Genetic Mapping, Candidate Gene Identification and Marker Validation for Host Plant Resistance to the Race 4 of <i>Fusarium oxysporum</i> f. sp. <i>cubense</i> Using <i>Musa acuminata</i> ssp. <i>malaccensis</i>
Andrew Chen,
Jiaman Sun,
Altus Viljoen,
Diane Mostert,
Yucong Xie,
Leroy Mangila,
Sheryl Bothma,
Rebecca Lyons,
Eva Hřibová,
Pavla Christelová,
Brigitte Uwimana,
Delphine Amah,
Stephen Pearce,
Ning Chen,
Jacqueline Batley,
David Edwards,
Jaroslav Doležel,
Peter Crisp,
Allan F. Brown,
Guillaume Martin,
Nabila Yahiaoui,
Angelique D’Hont,
Lachlan Coin,
Rony Swennen,
Elizabeth A. B. Aitken
Affiliations
Andrew Chen
School of Agriculture and Food Science, The University of Queensland, Brisbane, QLD 4067, Australia
Jiaman Sun
School of Agriculture and Food Science, The University of Queensland, Brisbane, QLD 4067, Australia
Altus Viljoen
Department of Plant Pathology, Stellenbosch University, Stellenbosch 7600, South Africa
Diane Mostert
Department of Plant Pathology, Stellenbosch University, Stellenbosch 7600, South Africa
Yucong Xie
Department of Biology, Duke University, Durham, NC 27708-0338, USA
Leroy Mangila
School of Agriculture and Food Science, The University of Queensland, Brisbane, QLD 4067, Australia
Sheryl Bothma
Department of Plant Pathology, Stellenbosch University, Stellenbosch 7600, South Africa
Rebecca Lyons
School of Agriculture and Food Science, The University of Queensland, Brisbane, QLD 4067, Australia
Eva Hřibová
Institute of Experimental Botany of the Czech Academy of Sciences, Centre of the Region Haná for Bio-Technological and Agricultural Research, CZ-77900 Olomouc, Czech Republic
Pavla Christelová
Institute of Experimental Botany of the Czech Academy of Sciences, Centre of the Region Haná for Bio-Technological and Agricultural Research, CZ-77900 Olomouc, Czech Republic
Brigitte Uwimana
International Institute of Tropical Agriculture, Kampala P.O. Box 7878, Uganda
Delphine Amah
International Institute of Tropical Agriculture, Ibadan PMB 5320, Nigeria
Stephen Pearce
Sustainable Soils and Crops, Rothamsted Research, Harpenden, Hertfordshire AL5 2JQ, UK
Ning Chen
School of Agriculture and Food Science, The University of Queensland, Brisbane, QLD 4067, Australia
Jacqueline Batley
School of Biological Sciences, The University of Western Australia, Perth, WA 6009, Australia
David Edwards
School of Biological Sciences, The University of Western Australia, Perth, WA 6009, Australia
Jaroslav Doležel
Institute of Experimental Botany of the Czech Academy of Sciences, Centre of the Region Haná for Bio-Technological and Agricultural Research, CZ-77900 Olomouc, Czech Republic
Peter Crisp
School of Agriculture and Food Science, The University of Queensland, Brisbane, QLD 4067, Australia
Allan F. Brown
International Institute of Tropical Agriculture, Arusha P.O. Box 447, Tanzania
Guillaume Martin
CIRAD, UMR AGAP Institut, F-34398 Montpellier, France
Nabila Yahiaoui
CIRAD, UMR AGAP Institut, F-34398 Montpellier, France
Angelique D’Hont
CIRAD, UMR AGAP Institut, F-34398 Montpellier, France
Lachlan Coin
Department of Microbiology and Immunology, Peter Doherty Institute for Infection and Immunity, University of Melbourne, Melbourne, VIC 3004, Australia
Rony Swennen
International Institute of Tropical Agriculture, Kampala P.O. Box 7878, Uganda
Elizabeth A. B. Aitken
School of Agriculture and Food Science, The University of Queensland, Brisbane, QLD 4067, Australia
Fusarium wilt of banana is a devastating disease that has decimated banana production worldwide. Host resistance to Fusarium oxysporum f. sp. Cubense (Foc), the causal agent of this disease, is genetically dissected in this study using two Musa acuminata ssp. Malaccensis segregating populations, segregating for Foc Tropical (TR4) and Subtropical (STR4) race 4 resistance. Marker loci and trait association using 11 SNP-based PCR markers allowed the candidate region to be delimited to a 12.9 cM genetic interval corresponding to a 959 kb region on chromosome 3 of ‘DH-Pahang’ reference assembly v4. Within this region, there was a cluster of pattern recognition receptors, namely leucine-rich repeat ectodomain containing receptor-like protein kinases, cysteine-rich cell-wall-associated protein kinases, and leaf rust 10 disease-resistance locus receptor-like proteins, positioned in an interspersed arrangement. Their transcript levels were rapidly upregulated in the resistant progenies but not in the susceptible F2 progenies at the onset of infection. This suggests that one or several of these genes may control resistance at this locus. To confirm the segregation of single-gene resistance, we generated an inter-cross between the resistant parent ‘Ma850’ and a susceptible line ‘Ma848’, to show that the STR4 resistance co-segregated with marker ‘28820’ at this locus. Finally, an informative SNP marker 29730 allowed the locus-specific resistance to be assessed in a collection of diploid and polyploid banana plants. Of the 60 lines screened, 22 lines were predicted to carry resistance at this locus, including lines known to be TR4-resistant, such as ‘Pahang’, ‘SH-3362’, ‘SH-3217’, ‘Ma-ITC0250’, and ‘DH-Pahang/CIRAD 930’. Additional screening in the International Institute for Tropical Agriculture’s collection suggests that the dominant allele is common among the elite ‘Matooke’ NARITA hybrids, as well as in other triploid or tetraploid hybrids derived from East African highland bananas. Fine mapping and candidate gene identification will allow characterization of molecular mechanisms underlying the TR4 resistance. The markers developed in this study can now aid the marker-assisted selection of TR4 resistance in breeding programs around the world.
