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Assessment of genetic diversity among African cassava Manihot esculenta Grantz accessions resistant to the cassava mosaic virus disease using SSR markers

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Abstract

A study was conducted to determine the extent of genetic diversity among African cassava (Manihot esculenta Crantz) accessions resistant to the cassava mosaic virus disease (CMD), using simple sequence repeat (SSR) markers. The accessions included a breeding stock (clone 58308), five improved lines, 62 CMD resistant and 10 CMD susceptible landraces. Genetic diversity was assessed among accessions in five cluster groups derived from UPGMA analysis on data from 18 SSR primer pairs. Average gene diversity, He, was high in all cluster groups, with an average heterozygosity of 0.591 ± 0.061. The estimator of inbreeding Fis revealed a low level of inbreeding within groups and averaged −0.262 ± 0.142. Gene diversity among all accessions was 51.4% and gene diversity within cluster groups was 46.6%, while 4.8% was due to diversity between the different cluster groups. The amount of genetic differentiation measured by Gst and Fst were 9.6% and 12.1% respectively, indicating a weak genetic structure.

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References

  • P. Ajmone-Marsan, C. Livini, M.M. Messmer, A.E. Melchinger and M. Motto, Cluster analysis of RFLP data from related maize inbred lines of the BSSS and LSC heterotic groups and comparison with pedigree data. Euphytica 60 (1992) 139-148

    CAS  Google Scholar 

  • Annor-Frempong C. 1992. A survey of cassava cultivation practices in Ghana. In: Ofori F. and Hahn S.K. (eds)Proc. 9th Symp. ISTRC-ABAccra GhanaOct 20–26, 1991, pp. 216–221.

  • I.K. Asante and S.K. Offei, RAPD-based genetic diversity study of fifty cassava (Manihot esculenta Crantz) genotypes. Euphytica 131 (2003) 113-119

    Article  CAS  Google Scholar 

  • M.V. Ashiley and B.D. Dow, The use of microsatellite analysis in population biology, backgroundmethods and potential applications. In: B. Schierwater, B. Streit, G.P. Wagner and R. Desalle (eds.) Molecular Ecology and Evolution, Approaches and Applications. Basel, Switzerland: Birkhäuser Verlag (1994) pp. 185-201

    Google Scholar 

  • G.I. Atiri, F.O. Ogbe, A.G.O. Dixon, S. Winter and O. Ariyo, Status of Cassava mosaic virus diseases and Cassava Begomoviruses in Sub-Saharan Africa. J. Sust. Agri. 24 (2004) 5-35

    Article  Google Scholar 

  • J.R. Beeching, P. Marmey, M.C. Gavalda, M. Noirot, H.R. Haysom, M.A. Hughes and A. Charrier, An assessment of genetic diversity within a collection of cassava (Manihot esculenta Crantz) germplasm using molecular markers. Ann. Bot. 72 (1993) 515-520

    Article  CAS  Google Scholar 

  • P. Chavarriaga-Aguirre, M.M. Maya, M.W. Bonierbale, S. Kresovich, M.A. Fregene, J. Tohme and G. Kochert, Microsatellites in cassava (Manihot esculenta Crantz), discovery, inheritance and variability. Theor. Appl. Genet. 97 (1998) 493-501

    Article  CAS  Google Scholar 

  • P. Chavarriaga-Aguirre, M.M. Maya, J. Tohme, M.C. Duque, C. Iglesias, M.W. Bonierbale, S. Kresovich and G. Kochert, Using microsatellites, isozymes and AFLPs to evaluate genetic diversity and redundancy in the cassava core collection and to assess the usefulness of DNA-based markers to maintain germplasm collections. Mol. Breed. 5 (1999) 263-273

    Article  CAS  Google Scholar 

  • G. Cours-Darne, Improving cassava in Africa. The Abidjan Conference. Agric. Res. Prior. Econ. Dev. Africa 2 (1968) 330-339

    Google Scholar 

  • N.M. Cowen and K.J. Frey, Relationships between three measures of genetic distance and breeding behaviour in oats (Avena sativa L.). Genome 29 (1987) 7-106

    Google Scholar 

  • S.L. Dellaporta, J. Wood and J.R. Hicks, A plant DNA mini preparation, version II. Plant Mol. Biol. Rep. 1 (1983) 19-21

    CAS  Google Scholar 

  • M. Fregene, A. Bernal, M. Duque, A. Dixon and J. Tohme, AFLP analysis of African cassava (Manihot esculenta Crantz) germplasm resistant to the cassava mosaic disease (CMD). Theor. Appl. Genet. 100 (2000) 678-685

    Article  CAS  Google Scholar 

  • M.A. Fregene, M. Suarez, J. Mkumbira, H. Kulembeka, E. Ndedya, A. Kulaya, S. Mitchel, U. Gullberg, H. Rosling, A.G.O. Dixon, R. Dean and S. Kresovich, Simple sequence repeats marker diversity in cassava landraces, genetic diversity and differentiation in an asexually propagated. Theor. Appl. Genet. 107 (2003) 1083-1093

    Article  PubMed  CAS  Google Scholar 

  • Goudet J. 2000. FSTAT, a program to estimate and test gene diversities and fixation indices (version 2.9.1). Available from http//www.unil.ch/izea/softwares/fstat.html.

  • P. Gulick, C. Hershey and J. Esquinas-Alcazar, Genetic Resources of cassava and wild relatives. IBPGR report 82/III. RomeItaly: International Board for plant genetic resource (1983).

    Google Scholar 

  • Hahn S.K., Howland A.K. and Terry E.R. 1977. Cassava breeding at IITA. In: Leaky C.L.A (eds)Proc. 3rd Symp., ISTRC-ABIITAIbadan Nigeria. Dec 2–9 1973, pp. 4–10.

  • J.L. Hamrick and M.J.W. Godt, Allozyme diversity in cultivated crops. Crop Sci. 37 (1997) 26-30

    Article  CAS  Google Scholar 

  • J.R. Harlan, Our vanishing genetic resources. Science 188 (1975) 619-621

    Article  Google Scholar 

  • H.R. Haysom, T.L.C. Chan and M.A. Hughes, Phylogenetic relationships of Manihot species revealed by restriction fragment length polymorphism. Euphytica 76 (1994) 227-234

    Article  Google Scholar 

  • Hershey C. 1987. Cassava germplam resources. Proceedings Workshop on Cassava Breeding. A Multidisciplinary Review. The Philippines, March 4–7 1985. CIAT Columbia.

  • F. Lefevre and A. Charrier, Isozyme diversity within African Manihot germplasm. Euphytica 66 (1993) 73-80

    Article  Google Scholar 

  • J.P. Legg and C.M. Fauquet, Cassava mosaic geminiviruses in Africa. Plant Mol. Biol. 56 (2004) 585-99

    Article  PubMed  CAS  Google Scholar 

  • Magoon M.L. and Krishnan R.K. 1977. Extending the frontiers of genetic improvement in cassava. In: Leaky C.L.A.(eds)Proc. 3rd Symp., ISTRC-ABIITAIbadan Nigeria. Dec 2–9 1973, pp. 14–18.

  • N.M. Mahungu, A.G.O. Dixon and J. Mkumbira, Breeding cassava for multiple pest resistance in Africa. Afr. Crop Sci. J. 2 (1994) 539-552

    Google Scholar 

  • P. Marmey, J.R. Beeching, S. Hammon and A. Charrier, Evaluation of cassava (Manihot esculenta Crantz) germplasm using RAPD markers. Euphytica 74 (1994) 203-209

    Article  Google Scholar 

  • R.E.C. Mba, P. Stephenson, K. Edwards, S. Melzer, J. Nkumbira, U. Gullberg, K. Apel, M. Gale, J. Tohme and M. Fregene, Simple sequence repeat (SSR) markers survey of the cassava (Manihot esculenta Crantz) genometowards an SSR-based molecular genetic map of cassava Theor. Appl. Genet. 102 (2001) 21-31

    Article  CAS  Google Scholar 

  • H.D. Mignouna and A.G.O. Dixon, Genetic relationships among cassava clones with varying levels of resistance to the African mosaic disease using RAPD markers. Afri. J. Root Tuber Crops 2 (1997) 28-32

    Google Scholar 

  • H.D. Mignouna, N.T.H. Ellis, M.R. Knox, R. Asiedu and Q.N. Ng, Analysis of genetic diversity in Guinea yams (Discorea spp.) using AFLP fingerprinting. Trop. Agric. (Trinidad) 75 (1998) 224-229

    Google Scholar 

  • M. Morgante and A.M. Olivieri, PCR amplified microsatellites as markers in plant genetics. Plant J. 1 (1993) 175-182

    Article  Google Scholar 

  • M. Nei and R.K. Chesser, Estimation of fixation indices and gene diversity. Ann. Hum. Genet. 47 (1983) 253-259

    PubMed  CAS  Google Scholar 

  • Nei M. 1978. Estimation of average heterozygosity and genetic distance from a small number of individuals

  • R.F.W. Nichols, Breeding cassava for virus resistance. East Afr. Agric. J. 15 (1947) 154-160

    Google Scholar 

  • Nweke F.I., Dixon A.G.O., Asiedu R., Folayan S.A. 1994. Cassava varietal needs of farmers and the potential for production growth in Africa pp. 239 COSCA working paper No.10

  • S.K. Offei, M. Owuna-Kwakye and G. Thottappilly, First report of East African cassava mosaic begomovirus in Ghana. Plant Dis. 83 (1999) 877

    Google Scholar 

  • Ogbe F.O., Atiri G.I., Dixon A.G.O. and Thottappilly G. 2001. Cassava mosaic disease and its causal agents, The Nigerian experience. Proc. 1st Conf. Plant Virol. SSAIITANigeria. June 4–8 2001. http,//www.iita.org/info/virology/virology.htm.

  • F.O. Ogbe, I. Atiri, D. Robinson, AG.O. Dixon, S. Winter, F.M. Quin and G. Thottappilly, First report of East African cassava mosaic begomovirus in Nigeria. Plant Dis. 83 (1999) 398

    Google Scholar 

  • F.O. Ogbe, G. Thottappilly, A.G.O. Dixon, G.I. Atiri and H.D. Mignouna, Variants of East African cassava mosaic virus and its distribution in double infections with African cassava mosaic virus in Nigeria. Plant Dis. 87 (2003) 229-232

    Google Scholar 

  • K. Olsen and B. Schaal, Microsatellite variation in cassava Manihot esculentaEuphorbiaceae and its wild relatives, evidence for a southern Amazonian origin of domestication. Am. J. Bot. 88 (2001) 131-142

    PubMed  Google Scholar 

  • G.W. Otim-Nape, A. Bua and Y. Baguma, Accelerating the transfer of improved production technologies, Controlling African cassava mosaic virus disease epidemic in Uganda. Afri. Crop Sci. J. 2 (1994) 479-495

    Google Scholar 

  • G.W. Otim-Nape, A. Bua, J.M. Thresh, Y. Baguma, S. Ogwal, G.N. Ssemakula, G. Acola, B.A. Byabakama, J. Colvin, R.J. Cooter and A. Martin, Cassava Mosaic Virus. In: J.S. Tenywa and M.W. Ogenga-Latigo (eds.) Proceedings of Disease in East Africa and its Control. ChathamUK: Natural Resources Institute (1997) pp. 100

    Google Scholar 

  • Otoo J.A., Alhassan R.A., Kisiedu A.F.K. and Alhassan A.Y. 1995. Cassava processing technology as a determinant of commercialisation and farmers varietal requirements. In Ghana. In: Akoroda M. and Ekanayake I.(eds)Proc. 6th Symp. ISTRC-AB LilongweMalawi Oct 22–28 1995, pp. 113–119.

  • W. Powell, M. Morgante, C. Andre, M. Hansafey, J. Vogel, S. Tingey and A. Rafalski, The comparison of RFLP, RAPD, AFLP and SSR (microsatellite) markers for germplasm analysis. Mol. Breed 2 (1996) 225-238

    Article  CAS  Google Scholar 

  • A.A. Raji, Agrobotanical characterisation of genetic diversity and heterotic groupings in cassava. Nigeria: University of Ibadan, Ibadan (2002).

    Google Scholar 

  • A. Roa, P. Chavarriaga-Aguirre, M.C. Durque, M.M Maya, M.W. Bonierbale, C. Iglesias and J. Tohme, Cross-species amplification of cassava (Manihot esculenta) (Euphorbiaceae) microsatellites, Allelic polymorphism and degree of relationship. Am. J. Bot. 87 (2000) 1647-1655

    Article  PubMed  CAS  Google Scholar 

  • D.S. Rogers and H.S. Fleming, A monograph of M. esculenta. Econ. Bot. 27 (1973) 1-113

    Google Scholar 

  • Rohlf F.J. 1997. NTSYS-PC, Numerical Taxonomy and Multivariate Analysis System version 2.02

  • G. Sanchez, S. Restrepo, M. Duque, M. Fregene, M.W. Bonierbale and V. Verdier, AFLP assessment of genetic variability in cassava accessions (Manihot esculenta Crantz) resistant and susceptible to the cassava bacterial blight (CBB). Genome 42 (1999) 163-172

    Article  PubMed  CAS  Google Scholar 

  • SAS companion for Microsoft windows environmentversion 6, 1st ed. Cary, North CarolinaUSA: SAS Institute (1999).

    Google Scholar 

  • J.W. Schut, X. Qi and P. Stam, Association between relationship measures based on AFLP markers, pedigree data and morphological traits in barley. Theor. Appl. Genet. 95 (1997) 1161-1168

    Article  CAS  Google Scholar 

  • P.H.A Sneath and R.O. Sokal, Numerical Taxonomy. San Francisco: Freeman (1973).

    Google Scholar 

  • J.M. Thresh, G.W. Otim-Nape, J.P. Legg and D. Fargette, African cassava mosaic virus diseaseThe magnitude of the problem. Afri. J. Root Tuber Crops 2 (1997) 13-18

    Google Scholar 

  • G. Van Esbroeck and D.T. Bowman, Cotton improvementCotton germplasm diversity and its importance to cultivar development. J. Cotton Sci. 2 (1998) 121-129

    Google Scholar 

  • X. Vekemans and C. Lefebvre, On the evolution of heavy-metal tolerant populations in Armeria maritimaevidence from allozyme variation and reproductive barriers. J. Evol. Biol. 10 (1997) 175-191

    Article  Google Scholar 

  • B.S. Weir, Genetic Data Analysis. SunderlandMA: Sinauer Associates (1990).

    Google Scholar 

  • B.S. Weir and C.C. Cockerham, Estimating F-statistics for the analysis of population structure. Evolution 38 (1984) 1358-1370

    Article  Google Scholar 

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Authors and Affiliations

  1. International Institute of Tropical Agriculture (IITA), c/o Lambourn UK Ltd, Carolyn House, 26 Dingwall Road Croydon, CR9 3EE, Croydon, UK

    Yvonne Lokko, Alfred Dixon & Sam Offei

  2. Department of Crop Science, University of Ghana, P.O. Box LG44,, Legon, Ghana

    Eric Danquah

  3. Centro Internacional de Agricultura Tropical, Apartado Aéreo 6713, Cali, Columbia

    Martin Fregene

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  1. Yvonne Lokko
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  2. Alfred Dixon
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  3. Sam Offei
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  4. Eric Danquah
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  5. Martin Fregene
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Correspondence to Eric Danquah.

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Lokko, Y., Dixon, A., Offei, S. et al. Assessment of genetic diversity among African cassava Manihot esculenta Grantz accessions resistant to the cassava mosaic virus disease using SSR markers. Genet Resour Crop Evol 53, 1441–1453 (2006). https://doi.org/10.1007/s10722-005-6841-x

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