Intraspecific variation in Commiphora wightii populations based on Internal Transcribed Spacer (ITS1-5.8S-ITS2) sequences of rDNA

Diversity

Volumn 1, Issue 2, 2009, Pages 89-101

  Haque, Inamul ^a   Bandopadhyay, Rajib ^a   Mukhopadhyay, Kunal ^a  

^a BIRLA INSTITUTE OF TECHNOLOGY   (India)

Author keywords

Endangered; Endemic; Genetic diversity; Guggul; Internal transcribed spacer; rDNA

Indexed keywords

COMMIPHORA; COMMIPHORA WIGHTII;

EID: 79955553941     PISSN: None     EISSN: 14242818     Source Type: Journal    
DOI: 10.3390/d1020089     Document Type: Article

References (43)

1. APG, II. An update of the Angiosperm Phylogenetic Group classification for the orders and families of flowering plants: APG II. Bot. J. Lin. Soc. 2003, 141, 399-436.
2. Gupta, P.; Shivanna, K.R.; Mohan Ram, H.Y. Apomixis and polyembryony in the guggul plant, Commiphora wightii. Ann. Bot. 1996, 78, 67-72.
3. Murray, M.T. The Healing Power of Herbs: The Enlightened Person's Guide to the Wonders of Medicinal Plants; Prima Publishers: Roseville, CA, USA, 1995.
4. El Ashry, E.S.; Rashed, N.; Salama, O.M.; Saleh, A. Components, therapeutic value and uses of myrrh. Pharmazie 2003, 58, 163-168.
5. Singh, R.B.; Niaz, M.A.; Ghosh, G. Hypolipidemic and antioxidant effects of Commiphora mukul as an adjunct to dietary therapy in patients with hypercholesterolemia. Cardiovasc. Drugs Ther. 1994, 8, 659-664.
6. Deng, R. Therapeutic effects of guggul and its constituent guggulsterone: Cardiovascular benefits. Cardiovasc. Drug Rev. 2007, 25, 375-390.
7. Sarfaraz, S.; Siddiqui, I.A.; Syed, D.N.; Afaq, F.; Mukhtar, H. Guggulsterone modulates MAPK and NF-kappaB pathways and inhibits skin tumorigenesis in SENCAR mice. Carcinogenesis 2008, 29, 2011-2018.
8. Singh, S.V.; Choi, S.; Zeng, Y.; Hahm, E.R.; Xiao, D. Guggulsterone-induced apoptosis in human prostate cancer cells is caused by reactive oxygen intermediate dependent activation of c-Jun NH2-terminal kinase. Cancer Res. 2007, 67, 7439-7449.
9. Xiao, D.; Singh, S.V. Z-Guggulsterone, a constituent of Ayurvedic medicinal plant Commiphora mukul, inhibits angiogenesis in vitro and in vivo. Mol. Cancer Ther. 2008, 7, 171-180.
10. Khan, T.I.; Dular, A.K.; Deepika, M.S. Biodiversity conservation in the Thar Desert; with emphasis on endemic and medicinal plants. Environmentalist 2003, 23, 137-144.
11. Soltis, D.; Soltis, P. Choosing an approach and an appropriate gene for phylogenetic analysis. In Molecular Systematics of Plants II. DNA Sequencing; Soltis, D., Soltis, P., Doyle, J., Eds.; Kluwer Academic Publishers: Boston, MA, USA, 1998; pp. 1-42.
12. Alvarez, I.; Wendel, J.F. Ribosomal ITS sequences and plant phylogenetic inference. Mol. Phylogenet. Evol. 2003, 29, 417-434.
13. Baldwin, B.G.; Markos, S. Phylogenetic utility of the external transcribed spacer (ETS) of 18S-26S rDNA: Congruence of ETS and ITS trees of Calycadenia (Compositae). Mol. Phylogenet. Evol. 1998, 10, 449-463.
14. Baldwin, B.; Sanderson, M.; Porter, J.; Wojciechowski, M.; Campbell, C.; Donoghue, M. The ITS region of nuclear ribosomal DNA- a valuable source of evidence on angiosperm phylogeny. Ann. Mo. Bot. Gard. 1995, 82, 247-277.
15. Hershkovitz, M.A.; Zimmer, E.A.; Hahn, W.J. Ribosomal DNA sequences and angiosperm systematics. In Molecular Systematics and Plant Evolution; Hollingsworth, P.M., Bateman, R.M., Gornall, R.J., Eds.; Taylor & Francis: London, UK, 1999; pp. 268-326.
16. Kelch, D.G.; Baldwin, B.G. Phylogeny and ecological radiation of New World thistles (Cirsium, Cardueae-Compositae) based on ITS and ETS rDNA sequence data. Mol. Ecol. 2003, 12, 141-151.
17. Lee, J.Y.; Mummenho, V.K.; Bowman, J.L. Allopolyploidization and evolution of species with reduced floral structures in Lepidium L. (Brassicaceae). Proc. Natl. Acad. Sci. USA 2002, 99, 16835-16840.
18. Ainouche, M.L.; Bayer, R.J. On the origins of the tetraploid Bromus species (section Bromus, Poaceae): insights from the internal transcribed spacer sequences of nuclear ribosomal DNA. Genome 1997, 40, 730-743.
19. Campbell, C.S.; Wojciechowski, M.F.; Baldwin, B.G.; Alice, L.A.; Donoghue, M.J. Persistent nuclear ribosomal DNA sequence polymorphism in the Amelanchier agamic complex (Rosaceae). Mol. Biol. Evol. 1997, 14, 81-90.
20. Hughes, C.E.; Bailey, C.D.; Harris, S.A. Divergent and reticulate species relationships in Leucaena (Fabaceae) inferred from multiple data sources: Insights into polyploid origins and nrDNA polymorphism. Am. J. Bot. 2002, 89, 1057-1073.
21. Feliner, G.N.; Larena, B.G.; Aguilar, J.F. Fine scale geographic structure, intra-individual polymorphism and recombination in nuclear ribosomal internal transcribed spacers in Armeria (Plumbaginaceae). Ann. Bot. 2004, 93, 189-200.
22. Buckler, E.S.; Ippolito, A.; Holtsford, T.P. The evolution of ribosomal DNA: divergent paralogues and phylogenetic implications. Genetics 1997, 145, 821-832.
23. Becerra, J.X. Insects on plants: macroevolutionary chemical trends in host use. Science 1999, 276, 253-256.
24. Becerra, J.X.; Venable, D.L. Nuclear ribosomal DNA phylogeny and its implications for evolutionary trends in Mexican Bursera (Burseraceae). Am. J. Bot. 1999, 86, 1047-1057.
25. Becerra, J.X. Evolution of Mexican Bursera (Burseraceae) inferred from ITS, ETS, and 5S nuclear ribosomal DNA sequences. Mol. Phylogenet. Evol. 2003, 26, 300-309.
26. Weeks, A.; Daly, D.C.; Simpson, B.B. The phylogenetic history and biogeography of the frankincense and myrrh family (Burseraceae) based on nuclear and chloroplast sequence data. Mol. Phylogenet. Evol. 2005, 35, 85-101.
27. Haque, I.; Bandopadhyay, R.; Mukhopadhyay, K. Population genetic structure of the endangered and endemic medicinal plant Commiphora wightii. Mol. Biol. Rep. 2009, doi:10.1007/ s11033-009-9661-9.
28. Milligan, B.G.; Leebens-Mack, J.; Strand, A.E. Conservation genetics: beyond the maintenance of marker diversity. Mol. Ecol. 1994, 3, 423-435.
29. Haque, I.; Bandopadhyay, R.; Mukhopadhyay, K. An optimised protocol for fast genomic DNA isolation from high secondary metabolites and gum containing plants. Asian J. Plant Sci. 2008, 7, 304-308.
30. White, T.J.; Bruns, T.; Lee, S.; Taylor, J. Amplifcation and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In PCR Protocols: A Guide to Methods and Applications; Innis, M., Gelfand, D., Sninsky, J., White, T., Eds.; Academic Press: San Diego, CA, USA, 1990; pp. 315-322.
31. Thompson, J.D.; Gibson, T.J.; Plewniak, F.; Jeanmougin, F.; Higgins, G.D. The ClustalX windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res. 1997, 24, 4876-4882.
32. Watterson, G.A. On the number of segregating sites in genetical models without recombination. Theor. Pop. Biol. 1975, 7, 256-276.
33. Nei, M. Estimation of average heterozygosity and genetic distance from a small number of individuals. Genetics 1978, 89, 583-590.
34. Rozas, J.; Rozas, R. DnaSP version 3: an integrated program for molecular population genetics and molecular evolution analysis. Bioinformatics 1999, 15, 174-175.
35. Peakall, R.; Smouse, P.E. GENALEX 6: Genetic analysis in Excel, population genetic software for teaching and research. Mol. Ecol. Notes 2006, 6, 288-295.
36. Mantel, N. The detection of disease clustering and a generalized regression approach. Cancer Res. 1967, 27, 209-220.
37. Tamura, K.; Dudley, J.; Nei, M.; Kumar, S. MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol. Biol. Evol. 2007, 24, 1596-1599.
38. Huelsenbeck, J.P.; Ronquist, F. MrBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 2001, 17, 754-755.
39. Posada, D. Selection of Models of DNA Evolution with jModelTest. In Bioinformatics for DNA Sequence Analysis; Posada, D., Ed.; SpringerLink: Secaucus, NJ, USA, 2009; Volume 537, pp. 93-112.
40. Dover, G.A.; Linares, A.R.; Bowen, T.; Hancock, J.M. Detection and quantification of concerted evolution and molecular drive. Methods Enzymol. 1993, 224, 525-541.
41. Appels, R.; Honeycutt, R.L. rDNA: Evolution over a billion years. In DNA systematics; Dutton, S., Ed.; CRC Press: Boca Raton, FL, USA, 1986; pp. 81-135.
42. Adolfsson, S.; Bengtsson, B.O. The spread of apomixis and its effect on resident genetic variation. J. Evol. Biol. 2007, 20, 1933-1940.
43. Nei, M.; Li, W.H. Mathematical model for studying genetic variation in terms of restriction endonucleases. Proc. Natl. Acad. Sci. USA 1979, 76, 5269-5273.