Comparison of PCR-based molecular marker analyses of Musa breeding populations

Molecular Breeding

Volumn 5, Issue 3, 1999, Pages 233-244

  Crouch, J H ^a,b   Crouch, H K ^a   Constandt, H ^b   Van Gysel, A ^c   Breyne, P ^c   Van Montagu, M ^c   Jarret, R L ^d   Ortiz, R ^a,e  

^a INTERNATIONAL INSTITUTE OF TROPICAL AGRICULTURE   (Nigeria)

^b Elsoms Seeds Ltd   (United Kingdom)

^c DEPARTMENT OF PLANT SYSTEMS BIOLOGY   (Belgium)

^d AGRICULTURAL RESEARCH SERVICE   (United States)

^e UNIVERSITY OF COPENHAGEN   (Denmark)

Author keywords

AFLP; Breeding; Musa; Plantain; RAPD; VNTR

Indexed keywords

AMPLIFIED FRAGMENT LENGTH POLYMORPHISM; GENETIC IMPROVEMENT; GENOTYPE; HYBRID; PLANT BREEDING; PLANT GENETICS; POLYMERASE CHAIN REACTION; RANDOM AMPLIFIED POLYMORPHIC DNA; TETRAPLOIDY;

PLANTS (BOTANY); SEED;

AFLP; BREEDING; BREEDING POPULATIONS; GENETIC IMPROVEMENTS; HIGH FREQUENCY HF; MOLECULAR MARKER; MUSA; PLANTAIN; RAPD; VNTR;

POPULATION STATISTICS;

MUSA; MUSA X PARADISIACA;

EID: 0032906984     PISSN: 13803743     EISSN: None     Source Type: Journal    
DOI: 10.1023/A:1009649521009     Document Type: Article

References (66)

1. Cho YG, Blair MW, Panaud O, McCouch SR: Cloning and mapping of variety-specific rice genomic DNA sequences: amplified fragment length polymorphism (AFLP) from silver-stained polyacrylamide gels. Genome 9: 373-378 (1996).
2. Codon AC, Benitez T, Korhola M: Chromosomal reorganization during meiosis of Saccharomyces cerevisiae baker's yeast. Curr Genet 32: 247-259 (1997).
3. Crouch JH, Crouch HK, Ortiz R, Jarret RL: Microsatellite markers for molecular breeding of Musa. InfoMusa 6(1): 5-6 (1997).
4. Crouch HK, Crouch JH, Jarret RL, Cregan PB, Ortiz R: Segregation of microsatellite loci from haploid and diploid gametes in Musa. Crop Sci 38: 211-217 (1998).
5. Crouch JH, Vuylsteke D, Ortiz R: Perspectives on the application of biotechnology to assist the genetic enhancement of plantain and banana (Musa spp.). Electr J Biotechnol 1: http://www.ejb.org (1998).
6. Dantas JLL, Alves EJ, Lopex Felix AI, Oliveira e Silva S de: 'Pioneira': a new yellow sigatoka resistant dessert banana. MusAfrica (IITA, Nigeria) 7: 17 (1995).
7. Diwan N, Cregan PB: Automated sizing of fluorescent-labeled simple sequence repeat (SSR) markers to assay genetic variation in soybean. Theor Appl Genet 95: 723-733 (1997).
8. FAO: http://apps.fao.org/lim500/nph-wrap.pl?Production. Crops.Primary& Domain=SUA (1998).
9. Godwin ID, Sangduen N, Kunanuvatchaidach R, Piperidis G, Adkins SW: RAPD polymorphisms among variant and phenotypically normal rice (Oryza saliva var. indica) somaclonal progenies. Plant Cell Rep 16: 320-324 (1997).
10. Halldén C, Hansen M, Nilsson N-O, Hjerdin A: Competition as a source of errors in RAPD analysis. Theor Appl Genet 93: 1185-1192 (1996).
11. Hutton M, Evans J, Pipena P, Sexton L, Malandro MS: Conversion of AFLP bands to dominant and co-dominant allele-specific PCR based tests. Abstracts of Plant and Animal Genome VI. http://probe.nalusda.gov:8300/pag/6review/ (1998).
12. Jaccard P: Nouvelles recherches sur la distribution florale. Bull Soc Vaud Sci Nat 44: 223-270 (1908).
13. Jarret RL, Vuylsteke DR, Gawel NJ, Pimentel RB, Dunbar LJ: Detecting genetic diversity in diploid bananas using PCR and primers from a highly repetitive DNA sequence. Euphytica 68: 69-76 (1993).
14. Jarret RL, Bhat KV, Cregan P, Ortiz R, Vuylsteke D: Isolation of microsatellite DNA markers in Musa. InfoMusa 3(2): 3-4 (1994).
15. Ji L-H, Langridge P: The genetic control of chromosome pairing in wheat. Aust J Plant Physiol 17: 239-251 (1990).
16. Jones CJ, Edwards KJ, Castaglione S, Winfield MO, Sala F, Van de Wiel C, Bredemeijer G, Vosman B, Matthes M, Daly A, Brettschneider R, Bettini P, Buiatti M, Maestri E, Malcevschi A, Marmiroli N, Aert R, Volckaert G, Rueda J, Linacero R, Vazquez A, Karp A: Reproducibility testing of RAPD, AFLP and SSR markers in plants by a network of European laboratories. Mol Breed 3: 381-390 (1997).
17. Kaemmer D, Fischer D, Jarret RL, Baurens F-C, Grapin A, Dambier D, Noyer JL, Lanaud C, Kahl G, Lagoda PJL: Molecular breeding in the genus Musa: a strong case for STMS marker technology. Euphytica 96: 49-63 (1997).
18. Keim P, Schupp JM, Travis SE, Clayton K, Zhu T, Shi L, Ferreira A, Webb DM: A high-density soybean genetic map based on AFLP markers. Crop Sci 37: 537-543 (1997).
19. King IP, Reader SM, Purdie KA, Orford SE, Miller TE: A study of the effect of a homoeologous pairing promoter on chromosome pairing in wheat/rye hybrids using genomic in situ hybridization. Heredity 72: 318-321 (1994).
20. Lagoda PJL, Noyer JL, Dambier D, Baurens F-C, Lanaud C: Abundance and distribution of simple sequence repeats in the Musaceae family: microsatellite markers to map the banana genome. In: Proceedings of an international symposium on the use of induced mutations and molecular techniques for crop improvement, 19-23 June 1995, pp. 287-295. International Atomic Energy Agency, Vienna, Austria (1995).
21. Lu J, Knox MR, Ambrose MJ, Brown JKM, Ellis THN: Comparative analysis of genetic diversity in pea assessed by RFLP-and PCR-based methods. Theor Appl Genet 93: 1103-1111 (1996).
22. + selectivity gene Knal by sequential homoeologous recombination in durum wheat. Theor Appl Genet 93: 1180-1184 (1996).
23. Maughan PJ, Saghai Maroof MA, Buss GR: Microsatellite and amplified sequence length polymorphisms in cultivated and wild soybean. Genome 38: 715-723 (1995).
24. Micheli MR, Bova R, Pascale E, D'Ambrosio E: Reproducible DNA fingerprinting with the random amplified polymorphic DNA (RAPD) method. Nucl Acids Res 22: 1921-1922 (1994).
25. Milbourne D, Meyer R, Bradshaw JE, Baird E, Bonar N, Provan J, Powell W, Waugh R: Comparison of PCR-based marker systems for the analysis of genetic relationships in cultivated potato. Mol Breed 3: 127-136 (1997).
26. Mitchell SE, Kresovich S, Jester CA, Hernandez CJ, Szewc-McFadden AK: Application of multiplex PCR and fluorescence-based, semi-automatic allele sizing technology for genotyping plant genetic resources. Crop Sci 37: 617-624 (1997).
27. Ortiz R: Musa genetics. In: Gowen S (ed) Bananas and Plantains, pp. 84-109. Chapman and Hall, London, UK (1995).
28. Ortiz R: Secondary polyploids, heterosis and evolutionary crop breeding for further improvement of the plantain and banana genome. Theor Appl Genet 94: 1113-1120 (1997).
29. Ortiz R, Ferris RSB, Vuylsteke DR: Banana and plantain improvement. In: Gowen S (ed) Bananas and Plantains, pp. 110-146. Chapman and Hall, London, UK (1995).
30. Ortiz R, Vuylsteke DR, Crouch HK, Crouch JH: TMP3x: triploid black sigatoka resistant Musa hybrid germplasm. HortScience 33: 362-365 (1998).
31. Osuji JO, Harrison G, Crouch J, Heslop-Harrison JS: Identification of the genomic constitution of Musa L. lines (bananas, plantains and hybrids) using molecular cytogenetics. Ann Bot 80: 787-793 (1997).
32. Parokonny AS, Marshall JA, Bennett MD, Cocking EC, Davey MR, Power JB: Homoeologous pairing and recombination in backcross derivatives of tomato somatic hybrids (Lycopersicon esculentum (+) L. peruvianum). Theor Appl Genet 94: 713-723 (1997).
33. Payne RW, Lane PW, Ainsley AE, Bicknell KE, Digby PGN, Harding SA, Leech PK, Simpsom HR, Todd AD, Verrier PJ, White RP: Genstat 5 Reference Manual. Oxford University Press, UK (1989).
34. Penner GA: RAPD analysis of plant genomes. In: Jauhar PP (ed) Methods of Genome Analysis in Plants, pp. 251-268. CRC Press, Boca Raton, FL (1996).
35. Penner GA, Bush A, Wise R, Kim W, Domier L, Kasha K, Laroche A, Scoles G, Molnar SJ, Fedak G: Reproducibility of random amplified polymorphic DNA (RAPD) analysis among laboratories. PCR Meth Appl 2: 341-345 (1993).
36. Powell W, Mackray GC, Provan J: Polymorphism revealed by simple sequence repeats. Trends Plant Sci 1: 215-222 (1996a).
37. Powell P, Morgante M, Andre C, Hanafey M, Vogel J, Tingey S, Rafalski A: The comparison of RFLP, RAPD, AFLP and SSR (microsatellite) markers for germplasm analysis. Mol Breed 2: 225-238 (1996b).
38. Qu L-J, Foote TN, Roberts MA, Money TA, Aragón-Alcaide L, Snape JW, Moore G: A simple PCR-based method for scoring the phlb deletion in wheat. Theor Appl Genet 96: 371-375 (1998).
39. Rafalski JA, Tingey SV: Genetic diagnostics in plant breeding: RAPDs, microsatellites and machines. Trends Genetics 9: 275-280 (1993).
40. Rafalski JA, Vogel JM, Margante M, Powell W, Andre C, Tingey SV: Generating and using DNA markers in plants. In: Birren B, Lai E (eds) Nonmammalian Genomic Analysis: A Practical Guide, pp. 75-134. Academic Press, London, UK (1996).
41. Rasmusson DC, Phillips RL: Plant breeding progrss and genetic diversity from de novo variation and epistasis. Crop Sci 37: 303-310 (1997).
42. Robinson JC: Bananas and plantains. CAB International, UK (1996).
43. Rowe P, Rosales F: Diploid breeding at FHIA and the development of Goldfinger. InfoMusa 2(2): 9-11 (1993).
44. Rowe P, Rosales FE: Bananas and plantains. In: Janick J, Moore JN (eds) Fruit Breeding, Volume I: Tree and Tropical Fruits, pp. 167-211. John Wiley, New York (1996).
45. Russell JR, Fuller JD, Macaulay M, Hatz BG, Jahoor A., Powell W, Waugh R: Direct comparison of levels of genetic variation among barley accessions detected by RFLPs, AFLPs, SSRs and RAPDs. Theor Appl Genet 95: 714-72 (1997).
46. Shan X, Blake TK, Talbert LE: Conversion of AFLPs to sequence-tagged-site PCR markers. Abstracts of Plant and Animal Genome VI. http://probe.nalusda.gov:8300/pag/6review/ (1998).
47. Sharma SK, Knox MR, Ellis THN: AFLP analysis of the diversity and phylogeny of Lens and its comparison with RAPD analysis. Theor Appl Genet 93: 751-758 (1996).
48. Sharpe AG, Parkin IAP, Keith DJ, Lydiate DJ: Frequent nonreciprocal translocations in the amphidiploid genome of oilseed rape (Brassica napus). Genome 38: 1112-1121 (1995).
49. Shroch P, Nienhuis J: Impact of scoring error and reproducibility of RAPD data on RAPD based estimates of genetic distance. Theor Appl Genet 91: 1086-1091 (1995).
50. Sobral BWS, Honeycutt RJ: High output genetic mapping of polyploids using PCR-generated markers. Theor Appl Genet 86: 105-112 (1993).
51. Stover RH, Simmonds NW: Bananas, 3rd ed. Longman, London, UK (1987).
52. Tenkouano A, Crouch JH, Crouch HK, Vuylsteke D, Ortiz R: Comparison of DNA marker and pedigree methods of genetic analysis in plantain and banana (Musa spp.) clones. II. Predicting hybrid performance. Theor Appl Genet (in press).
53. Vandenhout H, Ortiz R, Vuylsteke DR, Swennen R, Bai KV: Effect of ploidy on stomatal and other quantitative traits in plantain and banana hybrids. Euphytica 83: 117-122 (1995).
54. Van Eck HJ, van der Voort JR, Draaistra J, van Zandvoort P, van Enckevort E, Segers B, Peleman J, Jacobsen E, Helder J, Bakker J: The inheritance and chromosomal localization of AFLP markers in a non-inbred potato offspring. Mol Breed 1: 397-410 (1995).
55. Vignal A, Gyapay G, Hazan J, Nguyen S, Dupraz C, Cheron N, Becuwe N, Tranchant M, Weissenbach J: Nonradioactive multiplex procedure for genotyping of microsatellite markers. In: Adolph KW (ed) Methods in Molecular Genetics, vol. 1: Gene and Chromosome Analysis, Part A, pp. 211-221. Academic Press, London, UK (1993).
56. Vos P, Hogers R, Bleeker M, Reijans M, van de Lee T, Homes M, Frijters A, Pot J, Peleman J, Kuiper M, Zabeau M: AFLP: a new approach for DNA fingerprinting. Nucl Acids Res 23: 4407-4414 (1995).
57. de Vries AC, Ferwerda JD, Flach M: Choice of food crops in relation to actual and potential production in the tropics. Neth J Agric Sci 15: 241-248 (1967).
58. Vuylsteke DR, Swennen RL, DeLanghe E: Tissue culture technology for the improvement of African plantains. In: Fullerton RA, Stover RH (eds) Sigatoka leaf spot diseases of bananas. Proceedings of an international workshop, San Jose, Costa Rica, 28 March-1 April 1989, pp. 316-337. INIBAP, Montpellier, France (1990).
59. Vuylsteke D, Swennen R, DeLanghe E: Somaclonal variation in plantains (Musa spp., AAB group) derived from shoot-tip culture. Fruits 46: 429-439 (1991).
60. Vuylsteke DR, Swennen RL, Ortiz R: Development and performance of black sigatoka-resistant tetraploid hybrids of plantain (Musa spp., AAB group). Euphytica 65: 33-42 (1993).
61. Vuylsteke DR, Swennen RL, Ortiz R: Registration of 14 improved tropical Musa plantain hybrids with black sigatoka resistance. HortScience 28: 957-959 (1993).
62. Vuylsteke D, Ortiz R, Ferris S, Swennen R: PITA-9: A black-sigatoka-resistant hybrid from the 'False-Horn' plantain gene pool. HortScience 30: 395-397 (1995).
63. Vuylsteke D, Ortiz R, Ferris RSB, Crouch JH: Plantain Improvement. Plant Breed Rev 14: 267-320 (1997).
64. Wolters AMA, Schoenmakers HCH, Kamstra S, Van Eden J, Koornneef M, De Jong JH: Mitotic and meiotic irregularities in somatic hybrids of Lycopersicon esculentum and Solanum tuberosum. Genome 37: 726-735 (1994).
65. Zabeau M, Vos P: Selective restriction fragment amplification: a general method for DNA fingerprinting. European Patent Application 92402629.7; Publication number EP 0534858 A1 (1993).
66. Zar JH: Biostatistical Analysis, 2nd ed. Prentice-Hall, Englewood Cliffs, NJ (1984).