Short Note: Cross-Species Amplification and Characterization of Pinus Chloroplast Microsatellite Markers in Cedrus deodara Roxb.

Ginwal, H. S.; Chauhan, P.; Barthwal, S.; Sharma, A.; Sharma, R.

doi:10.1515/sg-2011-0009

Abstract

The study reports the transferability of chloroplast microsatellite markers developed for Pinus species to Cedrus deodara. A total of 49 primer pairs (both nuclear and chloroplast) of Pinus species were tested in C. deodara out of which 21 chloroplast primers showed positive amplification and 20 were found polymorphic. The primers were screened on 100 adult trees of two natural populations of C. deodara. Using twenty cpSSR primers, a total of 64 variants were found which combined in 70 different haplotypes. The total haplotype diversity in two populations was 0.860 and 0.876 with a mean of 0.868. These sets of markers can further be used for population genetic studies and characterization in C. deodara for which no cpSSR markers have been reported till date.

References

Avise, J. C. (1994): Molecular markers, natural history and evolution. Chapman and Hall, New York.10.1007/978-1-4615-2381-9
Search in Google Scholar Back to article
Boys, J., M. Cherry and S. Dayanandan (2005): Microsatellite analysis reveals genetically distinct population of Red Pine (Pinus resinosa, Pinaceae). American Journal of Botany 92(5): 833–841.10.3732/ajb.92.5.83321652464
Search in Google Scholar Back to article
Chabane, K., G. A. Ablett and G. M. Cordeiro (2005): EST versus genomic derived microsatellite markers for genotyping wild and cultivated barley, Genetic Resources and Crop Evolution 52: 903–909.10.1007/s10722-003-6112-7
Search in Google Scholar Back to article
Chaib, J., S. Danan, B. Jouaud, L. S. Hagen, F. Lefèvre and B. Fady (2006): Identification and characterization of nuclear microsatellites in Mediterranean cedars (Cedrus sp.). Molecular Ecology Notes 6: 840–842.10.1111/j.1471-8286.2006.01364.x
Search in Google Scholar Back to article
Chagné, D., P. Chaumeil, A. Ramboer, C. Collada, A. Guevara, M. T. Cervera, G. G. Vendramin, V. Garcia, J.-M. Frigerio, C. Echt, T. Richardson and C. Plomion (2004): Cross-species transferability and mapping of genomic and cDNA SSRs in pines. Theoretical and Applied Genetics 109(6): 1204–1214.10.1007/s00122-004-1683-z15448894
Search in Google Scholar Back to article
Clark, M. C., T. R. Wentworth and D. M. O’Malley (2000): Genteic discontinuity revealed by chloroplast microstallites in Eastern North American Abies (Pinaceae). American Journal of Botany 87(6): 774–782.10.2307/2656885
Search in Google Scholar Back to article
Doyle, J. J. and J. L. Doyle (1990): Isolation of plant DNA from fresh tissue. Focus 12: 13–15.
Search in Google Scholar Back to article
Fady, B., F. Lefèvre, M. Reynaud, G. G. Vendramin, M. Bou Dagher-Kharrat, M. Anzidei, R. Pastorelli, A. Savouré and M. Bariteau (2003): Gene flow among different taxonomic units: evidence from nuclear and cytoplasmic markers in Cedrus plantation forests. Theoretical and Applied Genetics 107(6): 1132–1138.10.1007/s00122-003-1323-z14523524
Search in Google Scholar Back to article
Fady, B., F. Lefèvre, G. G. Vendramin, A. Ambert, C. Régnier and M. Bariteau (2008): Genetic consequences of past climate and human impact on eastern Mediterranean Cedrus libani forests. Implications for their conservation. Conservation Genetic 9: 85–95.10.1007/s10592-007-9310-6
Search in Google Scholar Back to article
Hodgetts, R. B., M. A. Aleksiuk, A. Brown, C. Clarke, E. MacDonald, S. Nadeem and D. Khasa (2001): Development of microsatellite markers for white spruce (Picea glauca) and related species. Theoretical and Applied Genetics 102: 1252–1258.10.1007/s00122-001-0546-0
Search in Google Scholar Back to article
Neale, D. B. and R. R. Sederoff (1989): Paternal inheritance of chloroplast DNA and maternal inheritance of mitochondrial DNA in loblolly pine. Theoretical and Applied Genetics 77: 212–216.10.1007/BF0026618924232531
Search in Google Scholar Back to article
Nei, M. (1987). Molecular evolutionary genetics. Columbia University Press, New York.10.7312/nei-92038
Search in Google Scholar Back to article
Louriex, M., M. N. Ndjiondjop and A. Ghesauiere (2000): A first interspecific Oryza sativa & Oryza glaberrima microsatellite-based genetic linkage map. Theoretical and Applied Genetics 100: 593–601.
Search in Google Scholar Back to article
Provan, J., N. Soranzo, N. J. Wilson, D. B. Goldstein and W. Powell (1999): A low mutation rate for chloroplast microsatellites. Genetics 153: 943–947.10.1093/genetics/153.2.943146078110511569
Search in Google Scholar Back to article
Qiao, C. Y., J. H. Ran, Y. Li and X. Q. Wang (2007): Phylogeny and Biogeography of Cedrus (Pinaceae) Inferred from Sequences of Seven Paternal Chloroplast and Maternal Mitochondrial DNA Regions. Annals of Botany 100: 573–580.10.1093/aob/mcm134253359417611189
Search in Google Scholar Back to article
Rajora, O. P., M. H. Rahman, S. Dayanandan and A. Mosseler (2001): Isolation, characterization, inheritance and linkage of microsatellite DNA markers in white spruce (Picea glauca) and their usefulness in other spruce species. Molecular and General Genetics 264: 871–882.10.1007/s00438000037711254135
Search in Google Scholar Back to article
Rao Nageswara, M., B. T. Ramesha, G. Ravikanth, K. N. Ganeshaiah and R. Uma Shaanker (2006): Cross-species amplification of coconut microsatellite markers in rattans. Silvae Genetica 56(6): 282–286.
Search in Google Scholar Back to article
Terrab, A., O. Paun, S. Talavera, K. Tremetsberger, M. Arista and T. F. Stuessy (2006): Genetic diversity and population structure in natural populations of Moroccan Atlas cedar (Cedrus atlantica; Pinaceae) determined with cpSSR markers. American Journal of Botany 93: 1274–1280.10.3732/ajb.93.9.127421642191
Search in Google Scholar Back to article
Tiwari, D. N. (1994): A monograph on Chir Pine (Pinus roxbuurghii SARG). Indian Council of Forestry Research & Education, Dehradun, 311 p.
Search in Google Scholar Back to article
Vendramin, G. G., L. R. Lelli, P. Rossi and M. Morgante (1996): A set of primers for the amplification of 20 chloroplast microsatellites in Pinaceae. Molecular Ecology 5: 595–598.10.1111/j.1365-294X.1996.tb00353.x
Search in Google Scholar Back to article
Vendramin, G. G., M. Anzidei, A. Madaghiele and G. Bucci (1998): Distribution of genetic diversity in Pinus pinaster Ait. as revealed by chloroplast microsatellites. Theoretical and Applied Genetics 97: 456–463.10.1007/s001220050917
Search in Google Scholar Back to article
Watano, Y., M. Imazu and T. Shimizu (1996): Spatial distribution of cpDNA and mtDNA haplotypes in a hybrid zone between Pinus pumila and P. parviflora var. pentaphylla (Pinaceae). Journal of Plant Research 109: 403–408.10.1007/BF02344555
Search in Google Scholar Back to article
Weising, K., H. Nybom and K. Wolff (2005): DNA Fingerprinting in Plants Principles, Methods, and Applications. 2^nd edn. Taylor & Francis Group, CRS Press, New York.10.1201/9781420040043
Search in Google Scholar Back to article
Zhou, Y., T. Bui, L. D. Auckland and C. G. Williams (2002): Under-methylated DNA as a source of microsatellites from a conifer genome. Genome 45: 91–99.10.1139/g01-11911908673
Search in Google Scholar Back to article

Short Note: Cross-Species Amplification and Characterization of Pinus Chloroplast Microsatellite Markers in Cedrus deodara Roxb.

Abstract

Paradigm

My account