Analysis of markers of the genetic variants of (Nam Hom coconut Cocos nucifera L.) grown in western Thailand
Article Sidebar
Main Article Content
Abstract
Using 10 selected Amplified fragment length polymorphism (AFLP) primers, to investigate the genetic diversity and relationships among ‘Nam Hom’ coconut grown in the western region of Thailand, resulting in amplification of 169 reproducible polymorphic fragment products out of 416 bands scored. The percentages of polymorphic markers for AFLP ranged from 70.00% for E-ACC/M-CAT to 24.14 % for E-ACC/M-CAA primers. The phylogenetic tree dendrogram showed that the 55 coconut accessions grown in western region of Thailand could be classified into four groups at 0.88 of similarity coefficients. This grouping observation is consistent with existing morphological classification of coconut tree. The first group to the third group in this study contains tall coconut group and mutant coconut from dwarf coconut group. While, the forth group contains all coconut which belongs to the dwarf coconut group including ‘Nam Hom’ (‘Kon Chip’ and ‘Kon Klom’ strains) and ‘Nam Wan’ coconut from all production area with 0.895-1.00 of similarity coefficients indicated the narrow genetic diversity. Moreover, the results indicated that the ‘Nam Hom’ coconut samples both ‘Kon Chip’ and ‘Kon Klom’ strains collected in different locations were for the main part genetically similar with cophenetic correlation (r) = 0.9347.
Article Details
References
Persley GJ. Agricultural Biotechnology: Opportu-nities for international Development, CAB Inter-national, Wallingford, UK. ; 1992
Heatubun CD, Baker WJ, Mogea JP, Harley MM, Tjitrosoedirdjo SS, Dransfield J. A monograph of Cyrtostachys (Arecaceae). Kew Bull. 2009; 6(4): 67-94.
Menon KPV, Pandalay KM. The coconut. A monograph. Indian central coconut committee, 1958; 86-102.
Teulat B, Aldam C, Trehin R, Lebrun P, Barker JHA, Arnold GM, Kapp A, Baudouin L, Rognon F. An analysis of genetic diversity in coconut (Cocos nucifera) populations from across the geographic range using sequence-tagged microsatellites (SSRs) and AFLPs. Theoretical and Applied Genetics.2000; 100: 764–771.
Chomchalow N. Coconut varieties in Thailand. Assumption Journal of Technology. 1999; 3(1): 19-30.
Jones CJ, Edwards KJ, Castaglione S, Winfield MO, Sala F, Van de Wiel C, Bresemeijer G, Vosman B, Matthes M, Daly A, Marmiroli N, Aert NA, 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. Molecular Breeding. 1997; 3: 381-390.
Vos P, Hogers R, Bleeker M, Reijans M, van deLee T, Hornes M, Frijters A, Pot J, Peleman J, Kuiper M, Zabeau M. AFLP a new technique for DNA fingerprinting. Nucleic Acid Research. 1995; 23: 4407-4414.
Pejic I, Ajmone-Marsan P, Morgante M, Kozumplick V, Castiglioni P, Taramino G, Motto M. Comparative analysis of genetic similarity among maize inbred lines detected by RFLPs, RAPDs, SSRs, and AFLPs. Theoretical and Applied Genetics. 1998; 97: 1248-1255.
Garcia MJ, Oliver M, Gomez-Paniagua H, de Vicente MC. Comparing AFLP, RAPD and RFLP markers for measuring genetic diversity in melon. Theoretical and Applied Genetics. 2000; 101: 860-864.
Vuylsteke M, Mank R, Brugmans B, Stam P, Kuiper M. Further characterization of AFLP data as a tool in genetic diversity assessments among maize inbred lines. Molecular Breeding. 2000; 6: 265-276.
Yuan Z, Yin Y, Qu J, Zhu L, Li Y. Population genetic diversity in Chinese pomegranate (Punica granatum L.) cultivars revealed by fluorescent-AFLP markers. Journal of Genetic and Genome.2007; 34: 1061-1071.
Zhu J, Gale MD, Quarrie S, Jackson MT, Bryan GJ. AFLP markers for the study of rice biodiversity. Theoretical and Applied Genetics. 1998; 96: 602 - 611.
Krap A, Seberg O, Buiatti M. Molecular techniques in the assessment of botanical diversity. Annual of Botany (London). 1996; 78: 143-149.
Hill M, Witsenboer H, Zabeau M, Vos P, Kesseli R, Michelmore R. PCR-based fingerprinting using AFLPs as a tool for studying genetic relationships in Lactucaspp. Theoretical and Applied Genetics.1996; 93: 1202-1210.
Kardolus GP, Vaneck HJ, Vanberg RG. The potential of AFLPs in biosystematics: a first application in Solanum taxonomy. Plant Systematics and Evolution. 1998; 210: 87-103.
Hussein Ebtissam HA, Adawy SS, El-Kishin D, Moharam H, El-Itriby H. Genetic variability studies and fingerprinting of some Egyptian date palm (Phoenix dactylifera L.) cultivars. 1- A preliminary study using RAPD markers. Arabian Journal of Biotechnology. 2002; 5(2): 217-224.
Gerlach HK, Stosser R. Patterns of random amplified polymorphic DNAs for sweet cherry (Prunus avium L.) cultivar identification. Journal of Applied Botany – Angewandte Botanik. 1997; 71: 212-218.
Machado MA, Coletta FH, Targon MN, Pompeu JJ. Genetic relationship of Mediterranean mandarins (Citrus deliciosaTenore) using RAPD markers. Euphytica. 1996; 92: 321-326.
Le Febvre VB, Goffinet B, Chauvet JC, Caromel P, Signoret P, Brand R, Lopes-Valenzuela JA, Martinez O, Paredes-Lopez O. Geographic differentiation and embryo type identification in Mangifera indicaL. Hortscience. 1997; 32: 1105-1108.
Monte-Corvo L, Cabrita L, Oliveira CM, Leitao JM. Assessment of genetic relationships among Pyrus species and cultivars using AFLP and RAPD markers. Genetic Resource and Crop Evaluation. 2000; 47: 257-265.
Tongpamnak P, Patanatara A, Srinives P, Babprasert C. Determination of genetic diversity and relation-ships among Thai litchi accessions by RAPD and AFLP markers. Kasetsart Journal (Natural Science). 2002; 36: 370-380.
Ebtissam HAH, Samir MMA, Nahla AA, Mohamed S. Genetic analysis in some Citrus accessions using Microsatellites - and AFLP-based markers. Arabian Journal of Biotechnology. 2003; 6: 203-222.
Nartvaranant P, Nartvaranant K. Analysis based on AFLP markers of the genetic variations and their relationships for pummelo cultivars grown in the central region of Thailand. Songklanakarin Journal of Science and Technology. 2011; 33(5): 499-508.
Perera L, Russell JR, Provan J, McNicol JW, Powell W. Evaluating genetic relationships between indigenous coconut (Cocos nucifera L.) accessions from Sri Lanka by means of AFLP profiling. Theoretical and Applied Genetics. 1998; 96: 545 -550.
Doyle LJ, Doyle JJ. Isolation of plant DNA from fresh tissue. Focus. 1990; 12: 13-14.
Rohlf FJ. NTSYS-pc Numerical taxonomy and multivariate analysis system version 1.7 Manual; 1990.
Jaccard P. Nouvelles recherches surla distribution florale. Bulletin de la Societe Vaudoise des Sciences Naturelles. 1908; 44: 223-270.
Richardson JE, Fay MF, Cronk QCB, Bowman D, Chase MW. A phylogenetic analysis of Rhamnaceae using rbcL and trnL-Fplastid DNA sequences. American Journal of Botany. 2000; 87: 1309-1324.
Cervera MT, Cabezas JA, Sancha JC, Martinze de Toda F, Martinz-Zapater JM. Applications of AFLPs to the characterization of grapevine Vitis vinifera L. genetic resource a case study with accessions from Rioja (Spain). Theoretical and Applied Genetics. 1998; 97: 51-59.
Pang XM, Hu CG, Deng XX. Phylogenetic relationships within Citrus and its related genera as inferred from AFLP markers. Genetic Resource and Crop Evaluation. 2007; 54: 429-426.
Goulao L, Cabrita L, Oliveraira CM, Leitao JM. Comparing RAPD and AFLP analysis in discrimination and estimation of genetic similarity among apple (Malus domesticaBorkh) cultivars. Euphytica. 2001; 119: 259-270.
El-Khishin DA, Adawy SS, Hussein EHA, ElItriby HA. AFLP fingerprinting of some Egyptian date palm (Phoenix dactyliferaL.) cultivars. Arabian Journal of Biotechnology. 2003; 6(2): 223-234.
Steiger DL, Moore PH, Zee F, Liu Z, Ming R. Genetic relationships of macadamia cultivars and species revealed by AFLP markers. Euphytica. 2003; 132: 269-277.
Steiger DL, Nagai C, Moore PH, Morden CW, Osgood RV, Ming R. AFLP analysis of genetic diversity within and among Coffea Arabicacultivars. Theoretical and Applied Genetics. 2002; 105: 209-215.
Chan E, Elevitch CR. Cocos nucifera (coconut). Species Profiles Pacific Island. Agroforestry. 2006; 2: 1-27.