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Analysis of the population structure 2015 Puccinia graminis f. sp tritici (Pgt) in Kenya using simple sequence repeats markers

By: OE Okello, OJ Ochuodho, R Wanyera, S Bhavani, LJ Szabo

Key Words: Pgt SRR markers, Population structure, SSR-MLGs, Wheat stem rust Ug99

Int. J. Agron. Agri. Res. 15(5), 1-7, November 2019.

Certification: ijaar 2019 0198 [Generate Certificate]

Abstract

N Wheat (Triticum astevium) production in Kenya has been severely affected by stem rust Ug99 and its related race groups. The consequence of not controlling this disease is steep decline in the crop production thus creating food insecurity to over 70% of the small-scale holder farmers who depend on it as a source of food as well as income. The causative agent of the disease Puccinia graminis f. sp tritici (Pgt) has been studied by researchers globally because of its rapid evolution of races within lineage overcoming existing resistant genes. Understanding the population structure will highlight the predominant race(s) as well as their geographical distribution. This information is required to enable breeding for resistant wheat varieties. The objective of this study was to characterize the population structure of Puccinia graminis f. sp tritici population in 2015. Using 10pgt Simple Sequence Repeats (SSR) markers 104 single uredenial-pustule samples were analysed. Minimum spanning network pattern was composed of five Simple Sequence Repeats multi-locus genotypes (SSR-MLGs) that were organized around three nodes based on samples chosen from wheat growing fields with the reference isolates; races TTKSK and TKTTF. In addition to this, non-parametric DAPC analysis showed the presence of single population made up of two predominant races from clade I (Ug99 race group) and clade IV-B (race TKTTF/TTTTF). Analysis of molecular variance (AMOVA) according to Bayesian Information Criterion showed clustering was majorly based within populations (0.576%) rather than among clusters (0.441%).

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Analysis of the population structure 2015 Puccinia graminis f. sp tritici (Pgt) in Kenya using simple sequence repeats markers

Agriculture and Food Authority. 2 Quarter e- news bulletin ‘The Big 4 agenda’ 2017-2018.

Brown JKM, Hovmøller MS. 2002. Aerial dispersal of fungi on the global and continental scales and its consequences for plant disease. Science 297, 537-541.

Dean R, Van Kan JAL, Pretorius ZA, Hammond-Kosack KE, Di Pietro A, Spanu PD, Rudd JJ, Dickman M, Kahmann R, Ellis J, Foster GD. 2012. The Top 10 fungal pathogens in molecular plant pathology. Mol. Plant Pathol 13, 414430.

Doyle JJ, Doyle JL. 1990. A rapid total DNA preparation procedure for fresh plant tissue. Focus 12, 13-15.

Economic Survey. 2018. Kenya National Bureau of Statistics. ISBN: 978-9966-102-06-5.

Ellis JG, Lagudah ES, Spielmeyer W, Dodds PN. 2014. The past, present, and the future of breeding rust resistant wheat. Front. Plant Sci 5, 1-13.

Hovmøller MS, Sørenson CK, Walter S, Justesen AF. 2011. Diversity of Puccinia striiformis on cereals and grasses. Annu. Rev. Phytopathol 49, 197-217. DOI: 10.1146/annurev-phyto-072910-095230.

Jombart T. 2008. Adegenet: R package for the multivariate analysis of genetic markers. Bioinformatics 24, 1403-1405.

Jones A, Thomson D, Hort M, Devenish B. 2007. The U.K. Met Office’s Next-Generation Atmospheric Dispersion Model, NAME III. In: Borrego C., Norman AL. (eds) Air Pollution Modeling and Its Application XVII. Springer, Boston, MA.

Meirmans PG, Van Tienderen PH. 2004. Genotype and Genodive: two programs for the analysis of genetic diversity of asexual organism. Molecular Ecology Notes 4, 792-794.

Nei M. 1978. Estimation of average heterozygosity and genetic distance from a small number of individuals. Genetics 89, 583-590.

Newcomb M, Olivera PD, Rouse MN, Szabo LJ, Johnson J, Gale S, Luster DG, Wanyera R, Macharia G, Bhavani S, Hodson D, Patpour M, Hovmøller MS, Fetch TG, Jin Y. 2016. Kenyan Isolates of Puccinia graminis f. sp. tritici from 2008 to 2014: Virulence to SrTmp in the Ug99 Race Group and Implications for Breeding Programs Phytopathology 106(7), 729-736.

Olivera P, Newcomb M, Szabo LJ, Rouse MN, Johnson J, Gale S, Luster DG, Hodson D, Cox JA, Burgin L, Hort M, Gilligan CA, Patpour M, Justesen AF, Hovmøller MS, Woldeab G, Hailu E, Hundie B, Tadesse K, Pumphrey M, Singh RP, Jin Y. 2015. Phenotypic and genotypic characterization of race TKTTF of Puccinia graminis f. sp. tritici that caused a wheat stem rust epidemic in southern Ethiopia in 2013/14. Phytopathology 105, 917-928.

Paradis E, Claude J, Strimmer K. 2004. APE. Analysis of phylogenetics and evolution in R language. Bioinformatics 20, 419-420.

Park R, Fetch T, Hodson D, Jin Yue, Nazari K, Prashar M, Pretorius Z. 2011. International surveillance of wheat rust pathogens: progress and challenges. Euphytica 179, 109-117.

Pretorius ZA, Singh RP, Wagoire WW, Payne TS. 2000. Detection of virulence to wheat stem rust resistance gene Sr31 in Puccinia graminis f. sp. tritici in Uganda. Plant Diseases 84, 203.

R Core Team. 2015. R: A language and Environment for Statistical Computing. R Foundation for Statistical Computing, Vienna, Austria. Online publication. http://www.R-project.org/

Roelfs AP, Singh RP, Saari EE. 1992. Rust Diseases of Wheat: Concepts and Methods of Disease Management. CIMMYT, Mexico, D.F.

Saitou N, Nei M. 1987. The neighbor-joining method. A new method for reconstructing phylogenetic trees. Mol. Bio. Evol 4, 406-425.

Singh RP, William HM, Huerta-Espino J, Rosewarne G. 2004. Wheat rust in Asia: meeting the challenges with old and new technologies. In: New Directions for a Diverse Planet: Proceedings of the 4th International Crop Science Congress, Brisbane, Australia, 26 September–1 October 2004. 2004. ISBN 1 920842 20 9.

Singh RP, Hodson DP, Huerta-Espino J, Jin Y, Bhavani Njau P, Herrera-Foessel J, Singh PK, Singh S, Govindan V. 2011a. The Emergence of Ug99 Races of the Stem Rust Fungus is a threat to World Wheat Production Annual Review of Phytopathology Vol. 49, 465-481.

Singh RP, Hodson P, Jin Y, Lagudah ES, Ayliffe Bhavani B, Rouse MM, Pretorius ZA, Szabo LJ, Huerta-Espino J, Basnet BR, Lan C, Hovmøller MS. 2015. Emergence and Spread of New Races of Wheat Stem Rust Fungus: Continued Threat to Food Security and Prospects of Genetic Control. Phytopathology 105(7), 872-84.

Szabo LJ. 2007. Development of simple sequence repeats markers for the plant pathogenic rust fungus fungus, Puccinia graminis. Mol. Ecol. Notes 7, 92-94.

Vurro M, Bonciani B, Vannacci G. 2010. Emerging infectious diseases of crop plants in developing countries: impacts on agriculture and socio-economic consequences. Food Security 2, 113-132.

Wanyera R, Kinyua MG, Jin Y, Singh RP. 2006. The spread of stem rust caused by Puccinia graminis sp. tritici with virulence on Sr31 in wheat in Eastern Africa. Plant Disease 90, 113-120.

Wanyera R, Kyalo M, Wanjala M, Harvey J, Szabo LJ. 2017. Genetic characterization of the 2011 wheat stem rust pathogen population in Kenya using SSR markers. Plant pathology unpublished.

OE Okello, OJ Ochuodho, R Wanyera, S Bhavani, LJ Szabo.
Analysis of the population structure 2015 Puccinia graminis f. sp tritici (Pgt) in Kenya using simple sequence repeats markers.
Int. J. Agron. Agri. Res. 15(5), 1-7, November 2019.
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