2002) Mapping of qualitative and quantitative phenotypic traits in Rosa using AFLP markers. Theor Appl Genet 105:1207–1214CrossRefGoogle Scholar
  7. Cui YU, Mao-Yong J, Bao-Zhu Zh, Jun M (2012) Genetic linkage map of Anthurium andraeanum based on SRAP molecular markers. Acta Hortic Sin 39:1151–1158Google Scholar
  8. De Vicente MC, Tanksley SD (1993) QTL analysis of transgressive segregation in an interspecific tomato cross. Genetics 134:585–596Google Scholar
  9. Dugo ML, Satovic Z, Millan T, Cubero JI, Rubiales D, Cabrera A, Torres AM (2005) Genetic mapping of QTLs controlling horticultural traits in diploid roses. Theor Appl Genet 111:511–520CrossRefGoogle Scholar
  10. El-Lithy ME, Clerkx EJM, Ruys GJ, Koornneef M, Vreugdenhil D (2004) Quantitative trait locus analysis of growth-related traits in a new Arabidopsis recombinant inbred population. Plant Physiol 135:444–458CrossRefGoogle Scholar
  11. Galliot C, Hoballah M, Kuhlemeier C, Stuurman J (2006) Genetics of flower size and nectar volume in Petunia pollination syndromes. Planta 225:203–212CrossRefGoogle Scholar
  12. Grandillo S, Tanksley SD (1996) QTL analysis of horticultural traits differentiating the cultivated tomato from the closely related species Lycopersicon pimpinellifolium. Theor Appl Genet 92:935–951CrossRefGoogle Scholar
  13. Guo Y, Du Z, Chen J, Zhang Z (2017) QTL mapping of wheat plant architectural characteristics and their genetic relationship with seven QTLs conferring resistance to sheath blight. PLoS ONE 12(4):e0174939CrossRefGoogle Scholar
  14. Hu GL, Zhang DL, Pan HQ, Li B, Wu JT, Zhou XY, Zhang QY, Zhou L, Yao GX, Li JZ (2011) Fine mapping of the awn gene on chromosome 4 in rice by association and linkage analyses. Chin Sci Bull 56:835–839CrossRefGoogle Scholar
  15. Jamann TM, Balint-Kurti PJ, Holland JB (2015) QTL mapping using high-throughput sequencing. In: Alonso JM, Stepanova AN (eds) Plant functional genomics. Methods in molecular biology, 2nd edn, vol 1284, pp 256–286Google Scholar
  16. Jimenez-Gomez JM, Alonso-Blanco C, Borja A, Anastasio G, Angosto T, Lozano R, Martinez-Zapater JM (2007) Quantitative genetic analysis of flowering time in tomato. Genome 50:303–315CrossRefGoogle Scholar
  17. Koes R, Verweij W, Quattrocchio F (2005) Flavonoids: a colorful model for the regulation and evolution of biochemical pathways. Trends Plant Sci 10:236–242CrossRefGoogle Scholar
  18. Kowalski SP, Lan TH, Feldmann KA, Paterson AH (1994) QTL mapping of naturally-occurring variation in flowering time of Arabidopsis thaliana. Mol Gen Genet 245:548–555CrossRefGoogle Scholar
  19. Lacape JM, Gawrysiak G, Cao TV, Viot C, Llewellyn D, Liu S, Jacobs J, Becker D, Vianna Barroso PA, de Assuncãog JH, Palaï O, Georges S, Jean J, Giband M (2013) Mapping QTLs for traits related to phenology, morphology and yield components in an inter-specific Gossypium hirsutum × G. barbadense cotton RIL population. Field Crops Res 144:256–267CrossRefGoogle Scholar
  20. Li L, Li H, Li Q, Yang X, Zheng D, Warburton M, Chai Y, Zhang P, Guo Y, Yan J (2011) An 11-bp Insertion in Zea mays fatb reduces the palmitic acid content of fatty acids in maize grain. PLoS ONE 6:e24699CrossRefGoogle Scholar
  21. Lia F, Chen B, Xu K, Gao G, Yan GX, Qiao JW, Li J, Li H, Li LX, Xiao X, Zhang TY, Nishio T, Wu XM (2016) A genome-wide association study of plant height and primary branch number in rapeseed (Brassica napus). Plant Sci 242:169–177CrossRefGoogle Scholar
  22. Nakano M, Nakatsuka A, Nakayama M, Koshioka M, Yamagishi M (2005) Map-ping of quantitative trait loci for carotenoid pigmentation in flower tepals of Asiatic hybrid lily. Sci Hortic 104:57–64CrossRefGoogle Scholar
  23. Nakatsuka T, Yamada E, Saito M, Hikage T, Ushiku Y, Nishihara M (2012) Construction of the first genetic linkage map of Japanese gentian (Gentianaceae). BMC Genom 13:672CrossRefGoogle Scholar
  24. Oyant LHS, Crespel L, Rajapakse S, Zhang L, Foucher F (2008) Genetic linkage maps of rose constructed with new microsatellite markers and locating QTL controlling flowering traits. Tree Genet Genomes 4:11–23CrossRefGoogle Scholar
  25. Shahin A, Arens P, Van Heusden AW, Van der Linden G, Van Kaauwen M, Khan N, Schouten HJ, Van De Weg WE, Van Visser RGF, Tuyl JM (2011) Genetic mapping in Lilium: mapping of major genes and quantitative trait loci for several ornamental traits and disease resistances. Plant Breed 130:372–382CrossRefGoogle Scholar
  26. Venkata SK, Bommisettya P, Patilb MS, Reddya L, Chennareddya A (2014) The genetic linkage maps of Anthurium species based on RAPD, ISSR and SRAP markers. Sci Hortic 178:132–137CrossRefGoogle Scholar
  27. Vos P, Hogers R, Bleeker M, Reijans M, van de Lee T, Hornes M, Fritjters A, Pot J, Peleman J, Kuiper M, Zabeau M (1995) AFLP: a new technique for DNA fingerprinting. Nucleic Acids Res 23:4407–4414CrossRefGoogle Scholar
  28. Weller JI, Soller M, Brody T (1988) Linkage analysis of quantitative traits in an interspecific cross of tomato (Lycopersicon esculentum × Lycopersicon pimpinellifolium) by means of genetic markers. Genetics 118:329–339Google Scholar
  29. Yamagishi M, Shimoyamada Y, Nakatsuka T, Masuda K (2010) Two R2R3-MYB genes, homologs of petunia AN2, regulate anthocyanin biosynthesis in flower petals, petal spots and leaves of Asiatic hybrid lily. Plant Cell Physiol 51(3):463–474CrossRefGoogle Scholar
  30. Yong-shu LA, Zhi-qiang G, Xi-hong S, Xiao-deng Z, Ying-xin Z, Wei-ming W, Li-yong C, Shi-hua Ch (2011) Mapping and comparative analysis of QTL for rice plant height based on different sample sizes within a single line in RIL population. Rice Sci 18(4):265–272CrossRefGoogle Scholar
  31. Yuan SX, Ge L, Liu Ch, Ming J (2013) The development of EST-SSR markers in Lilium regale and their cross-amplification in related species. Euphytica 189:393–419CrossRefGoogle Scholar
  32. Zhang K, Tian J, Zhao L, Wang ShSh (2008) Mapping QTLs with epistatic effects and QTL environment interactions for plant height using a doubled haploid population in cultivated wheat. J Genet Genom 35:119–127CrossRefGoogle Scholar
  33. Zhang D, Cheng H, Wang H, Zhang H, Liu Ch, Yu D (2010) Identification of genomic regions determining flower and pod numbers development in soybean (Glycine max L.). J Genet Genom 37:545–556CrossRefGoogle Scholar

Copyright information

© Prof. H.S. Srivastava Foundation for Science and Society 2019

Authors and Affiliations

  • Younes Pourbeyrami Hir
    • 1
    • 2
  • SuXia Yuan
    • 2
  • Mousa Torabi Giglou
    • 1
  • Ming Jun
    • 2
    Email author
  1. 1.Horticultural Department of Agriculture and Natural Resources FacultyMohaghegh Ardabili UniversityArdabilIslamic Republic of Iran
  2. 2.Institute of Vegetables and FlowersChinese Academy of Agricultural SciencesBeijingPeople’s Republic of China

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