African Journal of
Plant Science

  • Abbreviation: Afr. J. Plant Sci.
  • Language: English
  • ISSN: 1996-0824
  • DOI: 10.5897/AJPS
  • Start Year: 2007
  • Published Articles: 809

Full Length Research Paper

Genetic relationship and the occurrence of multiple gene resistance to coffee berry disease (Colletotrichum kahawae, Waller & Bridge) within selected Coffea arabica varieties in Kenya

James M. Gimase
  • James M. Gimase
  • Kenya Agricultural and Livestock Research Organization (KALRO) - Coffee Research Institute, P. O. Box 4-00232, Ruiru, Kenya.
  • Google Scholar
Wilson M. Thagana
  • Wilson M. Thagana
  • Department of Agricultural Science and Technology, School of Agriculture and Enterprise Development, Kenyatta University, P.O Box 43844 - 00100, Nairobi, Kenya.
  • Google Scholar
Chrispine O. Omondi
  • Chrispine O. Omondi
  • Kenya Agricultural and Livestock Research Organization (KALRO) Sugar Research Institute, P. O. Box 44- 40100, Kisumu, Kenya.
  • Google Scholar
Jane J. Cheserek
  • Jane J. Cheserek
  • Kenya Agricultural and Livestock Research Organization (KALRO) - Coffee Research Institute, P. O. Box 4-00232, Ruiru, Kenya.
  • Google Scholar
Elijah K. Gichuru
  • Elijah K. Gichuru
  • Kenya Agricultural and Livestock Research Organization (KALRO) - Coffee Research Institute, P. O. Box 4-00232, Ruiru, Kenya.
  • Google Scholar


  •  Received: 24 September 2020
  •  Accepted: 23 November 2020
  •  Published: 31 January 2021

References

Agwanda CO, Lashermes P, Trouslot P, Combes MC, Charrier A (1997). Identification of RAPD markers for resistance to coffee berry disease, Colletotrichum kahawae, in arabica coffee. Euphytica 97(2):241-248.
Crossref

 

Alkimim ER, Caixeta ET, Sousa, TV, Pereira AV, de Oliveira ACB, Zambolim L, Sakiyama NS (2017). Marker-assisted selection provides Arabica coffee with genes from other Coffea species targeting multiple resistance to rust and coffee berry disease. Molecular Breeding 37(6):1-10.
Crossref

 
 

Barilli E, Cobos MJ, Carrillo E, Kilian A, Carling J, Rubiales D (2018). A High-Density Integrated DArTseq SNP-Based Genetic Map of Pisumfulvum and Identification of QTLs Controlling Rust Resistance. Frontiers in Plant Science 9:167.
Crossref

 
 

Baruah A, Naik V, Hendre P, Rajkumar P, Aggarwal RK (2003). Isolation and characterization of nine microsatellite markers from Coffea arabica L. showing wide cross-species amplification. Molecular Ecology Notes 3:647-650.
Crossref

 
 

Bikila BA, Sakiyama NS, Caixeta ET (2017). SNPs Based Molecular Diversity of Coffea canephora. Journal of Microbiology and Experimentation 5(1):00136.
Crossref

 
 

Courtois B, Audebert A, Dardou A, Roques S, Ghneim-Herrera T, Droc G, Frouin J, Rouan L, Gozé E, Kilian A, Ahmadi N (2013). Genome-wide association mapping of root traits in a japonica rice panel. PloS ONE 8(11):e78037.
Crossref

 
 

Diniz LE, Sakiyama NS, Lashermes P, Caixeta ET, Oliveira AC, Zambolim EM, Loureiro ME, Pereira AA, Zambolim L (2005). Analysis of AFLP markers associated with the Mex-1 resistance locus in Icatu progenies. Crop Breeding and Applied Biotechnology 5(4):387-393.
Crossref

 
 

Diniz I, Figueiredo A, Loureiro A, Batista D, Azinheira H, Várzea V, Pereira AP, Gichuru E, Moncada P, Guerra-Guimarães L, Oliveira H (2017). A first insight into the involvement of phytohormones pathways in coffee resistance and susceptibility to Colletotrichumkahawae. PLoS ONE 12(5):e0178159.
Crossref

 
 

Davis AP, Tosh J, Ruch N, Fay M (2011). Growing coffee: Psilanthus (Rubiaceae) subsumed on the basis of molecular and morphological data; implications for the size, morphology, distribution and evolutionary history of Coffea. Botanical Journal of the Linnean Society 167(4):357-377.
Crossref

 
 

Doyle JJ, Doyle JL (1987). A rapid DNA isolation procedure for small quantities of fresh leaf tissue.Phytochemical Bulletin 19:11-15. Available at: 

View

 
 

Elshire RJ, Glaubitz JC, Sun Q, Poland JA, Kawamoto K, Buckler E, Mitchell S (2011). A Robust, Simple Genotyping-by-Sequencing (GBS) Approach for High Diversity Species. PLoS one 6(5):e19379.
Crossref

 
 

Garavito A, Montagnon C, Guyot R, Bertrand B (2016). Identification by the DArTseq method of the genetic origin of the Coffeacanephora cultivated in Vietnam and Mexico. BMC Plant Biology 16:242.
Crossref

 
 

Garot E, Joet T, Combes MC, Lashermes P (2018). Genetic diversity and population divergences of an indigenous tree (Coffeamauritiana) in Reunion Island: the role of climatic and geographical factors. Heredity 122:833-847.
Crossref

 
 

Gichimu BM, Gichuru EK, Mamati GE, Nyende AB (2012). Selection within Coffea Arabica cv. Ruiru 11 for high cup quality. African Journal of Food Science 6(18):456-464.

 
 

Gichimu BM, Gichuru EK, Mamati GE, Nyende AB (2013). Yield Selection within Coffea arabica cv. Ruiru 11. American Journal of Experimental Agriculture 3(1):76-88.
Crossref

 
 

Gichimu BM, Gichuru EK, Mamati GE, Nyende AB (2014). Occurrence of Ck-1gene conferring resistance to Coffee Berry Disease in Coffea Arabica cv. Ruiru 11 and its parental genotypes. Journal of Agricultural and Crop Research 2(3):51-61.
Crossref

 
 

Gichuru EK (2007). Characterization of genetic resistance of Coffee berry disease (Colletotrichum kahawae Waller and Bridge) in Arabica coffee (Coffea arabica L.) that is introgressed from Coffea canephora (PhD thesis, University of Nairobi, Kenya).

 
 

Gichuru EK, Agwanda CO, Combe MC, Mutitu EW, Ngugi ECK, Bertrand B, Lashermes P (2008). Identification of molecular markers linked to a gene conferring resistance to Coffee berry disease (Colletotrichum kahawae) in Coffea arabica. Plant Pathology 57:1117-1124.
Crossref

 
 

Gichuru EK, Ithiru JM, Silva MC, Pereira AP, Varzea VMP (2012). Restructured sampling plan enables the characterization of more virulence genes of Hemileia vastatrix in Kenya. 24th International Conference on Coffee Science, San José, Costa Rica.

 
 

Giddisa G (2016). A Review on the Status of Coffee Berry Disease (Colletotrichumkahawae) in Ethiopia. Journal of Biology, Agriculture and Healthcare 6(19):140-151.

 
 

Gimase JM, Thagana WM, Omondi CO, Cheserek JJ, Gichimu BM, Gichuru EK, Ziyomo C, Sneller CH (2020a). Genome-Wide Association Study Identify the genetic loci conferring resistance to Coffee Berry Disease (Colletotrichum kahawae) in Coffea arabica var. Rume Sudan. Euphytica 216:86.
Crossref

 
 

Gimase JM, Thagana WM, Omondi CO, Cheserek JJ, Gichimu BM, Gichuru EK (2020b). Quantitative trait Loci (QTL) mapping of Resistance to Coffee Berry Disease (Colletotrichum kahawae.Waller & Bridge) in Coffea arabica variety Rume Sudan. African Journal of Agricultural Research 16(8):1184-1194.
Crossref

 
 

Hindorf H, Omondi CO (2011). A review of three major fungal diseases of Coffea arabica L. in the rainforests of Ethiopia and progress in breeding for resistance in Kenya. Journal of Advanced Research 2(2):109-120.
Crossref

 
 

Jaetzold R, Schimidt H, Hornez H, Shisanya C (2006). Farm Management Handbook of Kenya, Vol. II/C: Natural Conditions and Farm Management Information, Central Kenya. Ministry of Agriculture, Nairobi; Kenya. P. 573.

 
 

Ky CL, Guyot B, Louarn J, Harmon S, Noirot M (2001). Trigonelline inheritance in the interspecific Coffea pseudozanguebariae× C. liberica var. dewevrei cross. Theoretical and Applied Genetics 102(4):630-634.
Crossref

 
 

Lashermes P, Combes MC (2018). Diversity and genome evolution in coffee. In: Lashermes P (ed) Achieving sustainable cultivation of coffee. BDS Publ., Cambridge. pp. 3-20.
Crossref

 
 

Lashermes P, Combes MC, Robert J, Trouslot P, D'Hont A, Anthony F, Charrier A (1999). Molecular characterisation and origin of the Coffea arabica L. genome. Molecular and General Genetics 261(2):259-266.
Crossref

 
 

Lashermes P, Combes MC, Ansaldi C, Gichuru E, Noir S (2011). Analysis of alien introgression in the coffee tree (Coffea Arabica L.). Molecular Breeding 27(2):223-232.
Crossref

 
 

Mtenga JD (2016). Diversity, combining ability and Coffee Berry Disease (Colletotrichum kahawae) resistance among Ethiopian and Tanzanian Arabica coffee genotypes, (PhD thesis, Sokoine University of Agriculture, Tanzania).

 
 

Moncada MP, Tovar E, Montoya JC, González A, Spindel J, McCouchS (2016). A genetic linkage map of coffee (Coffea Arabica L.) and QTL for yield, plant height, and bean size. Tree Genetics and Genomes 12(1):5.
Crossref

 
 

Motazedi E, Maliepaard C, Finkers R, Visser R, Ridder D (2019). Family-Based Haplotype Estimation and Allele Dosage Correction for Polyploids Using Short Sequence Reads. Frontiers in Genetics 10:335.
Crossref

 
 

Nemli S, Asciogul TK, Ates D, Esiyok D, Tanyola MB (2017). Diversity and genetic analysis through DArTseq in common bean (Phaseolus vulgaris L.) germplasm from Turkey. Turkish Journal of Agriculture and Forestry 41:389-404.
Crossref

 
 

Omondi CO (1998). Genetic diversity among isolates of C. kahawae causing Coffee Berry Disease and their interactions with varieties and breeding populations of Arabica coffee (PhD thesis, University of Nairobi, Kenya).

 
 

Omondi CO, Ayiecho PO, Mwang'ombe AW, Hindorf H (2001). Resistance of Coffea Arabica cv. Ruiru 11 tested with different isolates of Colletotrichum kahawae, the causal agent of coffee berry disease. Euphytica 121:19-24.
Crossref

 
 

Pailles Y, Ho S, PiresI S, Tester M, Negrão S, Schmöckel SM (2017). Genetic Diversity and Population Structure of Two Tomato Species from the Galapagos Islands. Frontiers in Plant Science 8:138.
Crossref

 
 

Rouet C, Lee EA, Banks T, O'Neill J, LeBlanc R, Somers DJ (2019). Identification of polymorphism within the Rosa multifora muRdr1A gene linked to resistance to multiple races of Diplocarponrosae W. in tetraploid garden roses (Rosa x hybrida). Theoretical and Applied Genetics 133(1):103-117.
Crossref

 
 

Sant'Ana GC, Pereira LF, Pot D, Ivamoto ST, Domingues DS, Ferreira RV, Leroy T (2018). Genome-wide association study reveals candidate genes influencing lipids and diterpenes contents in Coffea arabica L. Scientific Reports 8(1):1-12.
Crossref

 
 

Scalabrin S, Toniutti L, Gaspero G, Scaglione D, Magris G, Michele Vidotto M (2020). A single polyploidization event at the origin of the tetraploid genome of Coffea Arabica is responsible for the extremely low genetic variation in wild and cultivated germplasm. Scientific Reports 10:4642.
Crossref

 
 

Setotaw TA, Caixeta ET, Pereira AA, Oliveira ACB, Cruz CD, Zambolim EM, Zambolim L, Sakiyama NS (2013). Coefficient of Parentage in Coffea arabica L. Cultivars Grown in Brazil. Crop Science 53:1237-1247.
Crossref

 
 

Setotaw TA, Caixeta ET, Zambolim EM, Sousa TV, Pereira AA, Baião AC, Cruz CD, Zambolim L, Sakiyama NS (2020). Genome Introgression of Híbrido de Timor and Its Potential to Develop High Cup Quality C. Arabica Cultivars. Journal of Agricultural Science 12(4):64-76.
Crossref

 
 

Sousa TV, Caixeta ET, Alkimim ER, de Oliveira AC, Pereira AA, Sakiyama NS, de Resende Júnior MF, Zambolim L (2017). Population structure and genetic diversity of coffee progenies derived from Catuaí and Híbrido de Timor revealed by genome-wide SNP marker. Tree Genetics and Genomes 13(6):124.
Crossref

 
 

Spiniso-Castillo JL, Escamilla-Prado E, Aguilar-Rinco'n VH, Ramos VM, Santos GG, Pe'rez-Rodrı'guez P, Corona-Torres T (2020). Genetic diversity of coffee (Coffea spp.) in Mexico evaluated by using DArTseq and SNP markers. Genetic Resources and Crop Evolution 67(7):1795-1806.
Crossref

 
 

Van der Vossen HAM, Walyaro DJA (1980). Breeding for resistance to coffee berry disease in Coffea arabica L. II.Inheritance of the resistance. Euphytica 29:777-791.
Crossref

 
 

Van der Vossen HAM, Walyaro DJA (1981). Coffee breeding program in Kenya. A review of progress made since 1971 and a plan of action for the coming years. Kenya Coffee 46:113-130.

 
 

Van der Vossen HAM, Walyaro DJ (2009). Additional evidence for oligogenic inheritance of durable host resistance to coffee berry disease (Colletotrichum kahawae) in Arabica coffee (Coffea arabica L.). Euphytica 165:105-111.
Crossref

 
 

Van der Vossen H, Bertrand B, Charrier A (2015). Next-generation variety development for sustainable production of arabica coffee (Coffea arabica L.): a review. Euphytica 204:243.
Crossref

 
 

Vieira A, Diniz I, Loureiro A, Pereira AP, Silva MC, Várzea V, Batista D (2019). Aggressiveness profiling of the coffee pathogen Colletotrichum kahawae. Plant Pathology 68(2):358-368.
Crossref

 
 

Waller JM, Bridge PD, Black RL, Hakiza G (1993). Differentiation of the coffee berry disease pathogen. Mycological Research 97:989-994.
Crossref

 
 

Walyaro DJA (1983). Considerations in breeding for improved yield and quality in Arabica Coffee (CoffeaarabicaL.) (PhD thesis, Wageningen, the Netherlands).

 
 

Zhang J, Liu T, Feng R, Liu C, Chi S (2015). Genetic Map Construction and Quantitative Trait Locus (QTL) Detection of Six Economic Traits Using an F2 Population of the Hybrid from Saccharinalongissima and Saccharina japonica. PLoS ONE 10(5):e0128588.
Crossref