Assessment of genetic diversity in Dalbergia sissoo clones through RAPD profiling

Abstract

We studied the genetic polymorphism among 29 clones of shisham (Dalbergia sissoo Roxb) belonging to different geographic regions using random amplified polymorphic DNA (RAPD) markers. Out of 30 primers used, only 20 primers generated polymorphism in amplified product. In total 232 bands were amplified with 20 primers, of which 192 (82%) were polymorphic with an average of 9.6 bands/primer. The resolving power (Rp) ranged from 2.14 (Primer 5) to 11.93 (Primer 4). Primer 4 and Primer 3 possessed high Rp value. Polymorphism information content (PIC) ranged from 0.15 (Primer 5) to 0.37 (Primer 4). Primer 4 amplified total 18 bands in 29 genotypes with PIC value of 0.37 hence; this set of primer was most informative. The similarity coefficient analysis revealed two clusters. The first cluster comprised of only 10 clones and the second major cluster comprised of 19 clones. The genetic similarity among 29 clones ranged from 25.86% (clone 10 and 235) to 100% (clone 19 and 59), suggesting a wide genetic base in shisham clones.

Keywords

clones / clonal seed orchard / Dalbergia sissoo / RAPD / polymorphism information content / resolving power

References

[1] Arif M., Zaidi N.W., Singh Y.P., Haq Q.M.R., Singh U.S.. A comparative analysis of ISSR and RAPD markers for study of genetic diversity in Shisham (Dalbergia sissoo). Plant Mol Biol Reptr, 2009, 27: 488-495.

[2] Chandra A.. Molecular assessment of variation in Stylosanthes fruticosa accessions employing STS and RAPD markers. Japan Mendel Society Cytologia, 2007, 72: 251-258.

[3] Gautam S. 2006. Genetic analysis of various clones of Dalbergia sissoo through morpho-physiological and molecular markers. PhD. Thesis submitted to FRI (Deemed university), Dehradun, India.

[4] Gautam S., Nautiyal S., Singh U.S., Sharma T.R.. Assessment of genetic diversity among Dalbergia sissoo Roxb. clones of northern India as revealed by RAPD markers. Envis For Bull, 2007, 7: 79-82.

[5] Jaccard P.. Nouvelles researchers Sur la distribution florale. Bull Soc Vaud Sci Nat, 1908, 44: 233-270.

[6] Lynch P., Walsh J.B.. Genetics and analysis of quantitative traits. 1998, Sunderland, MA: Sinauer Assocs. Inc., 980.

[7] Nanda R.M., Nayak S., Rout G.R.. Studies on genetic relatedness of Acacia tree species using RAPD markers. Biologia Bratislava, 2004, 59: 115-120.

[8] Prevost A., Wilkinson M.J.. A new system of comparing PCR primers applied to ISSR fingerprinting of potato cultivars. Theoretical and Applied Genetics, 1999, 98: 107-112.

[9] Rohlf F.J.. NTSYS-PC Numerical Taxonomy and Multivariate System, version 2.0. 1998, New York: Applied Biostatis INC

[10] Rout G.R., Bhatacharya D., Nanda R.M., Nayak S., Das P.. Evaluation of genetic relationships in Dalbergia species using RAPD markers. Biodiversity and Conservation, 2003, 12: 197-206.

[11] Singh A.K., Singh R., Singh N.K.. Comparative evaluation of genetic relationships among ber (Ziziphus sp.) genotypes using RAPD and ISSR markers. Indian J Genet, 2009, 69: 50-57.

[12] Stange C., Prehn D., Johnson P.A.. Isolation of Pinus radiate genomic DNA suitable for RAPD analysis. Plant molecular Biology Reporter, 1998, 16: 1-8.

[13] Vierling R.A., Nguyen H.T.. Use of RAPD markers to determine the genetic diversity of diploid, wheat genotypes. Theoretical and Applied Genetics, 1992, 84: 835-838.