Joining genetic linkage maps using a joint likelihood function

Theoretical and Applied Genetics

Volumn 109, Issue 5, 2004, Pages 996-1004

  Hu, Xin Sheng ^a,c   Goodwillie, Carol ^b   Ritland, Kermit M ^a  

^a UNIVERSITY OF BRITISH COLUMBIA   (Canada)

^b EAST CAROLINA UNIVERSITY   (United States)

^c UNIVERSITY OF ALBERTA   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

ALGORITHMS; COMPUTER SIMULATION; MAPS; MATHEMATICAL MODELS; SAMPLING;

AMPLIFIED FRAGMENT LENGTH POLYMORPHISM (AFLP); APPLIED GENETICS; DOMINANT MARKERS; GENETIC LINKAGE MAPS;

GENETIC ENGINEERING;

ANGIOSPERM; ARTICLE; CHROMOSOME MAP; COMPARATIVE STUDY; COMPUTER PROGRAM; COMPUTER SIMULATION; CROSS BREEDING; GENETICS; METHODOLOGY; NUCLEIC ACID AMPLIFICATION; PHENOTYPE; RESTRICTION FRAGMENT LENGTH POLYMORPHISM; STATISTICAL MODEL;

ANGIOSPERMS; CHROMOSOME MAPPING; COMPUTER SIMULATION; CROSSES, GENETIC; LIKELIHOOD FUNCTIONS; NUCLEIC ACID AMPLIFICATION TECHNIQUES; PHENOTYPE; POLYMORPHISM, RESTRICTION FRAGMENT LENGTH; SOFTWARE;

LINANTHUS BICOLOR; LINANTHUS JEPSONII;

EID: 5344258210     PISSN: 00405752     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00122-004-1705-x     Document Type: Article

References (31)

1. Bailey NTJ (1961) Introduction to the mathematical theory of genetic linkage. Oxford University Press, London
2. 2 populations of maize (Zea mays L.). Theor Appl Genet 82:636-644
3. Burbridge A, Lindhout P, Grieve TM, Schumacher K, Theres K, van Heusden AW, Bonnema AB, Woodman KJ, Taylor IB (2001) Re-orientation and integration of the classical and interspecific linkage maps of the long arm of tomato chromosome 7. Theor Appl Genet 103:443-454
4. Butcher PA, Williams ER, Whitaker D, Ling S, Speed TP, Moran GF (2002) Improving linkage analysis in outcrossed forest trees - an example from Acacia mangium. Theor Appl Genet 104:1185-1191
5. Churchill GA, Doerge RW (1994) Empirical threshold values for quantitative trait mapping. Genetics 138:963-971
6. Dettori MT, Quarta R, Verde I (2001) A peach linkage map integrating RFLPs, SSRs, RAPDs, and morphological markers. Genome 44:783-790
7. Fisher RA, Balmakund B (1928) The estimation of linkage from the offspring of selfed heterozygotes. J Genet 20:79-92
8. Goodwillie C (2000) Inbreeding depression and mating systems in two species of Linanthus (Polemoniaceae). Heredity 84:283-293
9. Gosselin I, Zhou Y, Bousquet J, Isabel N (2002) Megagametophyte-derived linkage maps of white spruce (Picea glauca) based on RAPD, SCAR and ESTP markers. Theor Appl Genet 104:987-997
10. Grattapaglia D, Sederoff R (1994) Genetic linkage maps of Eucalyptus grandis and Eucalyptus urophylla using a pseudotestcross mapping strategy and RAPD markers. Genetics 137:1121-1137
11. Haldane JBS (1919) The combination of linkage values and the calculation of distance between the loci of linked factors. J Genet 8:299-309
12. Jansen J, de Jong AG, van Ooijen JW (2001) Constructing dense genetic linkage maps. Theor Appl Genet 102:1113-1122
13. Kosambi DD (1944) The estimation of map values from recombination values. Ann Eugen 12:172-175
14. Lander ES, Green P (1987) Construction of multilocus genetic linkage maps in humans. Proc Natl Acad Sci USA 84:2363-2367
15. Liu BH (1998) Statistical genomics: linkage, mapping, and QTL analysis. CRC Press, Boca Raton
16. Lombard V, Delourme R (2001) A consensus linkage map for rapeseed (Brassica napus L.): construction and integration of three individual maps from DH populations. Theor Appl Genet 103:491-507
17. Maliepaard C, Jansen J, Van Ooijen JW (1997) Linkage analysis in a full-sib family of an outbreeding plant species: overview and consequences for applications. Genet Res 70:237-250
18. Marques CM, Araujo JA, Ferreira JG, Whetten R, O'Malley DM, Liu BH, Sederoff R (1998) AFLP genetic maps of Eucalyptus globules and E. tereticornis. Theor Appl Genet 96:727-737
19. Mather K (1951) The measurement of linkage in heredity, 2nd edn. Methuen, London
20. Ooijen JW van, Voorrips RE (2001) JoinMap 3.0: software for the calculation of genetic linkage maps. Plant Research International, Wageningen
21. Ritland K (1986) Joint maximum likelihood estimation of genetic and mating structure using open-pollinated progenies. Biometrics 42:25-43
22. Ritland K (2002) Extensions of models for the estimation of mating systems using n independent loci. Heredity 88:221-228
23. Rosa GJM, Yandell BS, Gianola D (2002) A Bayesian approach for constructing genetic maps when markers are miscoded. Genet Sel Evol 34:353-369
24. Schemske DW, Goodwillie C (1996) Morphological and reproductive characteristics of Linanthus jepsonii (Polemoniaceae), a newly described, geographically restricted species from Northern California. Madrono 43:453-463
25. Sewell MM, Sherman BK, Neale DB (1999) A consense map for loblolly pine (Pinus taeda L.) I. Construction and integration of individual linkage maps from two outbred three-generation pedigrees. Genetics 151:321-330
26. Stam P (1993) Construction of integrated genetic linkage maps by means of a new computer package: JoinMap. Plant J 3:739-744
27. Suitter KA, Wendel JF, Case JS (1983) LINKAGE 1: a PASCAL computer program for the detection and analysis of genetic linkage. J Heredity 74:203-204
28. Testolin R, Huang WG, Lain O, Messian R, Vecchione A, Cipriani G (2001) A kiwifruit (Actinidia spp.) linkage map based on microsatellites and integrated with AFLP markers. Theor Appl Genet 103:30-36
29. Ulloa M, Meredith WR, Shappley ZW, Kahler AL (2002) RFLP genetic linkage maps from F2.3 populations and a joinmap of Gossypium hirsutum. Theor Appl Genet 104:200-208
30. Wu J, Jenkins J, Zhu J, McCarty J, Watson C (2003) Monte Carlo simulations on marker grouping and ordering. Theor Appl Genet 107:568-573
31. Wu RL, Ma CX, Wu SS, Zeng ZB (2002) Linkage mapping of sex-specific differences. Genet Res 79:85-96