Preprint Article Version 1 Preserved in Portico This version is not peer-reviewed

Genetic Mapping, Candidate Gene Identification and Marker Validation for Host Plant Resistance to the Race 4 of Fusarium oxysporum f. sp. cubense using Musa acuminata ssp. malaccensis

Andrew Chen
* ORCID logo ,
Jiaman Sun
,
Altus Viljoen
ORCID logo ,
Diane Mostert
ORCID logo ,
Yucong Xie
,
Leroy Mangila
,
Sheryl Bothma
,
Rebecca Lyons
,
Eva Hřibová
ORCID logo ,
Pavla Christelová
,
Brigitte Uwimana
ORCID logo ,
Delphine Amah
ORCID logo ,
Stephen Pearce
ORCID logo ,
Ning Chen
,
Jacqueline Batley
ORCID logo ,
David Edwards
ORCID logo ,
Jaroslav Doležel
ORCID logo ,
Peter Crisp
,
Allan F. Brown
,
Guillaume Martin
,
Nabila Yahiaou
,
Angelique D’Hont
,
Lachlan Coin
,
Rony Swennen
ORCID logo ,
Elizabeth A. B. Aitken
Version 1 : Received: 5 May 2023 / Approved: 5 May 2023 / Online: 5 May 2023 (09:51:49 CEST)

A peer-reviewed article of this Preprint also exists.

Chen, A.; Sun, J.; Viljoen, A.; Mostert, D.; Xie, Y.; Mangila, L.; Bothma, S.; Lyons, R.; Hřibová, E.; Christelová, P.; Uwimana, B.; Amah, D.; Pearce, S.; Chen, N.; Batley, J.; Edwards, D.; Doležel, J.; Crisp, P.; Brown, A.F.; Martin, G.; Yahiaoui, N.; D’Hont, A.; Coin, L.; Swennen, R.; Aitken, E.A.B. Genetic Mapping, Candidate Gene Identification and Marker Validation for Host Plant Resistance to the Race 4 of Fusarium oxysporum f. sp. cubense Using Musa acuminata ssp. malaccensis. Pathogens 2023, 12, 820. Chen, A.; Sun, J.; Viljoen, A.; Mostert, D.; Xie, Y.; Mangila, L.; Bothma, S.; Lyons, R.; Hřibová, E.; Christelová, P.; Uwimana, B.; Amah, D.; Pearce, S.; Chen, N.; Batley, J.; Edwards, D.; Doležel, J.; Crisp, P.; Brown, A.F.; Martin, G.; Yahiaoui, N.; D’Hont, A.; Coin, L.; Swennen, R.; Aitken, E.A.B. Genetic Mapping, Candidate Gene Identification and Marker Validation for Host Plant Resistance to the Race 4 of Fusarium oxysporum f. sp. cubense Using Musa acuminata ssp. malaccensis. Pathogens 2023, 12, 820.

Abstract

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 is 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 but not in 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. Out 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 in 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 TR4 resistance. The markers developed in this study can now aid the marker-assisted selection of TR4 resistance in breeding programs around the world.

Keywords

Banana; fine mapping; quantitative trait locus; Musa acuminata ssp. malaccensis; Fusarium wilt; Fusarium oxysporum f. sp. cubense; Tropical Race 4; Subtropical Race 4; marker assisted selection; resistance gene expression; receptor-like kinase; RNAseq

Subject

Biology and Life Sciences, Plant Sciences

Copyright: This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

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