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A multiplex microsatellite marker kit for diversity assessment of large cassava (Manihot esculenta Crantz) germplasm collections

Thomas de Bang, Adebola Raji and Ivan Ingelbrecht (UGent)
(2011) PLANT MOLECULAR BIOLOGY REPORTER. 29(3). p.655-662
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Abstract
Current methods for molecular fingerprinting of cassava (Manihot esculenta Crantz) have limited throughput or are costly, thus preventing the characterization of large germplasm collections such as those held by the International Agricultural Research Centers or National Research Institutions, which comprise hundreds to thousands of accessions. Here, we report the development of a fluorescence-based multiplex simple sequence repeat (SSR) marker kit that enables accurate and cost-effective cassava fingerprinting. The kit comprises 16 SSR markers assembled into five multiplex panels and was tested on 21 cassava cultivars alongside one accession of Manihot epruinosa, a wild relative. A total of 68 alleles were detected with, on average, 4.25 alleles per locus and a polymorphism information content of 0.53. The marker kit reported here is comparable to previously published amplified fragment length polymorphism and SSR marker systems in terms of discriminating power and informativeness while offering significant advantages in speed and cost of marker analysis. Previous molecular genetic diversity studies have suggested that cassava germplasm collections contain duplicate entries based on the occurrence of identical genetic profiles. Using the newly developed microsatellite kit, three out of six putative duplicate accessions could be readily differentiated, showing that these are distinct genotypes. The relevance of these findings with respect to the characterization and management of large cassava germplasm collections is discussed.
Keywords
Manihot esculenta Crantz, Cassava, Diversity analysis, Microsatellite primers, Multiplex PCR, GENETIC DIVERSITY, DISTANCE, LANDRACES, RESISTANT, PCR, SSR MARKERS, IDENTIFICATION, POLYMORPHISMS, ASSAY

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Citation

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MLA
de Bang, Thomas, et al. “A Multiplex Microsatellite Marker Kit for Diversity Assessment of Large Cassava (Manihot Esculenta Crantz) Germplasm Collections.” PLANT MOLECULAR BIOLOGY REPORTER, vol. 29, no. 3, 2011, pp. 655–62, doi:10.1007/s11105-010-0273-2.
APA
de Bang, T., Raji, A., & Ingelbrecht, I. (2011). A multiplex microsatellite marker kit for diversity assessment of large cassava (Manihot esculenta Crantz) germplasm collections. PLANT MOLECULAR BIOLOGY REPORTER, 29(3), 655–662. https://doi.org/10.1007/s11105-010-0273-2
Chicago author-date
Bang, Thomas de, Adebola Raji, and Ivan Ingelbrecht. 2011. “A Multiplex Microsatellite Marker Kit for Diversity Assessment of Large Cassava (Manihot Esculenta Crantz) Germplasm Collections.” PLANT MOLECULAR BIOLOGY REPORTER 29 (3): 655–62. https://doi.org/10.1007/s11105-010-0273-2.
Chicago author-date (all authors)
de Bang, Thomas, Adebola Raji, and Ivan Ingelbrecht. 2011. “A Multiplex Microsatellite Marker Kit for Diversity Assessment of Large Cassava (Manihot Esculenta Crantz) Germplasm Collections.” PLANT MOLECULAR BIOLOGY REPORTER 29 (3): 655–662. doi:10.1007/s11105-010-0273-2.
Vancouver
1.
de Bang T, Raji A, Ingelbrecht I. A multiplex microsatellite marker kit for diversity assessment of large cassava (Manihot esculenta Crantz) germplasm collections. PLANT MOLECULAR BIOLOGY REPORTER. 2011;29(3):655–62.
IEEE
[1]
T. de Bang, A. Raji, and I. Ingelbrecht, “A multiplex microsatellite marker kit for diversity assessment of large cassava (Manihot esculenta Crantz) germplasm collections,” PLANT MOLECULAR BIOLOGY REPORTER, vol. 29, no. 3, pp. 655–662, 2011.
@article{1960344,
  abstract     = {{Current methods for molecular fingerprinting of cassava (Manihot esculenta Crantz) have limited throughput or are costly, thus preventing the characterization of large germplasm collections such as those held by the International Agricultural Research Centers or National Research Institutions, which comprise hundreds to thousands of accessions. Here, we report the development of a fluorescence-based multiplex simple sequence repeat (SSR) marker kit that enables accurate and cost-effective cassava fingerprinting. The kit comprises 16 SSR markers assembled into five multiplex panels and was tested on 21 cassava cultivars alongside one accession of Manihot epruinosa, a wild relative. A total of 68 alleles were detected with, on average, 4.25 alleles per locus and a polymorphism information content of 0.53. The marker kit reported here is comparable to previously published amplified fragment length polymorphism and SSR marker systems in terms of discriminating power and informativeness while offering significant advantages in speed and cost of marker analysis. Previous molecular genetic diversity studies have suggested that cassava germplasm collections contain duplicate entries based on the occurrence of identical genetic profiles. Using the newly developed microsatellite kit, three out of six putative duplicate accessions could be readily differentiated, showing that these are distinct genotypes. The relevance of these findings with respect to the characterization and management of large cassava germplasm collections is discussed.}},
  author       = {{de Bang, Thomas and Raji, Adebola and Ingelbrecht, Ivan}},
  issn         = {{0735-9640}},
  journal      = {{PLANT MOLECULAR BIOLOGY REPORTER}},
  keywords     = {{Manihot esculenta Crantz,Cassava,Diversity analysis,Microsatellite primers,Multiplex PCR,GENETIC DIVERSITY,DISTANCE,LANDRACES,RESISTANT,PCR,SSR MARKERS,IDENTIFICATION,POLYMORPHISMS,ASSAY}},
  language     = {{eng}},
  number       = {{3}},
  pages        = {{655--662}},
  title        = {{A multiplex microsatellite marker kit for diversity assessment of large cassava (Manihot esculenta Crantz) germplasm collections}},
  url          = {{http://dx.doi.org/10.1007/s11105-010-0273-2}},
  volume       = {{29}},
  year         = {{2011}},
}
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