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Genetic mapping of two quantitative resistance loci to Venturia nashicola in an interspecific pear family

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Abstract

Pear scab is a major disease of pear worldwide and is caused by two distinct species that are aligned with different commercial Pyrus species: Venturia pirina with European pear (P. communis) and V. nashicola with Asian pear species P. pyrifolia, P. ussuriensis and P. X bretschneideri. As these host-pathogen systems are mutually exclusive, interspecific pear breeding provides an avenue for breeding new scab-resistant cultivars. Here we describe the genetic mapping of resistance to V. nashicola in a pear progeny between interspecific pear selection P019R045T042 and ‘Shinko’ (P. pyrifolia) consisting of 274 seedlings, which was phenotyped twice with V. nashicola inoculum prepared from scab-infected leaves collected from trees of susceptible ‘Niitaka’ (P. pyrifolia). A set of 613 polymorphic DNA markers were selected from the apple and pear Illumina Infinium® II 9K single nucleotide polymorphism array and genotyping-by-sequencing for the creation of the parental genetic maps with JoinMap v4.1. Using the Interval Mapping module in MapQTL v6.0 software, two significant quantitative trait loci were detected in P019R045T042: one on linkage group (LG) 7 and another on LG10, which we name Rvn5 and Rvn6, respectively. Both Rvn5 and Rvn6 displayed weak additive effects for pear scab (V. nashicola) resistance when both loci worked together in this family. They will contribute to more strong resistance based on gene pyramiding through marker-assisted selections for the introduction of non-host resistance into both Asian and European pears through interspecific hybridization.

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Data Availability

The datasets generated and used in this study are available upon reasonable request to the corresponding author.

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Acknowledgements

This work was carried out with support of “Research Program for Agriculture Science and Technology Development (Project No. PJ015156022023)” and performed under a Cooperative Research Agreement between Plant and Food Research Ltd. (New Zealand) and National Institute of Horticulture and Herbal Science (Korea) titled ‘Non-host scab resistance in pear’ funded by Rural Development of Administration, Republic of Korea. We thank Drs Erik Rikkerink and Paul Johnston for reviewing the manuscript.

Funding

This work was carried out with support of “Research Program for Agriculture Science and Technology Development (Project No. PJ015156022023)” and performed under a Cooperative Research Agreement between PFR (New Zealand) and RDA-NIHHS (Korea) titled ‘Non-host scab resistance in pear’ funded by Rural Development of Administration, Republic of Korea.

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Authors and Affiliations

Authors

Contributions

Kyungho Won and Vincent G. M. Bus contributed to the study conception and design. Material preparation were performed by Lester Brewer. The first draft of manuscript was written by Kyungho Won and all authors commented on previous versions of the manuscript. Especially, David Chagé and Cecilia H. Deng gave important supports in genetic analysis. Eu Ddeum Choi, Keumsun Kim, Il Sheob Shin and Seongsig Hong revised tables and figures for the manuscript. Cecilé Segonzac and Kee Hoon Sohn provided advices for logical errors in the explanations and reviewed entire story. All authors read and approved the final manuscript.

Corresponding author

Correspondence to Kyungho Won.

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Competing interests

The authors have no relevant financial or non-financial interests to disclose.

Data Archiving Statement

All datasets, including GBS, SNPs, genetic maps and et al., generated during and/or analysed during the current study are available from the corresponding author on reasonable request. GBS data related to this study is submitted to NCBI/SRA under BioProject PRJNA1002005. The linkage map data was deposited into the Genomics Database for Rosaceae (www.rosaceae.org) and they will be released after Septermber 9, 2024. However, if it is strongly recommended to be released earlier than our due date by reviewers’ opinion and/or the manuscript is accepted, we will immediately share the datasets. And also if additional data archiving is required during the review, we’ll sincerely consider the issue and submit related dataset to proper data repositories.

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Communicated by Communicated by C. Chen

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Supplementary Information

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11295_2024_1650_MOESM1_ESM.xlsx

Supplementary file1 (XLSX 18 KB) The Chi-square and distribution for the segregation of Venturia nashicola resistance in BC1 progenies from ‘La France’ (C x (H x L) and ‘Bartlett’ (C x (H x B) (C = ‘Chojuro’; H = ‘Hosui’) interpreted as segregating for a single gene, Vn, from European pear (Abe et al., 2000). With more BC1 progenies in each set meeting the R:S = 3:1 segregation than the R:S = 1:1 segregation, a two-gene sytem for scab resistance should not be excluded, which is corroborated by the fact that two genes have been mapped to different linkage groups (LGs) of ‘Bartlett’: Rvn2 to LG2 (Cho et al., 2009), which possibly is the same as one of the ‘La France’ genes (Bouvier et al., 2012), and Rvn3 to LG6 (Oh et al., 2021)

11295_2024_1650_MOESM2_ESM.png

Supplementary file2 (PNG 154 KB) Proportions of pear scab symptoms in the P019R045T042 x ‘Shinko’ segregating population in 2015 and 2016

11295_2024_1650_MOESM3_ESM.png

Supplementary file3 (PNG 25 KB) Phenotypic consistencies of pear scab symptoms P019R045T042 x ‘Shinko’ segregating population between 2015 and 2016. Symptom classes: 1 - no macroscopically visible symptoms; 2 - hypersensitive response in the form of pinpoints; 3 - necrotic or chlorotic reactions with no or rare sporulation; or 4 - susceptible reaction with typical symptoms showing sporulation

Supplementary file4 (XLSX 12 KB) Information for genetic map of P019R045T042

Supplementary file5 (XLSX 42 KB) Alignment of genetic maps of P019R045T042 with reference genome BartlettDHv2.0

Supplementary file6 (PPTX 150 KB) Novel Rvn5 mapping in LG7 of P019R045T042 and locus comparison with Rvn4

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Won, K., Choi, E.D., Kim, K. et al. Genetic mapping of two quantitative resistance loci to Venturia nashicola in an interspecific pear family. Tree Genetics & Genomes 20, 18 (2024). https://doi.org/10.1007/s11295-024-01650-0

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  • DOI: https://doi.org/10.1007/s11295-024-01650-0

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