Quantitative trait locus analysis of nitrogen use efficiency in barley (Hordeum vulgare L.)

Euphytica

Volumn 199, Issue 1-2, 2014, Pages 207-221

  Kindu, Gashu Aynalem ^a,b   Tang, Jianjun ^c   Yin, Xinyou ^a   Struik, Paul C ^a  

^a WAGENINGEN UNIVERSITY   (Netherlands)

^b Adet Agricultural Research Centre   (Ethiopia)

^c JIANGXI AGRICULTURAL UNIVERSITY   (China)

Author keywords

Barley; Hordeum vulgare; Nitrogen use efficiency (NUE); Quantitative trait locus (QTL); Recombinant inbred lines (RIL)

Indexed keywords

HORDEUM; HORDEUM VULGARE; HORDEUM VULGARE SUBSP. VULGARE;

EID: 84905407620     PISSN: 00142336     EISSN: 15735060     Source Type: Journal    
DOI: 10.1007/s10681-014-1138-9     Document Type: Article

References (77)

1. Abeledo LG, Calderini DF, Slafer GA (2008) Nitrogen economy in old and modern malting barleys. Field Crops Res 106: 171-178.
2. An DG, Su JY, Liu QY, Zhu YG, Tong YP, Li JM, Jing RL, Li B, Li ZS (2006) Mapping QTLs for nitrogen uptake in relation to the early growth of wheat (Triticum aestivum L.). Plant Soil 284: 73-84.
3. Anbessa Y, Juskiw P, Good A, Nyachiro J, Helm J (2009) Genetic variability in nitrogen use efficiency of spring barley. Crop Sci 49: 1259-1269.
4. Andrews M, Lea PJ, Raven JA, Lindsey K (2004) Can genetic manipulation of plant nitrogen assimilation enzymes result in increased crop yield and greater N-use efficiency? An assessment. Ann Appl Biol 145: 25-40.
5. Arru LA, Francia EF, Pecchioni NP (2003) Isolate-specific QTLs of resistance to leaf stripe (Pyrenophora graminea) in the 'Steptoe' × 'Morex' spring barley cross. Theor Appl Genet 106: 668-675.
6. Asíns MJ (2002) Present and future of quantitative trait locus analysis in plant breeding. Plant Breed 121: 281-291.
7. Badr A, Müller K, Schäfer-Pregl R, El Rabey H, Effgen S, Ibrahim HH, Pozzi C, Rohde W, Salamini F (2000) On the origin and domestication history of barley (Hordeum vulgare). Mol Biol Evol 17: 499-510.
8. Beatty PH, Anbessa Y, Juskiw P, Carroll RT, Wang J, Good AG (2010) Nitrogen use efficiencies of spring barley grown under varying nitrogen conditions in the field and growth chamber. Ann Bot 105: 1171-1182.
9. Bezant J, Laurie D, Pratchett N, Chojecki J, Kearsey M (1996) Marker regression mapping of QTL controlling flowering time and plant height in a spring barley (Hordeum vulgare L.) cross. Heredity 77: 64-73.
10. Bingham IJ, Karley AJ, White PJ, Thomas WTB, Russell JR (2011) Analysis of improvements in nitrogen use efficiency associated with 75 years of spring barley breeding. Eur J Agron 42: 49-58.
11. Ceccarelli S (1994) Specific adaptation and breeding for marginal conditions. Euphytica 77: 205-219.
12. Ceccarelli S (1996) Adaptation to low/high input cultivation. Euphytica 92: 203-214.
13. Ceccarelli S, Grando S (1991) Environment of selection and type of germplasm in barley breeding for low-yielding conditions. Euphytica 57: 207-219.
14. Chen X, Zhao F, Xu S (2010) Mapping environment-specific quantitative trait loci. Genetics 186: 1053-1066.
15. Comadran J, Russell J, Booth A, Pswarayi A, Ceccarelli S, Grando S, Stanca A, Pecchioni N, Akar T, Al-Yassin A, Benbelkacem A, Ouabbou H, Bort J, van Eeuwijk F, Thomas W, Romagosa I (2011) Mixed model association scans of multi-environmental trial data reveal major loci controlling yield and yield related traits in Hordeum vulgare in Mediterranean environments. Theor Appl Genet 122: 1363-1373.
16. Cormier F, Faure S, Dubreuil P, Heumz E, Beauchêne K, Lafarge S, Praud S, Le Gouis J (2013) A multi-environmental study of recent breeding progress on nitrogen use efficiency in wheat (Triticum aestivum L.). Theor Appl Genet 126: 3035-3048.
17. Doebley JF, Gaut BS, Smith BD (2006) The molecular genetics of crop domestication. Cell 127: 1309-1321.
18. Doerge RW, Churchill GA (1996) Permutation tests for multiple loci affecting a quantitative character. Genetics 142: 285-294.
19. Earl CD, Ausubel FM (1983) The genetic engineering of nitrogen fixation. Nutr Rev 41: 1-6.
20. Fageria NK, Baligar VC, Donald LS (2005) Enhancing nitrogen use efficiency in crop plants. Advances in Agronomy, Academic Press.
21. Falconer DS, Mackay TFC (1996) Introduction to quantitative genetics, 4th edn. Addison Wesley Longman, Harlow.
22. Francia E, Rizza F, Cattivelli L, Stanca AM, Galiba G, Tóth B, Hayes PM, Skinner JS, Pecchioni N (2004) Two loci on chromosome 5H determine low-temperature tolerance in a 'Nure' (winter) × 'Tremois' (spring) barley map. Theor Appl Genet 108: 670-680.
23. Gallais A, Hirel B (2004) An approach to the genetics of nitrogen use efficiency in maize. J Exp Bot 55: 295-306.
24. Galloway JN, Townsend AR, Erisman JW, Bekunda M, Cai Z, Freney JR, Martinelli LA, Seitzinger SP, Sutton MA (2008) Transformation of the nitrogen cycle: recent trends, questions, and potential solutions. Science 320: 889-892.
25. Gastal F, Lemaire G (2002) N uptake and distribution in crops: an agronomical and ecophysiological perspective. J Exp Bot 53: 789-799.
26. Gauer LE, Grant CA, Bailey LD, Gehl DT (1992) Effects of nitrogen fertilization on grain protein content, nitrogen uptake, and nitrogen use efficiency of six spring wheat (Triticum aestivum L.) cultivars, in relation to estimated moisture supply. Can J Plant Sci 72: 235-241.
27. Glass ADM (2003) Nitrogen use efficiency of crop plants: physiological constraints upon nitrogen absorption. Crit Rev Plant Sci 22: 453-470.
28. Good AG, Shrawat AK, Muench DG (2004) Can less yield more? Is reducing nutrient input into the environment compatible with maintaining crop production? Trends Plant Sci 9: 597-605.
29. Guo Y, Kong F-M, Xu Y-F, Zhao Y, Liang X, Wang Y-Y, An D-G, Li S-S (2012) QTL mapping for seedling traits in wheat grown under varying concentrations of N, P and K nutrients. Theor Appl Genet 124: 851-865.
30. Gyenis L, Yun SJ, Smith KP, Steffenson BJ, Bossolini E, Sanguineti MC, Muehlbauer GJ (2007) Genetic architecture of quantitative trait loci associated with morphological and agronomic trait differences in a wild by cultivated barley cross. Genome 50: 714-723.
31. Hackett CA (2002) Statistical methods for QTL mapping in cereals. Plant Mol Biol 48: 585-599.
32. Hayes PM, Liu BH, Knapp SJ, Chen F, Jones B, Blake T, Franckowiak J, Rasmusson D, Sorrells M, Ullrich SE, Wesenberg D, Kleinhofs A (1993) Quantitative trait locus effects and environmental interaction in a sample of North American barley germ plasm. Theor Appl Genet 87: 392-401.
33. Jia Q, Zhang J, Westcott S, Zhang X-Q, Bellgard M, Lance R, Li C (2009) GA-20 oxidase as a candidate for the semidwarf gene sdw1/denso in barley. Funct Integr Genomics 9: 255-262.
34. Kamprath EJ, Moll RH, Rodriguez N (1982) Effects of nitrogen fertilization and recurrent selection on performance of hybrid populations of corn. Agron J 74: 955-958.
35. Kuczynska A, Wyka T (2011) The effect of the denso dwarfing gene on morpho-anatomical characters in barley recombinant inbred lines. Breed Sci 61: 275-280.
36. Lander ES, Botstein D (1989) Mapping Mendelian factors underlying quantitative traits using RFLP linkage maps. Genetics 121: 185-199.
37. Laperche A, Brancourt-Hulmel M, Heumez E, Gardet O, Hanocq E, Devienne-Barret F, Le Gouis J (2007) Using genotype x nitrogen interaction variables to evaluate the QTL involved in wheat tolerance to nitrogen constraints. Theor Appl Genet 115: 399-415.
38. Laurie DA, Pratchett N, Snape JW, Bezant JH (1995) RFLP mapping of five major genes and eight quantitative trait loci controlling flowering time in a winter × spring barley (Hordeum vulgare L.) cross. Genome 38: 575-585.
39. Lea PJ, Azevedo RA (2006) Nitrogen use efficiency. 1. Uptake of nitrogen from the soil. Ann Appl Biol 149: 243-247.
40. Li JZ, Huang XQ, Heinrichs F, Ganal MW, Röder MS (2005) Analysis of QTLs for yield, yield components, and malting quality in a BC3-DH population of spring barley. Theor Appl Genet 110: 356-363.
41. Li C, Zhang G, Lance R, Jenks MA, Hasegawa PM, Jain SM (2007) Recent advances in breeding barley for drought and saline stress tolerance. Advances in molecular breeding toward drought and salt tolerant crops. Springer, Dordrecht.
42. Linde-Laursen I, Heslop-Harrison JS, Shepherd KW, Taketa S (1997) The barley genome and its relationship with the wheat genomes. AsSurvey with an internationally agreed recommendation for barley chromosome nomenclature. Hereditas 126: 1-16.
43. Liu X-H, He S-L, Zheng Z-P, Huang Y-B, Tan Z-B, Li Z, He C, Wu XAP, Quang-Bo (2010) Identification of the QTLs for grain yield using RIL population under different nitrogen regimes in maize. Afric J Agric Res 5(15): 2002-2007.
44. May L, van Sanford DA, MacKown CT, Cornelius PL (1991) Genetic variation for nitrogen use in soft red × hard red winter wheat populations. Crop Sci 31: 626-630.
45. Mayes S, Parsley K, Sylvester-Bradley R, May S, Foulkes J (2005) Integrating genetic information into plant breeding programmes: how will we produce varieties from molecular variation, using bioinformatics? Ann Appl Biol 146: 223-237.
46. McCouch SR, Cho YG, Yano M, Paul E, Blinstrub M (1997) Report on QTL nomenclature. Rice Genetics Newsletter 14: 11-13.
47. Mi G, Tang L, Zhang F, Zhang J (2000) Is nitrogen uptake after anthesis in wheat regulated by sink size? Field Crops Res 68: 183-190.
48. Mickelson S, See D, Meyer FD, Garner JP, Foster CR, Blake TK, Fischer AM (2003) Mapping of QTL associated with nitrogen storage and remobilization in barley (Hordeum vulgare L.) leaves. J Exp Bot 54: 801-812.
49. Moll RH, Kamprath EJ, Jackson WA (1982) Analysis and interpretation of factors which contribute to efficiency of nitrogen utilization. Agron J 74: 562-564.
50. Moll RH, Kamprath EJ, Jackson WA (1987) Development of nitrogen-efficient prolific hybrids of maize. Crop Sci 27: 181-186.
51. Moose S, Below FE, Kriz AL, Larkins BA (2009) Biotechnology approaches to improving maize nitrogen use efficiency. Molecular genetic approaches to maize improvement. Springer, Berlin.
52. Morrell PL, Clegg MT (2007) Genetic evidence for a second domestication of barley (Hordeum vulgare) east of the Fertile Crescent. Proc Nat Acad Sci 104: 3289-3294.
53. Muurinen S, Slafer GA, Peltonen-Sainio P (2006) Breeding effects on nitrogen use efficiency of spring cereals under northern conditions. Crop Sci 46: 561-568.
54. Nduulu L, Mesfin A, Muehlbauer G, Smith K (2007) Analysis of the chromosome 2(2H) region of barley associated with the correlated traits Fusarium head blight resistance and heading date. Theor Appl Genet 115: 561-570.
55. Parry MAJ, Flexas J, Medrano H (2005) Prospects for crop production under drought: research priorities and future directions. Ann Appl Biol 147: 211-226.
56. th Ed. Instruction. VSN International, Hemel Hempstead.
57. Powell WR, Caligari PDS, Thomas WTB, Jinks JL (1985) The effects of major genes on quantitatively varying characters in barley 2. The denso and daylength response loci. Heredity 54: 349-352.
58. Price AH (2006) Believe it or not, QTLs are accurate! Trends Plant Sci 11: 213-216.
59. Raun WR, Johnson GV (1999) Improving nitrogen use efficiency for cereal production. Agron J 91: 357-363.
60. Raven JA, Andrews M, Quigg A (2005) The evolution of oligotrophy: implications for the breeding of crop plants for low input agricultural systems. Ann Appl Biol 146: 261-280.
61. Saal B, Von Korff M, Leon J, Pillen K (2011) Advanced-backcross QTL analysis in spring barley: IV. Localization of QTL × nitrogen interaction effects for yield-related traits. Euphytica 177: 223-239.
62. Sanford D, MacKown CT (1986) Variation in nitrogen use efficiency among soft red winter wheat genotypes. Theor Appl Genet 72: 158-163.
63. Schut JW, Qi X, Stam P (1997) Association between relationship measures based on AFLP markers, pedigree data and morphological traits in barley. Theor Appl Genet 95: 1161-1168.
64. Sinebo W, Gretzmacher R, Edelbauer A (2004) Genotypic variation for nitrogen use efficiency in Ethiopian barley. Field Crops Res 85: 43-60.
65. Shewry Jones PRHD (2005) Transgenic wheat: where do we stand after the first 12 years? Ann Appl Biol 147: 1-14.
66. Sylvester-Bradley R, Kindred DR (2009) Analysing nitrogen responses of cereals to prioritize routes to the improvement of nitrogen use efficiency. J Exp Bot 60: 1939-1951.
67. Thomas WTB, Baird E, Fuller JD, Lawrence P, Young GR, Russell LJ, Ramsay L, Waugh R, Powell W (1998) Identification of a QTL decreasing yield in barley linked to Mlo powdery mildew resistance. Mol Breed 4: 381-393.
68. Vales MI, Schon CC, Capettini F, Chen XM, Corey AE, Mather DE, Mundt CC, Richardson KL, Sandoval-Islas JS, Utz HF, Hayes PM (2005) Effect of population size on the estimation of QTL: a test using resistance to barley stripe rust. Theor Appl Genet 111: 1260-1270.
69. van Ooijen JW (1999) LOD significance thresholds for QTL analysis in experimental populations of diploid species. Heredity 83: 613-624.
70. van Ooijen JW (2009) MapQTL® 6: Software for the mapping of quantitative trait loci in experimental populations of diploid species. Kyazma B. V. Wageningen, The Netherlands.
71. Voorrips RE (2002) MapChart: software for the graphical presentation of linkage maps and QTLs. J Hered 93: 77-78.
72. Yang J, Zhu J, Williams RW (2007) Mapping the genetic architecture of complex traits in experimental populations. Bioinformatics 23: 1527-1536.
73. Yin X, Kropff MJ, Stam P (1999a) The role of ecophysiological models in QTL analysis: the example of specific leaf area in barley. Heredity 82: 415-421.
74. Yin X, Stam P, Dourleijn CJ, Kropff MJ (1999b) AFLP mapping of quantitative trait loci for yield-determining physiological characters in spring barley. Theor Appl Genet 99: 244-253.
75. Yin X, Chasalow SD, Dourleijn CJ, Stam P, Kropff MJ (2000) Coupling estimated effects of QTLs for physiological traits to a crop growth model: predicting yield variation among recombinant inbred lines in barley. Heredity 85: 539-549.
76. Yin X, Struik PC, van Eeuwijk FA, Stam P, Tang J (2005) QTL analysis and QTL-based prediction of flowering phenology in recombinant inbred lines of barley. J Exp Bot 56: 967-976.
77. Zhou G, Johnson P, Ryan P, Delhaize E, Zhou M (2012) Quantitative trait loci for salinity tolerance in barley (Hordeum vulgare L.). Mol Breed 29: 427-436.