Assessing the importance of genotype x environment interaction for root traits in rice using a mapping population III: QTL analysis by mixed models

Euphytica

Volumn 161, Issue 1-2, 2008, Pages 229-240

  Emrich, Katharina ^a   Price, Adam ^b   Piepho, Hans Peter ^a  

^a UNIVERSITY OF HOHENHEIM   (Germany)

^b UNIVERSITY OF ABERDEEN   (United Kingdom)

Author keywords

Experimental design; Genotype x environment interaction; Mixed model; QTL mapping; Rice root traits

Indexed keywords

EID: 42149181758     PISSN: 00142336     EISSN: 15735060     Source Type: Journal    
DOI: 10.1007/s10681-008-9676-7     Document Type: Article

References (24)

1. Basten C, Weir BS, Zeng Z-B (2001) QTL cartographer: a reference manual and tutorial for QTL mapping. Department of Statistics, North Carolina State University, Raleigh, NC
2. Boer MP, van Eeuwijk FA, Malosetti M (2007) A mixed model strategy for the detection of quantitative trait loci in multiple environmental trials. Euphytica (This issue)
3. Butler D, Cullis BR, Gilmour AR, Gogel BJ (2003) Spatial analysis with mixed models with S-Plus. SAMM reference manual. Training series QE02001, NSW Agriculture (pdf version)
4. Churchill GA, RW Doerge (1994) Empirical threshold values for Quantitative Trait Mapping. Genetics 138:963-971
5. Gilmour AR, Thompson R, Cullis BR (1995) Average Information REML, an efficient algorithm for variance parameter estimation in linear mixed models. Biometrics 51:1440-1450
6. Gilmour AR, Cullis BR, Welham SJ (2000) ASREML reference manual. NSW Agriculture, Orange, Australia
7. Insightful Corporation (2001) S-Plus 6 for Windows Guide to Statistics I + II. Seattle, WA
8. Jansen RC, Van Ooijen JW, Stam P, Lister C, Dean C (1994) Genotype-by-environment interaction in genetic mapping of multiple quantitative trait loci. Theor Appl Genet 91:33-37
9. Kao C-H (2000) On the differences between maximum likelihood and regression interval mapping in the analysis of quantitative trait loci. Genetics 156:855-865
10. Lander ES, Green P, Abrahamson J, Barlow A, Daly MJ, Lincoln SE, Newburg L (1987) MAPMAKER: an interactive computer package for constructing primary genetic linkage maps of experimental and natural populations. Genomics 1:174-181
11. Li ZK, Yu SB, Lafitte RH, Huang N, Courtois B, Hittalmani S, Vijayakumar CHM, Liu GF, Wang GC, Shashidhar HE, Zhuang JY, Zheng KL, Singh VP, Sidhu JS, Srivantaneeyakul S, Khush GS (2003) QTL x environment interactions in rice. I. Heading date and plant height. Theor Appl Genet 108:141-153
12. MacMillan K, Emrich K, Piepho HP, Mullins CE, Price AH (2006a) Assessing the importance of genotype x environment interaction for root traits in rice using a mapping population I: A soil-filled box screen. Theor Appl Genet 113:977-986
13. MacMillan K, Emrich K, Piepho HP, Mullins CE, Price AH (2006b) Assessing the importance of genotype x environment interaction for root traits in rice using a mapping population II: Conventional QTL analysis. Theoretical and Applied Genetics 113:953-964
14. Malosetti M, Ribaut JM, Vargas M, Crossa J, van Eeuwijk FA (2007) Multi-trait QTL Mixed Modeling with an Application to Drought Stress in Maize. Euphytica (This Issue)
15. Piepho HP (2000) A mixed-model approach to mapping quantitative trait loci in barley on the basis of multiple environment data. Genetics 156:2043-2050
16. Piepho HP (2005) Statistical tests for QTL and QTL-by-environment effects in segregating populations derived from line crosses. Theor Appl Genet 110:561-570
17. Piepho HP, Büchse A, Emrich K (2003) A hitchhiker's guide to mixed models for randomized experiments. J Agron Crop Sci 190:230-247
18. Piepho HP, Williams ER, Fleck M (2006) A note on the analysis of designed experiments with complex treatment structure. HortScience 41:446-452
19. Price AH, Steele KA, Moore BJ, Jones RGW (2002) Upland rice grown in soil-filled chambers and exposed to contrasting water-deficit regimes: II. Mapping QTL for root morphology and distribution. Field Crop Res 76:25-43
20. Rebai A, Goffinet B, Mangin B (1994) Approximate thresholds of interval mapping tests for QTL detection. Genetics 138:235-240
21. SAS Institute, Inc (1999) SAS/STAT User's Guide. Version 8. SAS Institute, Cary
22. Smith AB, Cullis BR, Thompson R (2005) The analysis of crop cultivar breeding and evaluation trials: an overview of current mixed model approaches. J Agric Sci, Cambridge 143:449-462
23. Wang DL, Zhu J, Li ZK, Paterson AH (1999) Mapping QTLs with epistatic effects and QTL x environment interactions by mixed linear model approaches. Theor Appl Genet 99:1255-1264
24. Zeng Z-B (1994) Precision mapping of quantitative trait loci. Genetics 136:1457-1468