Exploring genetic diversity and disease response of cultivated rice accessions (Oryza spp.) against Pyricularia oryzae under rainfed upland conditions in Benin
- 134 Downloads
The main goal of this study is to gain insight into the relationship between the genetic profile of cultivated rice (Oryza spp.) accessions and their resistance to rice blast. Therefore, the genetic and phenotypic variability of a set of 350 cultivated rice accessions originating from Africa (Benin, Mali and Nigeria, Ivory Coast etc.) was examined. Seventy-seven fluorescent amplified fragment polymorphism (AFLP) markers were used to gain insight into the genetic variation and to classify the germplasm collection. In addition, the rice germplasm was assessed for its resistance to blast disease caused by Pyricularia oryzae in upland field conditions. Huge differences in responses of rice accessions to P. oryzae were observed, ranging from highly susceptible to highly resistant. Twelve percent of all accessions were highly resistant to P. oryzae. Based on their AFLP marker profile these highly resistant accessions could be separated from the other accessions. Stepwise regression revealed that the best prediction of the blast resistance level was achieved with a maximum number of 13 AFLP markers. Marker CTA22 was the most important for accurate prediction of blast resistance, this marker was present in all highly resistant accessions. It can be concluded that AFLP markers are a valuable tool to screen rice accessions for their susceptibility towards blast disease and that, based on a subset of markers, it is possible to predict the resistance to rice blast.
KeywordsFluorescent-AFLP Genetic diversity Rice Blast
Funding of this Research work by the Monsanto’s Beachell-Borlaug International Scholars Program (MBBIS) and the Flemish Fund for Scientific Research (BOF) with support of AfricaRice. Special thanks to the AfricaRice genebank for providing seed and the related information.
OINY carried out the field works, the genotyping, data analysis and drafted the manuscript. KA participated in project design, genotyping, data analysis and revised the manuscript. SL participated in statistical analysis of data and revised the manuscript. DS, AD, WV, PVD, and GH participated in project design, data analysis and revised the manuscript.
Compliance with ethical standards
Conflict of interest
The authors declare that they have no conflict of interest.
- Afouda L, Gnikpo S, Sere Y, Gumedzoe Y (2007) Prevalence des principales maladies sur des varietes de riz cultivees dans le departement de l’alibori au Nord-Benin. J de la Recherche Scientifique de l’Universite de Lome 9:1027–1988Google Scholar
- Baboy L, Mateso R, Sabiti K (1995) Tests de résistance au champ vis-à-vis de la pyriculariose du riz au Zaire. Tropicultura 13:93–98Google Scholar
- Dramé KN, Sanchez I, Gregorio G, Ndjiondjop MN (2011) Suitability of a selected set of simple sequence repeats (SSR) markers for multiplexing and rapid molecular characterization of African rice (Oryza glaberrima Steud.). Afr J Biotechnol 10:6675–6685Google Scholar
- Futakuchi K, Sié M (2009) Better exploitation of African rice (Oryza glaberrima Steud.) in varietal development for resource-poor farmers in West and Central Africa. Agric J 4:96–102Google Scholar
- IRRI (International Rice Research Institute) (2013) Standard evaluation system for rice, 5th edn. International Rice Research Institute, ManilaGoogle Scholar
- Jusu MS (1999) Management of genetic variability in rice (Oryza sativa L. and O. glaberrima Steud.) by breeders and farmers in Sierra Leone. PhD-thesis Wageningen University, The NetherlandsGoogle Scholar
- National Research Council (1996) Lost crops of Africa. Volume 1: grains. National Academy Press, Washington, p 380Google Scholar
- Ndjiondjop M-N, Semagn K, Gouda AC, Kpeki SB, Dro Tia D, Sow M, Goungoulou A, Sie M, Perrier X, Ghesquiere A, Warburton ML (2017) Genetic variation and population structure of Oryza glaberrima and development of a mini-core collection using DArTseq. Front Plant Sci 8:1748. https://doi.org/10.3389/fpls.2017.01748 CrossRefPubMedPubMedCentralGoogle Scholar
- Nuijten E, van Treuren R, Struik PC, Mokuwa A, Okry F, Teeken B, Richards P (2009) Evidence for the emergence of new rice types of interspecific hybrid origin in West African farmers’ fields. PLoS ONE 4(10):e7335. https://doi.org/10.1371/journal.pone.0007335 CrossRefPubMedPubMedCentralGoogle Scholar
- Pham JL (1992) Evaluation des ressources génétiques des riz cultivés en Afrique par hybridation intra et interspécifique. Thèse Docteur et sciences, Université de Paris XI ORSAY (France), p 236Google Scholar
- R Core Team (2017) R: a language and environment for statistical computing. R Foundation for Statistical Computing, Vienna. https://www.R-project.org/
- Semon M, Nielsen R, Jones MP, McChouch SR (2005) The population structure of African cultivated rice O. glaberrima (Steud.): evidence for elevated levels of linkage disequilibrium caused by admixture with O. sativa and ecological adaptation. Genetics 169:1639–1647CrossRefPubMedPubMedCentralGoogle Scholar
- Séré Y, Fargette D, Abo ME, Wydra K, Bimerew M, Onasanya A, Akator SK (2013) Managing the major diseases of rice in Africa. In: Wopereis MCS, Johnson DE, Ahmadi N, Tollens E, Jalloh A (eds) Realizing Africa’s rice promise. CABI (H ISBN 9781845938123), pp 2013–228Google Scholar
- Sié M, Ogunbayo SA, Dakouo D, Sanou I, Dembélé Y, N’dri B, Dramé KN, Sanni KA, Toulou B, Glele RK (2010) Evaluation of intra and interspecific rice varieties adapted to valley bottom conditions in Burkina Faso. Afr J Plant Sci 4:308–318Google Scholar
- Thakur S, Singh PK, Das A, Rathour R, Variar M, Prashanthi SK, Singh AK, Singh UD, Chand D, Singh NK, Sharma TR (2015) Extensive sequence variation in rice blast resistance gene Pi54 makes it broad spectrum in nature. Front Plant Sci 6:345. https://doi.org/10.3389/fpls.2015.00345 CrossRefPubMedPubMedCentralGoogle Scholar
- Vodouhe SR, Ojegui M, Amadji F (1981) Impact of blast on rice cultivation in People’s Republic of Benin. In: Proceedings of the symposium on rice resistance to blast, Montpellier, France, 18–21 March. Service de Pathologie Végétale, Montpellier, France, pp 27–33Google Scholar
- Wang JC, Wen JW, Liu WP, Yan SR, Wang JQ, Ren JP (2010) Interaction studies between rice and Pyricularia grisea in Jilin Province, P. R. China. In: Jia, Y (ed) Proceedings of the 5th international rice blast conference, USA. USDA-DBNRRC, p 90Google Scholar
- WARDA (1999) Program report 1996–1997. West Africa Rice Development Association, Bouaké, Côte d’IvoireGoogle Scholar
- Zeigler RS, Tohme J, Nelson R, Levy M, Correa Victoria FJ (1994) Lineage exclusion: a proposal for linking blast population analysis to resistance breeding. In: Zeigler RS, Leong SA, Teng PS (eds) Rice blast disease. CAB International, Wallingford, pp 267–292Google Scholar