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Genetic diversity assessment in Somali sorghum (Sorghum bicolor (L.) Moench) accessions using microsatellite markers

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Plant Conservation and Biodiversity

Part of the book series: Topics in Biodiversity and Conservation ((TOBC,volume 6))

  • 2010 Accesses

Abstract

In the north-western region of Somalia, bordering Ethiopia, sorghum represents an important resources for human and animal nutrition. The critical situation of Somalia is threatening the preservation of this valuable resource and it becomes urgent to develop a strategy of correct evaluation of the sorghum germplasm in order to promote conservation and preservation programs. Microsatellites, also known as Simple Sequence Repeats (SSRs), are reproducible molecular markers useful in assessing the level of genetic diversity of plants. A total of 5 sorghum SSR-specific primer pairs were used to assess the genetic diversity of Somali sorghum landraces. Extensive variation was found at the microsatellite loci analysed, except for a locus that resulted in a monomorphic for some accessions. Considerable differences were found between total and effective number of alleles indicating non uniform allele frequency. Moreover allele frequency at a single locus significantly changed among accessions. Total gene diversity calculated for each locus ranged from 0.44 to 0.79. Most of the genetic diversity occurred within accessions demonstrating that accessions are not under selection processes and/or there is a continuous exchange of genes between sorghum populations. In any case, the patterns of clustering were significantly affected by the presence/absence of some alleles with high discriminant weight. Accessions Carabi, Abaadiro, Masego Cas and Masego Cad represent distinct genotypes confirming finding observed in previous phenotypic studies. The results highlight the central role of local farmers in maintaining and shaping local germplasm.

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References

  • Akkaya MS, Bhagwat AA, Cregan PB (1992) Length polymorphisms of simple sequence repeat DNA in soybean. Genetics 132:131–139

    Article  Google Scholar 

  • Andrews DJ, Bramel-Cox (1993) Breeding cultivars for sustainable crop production in low input dry land agriculture in the tropics. In: Buxton DR, Shibles R, Forsberg RA, Blad BL, Asay KH, Paulsen GM, Wilson RF (eds) International crop science. Crop Sci Soc Amer Inc, Madison, Wisconsin, USA, pp 211–223

    Google Scholar 

  • Appa Rao S, Mengesha MH, Gopal Reddy V, Prasada Rao KE (1998) Collecting and evaluation of sorghum germplasm from Rwanda. Plant Genet Resour Newslett 114:26–28

    Google Scholar 

  • Appa Rao S, Prasada Rao KE, Mengesha MH, Gopal Reddy V, (1996) Morphological diversity in sorghum germplasm form India. Genetic Resour Crop Evol 43:559–567

    Article  Google Scholar 

  • Ayana A, Bekele E (1998) Geographical patterns of morphological variation in sorghum (Sorghum bicolor (L.) Moench) germplasm from Ethiopia and Eritrea: qualitative characters. Hereditas 129:195–205

    Article  Google Scholar 

  • Ayana A, Bekele E (1999) Multivariate analysis of morphological variation in sorghum (Sorghum bicolor (L.) Moench) germplasm from Ethiopia and Eritrea. Genet Resour Crop Evol 46:273–284

    Article  Google Scholar 

  • Ayana A, Bekele E (2000) Geographical patterns of morphological variation in sorghum (Sorghum bicolor (L.) Moench) germplasm from Ethiopia and Eritrea: quantitative characters. Euphytica 115:91–104

    Article  Google Scholar 

  • Ayana A, Bryngelsson T, Bekele E (2000). Genetic variation of Ethiopian and Eritrean Sorghum (Sorghum bicolor (L.) Moench) germplasm assessed by random amplified polymorphic DNA (RAPD). Genet Resour Crop Evol 47:471–482

    Article  Google Scholar 

  • Brown SM, Hopkins MS, Mitchell SE, Senior ML, Wang TY, Duncan RR, Gonzales-Candelas F, Kresovich S (1996) Multiple methods for identification of polymorphic simple sequence repeats (SSRs) in sorghum [Sorghum bicolor (L.) Moench]. Theoret Appl Genet 93:190–198

    Article  CAS  Google Scholar 

  • Ceccarelli S, Valkoun J, Erskine W, Weigand S, Miller R, van Leur JAG (1992) Plant genetic resources and plant improvement as tools to develop sustainable agriculture. Exp Agric 28:89–98

    Article  Google Scholar 

  • Chivasa W, Harris D, Chiduza C, Nyamudeza P, Mashingaidze AB (2000) Biodiversity on farm in semiarid agriculture: a case study from a smallholder farming system in Zimbabwe. Zimbabwe Sci News 34(1):13–18

    Article  Google Scholar 

  • Dahlberg JA, Zhang X, Hart GE, Mullet JE (2002) Comparative assessment of variation among sorghum germplasm accessions using seed morphology and RAPD measurements. Crop Sci 42:291–296

    Article  PubMed  Google Scholar 

  • Damania AB, Rao VA (1980) Collecting sorghum in Somalia. FAO/IBPGR Plant Genet Resour Newslett 40:14–16

    Google Scholar 

  • de Boef WS, Berg T, Haverkort B (1996) Crop genetic resources. In: Bunders J, Haverkort B, Hiemstra W (eds) Biotechnology: building on farmers’ knowledge. Macmillan Education LTD, London and Basingstoke, pp. 103–128

    Google Scholar 

  • de Wet JMJ, Harlan JR, Price EG (1976) Variability in Sorghum bicolor. In: Harlan JR, de Wet JMJ, Stemler ABL (eds) Origins of African plant domestication. Mouton, The Hague, Paris, pp 453–463

    Chapter  Google Scholar 

  • Dean RE, Dahlberg JA, Hopkins MS, Mitchell SE, Kresovich S (1999). Genetic redundancy and diversity among ‘orange’ accessions in the U.S. national sorghum collection as assessed with simple sequence repeat (SSR) markers. Crop Sci 39:1215–1221

    Article  Google Scholar 

  • Djè Y, Forcioli S, Ater M, Lefèbvre C, Vekemans X (1999) Assessing population genetic structure of sorghum landraces from North-western Morocco using allozyme and microsatellite markers. Theoret Appl Genet 99:157–163

    Article  Google Scholar 

  • Djè Y, Heuertz M, Lefèbvre C, Vekemans X (2000) Assessment of genetic diversity within and among germplasm accessions in cultivated sorghum using microsatellite markers. Theoret Appl Genet 100:918–925

    Article  Google Scholar 

  • Doggett H (1988) Sorghum. 2nd edn. Longman, UK

    Google Scholar 

  • Donini P, Stephenson P, Bryan GJ, Koebner RMD (1998) The potential of microsatellites for high throughput genetic diversity assessment in wheat and barley. Genet Resour Crop Evol 45:415–421

    Article  Google Scholar 

  • FAOSTAT data, (2004)

    Google Scholar 

  • Friis Hansen E (2000) Farmers’ management and use of crop genetic diversity in Tanzania. In: Almekinders C (ed) Encouraging diversity: the conservation and development of plant genetic resources, London, UK, pp 66–71

    Google Scholar 

  • Geleta N, Labuschagne (2005). Qualitative traits variation in sorghum (Sorghum bicolor (L.) Moench) germplasm from eastern highlands of Ethiopia. Biodiversity and conservation 14:3055–3064

    Article  Google Scholar 

  • Grenier C, Bramel PJ, Dahlberf JA, El-Ahmadi A, Mahmoud M, Peterson GC, Rosenow DT, Ejeta G (2004). Sorghums of the Sudan: analysis of regional diversity and distribution. Genet Resour Crop Evol 51:489–500

    Article  CAS  Google Scholar 

  • Hamrick JL, Godt MJW (1997) Allozyme diversity in cultivated crops. Crop Sci 37:26–30

    Article  CAS  Google Scholar 

  • Jaccard P (1908) Nouvelles recherches sur la distribution florale. Bulletin Société Vaudense Sciences Naturelles 44:223–270

    Google Scholar 

  • Jones CJ, Edwards KJ, Castiglione S, Winfield MO, Sala F, Van de Weil AC, Bredemeijer G, Vosman B, Matthes M, Maly A, Brettschneider R, Bettini P, Buiatti M, Maestri E, Malcevschi A, Marmiroli N, Aert R, Volckaert G, Rueda J, Linaacero R, Vazque A, Karp A (1997) Reproducibility testing of RAPD, AFLP and SSR markers in plants by a network of European laboratories. Mol Breed 3:381–390

    Article  CAS  Google Scholar 

  • Lagercrantz U, Ellegren H, Andersson L (1993) The abundance of various polymorphic microsatellite motifs differs between plants and vertebrates. Nucleic Acids Res 21:1111–1115

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Levinson G, Gutman GA (1987) Slipped-strand mispairing: a major mechanism for DNA sequence evolution. Mol Biol Evol 4:203–221

    PubMed  CAS  Google Scholar 

  • Li Y, and Li C (1997). Phenotypic diversity of sorghum landraces. In: China International Conference on Genetic Improvement of Sorghum and Pearl Millet pp 659–668

    Google Scholar 

  • Manzelli M, Benedettelli S, Vecchio V (2005). Agricultural biodiversity in Northwest Somalia – an assessment among selected Somali sorghum (Sorghum bicolor (L.) Moench) germplasm. Biodivers Conserv 14:3381–3392

    Article  Google Scholar 

  • Mazur BJ, Tingey SV (1995) Genetic mapping and introgression of genes of agronomic importance. Curr Opin Biotechnol 175:182

    Google Scholar 

  • Menkir A, Goldsbrough P, Ejeta G (1997) RAPD based assessment of genetic diversity in cultivated races of sorghum. Crop Sci 37:564–569

    Article  CAS  Google Scholar 

  • Morgante M, Olivieri AM (1993) PCR-amplified microsatellites as markers in plant genetics. Plant J 3:175–182

    Article  PubMed  CAS  Google Scholar 

  • Nei M (1972). Genetic distance between populations. Am Nat 106:283–292

    Article  Google Scholar 

  • Nei M (1973) Analysis of gene diversity in subdivided populations. Proc Nat Acad Sci USA 70:3321–3323

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Pecetti L, Annichiarico P, Damania AB (1992). Biodiversity in a germplasm collection of durum wheat. Euphytica 60:229–238

    Article  Google Scholar 

  • Prasada Rao KE, Hussein Mao H, Mengesha MH (1989). Collecting sorghum germplasm in Somalia. FAO/IBPGR Plant Genet Resour Newslett 78–79:41

    Google Scholar 

  • Saghai-Maroof MA, Biyashev RM, Yang GP, Zhang Q, Allard RW (1994). Extraordinarily polymorphic microsatellite DNA in barley: species diversity, chromosomal locations and populations dynamics. Proc Natl Acad Sci USA 91:5466–5470

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Schoen DB, Brown AHD (1995). Maximising genetic diversity in core collections of wild relatives of crop species. In: Hodgkin T, Brown AHD, Van Hintum ThJL, Morales EAV (eds) Core collections of plant genetic resources. John Wiley and Sons, Chichester, pp 55–76

    Google Scholar 

  • Sneath PHA, Sokal RR (1973). Numerical taxonomy. WH. Freeman, San Francisco, CA

    Google Scholar 

  • Taramino G, Tarchini R, Ferrario S, Lee M, Pé ME (1997). Characterisation and mapping of simple sequence repeats (SSR) in Sorghum bicolor. Theoret Appl Genet 95:66–72

    Article  CAS  Google Scholar 

  • Tautz D, Renz M (1984). Simple sequences are ubiquitous repetitive components of eukaryotic genomes. Nucleic Acids Res 12:4127–4138

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Tautz D, Schlötterer C (1994). Simple sequences. Curr Opin Genet Dev 4:832–837

    Article  PubMed  CAS  Google Scholar 

  • Teshome A, Baum BR, Fahring L, Torrance JK, Arnason TJ, Lambert JD (1997) Sorghum (Sorghum bicolor (L.) Moench) landrace variation and classification in North Shewa and South Welo, Ethiopia. Euphytica 97:255–263

    Article  Google Scholar 

  • Uptmoor R, Wenzel W, Friedt W, Donaldson G, Ayisi K, Ordon F (2003). Comparative analysis on the genetic relatedness of Sorghum bicolor accessions from Southern Africa by RAPD, AFLPs and SSRs. Theoret Appl Genet 106:1316–1325

    Article  CAS  Google Scholar 

  • Weltzien E, Fishbeck G (1990). Performance and variability of local barley landraces in Near-Eastern environments. Plant Breed 104:58–67

    Article  Google Scholar 

  • Zongo JD, Gouyon PH, Sandmeier M (1993). Genetic variability among sorghum accessions from the Sahelian agroecological region of Burkina Faso. Biodivers Conserv 2(6):627–636

    Article  Google Scholar 

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Authors and Affiliations

  1. Department of Agronomy and Land Management, Faculty of Agriculture, University of Florence, Piazzale delle Cascine 18, 50144, Florence, Italy

    Marco Manzelli, Luca Pileri, Nadia Lacerenza, Stefano Benedettelli & Vincenzo Vecchio

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  1. Marco Manzelli
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  2. Luca Pileri
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  3. Nadia Lacerenza
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  4. Stefano Benedettelli
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  5. Vincenzo Vecchio
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Correspondence to Marco Manzelli .

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David L. Hawksworth Alan T. Bull

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© 2006 Springer Science+Business Media B.V.

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Manzelli, M., Pileri, L., Lacerenza, N., Benedettelli, S., Vecchio, V. (2006). Genetic diversity assessment in Somali sorghum (Sorghum bicolor (L.) Moench) accessions using microsatellite markers. In: Hawksworth, D.L., Bull, A.T. (eds) Plant Conservation and Biodiversity. Topics in Biodiversity and Conservation, vol 6. Springer, Dordrecht. https://doi.org/10.1007/978-1-4020-6444-9_10

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