Quantitative trait loci analysis of seed quality characteristics in lentil using single nucleotide polymorphism markers

Plant Genome

Volumn 6, Issue 3, 2013, Pages 11-

  Fedoruk, Michael J ^a   Vandenberg, Albert ^a   Bett, Kirstin E ^a  

^a UNIVERSITY OF SASKATCHEWAN   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 84890754215     PISSN: None     EISSN: 19403372     Source Type: Journal    
DOI: 10.3835/plantgenome2013.05.0012     Document Type: Article

References (51)

1. Abbo, S., G. Ladizinsky, and N.F. Weeden. 1991. Genetic-analysis and linkage study of seed weight in lentil. Euphytica 58:259-266. doi:10.1007/BF00025258.
2. Abbo, S., C. Molina, R. Jungmann, M.A. Grusak, Z. Berkovitch, R. Reifen, G. Kahl, P. Winter, and R. Reifen. 2005. Quantitative trait loci governing carotenoid concentration and weight in seeds of chickpea (Cicer arietinum L.). Theor. Appl. Genet. 111:185-195. doi:10.1007/s00122-005-1930-y.
3. Arumuganathan, K., and E.D. Earle. 1991. Nuclear DNA content of some important plant species. Plant Mol. Biol. Rep. 9:208-218. doi:10.1007/BF02672069.
4. Bates, D., M. Maechler, and B. Bolker. 2011. Welcome to lme4-Mixed-effects models project. R Foundation for Statistical Computing, Vienna, Austria. http://lme4.r-forge.r-project.org/(accessed 8 Nov. 2012).
5. Breseghello, F., and M.E. Sorrells. 2007. QTL analysis of kernel size and shape in two hexaploid wheat mapping populations. Field Crops Res. 101:172-179. doi:10.1016/j.fcr.2006.11.008.
6. Chagné, D., R.N. Crowhurst, M. Troggio, M.W. Davey, B. Gilmore, C. Lawley, S. Vanderzande, R.P. Hellens, S. Kumar, A. Cestaro, R. Velasco, D. Main, J.D. Rees, A. Iezzoni, T. Mockler, L. Wilhelm, E. Van de Weg, S.E. Gardiner, N. Bassil, and C. Peace. 2012. Genomewide SNP detection, validation, and development of an 8K SNP array for apple. PLoS ONE 7:E31745. doi:10.1371/journal.pone.0031745.
7. Close, T.J., P.R. Bhat, S. Lonardi, Y. Wu, N. Rostoks, L. Ramsay, A. Druka, N. Stein, J.T. Svensson, S. Wanamaker, S. Bozdag, M.L. Roose, M.J. Moscou, S. Chao, R.K. Varshney, P. Szucs, K. Sato, P.M. Hayes, D.E. Matthews, A. Kleinhofs, G.J. Muehlbauer, J. DeYoung, D.F. Marshall, K. Madishetty, R.D. Fenton, P. Condamine, A. Graner, and R. Waugh. 2009. Development and implementation of highthroughput SNP genotyping in barley. BMC Genomics 10:582. doi:10.1186/1471-2164-10-582.
8. Cober, E.R., J.A. Fregeau-Reid, and H.D. Voldeng. 1997. Heritability of seed shape and seed size in soybean. Crop Sci. 37:1767-1769. doi:10.2135/cropsci1997.0011183X003700060017x.
9. Cobos, M.J., J. Rubio, M.D. Fernandez-Romero, R. Garza, M.T. Moreno, T. Millan, and J. Gil. 2007. Genetic analysis of seed size, yield and days to flowering in a chickpea recombinant inbred line population derived from a Kabuli × Desi cross. Ann. Appl. Biol. 151:33-42. doi:10.1111/j.1744-7348.2007.00152.x.
10. Domoney, C., G. Duc, T.H. Ellis, C. Ferrándiz, C. Firnhaber, K. Gallardo, J. Hofer, J. Kopka, H. Kuster, F. Madueno, N.G. Munier-Jolain, M. Mayer, R. Thompson, M. Udvardi, and C. Salon. 2006. Genetic and genomic analysis of legume flowers and seeds. Curr. Opin. Plant Biol. 9:133-141. doi:10.1016/j.pbi.2006.01.014.
11. Duran, Y., R. Fratini, P. Garcia, and M. Perez de la Vega. 2004. An intersubspecific genetic map of Lens. Theor. Appl. Genet. 108:1265-1273. doi:10.1007/s00122-003-1542-3.
12. Environment Canada. 2012. Historical climate data. Government of Canada, Ottawa, ON. http://climate.weather.gc.ca/index_e. html#access (accessed 20 July 2012).
13. Eujayl, I., M. Baum, W. Powell, W. Erskine, and E. Pehu. 1998. A genetic linkage map of lentil (Lens sp.) based on RAPD and AFLP markers using recombinant inbred lines. Theor. Appl. Genet. 97:83-89. doi:10.1007/s001220050869.
14. Erskine, W., P.C. Williams, and H. Nakkoul. 1985. Genetic and environmental variation in the seed size protein, yield and cooking qualities of lentils. Field Crops Res. 12:153-161. doi:10.1016/0378-4290(85)90061-9.
15. Erskine, W., P.C. Williams, and H. Nakkoul. 1991. Splitting and dehulling lentil (Lens culinaris): Effects of seed size and different pretreatments. J. Sci. Food Agric. 57:77-84. doi:10.1002/jsfa.2740570109.
16. Ford, R., B. Mustafa, M. Baum, and P.N. Rajesh. 2009. Advances in molecular research. In: W. Erskine, F.J. Muehlbauer, A. Sarker, and B. Sharma, editors, The lentil: Botany, production and uses. CABI, Cambridge, MA. p. 155-171.
17. Fratini, R., Y. Duran, P. Garcia, and M. Perez de la Vega. 2007. Identification of quantitative trait loci QTL for plant structure, growth habit and yield in lentil. Span. J. Agric. Res. 5:348-356.
18. Genchev, D. 2006. Genetic control of seed shape of the common bean (Phaseolus vulgaris L.). Ann. Rep. of the Bean Improv. Coop. 49:169-171.
19. Gupta, P.K., S. Rustgi, and N. Kumar. 2006. Genetic and molecular basis of grain size and grain number and its relevance to grain productivity in higher plants. Genome 49:565-571. doi:10.1139/G06-063.
20. He, C., Y. Tian, R. Saedler, N. Efremova, S. Riss, M.R. Khan, A. Yephremov, and H. Saedler. 2010. The MADS-domain protein MPF1 of Physalis floridana controls plant architecture, seed development and flowering time. Planta 231:767-777. doi:10.1007/s00425-009-1087-z.
21. Hossain, S., R. Ford, D. McNeil, C. Pittock, and J.F. Panozzo. 2010. Development of a selection tool for seed shape and QTL analysis of seed shape with other morphological traits for selective breeding in chickpea (Cicer arietinum L.). Aus. J. Crop Sci. 4:278-288.
22. Hovav, R., K.C. Upadhyaya, A. Beharav, and S. Abbo. 2003. Major flowering time gene and polygene effects on chickpea seed weight. Plant Breed. 122:539-541. doi:10.1111/j.1439-0523.2003.00895.x.
23. Jofuku, K.D., B.G. den Boer, M. van Montagu, and J.K. Okamuro. 1994. Control of Arabidopsis flower and seed development by the homeotic gene APETALA2. Plant Cell 6:1211-1225.
24. Le, B.H., J.A. Wagmaister, T. Kawashima, A.Q. Bui, J.J. Harada, and R.B. Goldberg. 2007. Using genomics to study legume seed development. Plant Physiol. 144:562-574. doi:10.1104/pp.107.100362.
25. Ohto, M.A., R.L. Fischer, R.B. Goldberg, K. Nakamura, and J.J. Harada. 2005. Control of seed mass by APETALA2. Proc. Natl. Acad. Sci. USA 102:3123-3128. doi:10.1073/pnas.0409858102.
26. Pérez-Vega, E., A. Pañeda, C. Rodríguez-Suárez, A. Campa, R. Giraldez, and J.J. Ferreira. 2010. Mapping of QTLs for morpho-agronomic and seed quality traits in a RIL population of common bean (Phaseolus vulgaris L.). Theor. Appl. Genet. 7:1367-1380. doi:10.1007/s00122-010-1261-5.
27. Pinheiro, J.C., and D.M. Bates. 2000. Mixed-effects models in S and S-PLUS. Springer, New York, NY.
28. R Development Core Team. 2011. R, A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna Austria. http://R-project.org/(accessed 21 Nov. 2011).
29. Raghuvanshi, R.S., and D.P. Singh. 2009. Food preparation and use. In: W. Erskine, F.J. Muehlbauer, A. Sarker, and B. Sharma, editors, The lentil: Botany, production and uses. CABI, Cambridge, MA. p. 408-424.
30. Rodríguez, G.R., J.B. Moyseenko, M.D. Robbins, N.H. Morejón, D.M. Francis, and E. van der Knaap. 2010. Tomato Analyzer, a useful software application to collect accurate and detailed morphological and colorimetric data from two-dimensional objects. J. Vis. Exp. 37:1856.
31. Salas, P., J.C. Oyarzo-Llaipen, D. Wang, K. Chase, and L. Mansur. 2006. Genetic mapping of seed shape in three populations of recombinant inbred lines of soybean (Glycine max L. Merr.). Theor. Appl. Genet. 113:1459-1466. doi:10.1007/s00122-006-0392-1.
32. Sarker, A., W. Erskine, B. Sharma, and M.C. Tyagi. 1999. Inheritance and linkage relationship of days to flower and morphological loci in lentil (Lens culinaris Medikus ssp. culinaris). J. Hered. 90:270-275. doi:10.1093/jhered/90.2.270.
33. Shahin, M.A., S.J. Symons, and V.W. Poysa. 2006. Determining soya bean size uniformity using image analysis. Biosyst. Eng. 94:191-198. doi:10.1016/j.biosystemseng.2006.02.011.
34. Shahin, M.A., S.J. Symons, and N. Wang. 2012. Predicting dehulling efficiency of lentils based on seed size and shape characteristics measured with image analysis. Qual. Assur. Saf. Crops Foods 4:9-16. doi:10.1111/j.1757-837X.2011.00119.x.
35. Sharpe, A.G., L. Ramsay, L.A. Sanderson, M.J. Fedoruk, W. Clarke, R. Li, S. Kagale, P. Vijayan, A. Vandenberg, and K.E. Bett. 2013. Ancient crop joins modern era: Gene-based SNP discovery and mapping in lentil. BMC Genomics 14:192. doi:10.1186/1471-2164-14-192.
36. Singh, S.P. 1994. Gamete selection for simultaneous improvement of multiple traits in common bean. Crop Sci. 34:352-355. doi:10.2135/cropsci1994.0011183X003400020008x.
37. Slinkard, A.E. 1978. Inheritance of cotyledon color in lentils. J. Hered. 69:139-140.
38. Tahir, M., A. Ghafoor, and M. Zubair. 1995. Genetics of seed weight in lentil (Lens culinaris Medik). Pak. J. Bot. 27:435-439.
39. Tanabata, T., T. Shibaya, K. Hori, K. Ebana, and M. Yano. 2012. SmartGrain, high-throughput phenotyping software for measuring seed shape through image analysis. Plant Physiol. 160:1871-1880. doi:10.1104/pp.112.205120.
40. Tar'an, B., L. Buchwaldt, A. Tullu, S. Banniza, T.D. Warkentin, and A. Vandenberg. 2003. Using molecular markers to pyramid genes for resistance to ascochyta blight and anthracnose in lentil (Lens culinaris Medik). Euphytica 134:223-230. doi:10.1023/B:EUPH.0000003913.39616.fd.
41. Tullu, A., I. Kusmenoglu, K.E. McPhee, and F.J. Muehlbauer. 2001. Characterization of core collection of lentil germplasm for phenology, morphology, seed and straw yields. Genet. Resour. Crop Evol. 48:143-152. doi:10.1023/A:1011254629628.
42. Tullu, A., B. Tar'an, T. Warkentin, and A. Vandenberg. 2008. Construction of an intraspecific linkage map and QTL analysis for earliness and plant height in lentil. Crop Sci. 48:2254-2264. doi:10.2135/cropsci2007.11.0628.
43. Vail, S. 2010. Interspecific-derived and juvenile resistance to anthracnose in lentil. Ph.D. thesis, University of Saskatchewan, Saskatoon, Canada.
44. Vandenberg, A., F.A. Kiehn, C. Vera, R. Gaudiel, L. Buchwaldt, S. Dueck, J. Wahab, and A.E. Slinkard. 2002. CDC Robin lentil. Can. J. Plant Sci. 82:111-112. doi:10.4141/P01-003.
45. Vandenberg, A., and A.E. Slinkard. 1990. Genetics of seed coat color and pattern in lentil. J. Hered. 81:484-488.
46. Van Ooijen, J.W. 2004. MapQTL 5, software for the mapping of quantitative traits loci in experimental populations. Kyazma, Wageningen, the Netherlands.
47. Van Ooijen, J.W. 2006. JoinMap 4. Software for the calculation of genetic linkage maps in experimental populations. Kyazma BV, Wageningen, the Netherlands.
48. Wang, B., S.H. Jin, H.Q. Hu, Y.G. Sun, Y.W. Wang, P. Han, and B.K. Hou. 2012. UGT87A2, an Arabidopsis glycosyltransferase, regulates flowering time via FLOWERING LOCUS C. New Phytol. 194:666-675. doi:10.1111/j.1469-8137.2012.04107.x.
49. Wang, N. 2008. Effect of variety and crude protein content on dehulling quality and on the resulting chemical composition of red lentil Lens culinaris. J. Sci. Food Agric. 88:885-890. doi:10.1002/jsfa.3165.
50. Watanabe, S., T. Tajuddin, N. Yamanaka, M. Hayashi, and K. Harada. 2004. Analysis of QTLs for reproductive development and seed quality traits in soybean using recombinant inbred lines. Breed. Sci. 4:399-407. doi:10.1270/jsbbs.54.399.
51. Yan, J., X. Yang, T. Shah, H. Sanchez-Villeda, J. Li, M. Warburton, Y. Zhou, J.H. Crouch, and Y. Xu. 2009. High-throughput SNP genotyping with the GoldenGate assay in maize. Mol. Breed. 25:441-451. doi:10.1007/s11032-009-9343-2.