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An assessment of the genetic diversity within a collection ofSaccharum spontaneum L. with RAPD-PCR

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Abstract

A local collection of 33Saccharum spontaneum L. clones and two sugarcane cultivars (LCP 82-89 and LCP 85-384) were assessed for genetic variability using random amplified polymorphic DNA (RAPD)-PCR. A total of 157 polymorphic RAPD-PCR bands were scored with 17 primers. The number of RAPD-PCR products per primer ranged from four to 16. The data were analyzed with two multivariate analysis software programs, NTSYSpc and DNAMAN®. Although these two programs yielded similar results, a bootstrapped phylogenetic tree could only be generated with the DNAMAN® software. A substantial degree of genetic diversity was found within the localS. spontaneum collection. Pairwise genetic homology coefficients ranged from 65% (SES, 196/Tainan 2n = 96) to 88.5% (IND 81-80/IND 81-144). LCP 82-89 and LCP 85-384 shared a greater similarity (82%) than either was to any clone ofS. spontaneum (ranging from 60.5 to 75.2%). The 33S. spontaneum clones were assigned to eight groups independent of their geographic origin or morphology, while the two sugarcane cultivars were assigned to the ninth group. All but two pairs ofS. spontaneum clones could be distinguished by a single RAPD primer OPBB-02. The use of a second primer, either OPBE-04 or Primer 262, separated allS. spontaneum clones. One amplification product from the RAPD primer OPA-11, OPA-11-336, proved to be cultivar-specific and has been adopted for use in our breeding program. Information from this study would help conserve the genetic diversity ofS. spontaneum.

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Author notes

  1. D. M. Burner

    Present address: Dale Bumpers Small Farms Research Center, USDA-ARS, 6883 S State Hwy 23, 72927-9214, Booneville, AR, USA

  2. B. L. Legendre

    Present address: LSU Ag Center Research and Extension, 5755 LSU Ag Rd, Sugar Research Station, 70776, St. Gabriel, LA, USA

Authors and Affiliations

  1. Southern Regional Research Center, Sugarcane Research Unit, USDA-ARS, 5883 USDA Road, 70360-5578, Houma, LA, USA

    Y. -B. Pan, D. M. Burner, B. L. Legendre, M. P. Grisham & W. H. White

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Disclaimer: Product names and trademarks are mentioned to report on available data; however, the USDA neither guarantees nor warrants the standard of the product, and the use of the name by USDA does not imply the approval of the product to the exclusion of others that may also be suitable. The experiments reported comply with the current laws of the USA.

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Pan, Y.B., Burner, D.M., Legendre, B.L. et al. An assessment of the genetic diversity within a collection ofSaccharum spontaneum L. with RAPD-PCR. Genet Resour Crop Evol 51, 895–903 (2005). https://doi.org/10.1007/s10722-005-1933-1

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