Evaluation of microsatellite allelic patterns to DNA fingerprinting in rubber tree clones





Genetic Certification, SSR, Variety Identification.


The rubber tree (Hevea brasiliensis) is native to the Amazon region, and it is widely exploited due to natural rubber produced from latex. There are many clonal varieties, without certification tests. In order to determine a genetic certification, 15 clones were genotyped to identify their genetic pattern. Ten microsatellites were used to determine a subset of alleles exclusive for each genetic profile. The genetic estimates obtained were: number of alleles per locus (N), expected (HE) and observed (HO) heterozygosity, Polymorphic Information Content (PIC) and Discriminatory Power (DP). The number of alleles (N) ranged from five to 14, with an average of 9.2. The HE mean (0.80) was higher than HO (0.60), indicating a selection for homozygotes. The locus informativeness was verified with PIC (0.77) and DP (0.90) means showing high polymorphism. The dendrogram represented the formation of three groups related to geographical origin. Clone MDF 180 presented the highest genetic divergence. Two genic pools represented the genetic composition of genotypes. Based on allelic profiles, a set of two microsatellites (A2365 and A2368) was able to distinguish all examined clones. The genetic certification using microsatellite fingerprinting proved to be an alternative to morphological traits.


Download data is not yet available.


BESSE, P., et al. DNA fingerprints in Hevea brasiliensis (rubber tree) using human minisatellite probes. Heredity. 1993, 70, 237-244. https://doi.org/10.1038/hdy.1993.35

BOTSTEIN, D., et al. Construction of a genetic map in man using restriction fragment length polymorphism. American Journal Human Genetics. 1980, 32(3), 314-331.

CRESTE, S., TUMANN, A. and FIGUEIRA, A. Detection of single sequence repeat polymorphism in denaturating polyacrylamide sequencing gels by silver staining. Plant Molecular Biology. 2001, 19(4), 299-306. https://doi.org/10.1007/BF02772828

DOYLE, J.J. and DOYLE, J.L. Isolation of plant DNA fresh tissue. Focus. 1990, 12(1), 13-15.

EARL, D.A. and VONHOLDT, B.M. STRUCTURE HARVESTER: a website and program for visualizing STRUCTURE output and implementing the Evanno method. Conservation Genetics Resources. 2012, 4(2), 359-361. https://doi.org/10.1007/s12686-011-9548-7

EUJAYL, I., et al. Assessment of genotypic variation among cultivated durum wheat based on EST-SSRs and genomic SSRs. Euphytica. 2001, 119, 39-43. https://doi.org/10.1023/A:1017537720475

EVANNO, G., REGNAUT, S. and GOUDET, J. Detecting the number of clusters of individuals using the software STRUCTURE: a simulation study. Molecular Ecology. 2005, 14(8), 2611-2620. https://doi.org/10.1111/j.1365-294X.2005.02553.x

FORTES, A.C.R., et al. Transferibilidade de locos microssatélites desenvolvidos em outras espécies de palmeiras para Astrocaryum vulgare Mart. Revista Brasileira de Ciências Agrárias. 2016, 59(1), 80-86. http://dx.doi.org/10.4322/rca.1844

GASPAROTTO, L. and PEREIRA, J.C.R. Doenças da seringueira no Brasil. 1st ed. Brasília: Embrapa, 1997.

GIMENES, M.A., et al. Genetic variation and phylogenetic relationships based on RAPD analysis in section Caulorrhizae, genus Arachis (Leguminosae). Euphytica. 2000, 116(1), 187–195. https://doi.org/10.1023/A:1004025619704

GONÇALVES, P.S., et al. Biologia, citogenética e ploidia de espécies do gênero Hevea. O Agronômico. 1989, 41(1), 40-64.

GONÇALVES, P.S., et al. Desempenho de novos clones de seringueira. III. Seleção promissora para a região de Votuporanga, Estado de São Paulo. Pesquisa Agropecuária Brasileira. 1999, 34(6), 971-980. https://doi.org/10.1590/S0100-204X1999000600007

GONÇALVES, P.S. and FONTES, J.R.A., 2009. Domesticação e melhoramento da seringueira. In: BORÉM, A., LOPES, M.T.G. and CLEMENT, C.R. (Eds.). Domesticação e Melhoramento: Espécies Amazônicas. Viçosa: Editora UFV, pp. 395-423.

GOUVÊA, L.R.L., et al. Genetic divergence of rubber tree estimated by multivariate techniques and microsatellite markers. Genetics and Molecular Biology. 2010, 33(2), 308-318. https://doi.org/10.1590/S1415-47572010005000039

JAIN, S.M. and PRIYADARSHAN, P.M. Breeding plantation tree crops: tropical species. 1st ed. New York: Springer, 2009.

KALIA, R.K., et al. Microsatellite markers: an overview of the recent progress in plants. Euphytica. 2011, 177(3), 309-334. https://doi.org/10.1007/s10681-010-0286-9

KUMAR, S., et al. MEGA X: Molecular Evolutionary Genetics Analysis across computing platforms. Molecular Biology and Evolution. 2018, 35(6), 1547-1549. https://doi.org/10.1093/molbev/msy096

LAURANCE, W.F., et al. Inferred longevity of Amazonian rainforest trees based on a long-term demographic study. Forest Ecology and Management. 2004, 190(2-3), 131-143. https://doi.org/10.1016/j.foreco.2003.09.011

LE GUEN, V., et al. Genetic structure of Amazonian populations of Hevea brasiliensis is shaped by hydrographical network and isolation by distance. Tree Genetics Genomes. 2009, 5(4), 673-683. https://doi.org/10.1007/s11295-009-0218-9

MILLER, M.P. Tools for population genetic analyses (TFPGA): A Windows program for the analysis of allozyme and molecular population genetic data, version 1.3. Arizona: Northern Arizona University, 1997.

PAIVA, J.R. Variabilidade enzimática em populações naturais de seringueira. Piracicaba: ESALQ-USP, 1992. Doctoral thesis.

PERSEGUINI, J.M.K.C., et al. Genetic diversity of cultivated accessions and wild species of rubber tree using EST-SSR markers. Pesquisa Agropecuária Brasileira. 2012, 47(8), 1087-1094. https://doi.org/10.1590/S0100-204X2012000800008

PRITCHARD, J.K., STEPHENS, M. and DONNELLY, P. Inference of population structure using multilocus genotype data. Genetics. 2000, 155(2), 945-959. https://doi.org/10.1093/genetics/155.2.945

RIPPEL, M.M. and BRAGANÇA, F.C. Borracha natural e nanocompósitos com argila. Química nova. 2009, 32(3), 818-826. https://doi.org/10.1590/S0100-40422009000300024

SAHA, T., BINDU R.C. and NACER, M.A. Microsatellite variability and its use in the characterization of cultivated clones of Hevea brasiliensis. Plant Breeding. 2005, 124(1), 86-92. https://doi.org/10.1111/j.1439-0523.2004.01053.x

SCOTT, K.D., et al. Analysis of SSRs derived from grape ESTs. Theoretical Applied Genetics. 2000, 100(5), 723-726. https://doi.org/10.1007/s001220051344

SECCO, R.S., 2008. A botânica da seringueira [Hevea brasiliensis (Willd. ex Adr. de Juss.) Muell-Arg.] In: ALVARENGA, A.P. and CARMO, C.A.F.S. (Eds.). Seringueira. Viçosa: Epamig, pp. 01-24.

SHAN, F., et al. Identification of duplicates and fingerprinting of primary and secondary wild annual Cicer gene pools using AFLP markers. Genetic Resources and Crop Evolution. 2007, 54(3), 519-527. https://doi.org/10.1007/s10722-006-0008-2

SILVA, M.S. Diversidade, estrutura genética e parentesco em populações de [Hevea brasiliensis (Willd. Ex Adr. de Juss.) Muell.-Arg.] conservadas ex situ. São Paulo: Universidade Estadual Paulista, 2019. Doctoral thesis.

SOUZA, C.S. Caracterização da diversidade genética de acessos do banco de germoplasma de seringueira. Rio Branco: Universidade Federal do Acre, 2018. Master Science Thesis.

SOUZA, L.M., et al. Genetic Diversity Strategy for the Management and Use of Rubber Genetic Resources: More than 1,000 Wild and Cultivated Accessions in a 100-Genotype Core Collection. PLOS ONE. 2015, 10(7), 1-20. https://doi.org/10.1371/journal.pone.0134607

TESSIER, C., et al. Optimization of the choice of molecular markers for varietal identification in Vitis vinifera L. Theoretical and Applied Genetics. 1999, 98(1), 171-177. https://doi.org/10.1007/s001220051054

WEBSTER, C.C. and BAULKWILL, W.E.J. Rubber Tropical Agricultural Series. Singapura: Longman Scientific and Technical. 1989, 12(1), 614.

WRIGHT, S. Evolution and the genetics of populations, vol 4: variability within and among natural populations. 1st ed. Chicago: University of Chicago Press, 1978.




How to Cite

DOMINGOS DA SILVA, A.L., JÔNATAS CHAGAS DE OLIVEIRA and TATIANA DE CAMPOS, 2022. Evaluation of microsatellite allelic patterns to DNA fingerprinting in rubber tree clones. Bioscience Journal [online], vol. 38, pp. e38006. [Accessed10 August 2022]. DOI 10.14393/BJ-v38n0a2022-54400. Available from: https://seer.ufu.br/index.php/biosciencejournal/article/view/54400.



Biological Sciences