AFLP and DNA sequence variation in an Andean domesticate, pepino (Solanum muricatum, Solanaceae): Implications for evolution and domestication

American Journal of Botany

Volumn 94, Issue 7, 2007, Pages 1219-1229

  Blanca, José M ^a   Prohens, Jaime ^a   Anderson, Gregory J ^b   Zuriaga, Elena ^a   Cañizares, Joaquín ^a   Nuez, Fernando ^a  

^a UNIVERSITAT POLITÈCNICA DE VALÈNCIA   (Spain)

^b UNIVERSITY OF CONNECTICUT   (United States)

Author keywords

AFLP; Andean region; Crop evolution; DNA sequence; Pepino; Solanum muricatum; Solanum section Basarthrum

Indexed keywords

DICOTYLEDON; DNA; DOMESTICATION; GENETIC ANALYSIS; GENETIC VARIATION; MOLECULAR ANALYSIS; POPULATION BOTTLENECK;

MAGNOLIOPHYTA; SOLANACEAE; SOLANUM; SOLANUM MURICATUM;

EID: 34447300189     PISSN: 00029122     EISSN: None     Source Type: Journal    
DOI: 10.3732/ajb.94.7.1219     Document Type: Article

References (70)

1. ANDERSON, G. J. 1975. The variation and evolution of selected species of Solanum, section Basarthrum. Brittonia 27: 209-222.
2. ANDERSON, G. J. 1977. The variation and evolution of selected species of Solanum, section Basarthrum (Solanaceae). II. Brittonia 29: 116-128.
3. ANDERSON, G. J. 1979. Systematic and evolutionary consideration of species of Solanum section Basarthrum. In J. G. Hawkes, R. N. Lester, and A. D. Skelding [eds.], The biology and taxonomy of the Solanaceae, 549-562. Linnean Society Symposium Series No. 7. Academic Press, London, UK.
4. ANDERSON, G. J., AND L. M. BERNARDELLO. 1991. The relationships of Solanum cochoae, a new species from Peru. Novon 1: 127-133.
5. ANDERSON, G. J., AND R. K. JANSEN. 1998. Biosystematic and molecular systematic studies of Solanum section Basarthrum and the origin and relationships of the pepino dulce (S. muricatum). Monographs in Systematic Botany from the Missouri Botanical Garden 68: 17-32.
6. ANDERSON, G. J., R. K. JANSEN, AND Y. KIM. 1996. The origin and relationships of the pepino, Solanum muricatum (Solanaceae): DNA restriction fragment evidence. Economic Botany 50: 369-380.
7. ANDERSON, G. J., C. T. MARTINE, J. PROHENS, AND F. NUEZ. 2006. Solanum perlongistylum and S. catilliflorum, new endemic Peruvian species of Solanum, section Basarthrum, are close relatives of the domesticated pepino, S. muricatum. Novon 16: 161-167.
8. ANDERSON, G. J., T. P. STEINHARTER, AND G. COOPER-DRIVER. 1987. Foliar flavonoids and the systematics of Solanum section Basarthrum. Systematic Botany 12: 534-540.
9. BELKHIR, K., P. BORSA, L. CHIKHI, N. RAUFASTE, AND F. BONHOMME. 2004. GENETIX 4.05, logiciel sous Windows TM pour la génétique des populations. Laboratoire Genome, Populations, Interactions, CNRS UMR 5000, Université de Montpellier II, Montpellier, France.
10. BENHAM, J., J. U. JEUNG, M. JASIENIUK, V. KANAZIN, AND T. BLAKE. 1999. Genographer: a graphical tool for automated fluorescent AFLP and microsatellite analysis. Department of Plant Science, Montana State University, Bozeman, Montana, USA.
11. BERNARDELLO, L. M., AND G. J. ANDERSON. 1990. Karyotypic studies in Solanum section Basarthrum (Solanaceae). American Journal of Botany 77: 420-431.
12. BONFIELD, J. 2004. Staden package, version 1.4. Available at http://staden.sourceforge.net.
13. BRETÓ , M. P., M. J. ASINS, AND E. A. CARBONELL. 1993. Genetic variability in Lycopersicon species and their genetic relationships. Theoretical and Applied Genetics 86: 113-120.
14. BRÜCHER, H. 1966. Solanum caripense HBK (subsect. Basarthrum) in Venezuela. Feddes Repertorium 73: 216-221.
15. BUNTJER, J. B. 1997. Phylogenetic computer tools, version 1.3. Wageningen University, Wageningen, Netherlands.
16. CLARK, A. G. 1990. Inference of haplotypes from PCR-amplified samples of diploid populations. Molecular Biology and Evolution 7: 111-122.
17. CLARK, R. M., E. LINTON, J. MESSING, AND J. F. DOEBLEY. 2004. Pattern of diversity in the genomic region near the maize domestication gene tb1. Proceedings of the National Academy of Sciences, USA 101: 700-707.
18. CORRELL, D. S. 1962. The potato and its wild relatives. Texas Research Foundation, Renner, Texas, USA.
19. DAWES, S. N., AND G. J. PRINGLE. 1983. Subtropical fruits from South and Central America. In G. Wratt and H. C. Smith [eds.], Plant breeding in New Zealand, 33-35. Butterworths, Wellington, New Zealand.
20. FELSENSTEIN, J. 1989. PHYLIP - phylogeny inference package, version 3.2. Cladistics 5: 164-166.
21. FU, Y. X., AND W. H. LI. 1993. Statistical tests of neutrality of mutations. Genetics 133: 693-709.
22. HARLAN, J. R. 1992. Crops and man. American Society of Agronomy, Madison, Wisconsin, USA.
23. HARTER, A. V., K. A. GRADNER, D. FALUSH, D. L. LENTZ, R. A. BYE, AND L. H. RIESEBERG. 2004. Origin of extant domesticated sunflowers in eastern North America. Nature 430: 201-205.
24. HEISER, C. B. 1964. Origin and variability of the pepino (Solanum muricatum): a preliminary report. Baileya 12: 151-158.
25. HEISER, C. B. 1969. Nightshades: the paradoxical plants. Freeman, San Francisco, California, USA.
26. HEISER, C. B. 1985. Of plants and people. University of Oklahoma Press, Norman, Oklahoma, USA.
27. HUDSON, R. R. 1987. Estimating the recombination parameter of a finite population model without selection. Genetical Research 50: 245-250.
28. HUDSON, R. R., D. D. BOOS, AND N. L. KAPLAN. 1992. A statistical test for detecting geographic subdivision. Molecular Biology and Evolution 9: 138-151.
29. HUDSON, R. R., AND N. L. KAPLAN. 1985. Statistical properties of the number of recombination events in the history of a sample of DNA sequences. Genetics 111: 147-164.
30. JONES, C. J., K. J. EDWARDS, S. CASTAGLIONE, M. O. WINFIELD, F. SALA, C. VAN DE WIEL, G. BREDEMEIJER, B. VOSMAN, M. MATTHES, A. DALY, R. BRETTSCHENIDER, P. BETTINI, M. BUIATTI, B. MAESTRI, A. MALCEVSCHI, N. MARMIROLI, R. AERT, G. VOLCKAERT, J. RUEDA, R. LINACERO, A. VÁZQUEZ, AND A. KARP. 1997. Reproducibility testing of RAPD, AFLP and SSR markers in plants by a network of European laboratories. Molecular Breeding 3: 381-390.
31. KARDOLUS, J. P., H. J. VAN ECK, AND R. G. VAN DEN BERG. 1998. The potential of AFLPs in biosystematics: a first application in Solanum taxonomy (Solanaceae). Plant Systematics and Evolution 210: 87-103.
32. KIMURA, M. 1983. The neutral theory of molecular evolution. Cambridge University Press. Cambridge, UK.
33. KOOPMAN, W. J. M., M. J. ZEVENBERGEN, AND R. G. VAN DEN BERG. 2001. Species relationships in Lactuca s.l. (Lactucaceae, Asteraceae) inferred from AFLP fingerprints. American Journal of Botany 88: 1881-1887.
34. MASON-GAMER, R. J., K. E. HOLSINGER, AND R. K. JANSEN. 1995. Chloroplast DNA haplotype variation within and among populations of Coreopsis grandiflora. Molecular Biology and Evolution 12: 371-381.
35. MCKEAN, A. L., J. KE, J. SONG, P. CHE, S. ACHENBACH, B. J. NIKOLAU, AND E. S. WURTELE. 2000. Molecular characterization of the non-biotin-containing subunit of 3-methylcrotonyl-CoA carboxylase. Journal of Biological Chemistry 275: 5582-5590.
36. MORLEY-BUNKER, M. J. S. 1983. A new commercial crop, the pepino (Solanum muricatum, Ait.) and suggestions for further development. Annual Report of the Royal New Zealand Institute of Horticulture 11: 8-19.
37. NEI, M. 1973. Analysis of gene diversity in subdivided populations. Proceedings of the National Academy of Sciences, USA 70: 3321-3323.
38. NEI, M. 1987. Molecular evolutionary genetics. Columbia University Press, New York, New York, USA.
39. NEI, M., AND R. K. CHESSER. 1983. Estimation of fixation indices and gene diversities. Annals of Human Genetics 47: 253-259.
40. NEI, M., AND W. H. LI. 1979. Mathematical model for studying genetic variation in terms of restriction endonucleases. Proceedings of the National Academy of Sciences, USA 76: 5269-5273.
41. NESBITT, T. C., AND S. D. TANKSLEY. 2002. Comparative sequencing in the genus Lycopersicon: implications for the evolution of fruit size in the domestication of cultivated tomatoes. Genetics 162: 365-379.
42. NUEZ, F., R. MORALES, J. PROHENS, P. FERNÁNDEZ DE CÓRDOVA, S. SOLER, E. VALDIVIESO, AND V. SOLÓRZANO. 1999. Germplasm of Solanaceae horticultural crops in the south of Ecuador. Plant Genetic Resources Newsletter 120: 44-47.
43. NUEZ, F., J. PROHENS, AND J. M. BLANCA. 2004. Relationships, origin, and diversity of Galapagos tomatoes: implications for the conservation of natural populations. American Journal of Botany 91: 86-99.
44. NUEZ, F., AND J. J. RUIZ. 1996. El pepino dulce y su cultivo. Food and Agricultural Organization of the United Nations, Rome, Italy.
45. OLSEN, K. M., AND M. D. PURUGGANAN. 2002. Molecular evidence on the origin and evolution of glutinous rice. Genetics 162: 941-950.
46. OLSEN, K. M., AND B. A. SCHAAL. 1999. Evidence on the origin of cassava: phylogeography of Manihot esculenta. Proceedings of the National Academy of Sciences, USA 96: 5586-5591.
47. PAPA, R., AND P. GEPTS. 2003. Asymmetry of gene flow and differential geographical structure of molecular diversity in wild and domesticated common bean (Phaseolus vulgaris L.) from Mesoamerica. Theoretical and Applied Genetics 106: 239-250.
48. PROHENS, J., G. J. ANDERSON, J. M. BLANCA, J. CAÑIZARES, E. ZURIAGA, AND F. NUEZ. 2006. The implications of AFLP data for the systematics of the wild species of Solanum section Basarthrum. Systematic Botany 31: 206-214.
49. PROHENS, J., G. J. ANDERSON, A. RODRÍ GUEZ-BURRUEZO, AND F. NUEZ. 2003. Exploiting wild species for the genetic improvement of the pepino (Solanum muricatum). Journal of Applied Botany 77: 21-27.
50. PROHENS, J., M. LEIVA-BRONDO, A. RODRÍGUEZ-BURRUEZO, AND F. NUEZ. 2002. 'Puzol': a facultatively parthenocarpic hybrid of pepino. HortScience 37: 418-419.
51. PROHENS, J., AND F. NUEZ. 2001. The use of wild species in the improvement of pepino (Solanum muricatum). In G. Barendse, G. van den Berg, T. Mariani, and G. van der Weerden [eds.], Solanaceae V: advances in taxonomy and utilization, 297-306. Nijmegen University Press, Nijmegen, Netherlands.
52. PROHENS, J., J. J. RUIZ, AND F. NUEZ. 1996. The pepino (Solanum muricatum, Solanaceae): a "new" crop with a history. Economic Botany 50: 255-268.
53. RIESEBERG, L. H., AND D. E. SOLTIS. 1991. Phylogenetic consequences of cytoplasmic flow in plants. Evolutionary Trends in Plants 5: 65-84.
54. RODRÍGUEZ-BURRUEZO, A., J. PROHENS, AND F. NUEZ. 2003. Performance of hybrid segregating populations of pepino (Solanum muricatum) and its relation to genetic distance among parents. Journal of Horticultural Science and Biotechnology 78: 911-918.
55. ROHLF, F. 1996. NTsys-pc: numerical taxonomy and multivariate system, version 2.0. Exeter Software, Soetauhet, New York, USA.
56. ROZAS, J., J. C. SANCHEZ-DELBARRIO, X. MESSEGUER, AND R. ROZAS. 2003. DnaSP, DNA polymorphisms analyses by the coalescent and other methods. Bioinformatics 19: 2496-2497.
57. RUS-KORTEKAAS, W., M. J. M. SMULDERS, P. ARENS, AND B. VOSMAN. 1994. Direct comparison of levels of genetic variation in tomato detected by a GACA-containing microsatellite probe and by random amplified polymorphic DNA. Genome 37: 375-381.
58. SCHAAL, B. A., AND K. M. OLSEN. 2000. Gene genealogies and population variation in plants. Proceedings of the National Academy of Sciences, USA 97: 7024-7029.
59. SCHULTES, R. E., AND R. ROMERO- CASTAÑEDA. 1962. Edible fruits of Solanum in Colombia. Harvard University Botanical Museum Leaflets 19: 235-286.
60. SONG, B. H. A., M. J. CLAUSS, A. PEPPER, AND T. MITCHELL-OLDS. 2006. Geographic patterns of microsatellite variation in Boechera stricta, a close relative of Arabidopsis. Molecular Ecology 15: 357-369.
61. SPOONER, D. M., G. J. ANDERSON, AND R. K. JANSSEN. 1993. Chloroplast DNA evidence for the interrelationships of tomatoes, potatoes and pepinoes (Solanaceae). American Journal of Botany 80: 676-688.
62. SPOONER, D. M., K. MCLEAN, G. RAMSAY, R. WAUGH, AND G. J. BRYAN. 2006. A single domestication for potato based on multilocus amplified fragment length polymorphism genotyping. Proceedings of the National Academy of Sciences, USA 102: 14694-14699.
63. SPOONER, D. M., I. E. PERALTA, AND S. KNAPP. 2005. Comparison of AFLPs with other markers for phylogenetic inference in wild tomatoes (Solanum L. section Lycopersicon (Mill.) Wettst.). Taxon 54: 43-62.
64. SUKHOTU, T., O. KAMIJIMA, AND K. HOSAKA. 2004. Nuclear and chloroplast DNA differentiation in Andean potatoes. Genome 47: 46-56.
65. TAJIMA, F. 1989. Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics 123: 585-595.
66. TANKSLEY, S. D., M. W. GANAL, J. P. PRINCE, M. C. DE-VICENTE, M. W. BONIERBALE, P. BROUN, T. M. FULTON, J. J. GIOVANNONI, S. GRANDILLO, G. B. MARTIN, R. MESSEGUER, J. C. MILLER, L. MILLER, A. H. PATERSON, O. PINEDA, M. S. RODER, R. A. WING, W. WU, AND N. D. YOUNG. 1992. High density molecular linkage maps of the tomato and potato genomes. Genetics 132: 1141-1160.
67. THOMPSON, J. D., D. G. HIGGINS, AND T. J. GIBSON. 1994. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Research 22: 4673-4680.
68. VAVILOV, N. I. 1951. The origin, variation, immunity, and breeding of cultivated plants. Ronald Press, New York, New York, USA.
69. VOS, P., R. HOGERS, M. BLEEKER, M. REIJANS, T. VAN DE LEE, M. HORNES, A. FRIJTERS, J. POT, J. PELEMAN, AND M. KUIPER. 1995 AFLP: a new technique for DNA fingerprinting. Nucleic Acids Research 23: 4407-4414.
70. YEH, F. C., AND T. J. B. BOYLE. 1987. Population genetic analysis of codominant and dominant markers and quantitative traits. Belgian Journal of Botany 129: 157.