Genetic variation of chloroplast DNA in Zingiberaceae taxa from Myanmar assessed by PCR-restriction fragment length polymorphism analysis

Annals of Applied Biology

Volumn 155, Issue 1, 2009, Pages 91-101

  Ahmad, D ^a,b   Kikuchi, A ^a   Jatoi, S A ^a,c   Mimura, M ^a   Watanabe, K N ^a  

^a UNIVERSITY OF TSUKUBA   (Japan)

^b THE UNIVERSITY OF AGRICULTURE   (Pakistan)

^c NATIONAL AGRICULTURAL RESEARCH CENTRE   (Pakistan)

Author keywords

CpDNA; Interspecific; Myanmar; PCR RFLP; Zingiberaceae

Indexed keywords

CHLOROPLAST; CLUSTER ANALYSIS; DNA; ENZYME ACTIVITY; GENETIC VARIATION; GERMPLASM; HERB; INTERSPECIFIC VARIATION; NOMENCLATURE; POLYMERASE CHAIN REACTION; POLYMORPHISM;

ASIA; EURASIA; MYANMAR; SOUTHEAST ASIA;

CURCUMA; CURCUMA LONGA; CURCUMA XANTHORRHIZA; CURCUMA ZEDOARIA; XANTHORHIZA; ZINGIBER; ZINGIBER OFFICINALE; ZINGIBERACEAE;

EID: 67749099937     PISSN: 00034746     EISSN: 17447348     Source Type: Journal    
DOI: 10.1111/j.1744-7348.2009.00322.x     Document Type: Article

References (47)

1. Archana V., Jawali N 2007) Genetic variation and relatedness in Vigna unguiculata revealed by microsatellites. BARC Newsletter, 285, 190 197. [WWW document]. URL http://www.barc.ernet.in/publications/nl/2007/200710-28.pdf accessed on 19 June 2008
2. Cao H., Sasaki Y., Fushimi H., Komatsu K. (2001) Molecular analysis of medicinally used Chinese and Japanese Curcuma based on 18S rRNA and trnK gene sequences. Biological and Pharmaceutical Bulletin, 24, 13891394
3. Claudia C., Tonguc M., Griffiths P.D 2004) Discrimination of diploid crucifer species using PCR-RFLP of chloroplast DNA. HortScience, 39, 1575 1577.
4. Clegg M.T., Learn G.H., Golenberg E.M 1991) Molecular evolution of chloroplast DNA. In Evolution at the Molecular Level. pp. 135 149. Eds R.K. Selander, A.G. Clark and T.S. Whittam. Sunderland, MA, USA : Sinauer Associates.
5. Demesure B., Sodzi N., Petit R.J 1995) A set of universal primers for amplification of polymorphic non-coding regions of mitochondrial and chloroplast DNA in plants. Molecular Ecology, 4, 129 134.
6. Demesure B., Comps B., Petit R.J 1996) Chloroplast DNA phylogeography of the common beech (Fagus sylvatica L.) in Europe. Evolution, 50, 2515 2520.
7. Devos N., Tyteca D., Raspe O., Wesselingh R.A., Jacquemart A.L 2003) Patterns of chloroplast diversity among western European Dactylorhiza species (Orchidaceae). Plant Systematics and Evolution, 243, 85 97.
8. Doyle J.J., Doyle J.L 1990) A rapid total DNA preparation procedure for fresh plant tissue. Focus, 12, 13 15.
9. Dumolin S., Demesure B., Petit R.J 1995) Inheritance of chloroplast and mitochondrial genomes in pedunculate oak investigated with an efficient PCR method. Theoretical and Applied Genetics, 91, 1253 1256.
10. Dumolin-Lapegue S., Pemonge M.H., Petit R.J 1997) An enlarged set of consensus primers for the study of organelle DNA in plants. Molecular Ecology, 6, 393 397.
11. Excoffier L., Smouse P., Quattro J.M 1992) Analysis of molecular variance inferred from metric distances among DNA haplotypes: application to human mitochondrial DNA restriction data. Genetics, 131, 479 491.
12. Excoffier L., Laval G., Schneider S 2005) Arlequin ver. 3.0: an integrated software package for population genetics data analysis. Evolutionary Bioinformatics Online, 1, 47 50.
13. Ferris C., Oliver R.P., Davy A.J., Hewitt G.M 1993) Native oak chloroplasts reveal an ancient divide across Europe. Molecular Ecology, 2, 337 343.
14. Garg S.N., Bansal R.P., Gupta M.M., Kumar S 1999) Variation in the rhizome essential oil and curcumin contents and oil quality in the land races of turmeric Curcuma longa of North Indian plains. Flavour and Fragrance Journal, 14, 315 318.
15. Harris D.J., Newman M.F., Hollingsworth M.L., Möller M., Clark A 2005) The phylogenetic position of Aulotandra (Zingiberaceae). Nordic Journal of Botany, 23, 725 734.
16. Jaccard P 1908) Nouvelles recherches sur la distribution florale. Bulletin de la Societe Vaudoise Sciences Nature, 44, 223 270.
17. Jatoi S.A 2008) Diversity on Zingiberaceae genetic resources with special reference to Myanmar. PhD Thesis. University of Tsukuba, Tsukuba.
18. Jatoi S.A., Kikuchi A., San San-Yi., Naing K.W., Yamanaka S., Watanabe J.A., Watanabe K.N 2006) Use of rice SSR markers as RAPD markers for genetic diversity analysis in Zingiberaceae. Breeding Science, 56, 107 111.
19. Jatoi S.A., Kikuchi A., Watanabe K.N 2007) Genetic diversity, cytology, and systematic and phylogenetic studies in Zingiberaceae. Genes, Genomes and Genomics, 1, 56 62.
20. Jatoi S.A., Kikuchi A., Mimura M., San San-Yi., Watanabe K.N 2008) Relationships of Zingiber species, and genetic variability assessment in ginger (Zingiber officinale) accessions from ex situ genebank, on-farm and rural markets. Breeding Science, 58, 261 270.
21. Kress W.J., Prince L.M., Williams K.J 2002) The phylogeny and a new classification of the gingers (Zingiberaceae): evidence from molecular data. American Journal of Botany, 89, 1682 1696.
22. Kress W.J., Liu A.Z., Newman M., Li Q.J 2005) The molecular phylogeny of Alpinia (Zingiberaceae): a complex and polyphyletic genus of gingers. American Journal of botany, 92, 167 178.
23. Lakshmi M., Senthilkumar P., Parani M., Jithesh M.N., Parida A.K 2000) PCR-RFLP analysis of chloroplast gene regions in Cajanus (Leguminosae) and allied genera. Euphytica, 116, 243 250.
24. Liu N., Wu T.L 1999) Notes on Curcuma in China. Journal of Tropical and Subtropical Botany, 7, 146 150.
25. Mohanty A., Martin J.P., Aguinagalde I 2000) Chloroplast DNA diversity within and among populations of the allotetraploid Prunus spinosa L. Theoretical and Applied Genetics, 100, 1304 1310.
26. Ngamriabsakul C., Techaprasan J 2006) The phylogeny of Thai Boesenbergia (Zingiberaceae) based on petA-psbJ spacer (chloroplast DNA). Songklanakarin Journal of Science Technology, 28, 49 57.
27. Ngamriabsakul C., Newman M.F., Cronk Q.C 2004) The phylogeny of tribe Zingibereae (Zingiberaceae) based on ITS (nrDNA) and trnL-F (cpDNA) sequences. Edinburgh Journal of Botany, 60, 483 507.
28. Palmer J.D 1987) Chloroplast DNA evolution and biosystematic uses of chloroplast DNA variation. The American Naturalist, 130, S6 S29.
29. Parani M., Lakshmi M., Ziegenhagen B., Fladung M., Senthilkumar P., Parida A 2000) Molecular phylogeny of mangrove VII. PCR-RFLP of trnS-psbC and rbcL gene regions in 24 mangrove and mangrove associate-species. Theoretical and Applied Genetics, 100, 454 460.
30. Parani M., Rajesh K., Lakshmi M., Parducci L., Szmidt A.E., Parida A 2001) Species identification in seven small millet species using polymerase chain reaction - restriction fragment length polymorphism of trnS-psbC gene region. Genome, 44, 495 499.
31. Parducci L., Szmidt A.E 1999) PCR-RFLP analysis of cpDNA in the genus Abies. Theoretical and Applied Genetics, 98, 802 808.
32. Ravindran P.N., Nirmal B.K., Shiva K.N 2005) Botany and crop improvement of ginger. In Ginger: The Genus Zingiber. pp. 15 85. Eds P.N. Ravindran and B.K. Nirmal. New York, NY, USA : CRC Press.
33. Rohlf F.J 2000) NTSYS-pc: Numerical Taxonomy and Multivariate Analysis System, Version 2.1. New York, NY, USA : Exeter Software.
34. San-San-Yi, Jatoi S.A., Fujimura T., Yamanaka S., Watanabe J., Watanabe K.N 2008) Potential loss of unique genetic diversity in tomato landraces by genetic colonization of modern cultivars at a non-center of origin. Plant Breeding, 127, 189 196.
35. Sasikumar B 2005) Genetic resources of Curcuma: diversity, characterization and utilization. Plant Genetic Resources, 3, 230 251.
36. Sharma I.K., Jones D.L., Young A.G., French C.J 2001) Genetic diversity and phylogenetic relatedness among six endemic Pterostylis species (Orchidaceae; series Grandiflorae) of Western Australia, as revealed by allozyme polymorphisms. Biochemical Systematics and Ecology, 29, 697 710.
37. Smith J.F., Kress W.J., Zimmer E.A 1993) Phylogenetic analysis of the Zingiberales based on rbcL sequences. Annals of the Missouri Botanical Garden, 80, 620 630.
38. Syamkumar S., Sasikumar B 2007) Molecular marker based genetic diversity analysis of Curcuma species from India. Scientia Horticulturae, 112, 235 241.
39. Taberlet P., Gielly L., Pautou G., Bouvet J 1991) Universal primers for amplification of three non-coding regions of chloroplast DNA. Plant Molecular Biology, 17, 1105 1109.
40. Tsumura Y., Taguchi H., Suyama Y., Ohba K 1994) Geographical cline of chloroplast DNA variation in Abies mariesii. Theoretical and Applied Genetics, 89, 922 926.
41. Valeton T.H 1918) New notes on the Zingiberaceae of Java and Malaya. Bulletin du Jardin Botanique de Buitenzorg Ser. II, 27, 1 8.
42. Wan Y., Watanabe J.A., San-San-Yi, Than-Htaik, Khaw-Win, Yamanaka S., Nakamura I., Watanabe K.N 2005) Assessment of genetic diversity among the major Myanmar banana landraces. Breeding Science, 55, 365 369.
43. Wei W., Youliang Z., Li C., Yuming W., Zehong Y., Ruiwu Y 2005) PCR-RFLP analysis of cpDNA and mtDNA in the genus Houttuynia in some areas of China. Hereditas, 142, 24 32.
44. Yamanaka S., San-San-Yi, Kothari S.L., Tin-Htut, Watanabe K.N 2004) Evaluation of genetic resources based on the diversity on functional regions IV. Features of Myanmar rice genetic resources based on PBAs, SSRs and agronomic traits. Breeding Research, 6 (Suppl. 2) 361.
45. Yap I.V., Nelson R.J 1996) Winboot: A Program for Performing Bootstrap Analysis of Binary Data to Determine the Confidence Limits of UPGMA-Based Dendrograms. Manila, Philippines : IRRI.
46. Yi Q.M., Deng W.G., Xis Z.P., Pang H.H 1995) Polymorphism and genetic relatedness among wild and cultivated rice species determined by AP-PCR analysis. Hereditas, 122, 135 141.
47. Ziegenhagen B., Kormutak A., Schauerte M., Scholz F 1995) Restriction-site polymorphism in chloroplast DNA of Silver Fir (Abies alba Mill.). Forest Genetics, 2, 99 107.